[1] "ofn"        "-oTCOAD-TP"
[1] "opt"       "-OPMUTSIG"
[1] "tl" ""  
[1] "dx" ""  
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/COAD-TP/22541003/COAD-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/COAD-TP/22596984/transformed.cor.cli.txt"

nPatients in clinical file=459, in cluster file=367, common to both=367
[1] "Reduce the number of clustering variables from 1913 to 1907."
[1] 1907  367
[1] "APC MUTATION ANALYSIS"
[1] 3
  APC MUTATED APC WILD-TYPE 
          295            72 
  APC MUTATED APC WILD-TYPE 
          295            72 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
           232            135 
  TP53 MUTATED TP53 WILD-TYPE 
           232            135 
[1] "ARID1A MUTATION ANALYSIS"
[1] 3
  ARID1A MUTATED ARID1A WILD-TYPE 
              72              295 
  ARID1A MUTATED ARID1A WILD-TYPE 
              72              295 
[1] "RNF43 MUTATION ANALYSIS"
[1] 3
  RNF43 MUTATED RNF43 WILD-TYPE 
             46             321 
  RNF43 MUTATED RNF43 WILD-TYPE 
             46             321 
[1] "SOX9 MUTATION ANALYSIS"
[1] 3
  SOX9 MUTATED SOX9 WILD-TYPE 
            36            331 
  SOX9 MUTATED SOX9 WILD-TYPE 
            36            331 
[1] "FAM123B MUTATION ANALYSIS"
[1] 3
  FAM123B MUTATED FAM123B WILD-TYPE 
               50               317 
  FAM123B MUTATED FAM123B WILD-TYPE 
               50               317 
[1] "TXNDC2 MUTATION ANALYSIS"
[1] 3
  TXNDC2 MUTATED TXNDC2 WILD-TYPE 
              22              345 
  TXNDC2 MUTATED TXNDC2 WILD-TYPE 
              22              345 
[1] "ACVR1B MUTATION ANALYSIS"
[1] 3
  ACVR1B MUTATED ACVR1B WILD-TYPE 
              26              341 
  ACVR1B MUTATED ACVR1B WILD-TYPE 
              26              341 
[1] "B2M MUTATION ANALYSIS"
[1] 3
  B2M MUTATED B2M WILD-TYPE 
           15           352 
  B2M MUTATED B2M WILD-TYPE 
           15           352 
[1] "BCOR MUTATION ANALYSIS"
[1] 3
  BCOR MUTATED BCOR WILD-TYPE 
            27            340 
  BCOR MUTATED BCOR WILD-TYPE 
            27            340 
[1] "CDH1 MUTATION ANALYSIS"
[1] 3
  CDH1 MUTATED CDH1 WILD-TYPE 
            74            293 
  CDH1 MUTATED CDH1 WILD-TYPE 
            74            293 
[1] "MLH1 MUTATION ANALYSIS"
[1] 3
  MLH1 MUTATED MLH1 WILD-TYPE 
            53            314 
  MLH1 MUTATED MLH1 WILD-TYPE 
            53            314 
[1] "NTAN1 MUTATION ANALYSIS"
[1] 3
  NTAN1 MUTATED NTAN1 WILD-TYPE 
             10             357 
  NTAN1 MUTATED NTAN1 WILD-TYPE 
             10             357 
[1] "ZFP36L2 MUTATION ANALYSIS"
[1] 3
  ZFP36L2 MUTATED ZFP36L2 WILD-TYPE 
               14               353 
  ZFP36L2 MUTATED ZFP36L2 WILD-TYPE 
               14               353 
[1] "WNT1 MUTATION ANALYSIS"
[1] 3
  WNT1 MUTATED WNT1 WILD-TYPE 
             7            360 
  WNT1 MUTATED WNT1 WILD-TYPE 
             7            360 
[1] "BMPR2 MUTATION ANALYSIS"
[1] 3
  BMPR2 MUTATED BMPR2 WILD-TYPE 
             35             332 
  BMPR2 MUTATED BMPR2 WILD-TYPE 
             35             332 
[1] "SELPLG MUTATION ANALYSIS"
[1] 3
  SELPLG MUTATED SELPLG WILD-TYPE 
              16              351 
  SELPLG MUTATED SELPLG WILD-TYPE 
              16              351 
[1] "CRIPAK MUTATION ANALYSIS"
[1] 3
  CRIPAK MUTATED CRIPAK WILD-TYPE 
              18              349 
  CRIPAK MUTATED CRIPAK WILD-TYPE 
              18              349 
[1] "KDM6A MUTATION ANALYSIS"
[1] 3
  KDM6A MUTATED KDM6A WILD-TYPE 
             27             340 
  KDM6A MUTATED KDM6A WILD-TYPE 
             27             340 
[1] "MAPK6 MUTATION ANALYSIS"
[1] 3
  MAPK6 MUTATED MAPK6 WILD-TYPE 
             18             349 
  MAPK6 MUTATED MAPK6 WILD-TYPE 
             18             349 
[1] "RHOA MUTATION ANALYSIS"
[1] 3
  RHOA MUTATED RHOA WILD-TYPE 
            12            355 
  RHOA MUTATED RHOA WILD-TYPE 
            12            355 
[1] "FMN2 MUTATION ANALYSIS"
[1] 3
  FMN2 MUTATED FMN2 WILD-TYPE 
            49            318 
  FMN2 MUTATED FMN2 WILD-TYPE 
            49            318 
[1] "STARD3NL MUTATION ANALYSIS"
[1] 3
  STARD3NL MUTATED STARD3NL WILD-TYPE 
                13                354 
  STARD3NL MUTATED STARD3NL WILD-TYPE 
                13                354 
[1] "NF2 MUTATION ANALYSIS"
[1] 3
  NF2 MUTATED NF2 WILD-TYPE 
           62           305 
  NF2 MUTATED NF2 WILD-TYPE 
           62           305 
[1] "NF1 MUTATION ANALYSIS"
[1] 3
  NF1 MUTATED NF1 WILD-TYPE 
           89           278 
  NF1 MUTATED NF1 WILD-TYPE 
           89           278 
[1] "OR4D10 MUTATION ANALYSIS"
[1] 3
  OR4D10 MUTATED OR4D10 WILD-TYPE 
              14              353 
  OR4D10 MUTATED OR4D10 WILD-TYPE 
              14              353 
[1] "PRKDC MUTATION ANALYSIS"
[1] 3
  PRKDC MUTATED PRKDC WILD-TYPE 
             63             304 
  PRKDC MUTATED PRKDC WILD-TYPE 
             63             304 
[1] "MGA MUTATION ANALYSIS"
[1] 3
  MGA MUTATED MGA WILD-TYPE 
           37           330 
  MGA MUTATED MGA WILD-TYPE 
           37           330 
[1] "P2RY13 MUTATION ANALYSIS"
[1] 3
  P2RY13 MUTATED P2RY13 WILD-TYPE 
              15              352 
  P2RY13 MUTATED P2RY13 WILD-TYPE 
              15              352 
[1] "MVK MUTATION ANALYSIS"
[1] 3
  MVK MUTATED MVK WILD-TYPE 
           14           353 
  MVK MUTATED MVK WILD-TYPE 
           14           353 
[1] "ATXN3L MUTATION ANALYSIS"
[1] 3
  ATXN3L MUTATED ATXN3L WILD-TYPE 
              17              350 
  ATXN3L MUTATED ATXN3L WILD-TYPE 
              17              350 
[1] "FBXW7 MUTATION ANALYSIS"
[1] 3
  FBXW7 MUTATED FBXW7 WILD-TYPE 
            103             264 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
            103             264 
[1] "DIP2B MUTATION ANALYSIS"
[1] 3
  DIP2B MUTATED DIP2B WILD-TYPE 
             27             340 
  DIP2B MUTATED DIP2B WILD-TYPE 
             27             340 
[1] "RBMX MUTATION ANALYSIS"
[1] 3
  RBMX MUTATED RBMX WILD-TYPE 
            18            349 
  RBMX MUTATED RBMX WILD-TYPE 
            18            349 
[1] "SMAD2 MUTATION ANALYSIS"
[1] 3
  SMAD2 MUTATED SMAD2 WILD-TYPE 
             16             351 
  SMAD2 MUTATED SMAD2 WILD-TYPE 
             16             351 
[1] "ASXL1 MUTATION ANALYSIS"
[1] 3
  ASXL1 MUTATED ASXL1 WILD-TYPE 
             40             327 
  ASXL1 MUTATED ASXL1 WILD-TYPE 
             40             327 
[1] "ALG12 MUTATION ANALYSIS"
[1] 3
  ALG12 MUTATED ALG12 WILD-TYPE 
              7             360 
  ALG12 MUTATED ALG12 WILD-TYPE 
              7             360 
[1] "NR1H3 MUTATION ANALYSIS"
[1] 3
  NR1H3 MUTATED NR1H3 WILD-TYPE 
             15             352 
  NR1H3 MUTATED NR1H3 WILD-TYPE 
             15             352 
[1] "ZBTB20 MUTATION ANALYSIS"
[1] 3
  ZBTB20 MUTATED ZBTB20 WILD-TYPE 
              20              347 
  ZBTB20 MUTATED ZBTB20 WILD-TYPE 
              20              347 
[1] "MPHOSPH10 MUTATION ANALYSIS"
[1] 3
  MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE 
                 18                 349 
  MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE 
                 18                 349 
[1] "TPRKB MUTATION ANALYSIS"
[1] 3
  TPRKB MUTATED TPRKB WILD-TYPE 
             10             357 
  TPRKB MUTATED TPRKB WILD-TYPE 
             10             357 
[1] "PLAGL2 MUTATION ANALYSIS"
[1] 3
  PLAGL2 MUTATED PLAGL2 WILD-TYPE 
               6              361 
  PLAGL2 MUTATED PLAGL2 WILD-TYPE 
               6              361 
[1] "IDH1 MUTATION ANALYSIS"
[1] 3
  IDH1 MUTATED IDH1 WILD-TYPE 
            18            349 
  IDH1 MUTATED IDH1 WILD-TYPE 
            18            349 
[1] "SETD2 MUTATION ANALYSIS"
[1] 3
  SETD2 MUTATED SETD2 WILD-TYPE 
             41             326 
  SETD2 MUTATED SETD2 WILD-TYPE 
             41             326 
[1] "GPATCH8 MUTATION ANALYSIS"
[1] 3
  GPATCH8 MUTATED GPATCH8 WILD-TYPE 
               14               353 
  GPATCH8 MUTATED GPATCH8 WILD-TYPE 
               14               353 
[1] "ALPK2 MUTATION ANALYSIS"
[1] 3
  ALPK2 MUTATED ALPK2 WILD-TYPE 
             42             325 
  ALPK2 MUTATED ALPK2 WILD-TYPE 
             42             325 
[1] "C11ORF30 MUTATION ANALYSIS"
[1] 3
  C11ORF30 MUTATED C11ORF30 WILD-TYPE 
                21                346 
  C11ORF30 MUTATED C11ORF30 WILD-TYPE 
                21                346 
[1] "RPTN MUTATION ANALYSIS"
[1] 3
  RPTN MUTATED RPTN WILD-TYPE 
            13            354 
  RPTN MUTATED RPTN WILD-TYPE 
            13            354 
[1] "ROS1 MUTATION ANALYSIS"
[1] 3
  ROS1 MUTATED ROS1 WILD-TYPE 
            47            320 
  ROS1 MUTATED ROS1 WILD-TYPE 
            47            320 
[1] "EGR1 MUTATION ANALYSIS"
[1] 3
  EGR1 MUTATED EGR1 WILD-TYPE 
             9            358 
  EGR1 MUTATED EGR1 WILD-TYPE 
             9            358 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
           153            214 
  PTEN MUTATED PTEN WILD-TYPE 
           153            214 
[1] "CTNNB1 MUTATION ANALYSIS"
[1] 3
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              74              293 
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              74              293 
[1] "RBM44 MUTATION ANALYSIS"
[1] 3
  RBM44 MUTATED RBM44 WILD-TYPE 
             13             354 
  RBM44 MUTATED RBM44 WILD-TYPE 
             13             354 
[1] "ECT2 MUTATION ANALYSIS"
[1] 3
  ECT2 MUTATED ECT2 WILD-TYPE 
            18            349 
  ECT2 MUTATED ECT2 WILD-TYPE 
            18            349 
[1] "DDX26B MUTATION ANALYSIS"
[1] 3
  DDX26B MUTATED DDX26B WILD-TYPE 
              15              352 
  DDX26B MUTATED DDX26B WILD-TYPE 
              15              352 
[1] "UBQLN2 MUTATION ANALYSIS"
[1] 3
  UBQLN2 MUTATED UBQLN2 WILD-TYPE 
              10              357 
  UBQLN2 MUTATED UBQLN2 WILD-TYPE 
              10              357 
[1] "THOC7 MUTATION ANALYSIS"
[1] 3
  THOC7 MUTATED THOC7 WILD-TYPE 
             10             357 
  THOC7 MUTATED THOC7 WILD-TYPE 
             10             357 
[1] "TOP2B MUTATION ANALYSIS"
[1] 3
  TOP2B MUTATED TOP2B WILD-TYPE 
             23             344 
  TOP2B MUTATED TOP2B WILD-TYPE 
             23             344 
[1] "RB1 MUTATION ANALYSIS"
[1] 3
  RB1 MUTATED RB1 WILD-TYPE 
           88           279 
  RB1 MUTATED RB1 WILD-TYPE 
           88           279 
[1] "ALDH1A3 MUTATION ANALYSIS"
[1] 3
  ALDH1A3 MUTATED ALDH1A3 WILD-TYPE 
               18               349 
  ALDH1A3 MUTATED ALDH1A3 WILD-TYPE 
               18               349 
[1] "GMPS MUTATION ANALYSIS"
[1] 3
  GMPS MUTATED GMPS WILD-TYPE 
            17            350 
  GMPS MUTATED GMPS WILD-TYPE 
            17            350 
[1] "KIAA1586 MUTATION ANALYSIS"
[1] 3
  KIAA1586 MUTATED KIAA1586 WILD-TYPE 
                11                356 
  KIAA1586 MUTATED KIAA1586 WILD-TYPE 
                11                356 
[1] "L1TD1 MUTATION ANALYSIS"
[1] 3
  L1TD1 MUTATED L1TD1 WILD-TYPE 
             17             350 
  L1TD1 MUTATED L1TD1 WILD-TYPE 
             17             350 
[1] "NLRC4 MUTATION ANALYSIS"
[1] 3
  NLRC4 MUTATED NLRC4 WILD-TYPE 
             24             343 
  NLRC4 MUTATED NLRC4 WILD-TYPE 
             24             343 
[1] "ZDHHC7 MUTATION ANALYSIS"
[1] 3
  ZDHHC7 MUTATED ZDHHC7 WILD-TYPE 
              12              355 
  ZDHHC7 MUTATED ZDHHC7 WILD-TYPE 
              12              355 
[1] "DCLK2 MUTATION ANALYSIS"
[1] 3
  DCLK2 MUTATED DCLK2 WILD-TYPE 
             14             353 
  DCLK2 MUTATED DCLK2 WILD-TYPE 
             14             353 
[1] "C2ORF29 MUTATION ANALYSIS"
[1] 3
  C2ORF29 MUTATED C2ORF29 WILD-TYPE 
               17               350 
  C2ORF29 MUTATED C2ORF29 WILD-TYPE 
               17               350 
[1] "PTCH1 MUTATION ANALYSIS"
[1] 3
  PTCH1 MUTATED PTCH1 WILD-TYPE 
             89             278 
  PTCH1 MUTATED PTCH1 WILD-TYPE 
             89             278 
[1] "LINGO4 MUTATION ANALYSIS"
[1] 3
  LINGO4 MUTATED LINGO4 WILD-TYPE 
              10              357 
  LINGO4 MUTATED LINGO4 WILD-TYPE 
              10              357 
[1] "PIK3R1 MUTATION ANALYSIS"
[1] 3
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
              43              324 
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
              43              324 
[1] "C14ORF43 MUTATION ANALYSIS"
[1] 3
  C14ORF43 MUTATED C14ORF43 WILD-TYPE 
                18                349 
  C14ORF43 MUTATED C14ORF43 WILD-TYPE 
                18                349 
[1] "C14ORF184 MUTATION ANALYSIS"
[1] 3
  C14ORF184 MUTATED C14ORF184 WILD-TYPE 
                  6                 361 
  C14ORF184 MUTATED C14ORF184 WILD-TYPE 
                  6                 361 
[1] "ATP6V1B1 MUTATION ANALYSIS"
[1] 3
  ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE 
                14                353 
  ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE 
                14                353 
[1] "BCL9 MUTATION ANALYSIS"
[1] 3
  BCL9 MUTATED BCL9 WILD-TYPE 
            22            345 
  BCL9 MUTATED BCL9 WILD-TYPE 
            22            345 
[1] "NAA25 MUTATION ANALYSIS"
[1] 3
  NAA25 MUTATED NAA25 WILD-TYPE 
             14             353 
  NAA25 MUTATED NAA25 WILD-TYPE 
             14             353 
[1] "SLC26A8 MUTATION ANALYSIS"
[1] 3
  SLC26A8 MUTATED SLC26A8 WILD-TYPE 
               16               351 
  SLC26A8 MUTATED SLC26A8 WILD-TYPE 
               16               351 
[1] "IQCD MUTATION ANALYSIS"
[1] 3
  IQCD MUTATED IQCD WILD-TYPE 
            10            357 
  IQCD MUTATED IQCD WILD-TYPE 
            10            357 
[1] "CHD3 MUTATION ANALYSIS"
[1] 3
  CHD3 MUTATED CHD3 WILD-TYPE 
            24            343 
  CHD3 MUTATED CHD3 WILD-TYPE 
            24            343 
[1] "PLEKHF2 MUTATION ANALYSIS"
[1] 3
  PLEKHF2 MUTATED PLEKHF2 WILD-TYPE 
               10               357 
  PLEKHF2 MUTATED PLEKHF2 WILD-TYPE 
               10               357 
[1] "FKBP9 MUTATION ANALYSIS"
[1] 3
  FKBP9 MUTATED FKBP9 WILD-TYPE 
             17             350 
  FKBP9 MUTATED FKBP9 WILD-TYPE 
             17             350 
[1] "HPS3 MUTATION ANALYSIS"
[1] 3
  HPS3 MUTATED HPS3 WILD-TYPE 
            20            347 
  HPS3 MUTATED HPS3 WILD-TYPE 
            20            347 
[1] "ATM MUTATION ANALYSIS"
[1] 3
  ATM MUTATED ATM WILD-TYPE 
          132           235 
  ATM MUTATED ATM WILD-TYPE 
          132           235 
[1] "RLIM MUTATION ANALYSIS"
[1] 3
  RLIM MUTATED RLIM WILD-TYPE 
            14            353 
  RLIM MUTATED RLIM WILD-TYPE 
            14            353 
[1] "CYLD MUTATION ANALYSIS"
[1] 3
  CYLD MUTATED CYLD WILD-TYPE 
            22            345 
  CYLD MUTATED CYLD WILD-TYPE 
            22            345 
[1] "GGT1 MUTATION ANALYSIS"
[1] 3
  GGT1 MUTATED GGT1 WILD-TYPE 
             8            359 
  GGT1 MUTATED GGT1 WILD-TYPE 
             8            359 
[1] "CYSLTR2 MUTATION ANALYSIS"
[1] 3
  CYSLTR2 MUTATED CYSLTR2 WILD-TYPE 
               15               352 
  CYSLTR2 MUTATED CYSLTR2 WILD-TYPE 
               15               352 
[1] "ATG5 MUTATION ANALYSIS"
[1] 3
  ATG5 MUTATED ATG5 WILD-TYPE 
             8            359 
  ATG5 MUTATED ATG5 WILD-TYPE 
             8            359 
[1] "MAP4K3 MUTATION ANALYSIS"
[1] 3
  MAP4K3 MUTATED MAP4K3 WILD-TYPE 
              17              350 
  MAP4K3 MUTATED MAP4K3 WILD-TYPE 
              17              350 
[1] "PRPS1 MUTATION ANALYSIS"
[1] 3
  PRPS1 MUTATED PRPS1 WILD-TYPE 
              8             359 
  PRPS1 MUTATED PRPS1 WILD-TYPE 
              8             359 
[1] "KCTD3 MUTATION ANALYSIS"
[1] 3
  KCTD3 MUTATED KCTD3 WILD-TYPE 
             17             350 
  KCTD3 MUTATED KCTD3 WILD-TYPE 
             17             350 
[1] "PTGDR MUTATION ANALYSIS"
[1] 3
  PTGDR MUTATED PTGDR WILD-TYPE 
              7             360 
  PTGDR MUTATED PTGDR WILD-TYPE 
              7             360 
[1] "BCORL1 MUTATION ANALYSIS"
[1] 3
  BCORL1 MUTATED BCORL1 WILD-TYPE 
              25              342 
  BCORL1 MUTATED BCORL1 WILD-TYPE 
              25              342 
[1] "IDH2 MUTATION ANALYSIS"
[1] 3
  IDH2 MUTATED IDH2 WILD-TYPE 
            17            350 
  IDH2 MUTATED IDH2 WILD-TYPE 
            17            350 
[1] "TMEM126A MUTATION ANALYSIS"
[1] 3
  TMEM126A MUTATED TMEM126A WILD-TYPE 
                 7                360 
  TMEM126A MUTATED TMEM126A WILD-TYPE 
                 7                360 
[1] "GRB2 MUTATION ANALYSIS"
[1] 3
  GRB2 MUTATED GRB2 WILD-TYPE 
             9            358 
  GRB2 MUTATED GRB2 WILD-TYPE 
             9            358 
[1] "PLXNA3 MUTATION ANALYSIS"
[1] 3
  PLXNA3 MUTATED PLXNA3 WILD-TYPE 
              17              350 
  PLXNA3 MUTATED PLXNA3 WILD-TYPE 
              17              350 
[1] "C15ORF52 MUTATION ANALYSIS"
[1] 3
  C15ORF52 MUTATED C15ORF52 WILD-TYPE 
                12                355 
  C15ORF52 MUTATED C15ORF52 WILD-TYPE 
                12                355 
[1] "PCBP1 MUTATION ANALYSIS"
[1] 3
  PCBP1 MUTATED PCBP1 WILD-TYPE 
             10             357 
  PCBP1 MUTATED PCBP1 WILD-TYPE 
             10             357 
[1] "SLK MUTATION ANALYSIS"
[1] 3
  SLK MUTATED SLK WILD-TYPE 
           23           344 
  SLK MUTATED SLK WILD-TYPE 
           23           344 
[1] "SMAD4 MUTATION ANALYSIS"
[1] 3
  SMAD4 MUTATED SMAD4 WILD-TYPE 
            119             248 
  SMAD4 MUTATED SMAD4 WILD-TYPE 
            119             248 
[1] "XYLT2 MUTATION ANALYSIS"
[1] 3
  XYLT2 MUTATED XYLT2 WILD-TYPE 
             14             353 
  XYLT2 MUTATED XYLT2 WILD-TYPE 
             14             353 
[1] "FAHD2B MUTATION ANALYSIS"
[1] 3
  FAHD2B MUTATED FAHD2B WILD-TYPE 
               6              361 
  FAHD2B MUTATED FAHD2B WILD-TYPE 
               6              361 
[1] "RSPH3 MUTATION ANALYSIS"
[1] 3
  RSPH3 MUTATED RSPH3 WILD-TYPE 
             10             357 
  RSPH3 MUTATED RSPH3 WILD-TYPE 
             10             357 
[1] "PKD2L1 MUTATION ANALYSIS"
[1] 3
  PKD2L1 MUTATED PKD2L1 WILD-TYPE 
              23              344 
  PKD2L1 MUTATED PKD2L1 WILD-TYPE 
              23              344 
[1] "CDK12 MUTATION ANALYSIS"
[1] 3
  CDK12 MUTATED CDK12 WILD-TYPE 
             29             338 
  CDK12 MUTATED CDK12 WILD-TYPE 
             29             338 
[1] "CASP8 MUTATION ANALYSIS"
[1] 3
  CASP8 MUTATED CASP8 WILD-TYPE 
             17             350 
  CASP8 MUTATED CASP8 WILD-TYPE 
             17             350 
[1] "KCNK1 MUTATION ANALYSIS"
[1] 3
  KCNK1 MUTATED KCNK1 WILD-TYPE 
             10             357 
  KCNK1 MUTATED KCNK1 WILD-TYPE 
             10             357 
[1] "PTK2 MUTATION ANALYSIS"
[1] 3
  PTK2 MUTATED PTK2 WILD-TYPE 
            21            346 
  PTK2 MUTATED PTK2 WILD-TYPE 
            21            346 
[1] "FYN MUTATION ANALYSIS"
[1] 3
  FYN MUTATED FYN WILD-TYPE 
           15           352 
  FYN MUTATED FYN WILD-TYPE 
           15           352 
[1] "CDX2 MUTATION ANALYSIS"
[1] 3
  CDX2 MUTATED CDX2 WILD-TYPE 
             6            361 
  CDX2 MUTATED CDX2 WILD-TYPE 
             6            361 
[1] "KLK10 MUTATION ANALYSIS"
[1] 3
  KLK10 MUTATED KLK10 WILD-TYPE 
              7             360 
  KLK10 MUTATED KLK10 WILD-TYPE 
              7             360 
[1] "TPM4 MUTATION ANALYSIS"
[1] 3
  TPM4 MUTATED TPM4 WILD-TYPE 
             8            359 
  TPM4 MUTATED TPM4 WILD-TYPE 
             8            359 
[1] "UQCRC2 MUTATION ANALYSIS"
[1] 3
  UQCRC2 MUTATED UQCRC2 WILD-TYPE 
               8              359 
  UQCRC2 MUTATED UQCRC2 WILD-TYPE 
               8              359 
[1] "PIK3IP1 MUTATION ANALYSIS"
[1] 3
  PIK3IP1 MUTATED PIK3IP1 WILD-TYPE 
                8               359 
  PIK3IP1 MUTATED PIK3IP1 WILD-TYPE 
                8               359 
[1] "USP24 MUTATION ANALYSIS"
[1] 3
  USP24 MUTATED USP24 WILD-TYPE 
             30             337 
  USP24 MUTATED USP24 WILD-TYPE 
             30             337 
[1] "OR5V1 MUTATION ANALYSIS"
[1] 3
  OR5V1 MUTATED OR5V1 WILD-TYPE 
             14             353 
  OR5V1 MUTATED OR5V1 WILD-TYPE 
             14             353 
[1] "GGTLC2 MUTATION ANALYSIS"
[1] 3
  GGTLC2 MUTATED GGTLC2 WILD-TYPE 
               7              360 
  GGTLC2 MUTATED GGTLC2 WILD-TYPE 
               7              360 
[1] "ZFYVE26 MUTATION ANALYSIS"
[1] 3
  ZFYVE26 MUTATED ZFYVE26 WILD-TYPE 
               28               339 
  ZFYVE26 MUTATED ZFYVE26 WILD-TYPE 
               28               339 
[1] "MLLT6 MUTATION ANALYSIS"
[1] 3
  MLLT6 MUTATED MLLT6 WILD-TYPE 
             16             351 
  MLLT6 MUTATED MLLT6 WILD-TYPE 
             16             351 
[1] "RNF128 MUTATION ANALYSIS"
[1] 3
  RNF128 MUTATED RNF128 WILD-TYPE 
              14              353 
  RNF128 MUTATED RNF128 WILD-TYPE 
              14              353 
[1] "TNMD MUTATION ANALYSIS"
[1] 3
  TNMD MUTATED TNMD WILD-TYPE 
            11            356 
  TNMD MUTATED TNMD WILD-TYPE 
            11            356 
[1] "GPR174 MUTATION ANALYSIS"
[1] 3
  GPR174 MUTATED GPR174 WILD-TYPE 
               8              359 
  GPR174 MUTATED GPR174 WILD-TYPE 
               8              359 
[1] "CD58 MUTATION ANALYSIS"
[1] 3
  CD58 MUTATED CD58 WILD-TYPE 
            14            353 
  CD58 MUTATED CD58 WILD-TYPE 
            14            353 
[1] "HTR2A MUTATION ANALYSIS"
[1] 3
  HTR2A MUTATED HTR2A WILD-TYPE 
             19             348 
  HTR2A MUTATED HTR2A WILD-TYPE 
             19             348 
[1] "EHBP1 MUTATION ANALYSIS"
[1] 3
  EHBP1 MUTATED EHBP1 WILD-TYPE 
             22             345 
  EHBP1 MUTATED EHBP1 WILD-TYPE 
             22             345 
[1] "ZNF583 MUTATION ANALYSIS"
[1] 3
  ZNF583 MUTATED ZNF583 WILD-TYPE 
              15              352 
  ZNF583 MUTATED ZNF583 WILD-TYPE 
              15              352 
[1] "ATP11B MUTATION ANALYSIS"
[1] 3
  ATP11B MUTATED ATP11B WILD-TYPE 
              17              350 
  ATP11B MUTATED ATP11B WILD-TYPE 
              17              350 
[1] "NCAPD2 MUTATION ANALYSIS"
[1] 3
  NCAPD2 MUTATED NCAPD2 WILD-TYPE 
              20              347 
  NCAPD2 MUTATED NCAPD2 WILD-TYPE 
              20              347 
[1] "FNDC7 MUTATION ANALYSIS"
[1] 3
  FNDC7 MUTATED FNDC7 WILD-TYPE 
              9             358 
  FNDC7 MUTATED FNDC7 WILD-TYPE 
              9             358 
[1] "SVIL MUTATION ANALYSIS"
[1] 3
  SVIL MUTATED SVIL WILD-TYPE 
            32            335 
  SVIL MUTATED SVIL WILD-TYPE 
            32            335 
[1] "LARP4B MUTATION ANALYSIS"
[1] 3
  LARP4B MUTATED LARP4B WILD-TYPE 
              29              338 
  LARP4B MUTATED LARP4B WILD-TYPE 
              29              338 
[1] "THOC5 MUTATION ANALYSIS"
[1] 3
  THOC5 MUTATED THOC5 WILD-TYPE 
             14             353 
  THOC5 MUTATED THOC5 WILD-TYPE 
             14             353 
[1] "GIGYF2 MUTATION ANALYSIS"
[1] 3
  GIGYF2 MUTATED GIGYF2 WILD-TYPE 
              26              341 
  GIGYF2 MUTATED GIGYF2 WILD-TYPE 
              26              341 
[1] "DNAH12 MUTATION ANALYSIS"
[1] 3
  DNAH12 MUTATED DNAH12 WILD-TYPE 
              23              344 
  DNAH12 MUTATED DNAH12 WILD-TYPE 
              23              344 
[1] "ARFGEF1 MUTATION ANALYSIS"
[1] 3
  ARFGEF1 MUTATED ARFGEF1 WILD-TYPE 
               34               333 
  ARFGEF1 MUTATED ARFGEF1 WILD-TYPE 
               34               333 
[1] "NOTCH2NL MUTATION ANALYSIS"
[1] 3
  NOTCH2NL MUTATED NOTCH2NL WILD-TYPE 
                 6                361 
  NOTCH2NL MUTATED NOTCH2NL WILD-TYPE 
                 6                361 
[1] "SENP6 MUTATION ANALYSIS"
[1] 3
  SENP6 MUTATED SENP6 WILD-TYPE 
             15             352 
  SENP6 MUTATED SENP6 WILD-TYPE 
             15             352 
[1] "WDR78 MUTATION ANALYSIS"
[1] 3
  WDR78 MUTATED WDR78 WILD-TYPE 
             12             355 
  WDR78 MUTATED WDR78 WILD-TYPE 
             12             355 
[1] "CAB39L MUTATION ANALYSIS"
[1] 3
  CAB39L MUTATED CAB39L WILD-TYPE 
               9              358 
  CAB39L MUTATED CAB39L WILD-TYPE 
               9              358 
[1] "WEE1 MUTATION ANALYSIS"
[1] 3
  WEE1 MUTATED WEE1 WILD-TYPE 
            12            355 
  WEE1 MUTATED WEE1 WILD-TYPE 
            12            355 
[1] "ZFX MUTATION ANALYSIS"
[1] 3
  ZFX MUTATED ZFX WILD-TYPE 
           13           354 
  ZFX MUTATED ZFX WILD-TYPE 
           13           354 
[1] "ASNSD1 MUTATION ANALYSIS"
[1] 3
  ASNSD1 MUTATED ASNSD1 WILD-TYPE 
               9              358 
  ASNSD1 MUTATED ASNSD1 WILD-TYPE 
               9              358 
[1] "KLC4 MUTATION ANALYSIS"
[1] 3
  KLC4 MUTATED KLC4 WILD-TYPE 
            16            351 
  KLC4 MUTATED KLC4 WILD-TYPE 
            16            351 
[1] "GLI1 MUTATION ANALYSIS"
[1] 3
  GLI1 MUTATED GLI1 WILD-TYPE 
            18            349 
  GLI1 MUTATED GLI1 WILD-TYPE 
            18            349 
[1] "CRY1 MUTATION ANALYSIS"
[1] 3
  CRY1 MUTATED CRY1 WILD-TYPE 
            13            354 
  CRY1 MUTATED CRY1 WILD-TYPE 
            13            354 
[1] "FGFR3 MUTATION ANALYSIS"
[1] 3
  FGFR3 MUTATED FGFR3 WILD-TYPE 
             22             345 
  FGFR3 MUTATED FGFR3 WILD-TYPE 
             22             345 
[1] "PDGFRA MUTATION ANALYSIS"
[1] 3
  PDGFRA MUTATED PDGFRA WILD-TYPE 
              49              318 
  PDGFRA MUTATED PDGFRA WILD-TYPE 
              49              318 
[1] "HLA-A MUTATION ANALYSIS"
[1] 3
  HLA-A MUTATED HLA-A WILD-TYPE 
             17             350 
  HLA-A MUTATED HLA-A WILD-TYPE 
             17             350 
[1] "SCAI MUTATION ANALYSIS"
[1] 3
  SCAI MUTATED SCAI WILD-TYPE 
            14            353 
  SCAI MUTATED SCAI WILD-TYPE 
            14            353 
[1] "MEN1 MUTATION ANALYSIS"
[1] 3
  MEN1 MUTATED MEN1 WILD-TYPE 
            24            343 
  MEN1 MUTATED MEN1 WILD-TYPE 
            24            343 
[1] "FAM179A MUTATION ANALYSIS"
[1] 3
  FAM179A MUTATED FAM179A WILD-TYPE 
               27               340 
  FAM179A MUTATED FAM179A WILD-TYPE 
               27               340 
[1] "MLL2 MUTATION ANALYSIS"
[1] 3
  MLL2 MUTATED MLL2 WILD-TYPE 
            52            315 
  MLL2 MUTATED MLL2 WILD-TYPE 
            52            315 
[1] "FGFR2 MUTATION ANALYSIS"
[1] 3
  FGFR2 MUTATED FGFR2 WILD-TYPE 
             45             322 
  FGFR2 MUTATED FGFR2 WILD-TYPE 
             45             322 
[1] "SLC4A10 MUTATION ANALYSIS"
[1] 3
  SLC4A10 MUTATED SLC4A10 WILD-TYPE 
               27               340 
  SLC4A10 MUTATED SLC4A10 WILD-TYPE 
               27               340 
[1] "RAF1 MUTATION ANALYSIS"
[1] 3
  RAF1 MUTATED RAF1 WILD-TYPE 
            13            354 
  RAF1 MUTATED RAF1 WILD-TYPE 
            13            354 
[1] "KIAA1012 MUTATION ANALYSIS"
[1] 3
  KIAA1012 MUTATED KIAA1012 WILD-TYPE 
                23                344 
  KIAA1012 MUTATED KIAA1012 WILD-TYPE 
                23                344 
[1] "FAM9A MUTATION ANALYSIS"
[1] 3
  FAM9A MUTATED FAM9A WILD-TYPE 
             11             356 
  FAM9A MUTATED FAM9A WILD-TYPE 
             11             356 
[1] "F8 MUTATION ANALYSIS"
[1] 3
  F8 MUTATED F8 WILD-TYPE 
          35          332 
  F8 MUTATED F8 WILD-TYPE 
          35          332 
[1] "TUBE1 MUTATION ANALYSIS"
[1] 3
  TUBE1 MUTATED TUBE1 WILD-TYPE 
             11             356 
  TUBE1 MUTATED TUBE1 WILD-TYPE 
             11             356 
[1] "OXSM MUTATION ANALYSIS"
[1] 3
  OXSM MUTATED OXSM WILD-TYPE 
            10            357 
  OXSM MUTATED OXSM WILD-TYPE 
            10            357 
[1] "FHOD3 MUTATION ANALYSIS"
[1] 3
  FHOD3 MUTATED FHOD3 WILD-TYPE 
             27             340 
  FHOD3 MUTATED FHOD3 WILD-TYPE 
             27             340 
[1] "MMP8 MUTATION ANALYSIS"
[1] 3
  MMP8 MUTATED MMP8 WILD-TYPE 
            12            355 
  MMP8 MUTATED MMP8 WILD-TYPE 
            12            355 
[1] "SGK269 MUTATION ANALYSIS"
[1] 3
  SGK269 MUTATED SGK269 WILD-TYPE 
              20              347 
  SGK269 MUTATED SGK269 WILD-TYPE 
              20              347 
[1] "CLSPN MUTATION ANALYSIS"
[1] 3
  CLSPN MUTATED CLSPN WILD-TYPE 
             30             337 
  CLSPN MUTATED CLSPN WILD-TYPE 
             30             337 
[1] "LATS1 MUTATION ANALYSIS"
[1] 3
  LATS1 MUTATED LATS1 WILD-TYPE 
             18             349 
  LATS1 MUTATED LATS1 WILD-TYPE 
             18             349 
[1] "SCD5 MUTATION ANALYSIS"
[1] 3
  SCD5 MUTATED SCD5 WILD-TYPE 
             7            360 
  SCD5 MUTATED SCD5 WILD-TYPE 
             7            360 
[1] "DDX5 MUTATION ANALYSIS"
[1] 3
  DDX5 MUTATED DDX5 WILD-TYPE 
             9            358 
  DDX5 MUTATED DDX5 WILD-TYPE 
             9            358 
[1] "TAF7L MUTATION ANALYSIS"
[1] 3
  TAF7L MUTATED TAF7L WILD-TYPE 
             11             356 
  TAF7L MUTATED TAF7L WILD-TYPE 
             11             356 
[1] "ERBB4 MUTATION ANALYSIS"
[1] 3
  ERBB4 MUTATED ERBB4 WILD-TYPE 
             51             316 
  ERBB4 MUTATED ERBB4 WILD-TYPE 
             51             316 
[1] "HNF1B MUTATION ANALYSIS"
[1] 3
  HNF1B MUTATED HNF1B WILD-TYPE 
              9             358 
  HNF1B MUTATED HNF1B WILD-TYPE 
              9             358 
[1] "OR7C2 MUTATION ANALYSIS"
[1] 3
  OR7C2 MUTATED OR7C2 WILD-TYPE 
             10             357 
  OR7C2 MUTATED OR7C2 WILD-TYPE 
             10             357 
[1] "KLHL10 MUTATION ANALYSIS"
[1] 3
  KLHL10 MUTATED KLHL10 WILD-TYPE 
              19              348 
  KLHL10 MUTATED KLHL10 WILD-TYPE 
              19              348 
[1] "FBLN5 MUTATION ANALYSIS"
[1] 3
  FBLN5 MUTATED FBLN5 WILD-TYPE 
              8             359 
  FBLN5 MUTATED FBLN5 WILD-TYPE 
              8             359 
[1] "GPX6 MUTATION ANALYSIS"
[1] 3
  GPX6 MUTATED GPX6 WILD-TYPE 
             9            358 
  GPX6 MUTATED GPX6 WILD-TYPE 
             9            358 
[1] "PSD MUTATION ANALYSIS"
[1] 3
  PSD MUTATED PSD WILD-TYPE 
           16           351 
  PSD MUTATED PSD WILD-TYPE 
           16           351 
[1] "EP400 MUTATION ANALYSIS"
[1] 3
  EP400 MUTATED EP400 WILD-TYPE 
             36             331 
  EP400 MUTATED EP400 WILD-TYPE 
             36             331 
[1] "DHRS7 MUTATION ANALYSIS"
[1] 3
  DHRS7 MUTATED DHRS7 WILD-TYPE 
             10             357 
  DHRS7 MUTATED DHRS7 WILD-TYPE 
             10             357 
[1] "ZNF486 MUTATION ANALYSIS"
[1] 3
  ZNF486 MUTATED ZNF486 WILD-TYPE 
              12              355 
  ZNF486 MUTATED ZNF486 WILD-TYPE 
              12              355 
[1] "CLEC4F MUTATION ANALYSIS"
[1] 3
  CLEC4F MUTATED CLEC4F WILD-TYPE 
              19              348 
  CLEC4F MUTATED CLEC4F WILD-TYPE 
              19              348 
[1] "MMP13 MUTATION ANALYSIS"
[1] 3
  MMP13 MUTATED MMP13 WILD-TYPE 
             13             354 
  MMP13 MUTATED MMP13 WILD-TYPE 
             13             354 
[1] "KRT2 MUTATION ANALYSIS"
[1] 3
  KRT2 MUTATED KRT2 WILD-TYPE 
            14            353 
  KRT2 MUTATED KRT2 WILD-TYPE 
            14            353 
[1] "SLC12A6 MUTATION ANALYSIS"
[1] 3
  SLC12A6 MUTATED SLC12A6 WILD-TYPE 
               20               347 
  SLC12A6 MUTATED SLC12A6 WILD-TYPE 
               20               347 
[1] "PRKCH MUTATION ANALYSIS"
[1] 3
  PRKCH MUTATED PRKCH WILD-TYPE 
             13             354 
  PRKCH MUTATED PRKCH WILD-TYPE 
             13             354 
[1] "TUBA4A MUTATION ANALYSIS"
[1] 3
  TUBA4A MUTATED TUBA4A WILD-TYPE 
               9              358 
  TUBA4A MUTATED TUBA4A WILD-TYPE 
               9              358 
[1] "ZFC3H1 MUTATION ANALYSIS"
[1] 3
  ZFC3H1 MUTATED ZFC3H1 WILD-TYPE 
              19              348 
  ZFC3H1 MUTATED ZFC3H1 WILD-TYPE 
              19              348 
[1] "FRMPD4 MUTATION ANALYSIS"
[1] 3
  FRMPD4 MUTATED FRMPD4 WILD-TYPE 
              30              337 
  FRMPD4 MUTATED FRMPD4 WILD-TYPE 
              30              337 
[1] "PRRG1 MUTATION ANALYSIS"
[1] 3
  PRRG1 MUTATED PRRG1 WILD-TYPE 
             11             356 
  PRRG1 MUTATED PRRG1 WILD-TYPE 
             11             356 
[1] "PAQR5 MUTATION ANALYSIS"
[1] 3
  PAQR5 MUTATED PAQR5 WILD-TYPE 
              8             359 
  PAQR5 MUTATED PAQR5 WILD-TYPE 
              8             359 
[1] "BIRC3 MUTATION ANALYSIS"
[1] 3
  BIRC3 MUTATED BIRC3 WILD-TYPE 
             11             356 
  BIRC3 MUTATED BIRC3 WILD-TYPE 
             11             356 
[1] "PPP1R12B MUTATION ANALYSIS"
[1] 3
  PPP1R12B MUTATED PPP1R12B WILD-TYPE 
                12                355 
  PPP1R12B MUTATED PPP1R12B WILD-TYPE 
                12                355 
[1] "TFE3 MUTATION ANALYSIS"
[1] 3
  TFE3 MUTATED TFE3 WILD-TYPE 
            11            356 
  TFE3 MUTATED TFE3 WILD-TYPE 
            11            356 
[1] "ZNF473 MUTATION ANALYSIS"
[1] 3
  ZNF473 MUTATED ZNF473 WILD-TYPE 
              14              353 
  ZNF473 MUTATED ZNF473 WILD-TYPE 
              14              353 
[1] "SLAMF7 MUTATION ANALYSIS"
[1] 3
  SLAMF7 MUTATED SLAMF7 WILD-TYPE 
              11              356 
  SLAMF7 MUTATED SLAMF7 WILD-TYPE 
              11              356 
[1] "SNAI2 MUTATION ANALYSIS"
[1] 3
  SNAI2 MUTATED SNAI2 WILD-TYPE 
             10             357 
  SNAI2 MUTATED SNAI2 WILD-TYPE 
             10             357 
[1] "B4GALNT4 MUTATION ANALYSIS"
[1] 3
  B4GALNT4 MUTATED B4GALNT4 WILD-TYPE 
                11                356 
  B4GALNT4 MUTATED B4GALNT4 WILD-TYPE 
                11                356 
[1] "HIPK2 MUTATION ANALYSIS"
[1] 3
  HIPK2 MUTATED HIPK2 WILD-TYPE 
             24             343 
  HIPK2 MUTATED HIPK2 WILD-TYPE 
             24             343 
[1] "SHROOM4 MUTATION ANALYSIS"
[1] 3
  SHROOM4 MUTATED SHROOM4 WILD-TYPE 
               21               346 
  SHROOM4 MUTATED SHROOM4 WILD-TYPE 
               21               346 
[1] "DDX43 MUTATION ANALYSIS"
[1] 3
  DDX43 MUTATED DDX43 WILD-TYPE 
             11             356 
  DDX43 MUTATED DDX43 WILD-TYPE 
             11             356 
[1] "LHCGR MUTATION ANALYSIS"
[1] 3
  LHCGR MUTATED LHCGR WILD-TYPE 
             24             343 
  LHCGR MUTATED LHCGR WILD-TYPE 
             24             343 
[1] "USP34 MUTATION ANALYSIS"
[1] 3
  USP34 MUTATED USP34 WILD-TYPE 
             42             325 
  USP34 MUTATED USP34 WILD-TYPE 
             42             325 
[1] "ERCC5 MUTATION ANALYSIS"
[1] 3
  ERCC5 MUTATED ERCC5 WILD-TYPE 
             20             347 
  ERCC5 MUTATED ERCC5 WILD-TYPE 
             20             347 
[1] "HIST1H1T MUTATION ANALYSIS"
[1] 3
  HIST1H1T MUTATED HIST1H1T WILD-TYPE 
                 9                358 
  HIST1H1T MUTATED HIST1H1T WILD-TYPE 
                 9                358 
[1] "RBPJ MUTATION ANALYSIS"
[1] 3
  RBPJ MUTATED RBPJ WILD-TYPE 
            15            352 
  RBPJ MUTATED RBPJ WILD-TYPE 
            15            352 
[1] "ADAM28 MUTATION ANALYSIS"
[1] 3
  ADAM28 MUTATED ADAM28 WILD-TYPE 
              17              350 
  ADAM28 MUTATED ADAM28 WILD-TYPE 
              17              350 
[1] "KDM5B MUTATION ANALYSIS"
[1] 3
  KDM5B MUTATED KDM5B WILD-TYPE 
             23             344 
  KDM5B MUTATED KDM5B WILD-TYPE 
             23             344 
[1] "RAG1AP1 MUTATION ANALYSIS"
[1] 3
  RAG1AP1 MUTATED RAG1AP1 WILD-TYPE 
                6               361 
  RAG1AP1 MUTATED RAG1AP1 WILD-TYPE 
                6               361 
[1] "CNIH4 MUTATION ANALYSIS"
[1] 3
  CNIH4 MUTATED CNIH4 WILD-TYPE 
              6             361 
  CNIH4 MUTATED CNIH4 WILD-TYPE 
              6             361 
[1] "TRIM13 MUTATION ANALYSIS"
[1] 3
  TRIM13 MUTATED TRIM13 WILD-TYPE 
               7              360 
  TRIM13 MUTATED TRIM13 WILD-TYPE 
               7              360 
[1] "SNTN MUTATION ANALYSIS"
[1] 3
  SNTN MUTATED SNTN WILD-TYPE 
             6            361 
  SNTN MUTATED SNTN WILD-TYPE 
             6            361 
[1] "SLC28A2 MUTATION ANALYSIS"
[1] 3
  SLC28A2 MUTATED SLC28A2 WILD-TYPE 
               13               354 
  SLC28A2 MUTATED SLC28A2 WILD-TYPE 
               13               354 
[1] "OR2M3 MUTATION ANALYSIS"
[1] 3
  OR2M3 MUTATED OR2M3 WILD-TYPE 
             15             352 
  OR2M3 MUTATED OR2M3 WILD-TYPE 
             15             352 
[1] "MLL3 MUTATION ANALYSIS"
[1] 3
  MLL3 MUTATED MLL3 WILD-TYPE 
            58            309 
  MLL3 MUTATED MLL3 WILD-TYPE 
            58            309 
[1] "FIGNL1 MUTATION ANALYSIS"
[1] 3
  FIGNL1 MUTATED FIGNL1 WILD-TYPE 
              16              351 
  FIGNL1 MUTATED FIGNL1 WILD-TYPE 
              16              351 
[1] "COLEC10 MUTATION ANALYSIS"
[1] 3
  COLEC10 MUTATED COLEC10 WILD-TYPE 
                8               359 
  COLEC10 MUTATED COLEC10 WILD-TYPE 
                8               359 
[1] "MYEOV MUTATION ANALYSIS"
[1] 3
  MYEOV MUTATED MYEOV WILD-TYPE 
              6             361 
  MYEOV MUTATED MYEOV WILD-TYPE 
              6             361 
[1] "EFHC2 MUTATION ANALYSIS"
[1] 3
  EFHC2 MUTATED EFHC2 WILD-TYPE 
             15             352 
  EFHC2 MUTATED EFHC2 WILD-TYPE 
             15             352 
[1] "MYL1 MUTATION ANALYSIS"
[1] 3
  MYL1 MUTATED MYL1 WILD-TYPE 
             8            359 
  MYL1 MUTATED MYL1 WILD-TYPE 
             8            359 
[1] "C12ORF5 MUTATION ANALYSIS"
[1] 3
  C12ORF5 MUTATED C12ORF5 WILD-TYPE 
                6               361 
  C12ORF5 MUTATED C12ORF5 WILD-TYPE 
                6               361 
[1] "ZNF280B MUTATION ANALYSIS"
[1] 3
  ZNF280B MUTATED ZNF280B WILD-TYPE 
               12               355 
  ZNF280B MUTATED ZNF280B WILD-TYPE 
               12               355 
[1] "MIER3 MUTATION ANALYSIS"
[1] 3
  MIER3 MUTATED MIER3 WILD-TYPE 
             13             354 
  MIER3 MUTATED MIER3 WILD-TYPE 
             13             354 
[1] "SCLY MUTATION ANALYSIS"
[1] 3
  SCLY MUTATED SCLY WILD-TYPE 
            11            356 
  SCLY MUTATED SCLY WILD-TYPE 
            11            356 
[1] "SCLT1 MUTATION ANALYSIS"
[1] 3
  SCLT1 MUTATED SCLT1 WILD-TYPE 
             18             349 
  SCLT1 MUTATED SCLT1 WILD-TYPE 
             18             349 
[1] "ERBB2 MUTATION ANALYSIS"
[1] 3
  ERBB2 MUTATED ERBB2 WILD-TYPE 
             27             340 
  ERBB2 MUTATED ERBB2 WILD-TYPE 
             27             340 
[1] "HM13 MUTATION ANALYSIS"
[1] 3
  HM13 MUTATED HM13 WILD-TYPE 
             5            362 
  HM13 MUTATED HM13 WILD-TYPE 
             5            362 
[1] "RASAL2 MUTATION ANALYSIS"
[1] 3
  RASAL2 MUTATED RASAL2 WILD-TYPE 
              15              352 
  RASAL2 MUTATED RASAL2 WILD-TYPE 
              15              352 
[1] "OSBPL2 MUTATION ANALYSIS"
[1] 3
  OSBPL2 MUTATED OSBPL2 WILD-TYPE 
              11              356 
  OSBPL2 MUTATED OSBPL2 WILD-TYPE 
              11              356 
[1] "OVGP1 MUTATION ANALYSIS"
[1] 3
  OVGP1 MUTATED OVGP1 WILD-TYPE 
             14             353 
  OVGP1 MUTATED OVGP1 WILD-TYPE 
             14             353 
[1] "GMCL1 MUTATION ANALYSIS"
[1] 3
  GMCL1 MUTATED GMCL1 WILD-TYPE 
             10             357 
  GMCL1 MUTATED GMCL1 WILD-TYPE 
             10             357 
[1] "ZNF789 MUTATION ANALYSIS"
[1] 3
  ZNF789 MUTATED ZNF789 WILD-TYPE 
               7              360 
  ZNF789 MUTATED ZNF789 WILD-TYPE 
               7              360 
[1] "IVL MUTATION ANALYSIS"
[1] 3
  IVL MUTATED IVL WILD-TYPE 
           17           350 
  IVL MUTATED IVL WILD-TYPE 
           17           350 
[1] "SPR MUTATION ANALYSIS"
[1] 3
  SPR MUTATED SPR WILD-TYPE 
            7           360 
  SPR MUTATED SPR WILD-TYPE 
            7           360 
[1] "C2ORF77 MUTATION ANALYSIS"
[1] 3
  C2ORF77 MUTATED C2ORF77 WILD-TYPE 
                8               359 
  C2ORF77 MUTATED C2ORF77 WILD-TYPE 
                8               359 
[1] "NT5DC3 MUTATION ANALYSIS"
[1] 3
  NT5DC3 MUTATED NT5DC3 WILD-TYPE 
              12              355 
  NT5DC3 MUTATED NT5DC3 WILD-TYPE 
              12              355 
[1] "ITPR1 MUTATION ANALYSIS"
[1] 3
  ITPR1 MUTATED ITPR1 WILD-TYPE 
             37             330 
  ITPR1 MUTATED ITPR1 WILD-TYPE 
             37             330 
[1] "PDCD5 MUTATION ANALYSIS"
[1] 3
  PDCD5 MUTATED PDCD5 WILD-TYPE 
              8             359 
  PDCD5 MUTATED PDCD5 WILD-TYPE 
              8             359 
[1] "AKAP3 MUTATION ANALYSIS"
[1] 3
  AKAP3 MUTATED AKAP3 WILD-TYPE 
             21             346 
  AKAP3 MUTATED AKAP3 WILD-TYPE 
             21             346 
[1] "TNFAIP3 MUTATION ANALYSIS"
[1] 3
  TNFAIP3 MUTATED TNFAIP3 WILD-TYPE 
               34               333 
  TNFAIP3 MUTATED TNFAIP3 WILD-TYPE 
               34               333 
[1] "GFI1 MUTATION ANALYSIS"
[1] 3
  GFI1 MUTATED GFI1 WILD-TYPE 
            10            357 
  GFI1 MUTATED GFI1 WILD-TYPE 
            10            357 
[1] "TWISTNB MUTATION ANALYSIS"
[1] 3
  TWISTNB MUTATED TWISTNB WILD-TYPE 
                8               359 
  TWISTNB MUTATED TWISTNB WILD-TYPE 
                8               359 
[1] "ASB11 MUTATION ANALYSIS"
[1] 3
  ASB11 MUTATED ASB11 WILD-TYPE 
              8             359 
  ASB11 MUTATED ASB11 WILD-TYPE 
              8             359 
[1] "ETAA1 MUTATION ANALYSIS"
[1] 3
  ETAA1 MUTATED ETAA1 WILD-TYPE 
             16             351 
  ETAA1 MUTATED ETAA1 WILD-TYPE 
             16             351 
[1] "NUP188 MUTATION ANALYSIS"
[1] 3
  NUP188 MUTATED NUP188 WILD-TYPE 
              19              348 
  NUP188 MUTATED NUP188 WILD-TYPE 
              19              348 
[1] "GNPAT MUTATION ANALYSIS"
[1] 3
  GNPAT MUTATED GNPAT WILD-TYPE 
             17             350 
  GNPAT MUTATED GNPAT WILD-TYPE 
             17             350 
[1] "TRIM32 MUTATION ANALYSIS"
[1] 3
  TRIM32 MUTATED TRIM32 WILD-TYPE 
              12              355 
  TRIM32 MUTATED TRIM32 WILD-TYPE 
              12              355 
[1] "HAS2 MUTATION ANALYSIS"
[1] 3
  HAS2 MUTATED HAS2 WILD-TYPE 
             9            358 
  HAS2 MUTATED HAS2 WILD-TYPE 
             9            358 
[1] "MKL2 MUTATION ANALYSIS"
[1] 3
  MKL2 MUTATED MKL2 WILD-TYPE 
            10            357 
  MKL2 MUTATED MKL2 WILD-TYPE 
            10            357 
[1] "PCSK1 MUTATION ANALYSIS"
[1] 3
  PCSK1 MUTATED PCSK1 WILD-TYPE 
             16             351 
  PCSK1 MUTATED PCSK1 WILD-TYPE 
             16             351 
[1] "TIAL1 MUTATION ANALYSIS"
[1] 3
  TIAL1 MUTATED TIAL1 WILD-TYPE 
             12             355 
  TIAL1 MUTATED TIAL1 WILD-TYPE 
             12             355 
[1] "NBEA MUTATION ANALYSIS"
[1] 3
  NBEA MUTATED NBEA WILD-TYPE 
            46            321 
  NBEA MUTATED NBEA WILD-TYPE 
            46            321 
[1] "F2RL1 MUTATION ANALYSIS"
[1] 3
  F2RL1 MUTATED F2RL1 WILD-TYPE 
              7             360 
  F2RL1 MUTATED F2RL1 WILD-TYPE 
              7             360 
[1] "ALG2 MUTATION ANALYSIS"
[1] 3
  ALG2 MUTATED ALG2 WILD-TYPE 
             8            359 
  ALG2 MUTATED ALG2 WILD-TYPE 
             8            359 
[1] "STBD1 MUTATION ANALYSIS"
[1] 3
  STBD1 MUTATED STBD1 WILD-TYPE 
              6             361 
  STBD1 MUTATED STBD1 WILD-TYPE 
              6             361 
[1] "C12ORF40 MUTATION ANALYSIS"
[1] 3
  C12ORF40 MUTATED C12ORF40 WILD-TYPE 
                21                346 
  C12ORF40 MUTATED C12ORF40 WILD-TYPE 
                21                346 
[1] "GNAS MUTATION ANALYSIS"
[1] 3
  GNAS MUTATED GNAS WILD-TYPE 
            32            335 
  GNAS MUTATED GNAS WILD-TYPE 
            32            335 
[1] "RBM7 MUTATION ANALYSIS"
[1] 3
  RBM7 MUTATED RBM7 WILD-TYPE 
            10            357 
  RBM7 MUTATED RBM7 WILD-TYPE 
            10            357 
[1] "RUNX1 MUTATION ANALYSIS"
[1] 3
  RUNX1 MUTATED RUNX1 WILD-TYPE 
             37             330 
  RUNX1 MUTATED RUNX1 WILD-TYPE 
             37             330 
[1] "FAM133B MUTATION ANALYSIS"
[1] 3
  FAM133B MUTATED FAM133B WILD-TYPE 
                5               362 
  FAM133B MUTATED FAM133B WILD-TYPE 
                5               362 
[1] "CARD11 MUTATION ANALYSIS"
[1] 3
  CARD11 MUTATED CARD11 WILD-TYPE 
              41              326 
  CARD11 MUTATED CARD11 WILD-TYPE 
              41              326 
[1] "IFT57 MUTATION ANALYSIS"
[1] 3
  IFT57 MUTATED IFT57 WILD-TYPE 
             10             357 
  IFT57 MUTATED IFT57 WILD-TYPE 
             10             357 
[1] "TNFRSF9 MUTATION ANALYSIS"
[1] 3
  TNFRSF9 MUTATED TNFRSF9 WILD-TYPE 
                9               358 
  TNFRSF9 MUTATED TNFRSF9 WILD-TYPE 
                9               358 
[1] "WNT16 MUTATION ANALYSIS"
[1] 3
  WNT16 MUTATED WNT16 WILD-TYPE 
              8             359 
  WNT16 MUTATED WNT16 WILD-TYPE 
              8             359 
[1] "SLC9A10 MUTATION ANALYSIS"
[1] 3
  SLC9A10 MUTATED SLC9A10 WILD-TYPE 
               18               349 
  SLC9A10 MUTATED SLC9A10 WILD-TYPE 
               18               349 
[1] "VAV2 MUTATION ANALYSIS"
[1] 3
  VAV2 MUTATED VAV2 WILD-TYPE 
            17            350 
  VAV2 MUTATED VAV2 WILD-TYPE 
            17            350 
[1] "HMG20A MUTATION ANALYSIS"
[1] 3
  HMG20A MUTATED HMG20A WILD-TYPE 
              13              354 
  HMG20A MUTATED HMG20A WILD-TYPE 
              13              354 
[1] "ETF1 MUTATION ANALYSIS"
[1] 3
  ETF1 MUTATED ETF1 WILD-TYPE 
            10            357 
  ETF1 MUTATED ETF1 WILD-TYPE 
            10            357 
[1] "CBL MUTATION ANALYSIS"
[1] 3
  CBL MUTATED CBL WILD-TYPE 
           34           333 
  CBL MUTATED CBL WILD-TYPE 
           34           333 
[1] "PRB4 MUTATION ANALYSIS"
[1] 3
  PRB4 MUTATED PRB4 WILD-TYPE 
            10            357 
  PRB4 MUTATED PRB4 WILD-TYPE 
            10            357 
[1] "SOX7 MUTATION ANALYSIS"
[1] 3
  SOX7 MUTATED SOX7 WILD-TYPE 
            11            356 
  SOX7 MUTATED SOX7 WILD-TYPE 
            11            356 
[1] "ARHGAP5 MUTATION ANALYSIS"
[1] 3
  ARHGAP5 MUTATED ARHGAP5 WILD-TYPE 
               19               348 
  ARHGAP5 MUTATED ARHGAP5 WILD-TYPE 
               19               348 
[1] "MAGEC1 MUTATION ANALYSIS"
[1] 3
  MAGEC1 MUTATED MAGEC1 WILD-TYPE 
              28              339 
  MAGEC1 MUTATED MAGEC1 WILD-TYPE 
              28              339 
[1] "RAB28 MUTATION ANALYSIS"
[1] 3
  RAB28 MUTATED RAB28 WILD-TYPE 
              6             361 
  RAB28 MUTATED RAB28 WILD-TYPE 
              6             361 
[1] "UBR4 MUTATION ANALYSIS"
[1] 3
  UBR4 MUTATED UBR4 WILD-TYPE 
            39            328 
  UBR4 MUTATED UBR4 WILD-TYPE 
            39            328 
[1] "OR2T33 MUTATION ANALYSIS"
[1] 3
  OR2T33 MUTATED OR2T33 WILD-TYPE 
              16              351 
  OR2T33 MUTATED OR2T33 WILD-TYPE 
              16              351 
[1] "TRIP11 MUTATION ANALYSIS"
[1] 3
  TRIP11 MUTATED TRIP11 WILD-TYPE 
              19              348 
  TRIP11 MUTATED TRIP11 WILD-TYPE 
              19              348 
[1] "ZBTB7C MUTATION ANALYSIS"
[1] 3
  ZBTB7C MUTATED ZBTB7C WILD-TYPE 
              14              353 
  ZBTB7C MUTATED ZBTB7C WILD-TYPE 
              14              353 
[1] "ABCC4 MUTATION ANALYSIS"
[1] 3
  ABCC4 MUTATED ABCC4 WILD-TYPE 
             20             347 
  ABCC4 MUTATED ABCC4 WILD-TYPE 
             20             347 
[1] "CENPF MUTATION ANALYSIS"
[1] 3
  CENPF MUTATED CENPF WILD-TYPE 
             41             326 
  CENPF MUTATED CENPF WILD-TYPE 
             41             326 
[1] "MYO3B MUTATION ANALYSIS"
[1] 3
  MYO3B MUTATED MYO3B WILD-TYPE 
             31             336 
  MYO3B MUTATED MYO3B WILD-TYPE 
             31             336 
[1] "G3BP2 MUTATION ANALYSIS"
[1] 3
  G3BP2 MUTATED G3BP2 WILD-TYPE 
              9             358 
  G3BP2 MUTATED G3BP2 WILD-TYPE 
              9             358 
[1] "MBD6 MUTATION ANALYSIS"
[1] 3
  MBD6 MUTATED MBD6 WILD-TYPE 
            15            352 
  MBD6 MUTATED MBD6 WILD-TYPE 
            15            352 
[1] "ANAPC4 MUTATION ANALYSIS"
[1] 3
  ANAPC4 MUTATED ANAPC4 WILD-TYPE 
              10              357 
  ANAPC4 MUTATED ANAPC4 WILD-TYPE 
              10              357 
[1] "TTF1 MUTATION ANALYSIS"
[1] 3
  TTF1 MUTATED TTF1 WILD-TYPE 
             9            358 
  TTF1 MUTATED TTF1 WILD-TYPE 
             9            358 
[1] "FAM134A MUTATION ANALYSIS"
[1] 3
  FAM134A MUTATED FAM134A WILD-TYPE 
                8               359 
  FAM134A MUTATED FAM134A WILD-TYPE 
                8               359 
[1] "ZKSCAN2 MUTATION ANALYSIS"
[1] 3
  ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE 
               13               354 
  ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE 
               13               354 
[1] "RNF182 MUTATION ANALYSIS"
[1] 3
  RNF182 MUTATED RNF182 WILD-TYPE 
              13              354 
  RNF182 MUTATED RNF182 WILD-TYPE 
              13              354 
[1] "RBBP7 MUTATION ANALYSIS"
[1] 3
  RBBP7 MUTATED RBBP7 WILD-TYPE 
             15             352 
  RBBP7 MUTATED RBBP7 WILD-TYPE 
             15             352 
[1] "MAGEA1 MUTATION ANALYSIS"
[1] 3
  MAGEA1 MUTATED MAGEA1 WILD-TYPE 
              13              354 
  MAGEA1 MUTATED MAGEA1 WILD-TYPE 
              13              354 
[1] "HEPACAM2 MUTATION ANALYSIS"
[1] 3
  HEPACAM2 MUTATED HEPACAM2 WILD-TYPE 
                13                354 
  HEPACAM2 MUTATED HEPACAM2 WILD-TYPE 
                13                354 
[1] "DHX35 MUTATION ANALYSIS"
[1] 3
  DHX35 MUTATED DHX35 WILD-TYPE 
             11             356 
  DHX35 MUTATED DHX35 WILD-TYPE 
             11             356 
[1] "PARP12 MUTATION ANALYSIS"
[1] 3
  PARP12 MUTATED PARP12 WILD-TYPE 
               9              358 
  PARP12 MUTATED PARP12 WILD-TYPE 
               9              358 
[1] "BRCA2 MUTATION ANALYSIS"
[1] 3
  BRCA2 MUTATED BRCA2 WILD-TYPE 
             47             320 
  BRCA2 MUTATED BRCA2 WILD-TYPE 
             47             320 
[1] "IFIT2 MUTATION ANALYSIS"
[1] 3
  IFIT2 MUTATED IFIT2 WILD-TYPE 
              7             360 
  IFIT2 MUTATED IFIT2 WILD-TYPE 
              7             360 
[1] "MUC17 MUTATION ANALYSIS"
[1] 3
  MUC17 MUTATED MUC17 WILD-TYPE 
             46             321 
  MUC17 MUTATED MUC17 WILD-TYPE 
             46             321 
[1] "TET3 MUTATION ANALYSIS"
[1] 3
  TET3 MUTATED TET3 WILD-TYPE 
            20            347 
  TET3 MUTATED TET3 WILD-TYPE 
            20            347 
[1] "TOB1 MUTATION ANALYSIS"
[1] 3
  TOB1 MUTATED TOB1 WILD-TYPE 
             6            361 
  TOB1 MUTATED TOB1 WILD-TYPE 
             6            361 
[1] "GOLPH3L MUTATION ANALYSIS"
[1] 3
  GOLPH3L MUTATED GOLPH3L WILD-TYPE 
                5               362 
  GOLPH3L MUTATED GOLPH3L WILD-TYPE 
                5               362 
[1] "TSHR MUTATION ANALYSIS"
[1] 3
  TSHR MUTATED TSHR WILD-TYPE 
            44            323 
  TSHR MUTATED TSHR WILD-TYPE 
            44            323 
[1] "C14ORF102 MUTATION ANALYSIS"
[1] 3
  C14ORF102 MUTATED C14ORF102 WILD-TYPE 
                 17                 350 
  C14ORF102 MUTATED C14ORF102 WILD-TYPE 
                 17                 350 
[1] "EXOC4 MUTATION ANALYSIS"
[1] 3
  EXOC4 MUTATED EXOC4 WILD-TYPE 
             18             349 
  EXOC4 MUTATED EXOC4 WILD-TYPE 
             18             349 
[1] "RPS6KA3 MUTATION ANALYSIS"
[1] 3
  RPS6KA3 MUTATED RPS6KA3 WILD-TYPE 
               13               354 
  RPS6KA3 MUTATED RPS6KA3 WILD-TYPE 
               13               354 
[1] "ZNF438 MUTATION ANALYSIS"
[1] 3
  ZNF438 MUTATED ZNF438 WILD-TYPE 
              12              355 
  ZNF438 MUTATED ZNF438 WILD-TYPE 
              12              355 
[1] "MST4 MUTATION ANALYSIS"
[1] 3
  MST4 MUTATED MST4 WILD-TYPE 
             7            360 
  MST4 MUTATED MST4 WILD-TYPE 
             7            360 
[1] "RIF1 MUTATION ANALYSIS"
[1] 3
  RIF1 MUTATED RIF1 WILD-TYPE 
            35            332 
  RIF1 MUTATED RIF1 WILD-TYPE 
            35            332 
[1] "INPP1 MUTATION ANALYSIS"
[1] 3
  INPP1 MUTATED INPP1 WILD-TYPE 
              7             360 
  INPP1 MUTATED INPP1 WILD-TYPE 
              7             360 
[1] "SAPS2 MUTATION ANALYSIS"
[1] 3
  SAPS2 MUTATED SAPS2 WILD-TYPE 
             11             356 
  SAPS2 MUTATED SAPS2 WILD-TYPE 
             11             356 
[1] "CEP135 MUTATION ANALYSIS"
[1] 3
  CEP135 MUTATED CEP135 WILD-TYPE 
              21              346 
  CEP135 MUTATED CEP135 WILD-TYPE 
              21              346 
[1] "PPP2R1A MUTATION ANALYSIS"
[1] 3
  PPP2R1A MUTATED PPP2R1A WILD-TYPE 
               14               353 
  PPP2R1A MUTATED PPP2R1A WILD-TYPE 
               14               353 
[1] "RNF160 MUTATION ANALYSIS"
[1] 3
  RNF160 MUTATED RNF160 WILD-TYPE 
              16              351 
  RNF160 MUTATED RNF160 WILD-TYPE 
              16              351 
[1] "ECM2 MUTATION ANALYSIS"
[1] 3
  ECM2 MUTATED ECM2 WILD-TYPE 
            17            350 
  ECM2 MUTATED ECM2 WILD-TYPE 
            17            350 
[1] "MSH2 MUTATION ANALYSIS"
[1] 3
  MSH2 MUTATED MSH2 WILD-TYPE 
            33            334 
  MSH2 MUTATED MSH2 WILD-TYPE 
            33            334 
[1] "IL1RAPL1 MUTATION ANALYSIS"
[1] 3
  IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE 
                23                344 
  IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE 
                23                344 
[1] "C6ORF170 MUTATION ANALYSIS"
[1] 3
  C6ORF170 MUTATED C6ORF170 WILD-TYPE 
                18                349 
  C6ORF170 MUTATED C6ORF170 WILD-TYPE 
                18                349 
[1] "STAB2 MUTATION ANALYSIS"
[1] 3
  STAB2 MUTATED STAB2 WILD-TYPE 
             32             335 
  STAB2 MUTATED STAB2 WILD-TYPE 
             32             335 
[1] "ERBB3 MUTATION ANALYSIS"
[1] 3
  ERBB3 MUTATED ERBB3 WILD-TYPE 
             26             341 
  ERBB3 MUTATED ERBB3 WILD-TYPE 
             26             341 
[1] "ZNF708 MUTATION ANALYSIS"
[1] 3
  ZNF708 MUTATED ZNF708 WILD-TYPE 
              12              355 
  ZNF708 MUTATED ZNF708 WILD-TYPE 
              12              355 
[1] "MBTD1 MUTATION ANALYSIS"
[1] 3
  MBTD1 MUTATED MBTD1 WILD-TYPE 
              9             358 
  MBTD1 MUTATED MBTD1 WILD-TYPE 
              9             358 
[1] "ZNF189 MUTATION ANALYSIS"
[1] 3
  ZNF189 MUTATED ZNF189 WILD-TYPE 
              17              350 
  ZNF189 MUTATED ZNF189 WILD-TYPE 
              17              350 
[1] "ACP6 MUTATION ANALYSIS"
[1] 3
  ACP6 MUTATED ACP6 WILD-TYPE 
             6            361 
  ACP6 MUTATED ACP6 WILD-TYPE 
             6            361 
[1] "PRKCI MUTATION ANALYSIS"
[1] 3
  PRKCI MUTATED PRKCI WILD-TYPE 
             18             349 
  PRKCI MUTATED PRKCI WILD-TYPE 
             18             349 
[1] "ANKRD50 MUTATION ANALYSIS"
[1] 3
  ANKRD50 MUTATED ANKRD50 WILD-TYPE 
               15               352 
  ANKRD50 MUTATED ANKRD50 WILD-TYPE 
               15               352 
[1] "IL12RB2 MUTATION ANALYSIS"
[1] 3
  IL12RB2 MUTATED IL12RB2 WILD-TYPE 
               14               353 
  IL12RB2 MUTATED IL12RB2 WILD-TYPE 
               14               353 
[1] "GPNMB MUTATION ANALYSIS"
[1] 3
  GPNMB MUTATED GPNMB WILD-TYPE 
             13             354 
  GPNMB MUTATED GPNMB WILD-TYPE 
             13             354 
[1] "GLI2 MUTATION ANALYSIS"
[1] 3
  GLI2 MUTATED GLI2 WILD-TYPE 
            20            347 
  GLI2 MUTATED GLI2 WILD-TYPE 
            20            347 
[1] "OR51E1 MUTATION ANALYSIS"
[1] 3
  OR51E1 MUTATED OR51E1 WILD-TYPE 
              13              354 
  OR51E1 MUTATED OR51E1 WILD-TYPE 
              13              354 
[1] "AGFG1 MUTATION ANALYSIS"
[1] 3
  AGFG1 MUTATED AGFG1 WILD-TYPE 
             15             352 
  AGFG1 MUTATED AGFG1 WILD-TYPE 
             15             352 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
            33            334 
  NRAS MUTATED NRAS WILD-TYPE 
            33            334 
[1] "MPO MUTATION ANALYSIS"
[1] 3
  MPO MUTATED MPO WILD-TYPE 
           12           355 
  MPO MUTATED MPO WILD-TYPE 
           12           355 
[1] "TRRAP MUTATION ANALYSIS"
[1] 3
  TRRAP MUTATED TRRAP WILD-TYPE 
             49             318 
  TRRAP MUTATED TRRAP WILD-TYPE 
             49             318 
[1] "OR11G2 MUTATION ANALYSIS"
[1] 3
  OR11G2 MUTATED OR11G2 WILD-TYPE 
               5              362 
  OR11G2 MUTATED OR11G2 WILD-TYPE 
               5              362 
[1] "TRIM23 MUTATION ANALYSIS"
[1] 3
  TRIM23 MUTATED TRIM23 WILD-TYPE 
              11              356 
  TRIM23 MUTATED TRIM23 WILD-TYPE 
              11              356 
[1] "BRAF MUTATION ANALYSIS"
[1] 3
  BRAF MUTATED BRAF WILD-TYPE 
            96            271 
  BRAF MUTATED BRAF WILD-TYPE 
            96            271 
[1] "GTF2B MUTATION ANALYSIS"
[1] 3
  GTF2B MUTATED GTF2B WILD-TYPE 
             11             356 
  GTF2B MUTATED GTF2B WILD-TYPE 
             11             356 
[1] "DDB1 MUTATION ANALYSIS"
[1] 3
  DDB1 MUTATED DDB1 WILD-TYPE 
            13            354 
  DDB1 MUTATED DDB1 WILD-TYPE 
            13            354 
[1] "EZH2 MUTATION ANALYSIS"
[1] 3
  EZH2 MUTATED EZH2 WILD-TYPE 
            44            323 
  EZH2 MUTATED EZH2 WILD-TYPE 
            44            323 
[1] "PRDM1 MUTATION ANALYSIS"
[1] 3
  PRDM1 MUTATED PRDM1 WILD-TYPE 
             20             347 
  PRDM1 MUTATED PRDM1 WILD-TYPE 
             20             347 
[1] "USP26 MUTATION ANALYSIS"
[1] 3
  USP26 MUTATED USP26 WILD-TYPE 
             23             344 
  USP26 MUTATED USP26 WILD-TYPE 
             23             344 
[1] "TXNDC15 MUTATION ANALYSIS"
[1] 3
  TXNDC15 MUTATED TXNDC15 WILD-TYPE 
                6               361 
  TXNDC15 MUTATED TXNDC15 WILD-TYPE 
                6               361 
[1] "OR1I1 MUTATION ANALYSIS"
[1] 3
  OR1I1 MUTATED OR1I1 WILD-TYPE 
             10             357 
  OR1I1 MUTATED OR1I1 WILD-TYPE 
             10             357 
[1] "CUL2 MUTATION ANALYSIS"
[1] 3
  CUL2 MUTATED CUL2 WILD-TYPE 
            14            353 
  CUL2 MUTATED CUL2 WILD-TYPE 
            14            353 
[1] "TMEM169 MUTATION ANALYSIS"
[1] 3
  TMEM169 MUTATED TMEM169 WILD-TYPE 
               13               354 
  TMEM169 MUTATED TMEM169 WILD-TYPE 
               13               354 
[1] "PIK3C2A MUTATION ANALYSIS"
[1] 3
  PIK3C2A MUTATED PIK3C2A WILD-TYPE 
               14               353 
  PIK3C2A MUTATED PIK3C2A WILD-TYPE 
               14               353 
[1] "MSH6 MUTATION ANALYSIS"
[1] 3
  MSH6 MUTATED MSH6 WILD-TYPE 
            39            328 
  MSH6 MUTATED MSH6 WILD-TYPE 
            39            328 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
           168            199 
  KRAS MUTATED KRAS WILD-TYPE 
           168            199 
[1] "NEXN MUTATION ANALYSIS"
[1] 3
  NEXN MUTATED NEXN WILD-TYPE 
            17            350 
  NEXN MUTATED NEXN WILD-TYPE 
            17            350 
[1] "SP110 MUTATION ANALYSIS"
[1] 3
  SP110 MUTATED SP110 WILD-TYPE 
             10             357 
  SP110 MUTATED SP110 WILD-TYPE 
             10             357 
[1] "MYST4 MUTATION ANALYSIS"
[1] 3
  MYST4 MUTATED MYST4 WILD-TYPE 
             23             344 
  MYST4 MUTATED MYST4 WILD-TYPE 
             23             344 
[1] "PPARGC1A MUTATION ANALYSIS"
[1] 3
  PPARGC1A MUTATED PPARGC1A WILD-TYPE 
                23                344 
  PPARGC1A MUTATED PPARGC1A WILD-TYPE 
                23                344 
[1] "CLIP4 MUTATION ANALYSIS"
[1] 3
  CLIP4 MUTATED CLIP4 WILD-TYPE 
             14             353 
  CLIP4 MUTATED CLIP4 WILD-TYPE 
             14             353 
[1] "PAK3 MUTATION ANALYSIS"
[1] 3
  PAK3 MUTATED PAK3 WILD-TYPE 
            17            350 
  PAK3 MUTATED PAK3 WILD-TYPE 
            17            350 
[1] "KCNS3 MUTATION ANALYSIS"
[1] 3
  KCNS3 MUTATED KCNS3 WILD-TYPE 
             19             348 
  KCNS3 MUTATED KCNS3 WILD-TYPE 
             19             348 
[1] "TRPM7 MUTATION ANALYSIS"
[1] 3
  TRPM7 MUTATED TRPM7 WILD-TYPE 
             28             339 
  TRPM7 MUTATED TRPM7 WILD-TYPE 
             28             339 
[1] "DSG1 MUTATION ANALYSIS"
[1] 3
  DSG1 MUTATED DSG1 WILD-TYPE 
            18            349 
  DSG1 MUTATED DSG1 WILD-TYPE 
            18            349 
[1] "ZNF585A MUTATION ANALYSIS"
[1] 3
  ZNF585A MUTATED ZNF585A WILD-TYPE 
               16               351 
  ZNF585A MUTATED ZNF585A WILD-TYPE 
               16               351 
[1] "KPNA5 MUTATION ANALYSIS"
[1] 3
  KPNA5 MUTATED KPNA5 WILD-TYPE 
             11             356 
  KPNA5 MUTATED KPNA5 WILD-TYPE 
             11             356 
[1] "CDC42BPA MUTATION ANALYSIS"
[1] 3
  CDC42BPA MUTATED CDC42BPA WILD-TYPE 
                29                338 
  CDC42BPA MUTATED CDC42BPA WILD-TYPE 
                29                338 
[1] "KIR2DL3 MUTATION ANALYSIS"
[1] 3
  KIR2DL3 MUTATED KIR2DL3 WILD-TYPE 
               19               348 
  KIR2DL3 MUTATED KIR2DL3 WILD-TYPE 
               19               348 
[1] "C5ORF22 MUTATION ANALYSIS"
[1] 3
  C5ORF22 MUTATED C5ORF22 WILD-TYPE 
               11               356 
  C5ORF22 MUTATED C5ORF22 WILD-TYPE 
               11               356 
[1] "CSNK1D MUTATION ANALYSIS"
[1] 3
  CSNK1D MUTATED CSNK1D WILD-TYPE 
              14              353 
  CSNK1D MUTATED CSNK1D WILD-TYPE 
              14              353 
[1] "IQSEC2 MUTATION ANALYSIS"
[1] 3
  IQSEC2 MUTATED IQSEC2 WILD-TYPE 
              16              351 
  IQSEC2 MUTATED IQSEC2 WILD-TYPE 
              16              351 
[1] "RAB6C MUTATION ANALYSIS"
[1] 3
  RAB6C MUTATED RAB6C WILD-TYPE 
              5             362 
  RAB6C MUTATED RAB6C WILD-TYPE 
              5             362 
[1] "C9ORF131 MUTATION ANALYSIS"
[1] 3
  C9ORF131 MUTATED C9ORF131 WILD-TYPE 
                13                354 
  C9ORF131 MUTATED C9ORF131 WILD-TYPE 
                13                354 
[1] "C12ORF10 MUTATION ANALYSIS"
[1] 3
  C12ORF10 MUTATED C12ORF10 WILD-TYPE 
                 4                363 
  C12ORF10 MUTATED C12ORF10 WILD-TYPE 
                 4                363 
[1] "NUP54 MUTATION ANALYSIS"
[1] 3
  NUP54 MUTATED NUP54 WILD-TYPE 
              8             359 
  NUP54 MUTATED NUP54 WILD-TYPE 
              8             359 
[1] "PLEKHA6 MUTATION ANALYSIS"
[1] 3
  PLEKHA6 MUTATED PLEKHA6 WILD-TYPE 
               19               348 
  PLEKHA6 MUTATED PLEKHA6 WILD-TYPE 
               19               348 
[1] "CYP4X1 MUTATION ANALYSIS"
[1] 3
  CYP4X1 MUTATED CYP4X1 WILD-TYPE 
               5              362 
  CYP4X1 MUTATED CYP4X1 WILD-TYPE 
               5              362 
[1] "DAXX MUTATION ANALYSIS"
[1] 3
  DAXX MUTATED DAXX WILD-TYPE 
            12            355 
  DAXX MUTATED DAXX WILD-TYPE 
            12            355 
[1] "CDK17 MUTATION ANALYSIS"
[1] 3
  CDK17 MUTATED CDK17 WILD-TYPE 
             11             356 
  CDK17 MUTATED CDK17 WILD-TYPE 
             11             356 
[1] "SYNCRIP MUTATION ANALYSIS"
[1] 3
  SYNCRIP MUTATED SYNCRIP WILD-TYPE 
               10               357 
  SYNCRIP MUTATED SYNCRIP WILD-TYPE 
               10               357 
[1] "ENPEP MUTATION ANALYSIS"
[1] 3
  ENPEP MUTATED ENPEP WILD-TYPE 
             21             346 
  ENPEP MUTATED ENPEP WILD-TYPE 
             21             346 
[1] "C6ORF89 MUTATION ANALYSIS"
[1] 3
  C6ORF89 MUTATED C6ORF89 WILD-TYPE 
                6               361 
  C6ORF89 MUTATED C6ORF89 WILD-TYPE 
                6               361 
[1] "USP7 MUTATION ANALYSIS"
[1] 3
  USP7 MUTATED USP7 WILD-TYPE 
            24            343 
  USP7 MUTATED USP7 WILD-TYPE 
            24            343 
[1] "CCAR1 MUTATION ANALYSIS"
[1] 3
  CCAR1 MUTATED CCAR1 WILD-TYPE 
             18             349 
  CCAR1 MUTATED CCAR1 WILD-TYPE 
             18             349 
[1] "SLC7A10 MUTATION ANALYSIS"
[1] 3
  SLC7A10 MUTATED SLC7A10 WILD-TYPE 
                8               359 
  SLC7A10 MUTATED SLC7A10 WILD-TYPE 
                8               359 
[1] "GTF2IRD2 MUTATION ANALYSIS"
[1] 3
  GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE 
                 6                361 
  GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE 
                 6                361 
[1] "TIFA MUTATION ANALYSIS"
[1] 3
  TIFA MUTATED TIFA WILD-TYPE 
             6            361 
  TIFA MUTATED TIFA WILD-TYPE 
             6            361 
[1] "MFN1 MUTATION ANALYSIS"
[1] 3
  MFN1 MUTATED MFN1 WILD-TYPE 
            13            354 
  MFN1 MUTATED MFN1 WILD-TYPE 
            13            354 
[1] "AMOT MUTATION ANALYSIS"
[1] 3
  AMOT MUTATED AMOT WILD-TYPE 
            13            354 
  AMOT MUTATED AMOT WILD-TYPE 
            13            354 
[1] "ZNF449 MUTATION ANALYSIS"
[1] 3
  ZNF449 MUTATED ZNF449 WILD-TYPE 
              10              357 
  ZNF449 MUTATED ZNF449 WILD-TYPE 
              10              357 
[1] "SMARCA4 MUTATION ANALYSIS"
[1] 3
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
               30               337 
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
               30               337 
[1] "IGFBP7 MUTATION ANALYSIS"
[1] 3
  IGFBP7 MUTATED IGFBP7 WILD-TYPE 
               4              363 
  IGFBP7 MUTATED IGFBP7 WILD-TYPE 
               4              363 
[1] "MARK1 MUTATION ANALYSIS"
[1] 3
  MARK1 MUTATED MARK1 WILD-TYPE 
             25             342 
  MARK1 MUTATED MARK1 WILD-TYPE 
             25             342 
[1] "CCR2 MUTATION ANALYSIS"
[1] 3
  CCR2 MUTATED CCR2 WILD-TYPE 
             7            360 
  CCR2 MUTATED CCR2 WILD-TYPE 
             7            360 
[1] "NUP160 MUTATION ANALYSIS"
[1] 3
  NUP160 MUTATED NUP160 WILD-TYPE 
              11              356 
  NUP160 MUTATED NUP160 WILD-TYPE 
              11              356 
[1] "CYLC1 MUTATION ANALYSIS"
[1] 3
  CYLC1 MUTATED CYLC1 WILD-TYPE 
             27             340 
  CYLC1 MUTATED CYLC1 WILD-TYPE 
             27             340 
[1] "PRAMEF12 MUTATION ANALYSIS"
[1] 3
  PRAMEF12 MUTATED PRAMEF12 WILD-TYPE 
                 5                362 
  PRAMEF12 MUTATED PRAMEF12 WILD-TYPE 
                 5                362 
[1] "C1ORF59 MUTATION ANALYSIS"
[1] 3
  C1ORF59 MUTATED C1ORF59 WILD-TYPE 
               10               357 
  C1ORF59 MUTATED C1ORF59 WILD-TYPE 
               10               357 
[1] "MEPE MUTATION ANALYSIS"
[1] 3
  MEPE MUTATED MEPE WILD-TYPE 
            15            352 
  MEPE MUTATED MEPE WILD-TYPE 
            15            352 
[1] "ZNF384 MUTATION ANALYSIS"
[1] 3
  ZNF384 MUTATED ZNF384 WILD-TYPE 
               9              358 
  ZNF384 MUTATED ZNF384 WILD-TYPE 
               9              358 
[1] "MOBKL2B MUTATION ANALYSIS"
[1] 3
  MOBKL2B MUTATED MOBKL2B WILD-TYPE 
                7               360 
  MOBKL2B MUTATED MOBKL2B WILD-TYPE 
                7               360 
[1] "GPR112 MUTATION ANALYSIS"
[1] 3
  GPR112 MUTATED GPR112 WILD-TYPE 
              30              337 
  GPR112 MUTATED GPR112 WILD-TYPE 
              30              337 
[1] "MET MUTATION ANALYSIS"
[1] 3
  MET MUTATED MET WILD-TYPE 
           42           325 
  MET MUTATED MET WILD-TYPE 
           42           325 
[1] "FUT10 MUTATION ANALYSIS"
[1] 3
  FUT10 MUTATED FUT10 WILD-TYPE 
              6             361 
  FUT10 MUTATED FUT10 WILD-TYPE 
              6             361 
[1] "BAG4 MUTATION ANALYSIS"
[1] 3
  BAG4 MUTATED BAG4 WILD-TYPE 
             8            359 
  BAG4 MUTATED BAG4 WILD-TYPE 
             8            359 
[1] "GPR87 MUTATION ANALYSIS"
[1] 3
  GPR87 MUTATED GPR87 WILD-TYPE 
             10             357 
  GPR87 MUTATED GPR87 WILD-TYPE 
             10             357 
[1] "RASA2 MUTATION ANALYSIS"
[1] 3
  RASA2 MUTATED RASA2 WILD-TYPE 
             15             352 
  RASA2 MUTATED RASA2 WILD-TYPE 
             15             352 
[1] "TNNI3K MUTATION ANALYSIS"
[1] 3
  TNNI3K MUTATED TNNI3K WILD-TYPE 
              24              343 
  TNNI3K MUTATED TNNI3K WILD-TYPE 
              24              343 
[1] "RELN MUTATION ANALYSIS"
[1] 3
  RELN MUTATED RELN WILD-TYPE 
            65            302 
  RELN MUTATED RELN WILD-TYPE 
            65            302 
[1] "USP25 MUTATION ANALYSIS"
[1] 3
  USP25 MUTATED USP25 WILD-TYPE 
             19             348 
  USP25 MUTATED USP25 WILD-TYPE 
             19             348 
[1] "NCOA7 MUTATION ANALYSIS"
[1] 3
  NCOA7 MUTATED NCOA7 WILD-TYPE 
             15             352 
  NCOA7 MUTATED NCOA7 WILD-TYPE 
             15             352 
[1] "DDX23 MUTATION ANALYSIS"
[1] 3
  DDX23 MUTATED DDX23 WILD-TYPE 
             18             349 
  DDX23 MUTATED DDX23 WILD-TYPE 
             18             349 
[1] "IGF2R MUTATION ANALYSIS"
[1] 3
  IGF2R MUTATED IGF2R WILD-TYPE 
             37             330 
  IGF2R MUTATED IGF2R WILD-TYPE 
             37             330 
[1] "TMEM92 MUTATION ANALYSIS"
[1] 3
  TMEM92 MUTATED TMEM92 WILD-TYPE 
               3              364 
  TMEM92 MUTATED TMEM92 WILD-TYPE 
               3              364 
[1] "ODZ1 MUTATION ANALYSIS"
[1] 3
  ODZ1 MUTATED ODZ1 WILD-TYPE 
            61            306 
  ODZ1 MUTATED ODZ1 WILD-TYPE 
            61            306 
[1] "FLG2 MUTATION ANALYSIS"
[1] 3
  FLG2 MUTATED FLG2 WILD-TYPE 
            28            339 
  FLG2 MUTATED FLG2 WILD-TYPE 
            28            339 
[1] "TRMT5 MUTATION ANALYSIS"
[1] 3
  TRMT5 MUTATED TRMT5 WILD-TYPE 
              6             361 
  TRMT5 MUTATED TRMT5 WILD-TYPE 
              6             361 
[1] "CHML MUTATION ANALYSIS"
[1] 3
  CHML MUTATED CHML WILD-TYPE 
            20            347 
  CHML MUTATED CHML WILD-TYPE 
            20            347 
[1] "AURKA MUTATION ANALYSIS"
[1] 3
  AURKA MUTATED AURKA WILD-TYPE 
              7             360 
  AURKA MUTATED AURKA WILD-TYPE 
              7             360 
[1] "LRRC23 MUTATION ANALYSIS"
[1] 3
  LRRC23 MUTATED LRRC23 WILD-TYPE 
               9              358 
  LRRC23 MUTATED LRRC23 WILD-TYPE 
               9              358 
[1] "PHF3 MUTATION ANALYSIS"
[1] 3
  PHF3 MUTATED PHF3 WILD-TYPE 
            23            344 
  PHF3 MUTATED PHF3 WILD-TYPE 
            23            344 
[1] "CNTNAP5 MUTATION ANALYSIS"
[1] 3
  CNTNAP5 MUTATED CNTNAP5 WILD-TYPE 
               40               327 
  CNTNAP5 MUTATED CNTNAP5 WILD-TYPE 
               40               327 
[1] "KRT14 MUTATION ANALYSIS"
[1] 3
  KRT14 MUTATED KRT14 WILD-TYPE 
              8             359 
  KRT14 MUTATED KRT14 WILD-TYPE 
              8             359 
[1] "JAK2 MUTATION ANALYSIS"
[1] 3
  JAK2 MUTATED JAK2 WILD-TYPE 
            40            327 
  JAK2 MUTATED JAK2 WILD-TYPE 
            40            327 
[1] "ANKHD1 MUTATION ANALYSIS"
[1] 3
  ANKHD1 MUTATED ANKHD1 WILD-TYPE 
              29              338 
  ANKHD1 MUTATED ANKHD1 WILD-TYPE 
              29              338 
[1] "GAB2 MUTATION ANALYSIS"
[1] 3
  GAB2 MUTATED GAB2 WILD-TYPE 
             9            358 
  GAB2 MUTATED GAB2 WILD-TYPE 
             9            358 
[1] "ADAM18 MUTATION ANALYSIS"
[1] 3
  ADAM18 MUTATED ADAM18 WILD-TYPE 
              18              349 
  ADAM18 MUTATED ADAM18 WILD-TYPE 
              18              349 
[1] "KIT MUTATION ANALYSIS"
[1] 3
  KIT MUTATED KIT WILD-TYPE 
           96           271 
  KIT MUTATED KIT WILD-TYPE 
           96           271 
[1] "HUWE1 MUTATION ANALYSIS"
[1] 3
  HUWE1 MUTATED HUWE1 WILD-TYPE 
             42             325 
  HUWE1 MUTATED HUWE1 WILD-TYPE 
             42             325 
[1] "NTRK3 MUTATION ANALYSIS"
[1] 3
  NTRK3 MUTATED NTRK3 WILD-TYPE 
             25             342 
  NTRK3 MUTATED NTRK3 WILD-TYPE 
             25             342 
[1] "EGFR MUTATION ANALYSIS"
[1] 3
  EGFR MUTATED EGFR WILD-TYPE 
            75            292 
  EGFR MUTATED EGFR WILD-TYPE 
            75            292 
[1] "GATA3 MUTATION ANALYSIS"
[1] 3
  GATA3 MUTATED GATA3 WILD-TYPE 
             16             351 
  GATA3 MUTATED GATA3 WILD-TYPE 
             16             351 
[1] "ATP13A5 MUTATION ANALYSIS"
[1] 3
  ATP13A5 MUTATED ATP13A5 WILD-TYPE 
               22               345 
  ATP13A5 MUTATED ATP13A5 WILD-TYPE 
               22               345 
[1] "DKK2 MUTATION ANALYSIS"
[1] 3
  DKK2 MUTATED DKK2 WILD-TYPE 
            23            344 
  DKK2 MUTATED DKK2 WILD-TYPE 
            23            344 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
             175              192 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
             175              192 
[1] "CLVS2 MUTATION ANALYSIS"
[1] 3
  CLVS2 MUTATED CLVS2 WILD-TYPE 
              9             358 
  CLVS2 MUTATED CLVS2 WILD-TYPE 
              9             358 
[1] "EP300 MUTATION ANALYSIS"
[1] 3
  EP300 MUTATED EP300 WILD-TYPE 
             36             331 
  EP300 MUTATED EP300 WILD-TYPE 
             36             331 
[1] "ITGAV MUTATION ANALYSIS"
[1] 3
  ITGAV MUTATED ITGAV WILD-TYPE 
             15             352 
  ITGAV MUTATED ITGAV WILD-TYPE 
             15             352 
[1] "PPP1R3A MUTATION ANALYSIS"
[1] 3
  PPP1R3A MUTATED PPP1R3A WILD-TYPE 
               32               335 
  PPP1R3A MUTATED PPP1R3A WILD-TYPE 
               32               335 
[1] "PTPN11 MUTATION ANALYSIS"
[1] 3
  PTPN11 MUTATED PTPN11 WILD-TYPE 
              30              337 
  PTPN11 MUTATED PTPN11 WILD-TYPE 
              30              337 
[1] "KIAA1409 MUTATION ANALYSIS"
[1] 3
  KIAA1409 MUTATED KIAA1409 WILD-TYPE 
                39                328 
  KIAA1409 MUTATED KIAA1409 WILD-TYPE 
                39                328 
[1] "EPHA3 MUTATION ANALYSIS"
[1] 3
  EPHA3 MUTATED EPHA3 WILD-TYPE 
             57             310 
  EPHA3 MUTATED EPHA3 WILD-TYPE 
             57             310 
[1] "HFE2 MUTATION ANALYSIS"
[1] 3
  HFE2 MUTATED HFE2 WILD-TYPE 
             8            359 
  HFE2 MUTATED HFE2 WILD-TYPE 
             8            359 
[1] "MYH1 MUTATION ANALYSIS"
[1] 3
  MYH1 MUTATED MYH1 WILD-TYPE 
            32            335 
  MYH1 MUTATED MYH1 WILD-TYPE 
            32            335 
[1] "EEA1 MUTATION ANALYSIS"
[1] 3
  EEA1 MUTATED EEA1 WILD-TYPE 
            13            354 
  EEA1 MUTATED EEA1 WILD-TYPE 
            13            354 
[1] "GRM7 MUTATION ANALYSIS"
[1] 3
  GRM7 MUTATED GRM7 WILD-TYPE 
            25            342 
  GRM7 MUTATED GRM7 WILD-TYPE 
            25            342 
[1] "GRM8 MUTATION ANALYSIS"
[1] 3
  GRM8 MUTATED GRM8 WILD-TYPE 
            21            346 
  GRM8 MUTATED GRM8 WILD-TYPE 
            21            346 
[1] "TAF1 MUTATION ANALYSIS"
[1] 3
  TAF1 MUTATED TAF1 WILD-TYPE 
            22            345 
  TAF1 MUTATED TAF1 WILD-TYPE 
            22            345 
[1] "ANKRD30A MUTATION ANALYSIS"
[1] 3
  ANKRD30A MUTATED ANKRD30A WILD-TYPE 
                28                339 
  ANKRD30A MUTATED ANKRD30A WILD-TYPE 
                28                339 
[1] "PTPRD MUTATION ANALYSIS"
[1] 3
  PTPRD MUTATED PTPRD WILD-TYPE 
             32             335 
  PTPRD MUTATED PTPRD WILD-TYPE 
             32             335 
[1] "CSMD3 MUTATION ANALYSIS"
[1] 3
  CSMD3 MUTATED CSMD3 WILD-TYPE 
             86             281 
  CSMD3 MUTATED CSMD3 WILD-TYPE 
             86             281 
[1] "ZCCHC6 MUTATION ANALYSIS"
[1] 3
  ZCCHC6 MUTATED ZCCHC6 WILD-TYPE 
              18              349 
  ZCCHC6 MUTATED ZCCHC6 WILD-TYPE 
              18              349 
[1] "FUBP3 MUTATION ANALYSIS"
[1] 3
  FUBP3 MUTATED FUBP3 WILD-TYPE 
              9             358 
  FUBP3 MUTATED FUBP3 WILD-TYPE 
              9             358 
[1] "SYT1 MUTATION ANALYSIS"
[1] 3
  SYT1 MUTATED SYT1 WILD-TYPE 
            13            354 
  SYT1 MUTATED SYT1 WILD-TYPE 
            13            354 
[1] "OSBPL11 MUTATION ANALYSIS"
[1] 3
  OSBPL11 MUTATED OSBPL11 WILD-TYPE 
               16               351 
  OSBPL11 MUTATED OSBPL11 WILD-TYPE 
               16               351 
[1] "SFRS18 MUTATION ANALYSIS"
[1] 3
  SFRS18 MUTATED SFRS18 WILD-TYPE 
              12              355 
  SFRS18 MUTATED SFRS18 WILD-TYPE 
              12              355 
[1] "MAP9 MUTATION ANALYSIS"
[1] 3
  MAP9 MUTATED MAP9 WILD-TYPE 
            16            351 
  MAP9 MUTATED MAP9 WILD-TYPE 
            16            351 
[1] "TNPO1 MUTATION ANALYSIS"
[1] 3
  TNPO1 MUTATED TNPO1 WILD-TYPE 
             16             351 
  TNPO1 MUTATED TNPO1 WILD-TYPE 
             16             351 
[1] "CLCNKA MUTATION ANALYSIS"
[1] 3
  CLCNKA MUTATED CLCNKA WILD-TYPE 
              10              357 
  CLCNKA MUTATED CLCNKA WILD-TYPE 
              10              357 
[1] "CREBBP MUTATION ANALYSIS"
[1] 3
  CREBBP MUTATED CREBBP WILD-TYPE 
              60              307 
  CREBBP MUTATED CREBBP WILD-TYPE 
              60              307 
[1] "INTS4 MUTATION ANALYSIS"
[1] 3
  INTS4 MUTATED INTS4 WILD-TYPE 
             18             349 
  INTS4 MUTATED INTS4 WILD-TYPE 
             18             349 
[1] "PRKAA2 MUTATION ANALYSIS"
[1] 3
  PRKAA2 MUTATED PRKAA2 WILD-TYPE 
              12              355 
  PRKAA2 MUTATED PRKAA2 WILD-TYPE 
              12              355 
[1] "LNX2 MUTATION ANALYSIS"
[1] 3
  LNX2 MUTATED LNX2 WILD-TYPE 
            16            351 
  LNX2 MUTATED LNX2 WILD-TYPE 
            16            351 
[1] "ATG2B MUTATION ANALYSIS"
[1] 3
  ATG2B MUTATED ATG2B WILD-TYPE 
             15             352 
  ATG2B MUTATED ATG2B WILD-TYPE 
             15             352 
[1] "CHRM2 MUTATION ANALYSIS"
[1] 3
  CHRM2 MUTATED CHRM2 WILD-TYPE 
             23             344 
  CHRM2 MUTATED CHRM2 WILD-TYPE 
             23             344 
[1] "NUDCD1 MUTATION ANALYSIS"
[1] 3
  NUDCD1 MUTATED NUDCD1 WILD-TYPE 
               9              358 
  NUDCD1 MUTATED NUDCD1 WILD-TYPE 
               9              358 
[1] "INSM2 MUTATION ANALYSIS"
[1] 3
  INSM2 MUTATED INSM2 WILD-TYPE 
             10             357 
  INSM2 MUTATED INSM2 WILD-TYPE 
             10             357 
[1] "GOLGB1 MUTATION ANALYSIS"
[1] 3
  GOLGB1 MUTATED GOLGB1 WILD-TYPE 
              38              329 
  GOLGB1 MUTATED GOLGB1 WILD-TYPE 
              38              329 
[1] "KIAA1804 MUTATION ANALYSIS"
[1] 3
  KIAA1804 MUTATED KIAA1804 WILD-TYPE 
                16                351 
  KIAA1804 MUTATED KIAA1804 WILD-TYPE 
                16                351 
[1] "C10ORF79 MUTATION ANALYSIS"
[1] 3
  C10ORF79 MUTATED C10ORF79 WILD-TYPE 
                27                340 
  C10ORF79 MUTATED C10ORF79 WILD-TYPE 
                27                340 
[1] "DENND4A MUTATION ANALYSIS"
[1] 3
  DENND4A MUTATED DENND4A WILD-TYPE 
               22               345 
  DENND4A MUTATED DENND4A WILD-TYPE 
               22               345 
[1] "RBL2 MUTATION ANALYSIS"
[1] 3
  RBL2 MUTATED RBL2 WILD-TYPE 
            21            346 
  RBL2 MUTATED RBL2 WILD-TYPE 
            21            346 
[1] "DCAF6 MUTATION ANALYSIS"
[1] 3
  DCAF6 MUTATED DCAF6 WILD-TYPE 
             15             352 
  DCAF6 MUTATED DCAF6 WILD-TYPE 
             15             352 
[1] "HIST1H1E MUTATION ANALYSIS"
[1] 3
  HIST1H1E MUTATED HIST1H1E WILD-TYPE 
                 6                361 
  HIST1H1E MUTATED HIST1H1E WILD-TYPE 
                 6                361 
[1] "ADK MUTATION ANALYSIS"
[1] 3
  ADK MUTATED ADK WILD-TYPE 
            7           360 
  ADK MUTATED ADK WILD-TYPE 
            7           360 
[1] "RPA3 MUTATION ANALYSIS"
[1] 3
  RPA3 MUTATED RPA3 WILD-TYPE 
             4            363 
  RPA3 MUTATED RPA3 WILD-TYPE 
             4            363 
[1] "NFATC3 MUTATION ANALYSIS"
[1] 3
  NFATC3 MUTATED NFATC3 WILD-TYPE 
              12              355 
  NFATC3 MUTATED NFATC3 WILD-TYPE 
              12              355 
[1] "C9ORF84 MUTATION ANALYSIS"
[1] 3
  C9ORF84 MUTATED C9ORF84 WILD-TYPE 
               20               347 
  C9ORF84 MUTATED C9ORF84 WILD-TYPE 
               20               347 
[1] "IKZF4 MUTATION ANALYSIS"
[1] 3
  IKZF4 MUTATED IKZF4 WILD-TYPE 
             13             354 
  IKZF4 MUTATED IKZF4 WILD-TYPE 
             13             354 
[1] "MAP7D1 MUTATION ANALYSIS"
[1] 3
  MAP7D1 MUTATED MAP7D1 WILD-TYPE 
              15              352 
  MAP7D1 MUTATED MAP7D1 WILD-TYPE 
              15              352 
[1] "LRRC39 MUTATION ANALYSIS"
[1] 3
  LRRC39 MUTATED LRRC39 WILD-TYPE 
               8              359 
  LRRC39 MUTATED LRRC39 WILD-TYPE 
               8              359 
[1] "RING1 MUTATION ANALYSIS"
[1] 3
  RING1 MUTATED RING1 WILD-TYPE 
             10             357 
  RING1 MUTATED RING1 WILD-TYPE 
             10             357 
[1] "VCX2 MUTATION ANALYSIS"
[1] 3
  VCX2 MUTATED VCX2 WILD-TYPE 
             7            360 
  VCX2 MUTATED VCX2 WILD-TYPE 
             7            360 
[1] "N4BP2 MUTATION ANALYSIS"
[1] 3
  N4BP2 MUTATED N4BP2 WILD-TYPE 
             24             343 
  N4BP2 MUTATED N4BP2 WILD-TYPE 
             24             343 
[1] "NRK MUTATION ANALYSIS"
[1] 3
  NRK MUTATED NRK WILD-TYPE 
           23           344 
  NRK MUTATED NRK WILD-TYPE 
           23           344 
[1] "PTPRK MUTATION ANALYSIS"
[1] 3
  PTPRK MUTATED PTPRK WILD-TYPE 
             33             334 
  PTPRK MUTATED PTPRK WILD-TYPE 
             33             334 
[1] "HDAC1 MUTATION ANALYSIS"
[1] 3
  HDAC1 MUTATED HDAC1 WILD-TYPE 
              5             362 
  HDAC1 MUTATED HDAC1 WILD-TYPE 
              5             362 
[1] "E2F7 MUTATION ANALYSIS"
[1] 3
  E2F7 MUTATED E2F7 WILD-TYPE 
            21            346 
  E2F7 MUTATED E2F7 WILD-TYPE 
            21            346 
[1] "SLC11A2 MUTATION ANALYSIS"
[1] 3
  SLC11A2 MUTATED SLC11A2 WILD-TYPE 
                8               359 
  SLC11A2 MUTATED SLC11A2 WILD-TYPE 
                8               359 
[1] "HIF3A MUTATION ANALYSIS"
[1] 3
  HIF3A MUTATED HIF3A WILD-TYPE 
             15             352 
  HIF3A MUTATED HIF3A WILD-TYPE 
             15             352 
[1] "NOX5 MUTATION ANALYSIS"
[1] 3
  NOX5 MUTATED NOX5 WILD-TYPE 
             5            362 
  NOX5 MUTATED NOX5 WILD-TYPE 
             5            362 
[1] "WWTR1 MUTATION ANALYSIS"
[1] 3
  WWTR1 MUTATED WWTR1 WILD-TYPE 
              6             361 
  WWTR1 MUTATED WWTR1 WILD-TYPE 
              6             361 
[1] "HGS MUTATION ANALYSIS"
[1] 3
  HGS MUTATED HGS WILD-TYPE 
           10           357 
  HGS MUTATED HGS WILD-TYPE 
           10           357 
[1] "NLK MUTATION ANALYSIS"
[1] 3
  NLK MUTATED NLK WILD-TYPE 
           11           356 
  NLK MUTATED NLK WILD-TYPE 
           11           356 
[1] "ATP8B1 MUTATION ANALYSIS"
[1] 3
  ATP8B1 MUTATED ATP8B1 WILD-TYPE 
              23              344 
  ATP8B1 MUTATED ATP8B1 WILD-TYPE 
              23              344 
[1] "WDR66 MUTATION ANALYSIS"
[1] 3
  WDR66 MUTATED WDR66 WILD-TYPE 
             19             348 
  WDR66 MUTATED WDR66 WILD-TYPE 
             19             348 
[1] "GPR141 MUTATION ANALYSIS"
[1] 3
  GPR141 MUTATED GPR141 WILD-TYPE 
              11              356 
  GPR141 MUTATED GPR141 WILD-TYPE 
              11              356 
[1] "ATP6V1D MUTATION ANALYSIS"
[1] 3
  ATP6V1D MUTATED ATP6V1D WILD-TYPE 
                6               361 
  ATP6V1D MUTATED ATP6V1D WILD-TYPE 
                6               361 
[1] "LPCAT3 MUTATION ANALYSIS"
[1] 3
  LPCAT3 MUTATED LPCAT3 WILD-TYPE 
               5              362 
  LPCAT3 MUTATED LPCAT3 WILD-TYPE 
               5              362 
[1] "SP4 MUTATION ANALYSIS"
[1] 3
  SP4 MUTATED SP4 WILD-TYPE 
           12           355 
  SP4 MUTATED SP4 WILD-TYPE 
           12           355 
[1] "PLA2G4E MUTATION ANALYSIS"
[1] 3
  PLA2G4E MUTATED PLA2G4E WILD-TYPE 
               10               357 
  PLA2G4E MUTATED PLA2G4E WILD-TYPE 
               10               357 
[1] "RAB40C MUTATION ANALYSIS"
[1] 3
  RAB40C MUTATED RAB40C WILD-TYPE 
               8              359 
  RAB40C MUTATED RAB40C WILD-TYPE 
               8              359 
[1] "UGT3A2 MUTATION ANALYSIS"
[1] 3
  UGT3A2 MUTATED UGT3A2 WILD-TYPE 
              18              349 
  UGT3A2 MUTATED UGT3A2 WILD-TYPE 
              18              349 
[1] "ATAD2B MUTATION ANALYSIS"
[1] 3
  ATAD2B MUTATED ATAD2B WILD-TYPE 
              15              352 
  ATAD2B MUTATED ATAD2B WILD-TYPE 
              15              352 
[1] "SLC33A1 MUTATION ANALYSIS"
[1] 3
  SLC33A1 MUTATED SLC33A1 WILD-TYPE 
                9               358 
  SLC33A1 MUTATED SLC33A1 WILD-TYPE 
                9               358 
[1] "ABCB4 MUTATION ANALYSIS"
[1] 3
  ABCB4 MUTATED ABCB4 WILD-TYPE 
             22             345 
  ABCB4 MUTATED ABCB4 WILD-TYPE 
             22             345 
[1] "RUFY1 MUTATION ANALYSIS"
[1] 3
  RUFY1 MUTATED RUFY1 WILD-TYPE 
             13             354 
  RUFY1 MUTATED RUFY1 WILD-TYPE 
             13             354 
[1] "IBTK MUTATION ANALYSIS"
[1] 3
  IBTK MUTATED IBTK WILD-TYPE 
            19            348 
  IBTK MUTATED IBTK WILD-TYPE 
            19            348 
[1] "PNP MUTATION ANALYSIS"
[1] 3
  PNP MUTATED PNP WILD-TYPE 
            4           363 
  PNP MUTATED PNP WILD-TYPE 
            4           363 
[1] "ACTL8 MUTATION ANALYSIS"
[1] 3
  ACTL8 MUTATED ACTL8 WILD-TYPE 
              9             358 
  ACTL8 MUTATED ACTL8 WILD-TYPE 
              9             358 
[1] "CDK14 MUTATION ANALYSIS"
[1] 3
  CDK14 MUTATED CDK14 WILD-TYPE 
             15             352 
  CDK14 MUTATED CDK14 WILD-TYPE 
             15             352 
[1] "AXIN2 MUTATION ANALYSIS"
[1] 3
  AXIN2 MUTATED AXIN2 WILD-TYPE 
             21             346 
  AXIN2 MUTATED AXIN2 WILD-TYPE 
             21             346 
[1] "KCNH7 MUTATION ANALYSIS"
[1] 3
  KCNH7 MUTATED KCNH7 WILD-TYPE 
             32             335 
  KCNH7 MUTATED KCNH7 WILD-TYPE 
             32             335 
[1] "SPCS2 MUTATION ANALYSIS"
[1] 3
  SPCS2 MUTATED SPCS2 WILD-TYPE 
              5             362 
  SPCS2 MUTATED SPCS2 WILD-TYPE 
              5             362 
[1] "TNRC6C MUTATION ANALYSIS"
[1] 3
  TNRC6C MUTATED TNRC6C WILD-TYPE 
              18              349 
  TNRC6C MUTATED TNRC6C WILD-TYPE 
              18              349 
[1] "OR4E2 MUTATION ANALYSIS"
[1] 3
  OR4E2 MUTATED OR4E2 WILD-TYPE 
              5             362 
  OR4E2 MUTATED OR4E2 WILD-TYPE 
              5             362 
[1] "SULT6B1 MUTATION ANALYSIS"
[1] 3
  SULT6B1 MUTATED SULT6B1 WILD-TYPE 
                9               358 
  SULT6B1 MUTATED SULT6B1 WILD-TYPE 
                9               358 
[1] "LDHA MUTATION ANALYSIS"
[1] 3
  LDHA MUTATED LDHA WILD-TYPE 
            10            357 
  LDHA MUTATED LDHA WILD-TYPE 
            10            357 
[1] "EIF4A2 MUTATION ANALYSIS"
[1] 3
  EIF4A2 MUTATED EIF4A2 WILD-TYPE 
              10              357 
  EIF4A2 MUTATED EIF4A2 WILD-TYPE 
              10              357 
[1] "RCSD1 MUTATION ANALYSIS"
[1] 3
  RCSD1 MUTATED RCSD1 WILD-TYPE 
             14             353 
  RCSD1 MUTATED RCSD1 WILD-TYPE 
             14             353 
[1] "EIF5B MUTATION ANALYSIS"
[1] 3
  EIF5B MUTATED EIF5B WILD-TYPE 
             16             351 
  EIF5B MUTATED EIF5B WILD-TYPE 
             16             351 
[1] "FGFR1 MUTATION ANALYSIS"
[1] 3
  FGFR1 MUTATED FGFR1 WILD-TYPE 
             17             350 
  FGFR1 MUTATED FGFR1 WILD-TYPE 
             17             350 
[1] "ADNP2 MUTATION ANALYSIS"
[1] 3
  ADNP2 MUTATED ADNP2 WILD-TYPE 
             15             352 
  ADNP2 MUTATED ADNP2 WILD-TYPE 
             15             352 
[1] "IRAK3 MUTATION ANALYSIS"
[1] 3
  IRAK3 MUTATED IRAK3 WILD-TYPE 
              8             359 
  IRAK3 MUTATED IRAK3 WILD-TYPE 
              8             359 
[1] "KIAA0195 MUTATION ANALYSIS"
[1] 3
  KIAA0195 MUTATED KIAA0195 WILD-TYPE 
                17                350 
  KIAA0195 MUTATED KIAA0195 WILD-TYPE 
                17                350 
[1] "AGBL2 MUTATION ANALYSIS"
[1] 3
  AGBL2 MUTATED AGBL2 WILD-TYPE 
             14             353 
  AGBL2 MUTATED AGBL2 WILD-TYPE 
             14             353 
[1] "OR1J2 MUTATION ANALYSIS"
[1] 3
  OR1J2 MUTATED OR1J2 WILD-TYPE 
             10             357 
  OR1J2 MUTATED OR1J2 WILD-TYPE 
             10             357 
[1] "PTPRC MUTATION ANALYSIS"
[1] 3
  PTPRC MUTATED PTPRC WILD-TYPE 
             25             342 
  PTPRC MUTATED PTPRC WILD-TYPE 
             25             342 
[1] "ARMCX5 MUTATION ANALYSIS"
[1] 3
  ARMCX5 MUTATED ARMCX5 WILD-TYPE 
               8              359 
  ARMCX5 MUTATED ARMCX5 WILD-TYPE 
               8              359 
[1] "PPIG MUTATION ANALYSIS"
[1] 3
  PPIG MUTATED PPIG WILD-TYPE 
            12            355 
  PPIG MUTATED PPIG WILD-TYPE 
            12            355 
[1] "NFASC MUTATION ANALYSIS"
[1] 3
  NFASC MUTATED NFASC WILD-TYPE 
             32             335 
  NFASC MUTATED NFASC WILD-TYPE 
             32             335 
[1] "PLCH2 MUTATION ANALYSIS"
[1] 3
  PLCH2 MUTATED PLCH2 WILD-TYPE 
             19             348 
  PLCH2 MUTATED PLCH2 WILD-TYPE 
             19             348 
[1] "MTDH MUTATION ANALYSIS"
[1] 3
  MTDH MUTATED MTDH WILD-TYPE 
            12            355 
  MTDH MUTATED MTDH WILD-TYPE 
            12            355 
[1] "RGS22 MUTATION ANALYSIS"
[1] 3
  RGS22 MUTATED RGS22 WILD-TYPE 
             24             343 
  RGS22 MUTATED RGS22 WILD-TYPE 
             24             343 
[1] "DMRTB1 MUTATION ANALYSIS"
[1] 3
  DMRTB1 MUTATED DMRTB1 WILD-TYPE 
               6              361 
  DMRTB1 MUTATED DMRTB1 WILD-TYPE 
               6              361 
[1] "MAP3K4 MUTATION ANALYSIS"
[1] 3
  MAP3K4 MUTATED MAP3K4 WILD-TYPE 
              36              331 
  MAP3K4 MUTATED MAP3K4 WILD-TYPE 
              36              331 
[1] "PNPLA8 MUTATION ANALYSIS"
[1] 3
  PNPLA8 MUTATED PNPLA8 WILD-TYPE 
              18              349 
  PNPLA8 MUTATED PNPLA8 WILD-TYPE 
              18              349 
[1] "ALX4 MUTATION ANALYSIS"
[1] 3
  ALX4 MUTATED ALX4 WILD-TYPE 
            11            356 
  ALX4 MUTATED ALX4 WILD-TYPE 
            11            356 
[1] "ULK1 MUTATION ANALYSIS"
[1] 3
  ULK1 MUTATED ULK1 WILD-TYPE 
            10            357 
  ULK1 MUTATED ULK1 WILD-TYPE 
            10            357 
[1] "POLM MUTATION ANALYSIS"
[1] 3
  POLM MUTATED POLM WILD-TYPE 
            11            356 
  POLM MUTATED POLM WILD-TYPE 
            11            356 
[1] "HIST1H1C MUTATION ANALYSIS"
[1] 3
  HIST1H1C MUTATED HIST1H1C WILD-TYPE 
                 4                363 
  HIST1H1C MUTATED HIST1H1C WILD-TYPE 
                 4                363 
[1] "TGFBR1 MUTATION ANALYSIS"
[1] 3
  TGFBR1 MUTATED TGFBR1 WILD-TYPE 
              14              353 
  TGFBR1 MUTATED TGFBR1 WILD-TYPE 
              14              353 
[1] "CIC MUTATION ANALYSIS"
[1] 3
  CIC MUTATED CIC WILD-TYPE 
           23           344 
  CIC MUTATED CIC WILD-TYPE 
           23           344 
[1] "FBXO21 MUTATION ANALYSIS"
[1] 3
  FBXO21 MUTATED FBXO21 WILD-TYPE 
               6              361 
  FBXO21 MUTATED FBXO21 WILD-TYPE 
               6              361 
[1] "PI4K2B MUTATION ANALYSIS"
[1] 3
  PI4K2B MUTATED PI4K2B WILD-TYPE 
              10              357 
  PI4K2B MUTATED PI4K2B WILD-TYPE 
              10              357 
[1] "OLR1 MUTATION ANALYSIS"
[1] 3
  OLR1 MUTATED OLR1 WILD-TYPE 
             9            358 
  OLR1 MUTATED OLR1 WILD-TYPE 
             9            358 
[1] "CCDC160 MUTATION ANALYSIS"
[1] 3
  CCDC160 MUTATED CCDC160 WILD-TYPE 
               10               357 
  CCDC160 MUTATED CCDC160 WILD-TYPE 
               10               357 
[1] "RNF111 MUTATION ANALYSIS"
[1] 3
  RNF111 MUTATED RNF111 WILD-TYPE 
              14              353 
  RNF111 MUTATED RNF111 WILD-TYPE 
              14              353 
[1] "RBM19 MUTATION ANALYSIS"
[1] 3
  RBM19 MUTATED RBM19 WILD-TYPE 
             21             346 
  RBM19 MUTATED RBM19 WILD-TYPE 
             21             346 
[1] "NEUROD1 MUTATION ANALYSIS"
[1] 3
  NEUROD1 MUTATED NEUROD1 WILD-TYPE 
                8               359 
  NEUROD1 MUTATED NEUROD1 WILD-TYPE 
                8               359 
[1] "SLFN12L MUTATION ANALYSIS"
[1] 3
  SLFN12L MUTATED SLFN12L WILD-TYPE 
                8               359 
  SLFN12L MUTATED SLFN12L WILD-TYPE 
                8               359 
[1] "UPF3A MUTATION ANALYSIS"
[1] 3
  UPF3A MUTATED UPF3A WILD-TYPE 
              9             358 
  UPF3A MUTATED UPF3A WILD-TYPE 
              9             358 
[1] "KDM3B MUTATION ANALYSIS"
[1] 3
  KDM3B MUTATED KDM3B WILD-TYPE 
             32             335 
  KDM3B MUTATED KDM3B WILD-TYPE 
             32             335 
[1] "RPGRIP1L MUTATION ANALYSIS"
[1] 3
  RPGRIP1L MUTATED RPGRIP1L WILD-TYPE 
                17                350 
  RPGRIP1L MUTATED RPGRIP1L WILD-TYPE 
                17                350 
[1] "RBM12 MUTATION ANALYSIS"
[1] 3
  RBM12 MUTATED RBM12 WILD-TYPE 
             12             355 
  RBM12 MUTATED RBM12 WILD-TYPE 
             12             355 
[1] "PALB2 MUTATION ANALYSIS"
[1] 3
  PALB2 MUTATED PALB2 WILD-TYPE 
             19             348 
  PALB2 MUTATED PALB2 WILD-TYPE 
             19             348 
[1] "PCDH12 MUTATION ANALYSIS"
[1] 3
  PCDH12 MUTATED PCDH12 WILD-TYPE 
              17              350 
  PCDH12 MUTATED PCDH12 WILD-TYPE 
              17              350 
[1] "MIER1 MUTATION ANALYSIS"
[1] 3
  MIER1 MUTATED MIER1 WILD-TYPE 
              6             361 
  MIER1 MUTATED MIER1 WILD-TYPE 
              6             361 
[1] "ICOSLG MUTATION ANALYSIS"
[1] 3
  ICOSLG MUTATED ICOSLG WILD-TYPE 
               4              363 
  ICOSLG MUTATED ICOSLG WILD-TYPE 
               4              363 
[1] "ARNT2 MUTATION ANALYSIS"
[1] 3
  ARNT2 MUTATED ARNT2 WILD-TYPE 
             12             355 
  ARNT2 MUTATED ARNT2 WILD-TYPE 
             12             355 
[1] "MRE11A MUTATION ANALYSIS"
[1] 3
  MRE11A MUTATED MRE11A WILD-TYPE 
              12              355 
  MRE11A MUTATED MRE11A WILD-TYPE 
              12              355 
[1] "DUSP1 MUTATION ANALYSIS"
[1] 3
  DUSP1 MUTATED DUSP1 WILD-TYPE 
              6             361 
  DUSP1 MUTATED DUSP1 WILD-TYPE 
              6             361 
[1] "ERGIC1 MUTATION ANALYSIS"
[1] 3
  ERGIC1 MUTATED ERGIC1 WILD-TYPE 
               4              363 
  ERGIC1 MUTATED ERGIC1 WILD-TYPE 
               4              363 
[1] "SYNRG MUTATION ANALYSIS"
[1] 3
  SYNRG MUTATED SYNRG WILD-TYPE 
             16             351 
  SYNRG MUTATED SYNRG WILD-TYPE 
             16             351 
[1] "BACE2 MUTATION ANALYSIS"
[1] 3
  BACE2 MUTATED BACE2 WILD-TYPE 
             10             357 
  BACE2 MUTATED BACE2 WILD-TYPE 
             10             357 
[1] "LMTK3 MUTATION ANALYSIS"
[1] 3
  LMTK3 MUTATED LMTK3 WILD-TYPE 
             15             352 
  LMTK3 MUTATED LMTK3 WILD-TYPE 
             15             352 
[1] "RTP3 MUTATION ANALYSIS"
[1] 3
  RTP3 MUTATED RTP3 WILD-TYPE 
             5            362 
  RTP3 MUTATED RTP3 WILD-TYPE 
             5            362 
[1] "BCL9L MUTATION ANALYSIS"
[1] 3
  BCL9L MUTATED BCL9L WILD-TYPE 
             19             348 
  BCL9L MUTATED BCL9L WILD-TYPE 
             19             348 
[1] "AKAP9 MUTATION ANALYSIS"
[1] 3
  AKAP9 MUTATED AKAP9 WILD-TYPE 
             43             324 
  AKAP9 MUTATED AKAP9 WILD-TYPE 
             43             324 
[1] "ZNF547 MUTATION ANALYSIS"
[1] 3
  ZNF547 MUTATED ZNF547 WILD-TYPE 
               8              359 
  ZNF547 MUTATED ZNF547 WILD-TYPE 
               8              359 
[1] "MRAS MUTATION ANALYSIS"
[1] 3
  MRAS MUTATED MRAS WILD-TYPE 
             4            363 
  MRAS MUTATED MRAS WILD-TYPE 
             4            363 
[1] "ARFIP1 MUTATION ANALYSIS"
[1] 3
  ARFIP1 MUTATED ARFIP1 WILD-TYPE 
              12              355 
  ARFIP1 MUTATED ARFIP1 WILD-TYPE 
              12              355 
[1] "CNTFR MUTATION ANALYSIS"
[1] 3
  CNTFR MUTATED CNTFR WILD-TYPE 
             10             357 
  CNTFR MUTATED CNTFR WILD-TYPE 
             10             357 
[1] "RANBP17 MUTATION ANALYSIS"
[1] 3
  RANBP17 MUTATED RANBP17 WILD-TYPE 
               10               357 
  RANBP17 MUTATED RANBP17 WILD-TYPE 
               10               357 
[1] "ZNF280C MUTATION ANALYSIS"
[1] 3
  ZNF280C MUTATED ZNF280C WILD-TYPE 
                9               358 
  ZNF280C MUTATED ZNF280C WILD-TYPE 
                9               358 
[1] "SCN2A MUTATION ANALYSIS"
[1] 3
  SCN2A MUTATED SCN2A WILD-TYPE 
             45             322 
  SCN2A MUTATED SCN2A WILD-TYPE 
             45             322 
[1] "PLEK MUTATION ANALYSIS"
[1] 3
  PLEK MUTATED PLEK WILD-TYPE 
            12            355 
  PLEK MUTATED PLEK WILD-TYPE 
            12            355 
[1] "FAHD2A MUTATION ANALYSIS"
[1] 3
  FAHD2A MUTATED FAHD2A WILD-TYPE 
               6              361 
  FAHD2A MUTATED FAHD2A WILD-TYPE 
               6              361 
[1] "SPANXN2 MUTATION ANALYSIS"
[1] 3
  SPANXN2 MUTATED SPANXN2 WILD-TYPE 
                8               359 
  SPANXN2 MUTATED SPANXN2 WILD-TYPE 
                8               359 
[1] "KIF21A MUTATION ANALYSIS"
[1] 3
  KIF21A MUTATED KIF21A WILD-TYPE 
              24              343 
  KIF21A MUTATED KIF21A WILD-TYPE 
              24              343 
[1] "TAOK3 MUTATION ANALYSIS"
[1] 3
  TAOK3 MUTATED TAOK3 WILD-TYPE 
             20             347 
  TAOK3 MUTATED TAOK3 WILD-TYPE 
             20             347 
[1] "ANKRD17 MUTATION ANALYSIS"
[1] 3
  ANKRD17 MUTATED ANKRD17 WILD-TYPE 
               26               341 
  ANKRD17 MUTATED ANKRD17 WILD-TYPE 
               26               341 
[1] "WBP11 MUTATION ANALYSIS"
[1] 3
  WBP11 MUTATED WBP11 WILD-TYPE 
              8             359 
  WBP11 MUTATED WBP11 WILD-TYPE 
              8             359 
[1] "HNRNPH3 MUTATION ANALYSIS"
[1] 3
  HNRNPH3 MUTATED HNRNPH3 WILD-TYPE 
                4               363 
  HNRNPH3 MUTATED HNRNPH3 WILD-TYPE 
                4               363 
[1] "ENTPD4 MUTATION ANALYSIS"
[1] 3
  ENTPD4 MUTATED ENTPD4 WILD-TYPE 
              17              350 
  ENTPD4 MUTATED ENTPD4 WILD-TYPE 
              17              350 
[1] "DDX3X MUTATION ANALYSIS"
[1] 3
  DDX3X MUTATED DDX3X WILD-TYPE 
             10             357 
  DDX3X MUTATED DDX3X WILD-TYPE 
             10             357 
[1] "MCCC1 MUTATION ANALYSIS"
[1] 3
  MCCC1 MUTATED MCCC1 WILD-TYPE 
             17             350 
  MCCC1 MUTATED MCCC1 WILD-TYPE 
             17             350 
[1] "MDH1 MUTATION ANALYSIS"
[1] 3
  MDH1 MUTATED MDH1 WILD-TYPE 
             8            359 
  MDH1 MUTATED MDH1 WILD-TYPE 
             8            359 
[1] "ARHGAP25 MUTATION ANALYSIS"
[1] 3
  ARHGAP25 MUTATED ARHGAP25 WILD-TYPE 
                10                357 
  ARHGAP25 MUTATED ARHGAP25 WILD-TYPE 
                10                357 
[1] "SPEN MUTATION ANALYSIS"
[1] 3
  SPEN MUTATED SPEN WILD-TYPE 
            31            336 
  SPEN MUTATED SPEN WILD-TYPE 
            31            336 
[1] "GPR75 MUTATION ANALYSIS"
[1] 3
  GPR75 MUTATED GPR75 WILD-TYPE 
              8             359 
  GPR75 MUTATED GPR75 WILD-TYPE 
              8             359 
[1] "HERC5 MUTATION ANALYSIS"
[1] 3
  HERC5 MUTATED HERC5 WILD-TYPE 
             18             349 
  HERC5 MUTATED HERC5 WILD-TYPE 
             18             349 
[1] "AKR1C4 MUTATION ANALYSIS"
[1] 3
  AKR1C4 MUTATED AKR1C4 WILD-TYPE 
               9              358 
  AKR1C4 MUTATED AKR1C4 WILD-TYPE 
               9              358 
[1] "LIG1 MUTATION ANALYSIS"
[1] 3
  LIG1 MUTATED LIG1 WILD-TYPE 
            16            351 
  LIG1 MUTATED LIG1 WILD-TYPE 
            16            351 
[1] "ARHGEF10 MUTATION ANALYSIS"
[1] 3
  ARHGEF10 MUTATED ARHGEF10 WILD-TYPE 
                23                344 
  ARHGEF10 MUTATED ARHGEF10 WILD-TYPE 
                23                344 
[1] "OVCH1 MUTATION ANALYSIS"
[1] 3
  OVCH1 MUTATED OVCH1 WILD-TYPE 
             22             345 
  OVCH1 MUTATED OVCH1 WILD-TYPE 
             22             345 
[1] "RRS1 MUTATION ANALYSIS"
[1] 3
  RRS1 MUTATED RRS1 WILD-TYPE 
             4            363 
  RRS1 MUTATED RRS1 WILD-TYPE 
             4            363 
[1] "RFXAP MUTATION ANALYSIS"
[1] 3
  RFXAP MUTATED RFXAP WILD-TYPE 
              6             361 
  RFXAP MUTATED RFXAP WILD-TYPE 
              6             361 
[1] "RBAK MUTATION ANALYSIS"
[1] 3
  RBAK MUTATED RBAK WILD-TYPE 
            17            350 
  RBAK MUTATED RBAK WILD-TYPE 
            17            350 
[1] "ZHX1 MUTATION ANALYSIS"
[1] 3
  ZHX1 MUTATED ZHX1 WILD-TYPE 
             9            358 
  ZHX1 MUTATED ZHX1 WILD-TYPE 
             9            358 
[1] "DOCK10 MUTATION ANALYSIS"
[1] 3
  DOCK10 MUTATED DOCK10 WILD-TYPE 
              25              342 
  DOCK10 MUTATED DOCK10 WILD-TYPE 
              25              342 
[1] "CHEK2 MUTATION ANALYSIS"
[1] 3
  CHEK2 MUTATED CHEK2 WILD-TYPE 
             10             357 
  CHEK2 MUTATED CHEK2 WILD-TYPE 
             10             357 
[1] "USP9X MUTATION ANALYSIS"
[1] 3
  USP9X MUTATED USP9X WILD-TYPE 
             31             336 
  USP9X MUTATED USP9X WILD-TYPE 
             31             336 
[1] "OR5B2 MUTATION ANALYSIS"
[1] 3
  OR5B2 MUTATED OR5B2 WILD-TYPE 
             12             355 
  OR5B2 MUTATED OR5B2 WILD-TYPE 
             12             355 
[1] "IFNAR1 MUTATION ANALYSIS"
[1] 3
  IFNAR1 MUTATED IFNAR1 WILD-TYPE 
               7              360 
  IFNAR1 MUTATED IFNAR1 WILD-TYPE 
               7              360 
[1] "ALDH2 MUTATION ANALYSIS"
[1] 3
  ALDH2 MUTATED ALDH2 WILD-TYPE 
             11             356 
  ALDH2 MUTATED ALDH2 WILD-TYPE 
             11             356 
[1] "ZNF14 MUTATION ANALYSIS"
[1] 3
  ZNF14 MUTATED ZNF14 WILD-TYPE 
             13             354 
  ZNF14 MUTATED ZNF14 WILD-TYPE 
             13             354 
[1] "CYP4A22 MUTATION ANALYSIS"
[1] 3
  CYP4A22 MUTATED CYP4A22 WILD-TYPE 
               13               354 
  CYP4A22 MUTATED CYP4A22 WILD-TYPE 
               13               354 
[1] "AIFM1 MUTATION ANALYSIS"
[1] 3
  AIFM1 MUTATED AIFM1 WILD-TYPE 
             11             356 
  AIFM1 MUTATED AIFM1 WILD-TYPE 
             11             356 
[1] "ST3GAL6 MUTATION ANALYSIS"
[1] 3
  ST3GAL6 MUTATED ST3GAL6 WILD-TYPE 
               10               357 
  ST3GAL6 MUTATED ST3GAL6 WILD-TYPE 
               10               357 
[1] "NOVA1 MUTATION ANALYSIS"
[1] 3
  NOVA1 MUTATED NOVA1 WILD-TYPE 
             14             353 
  NOVA1 MUTATED NOVA1 WILD-TYPE 
             14             353 
[1] "CD244 MUTATION ANALYSIS"
[1] 3
  CD244 MUTATED CD244 WILD-TYPE 
              7             360 
  CD244 MUTATED CD244 WILD-TYPE 
              7             360 
[1] "ARHGEF3 MUTATION ANALYSIS"
[1] 3
  ARHGEF3 MUTATED ARHGEF3 WILD-TYPE 
               11               356 
  ARHGEF3 MUTATED ARHGEF3 WILD-TYPE 
               11               356 
[1] "MRPL13 MUTATION ANALYSIS"
[1] 3
  MRPL13 MUTATED MRPL13 WILD-TYPE 
               6              361 
  MRPL13 MUTATED MRPL13 WILD-TYPE 
               6              361 
[1] "STK36 MUTATION ANALYSIS"
[1] 3
  STK36 MUTATED STK36 WILD-TYPE 
             14             353 
  STK36 MUTATED STK36 WILD-TYPE 
             14             353 
[1] "IL13RA2 MUTATION ANALYSIS"
[1] 3
  IL13RA2 MUTATED IL13RA2 WILD-TYPE 
               14               353 
  IL13RA2 MUTATED IL13RA2 WILD-TYPE 
               14               353 
[1] "FAM26E MUTATION ANALYSIS"
[1] 3
  FAM26E MUTATED FAM26E WILD-TYPE 
               5              362 
  FAM26E MUTATED FAM26E WILD-TYPE 
               5              362 
[1] "ZNF182 MUTATION ANALYSIS"
[1] 3
  ZNF182 MUTATED ZNF182 WILD-TYPE 
              13              354 
  ZNF182 MUTATED ZNF182 WILD-TYPE 
              13              354 
[1] "GNA11 MUTATION ANALYSIS"
[1] 3
  GNA11 MUTATED GNA11 WILD-TYPE 
              7             360 
  GNA11 MUTATED GNA11 WILD-TYPE 
              7             360 
[1] "KDM2B MUTATION ANALYSIS"
[1] 3
  KDM2B MUTATED KDM2B WILD-TYPE 
             20             347 
  KDM2B MUTATED KDM2B WILD-TYPE 
             20             347 
[1] "C17ORF47 MUTATION ANALYSIS"
[1] 3
  C17ORF47 MUTATED C17ORF47 WILD-TYPE 
                 5                362 
  C17ORF47 MUTATED C17ORF47 WILD-TYPE 
                 5                362 
[1] "KCTD16 MUTATION ANALYSIS"
[1] 3
  KCTD16 MUTATED KCTD16 WILD-TYPE 
              12              355 
  KCTD16 MUTATED KCTD16 WILD-TYPE 
              12              355 
[1] "LNPEP MUTATION ANALYSIS"
[1] 3
  LNPEP MUTATED LNPEP WILD-TYPE 
             18             349 
  LNPEP MUTATED LNPEP WILD-TYPE 
             18             349 
[1] "RHPN2 MUTATION ANALYSIS"
[1] 3
  RHPN2 MUTATED RHPN2 WILD-TYPE 
             15             352 
  RHPN2 MUTATED RHPN2 WILD-TYPE 
             15             352 
[1] "FRS3 MUTATION ANALYSIS"
[1] 3
  FRS3 MUTATED FRS3 WILD-TYPE 
            10            357 
  FRS3 MUTATED FRS3 WILD-TYPE 
            10            357 
[1] "POLE MUTATION ANALYSIS"
[1] 3
  POLE MUTATED POLE WILD-TYPE 
            31            336 
  POLE MUTATED POLE WILD-TYPE 
            31            336 
[1] "NIPA2 MUTATION ANALYSIS"
[1] 3
  NIPA2 MUTATED NIPA2 WILD-TYPE 
              7             360 
  NIPA2 MUTATED NIPA2 WILD-TYPE 
              7             360 
[1] "CDH10 MUTATION ANALYSIS"
[1] 3
  CDH10 MUTATED CDH10 WILD-TYPE 
             39             328 
  CDH10 MUTATED CDH10 WILD-TYPE 
             39             328 
[1] "CATSPER1 MUTATION ANALYSIS"
[1] 3
  CATSPER1 MUTATED CATSPER1 WILD-TYPE 
                16                351 
  CATSPER1 MUTATED CATSPER1 WILD-TYPE 
                16                351 
[1] "FOXN3 MUTATION ANALYSIS"
[1] 3
  FOXN3 MUTATED FOXN3 WILD-TYPE 
             11             356 
  FOXN3 MUTATED FOXN3 WILD-TYPE 
             11             356 
[1] "REXO4 MUTATION ANALYSIS"
[1] 3
  REXO4 MUTATED REXO4 WILD-TYPE 
              5             362 
  REXO4 MUTATED REXO4 WILD-TYPE 
              5             362 
[1] "OTX2 MUTATION ANALYSIS"
[1] 3
  OTX2 MUTATED OTX2 WILD-TYPE 
             6            361 
  OTX2 MUTATED OTX2 WILD-TYPE 
             6            361 
[1] "NGEF MUTATION ANALYSIS"
[1] 3
  NGEF MUTATED NGEF WILD-TYPE 
            16            351 
  NGEF MUTATED NGEF WILD-TYPE 
            16            351 
[1] "GGT5 MUTATION ANALYSIS"
[1] 3
  GGT5 MUTATED GGT5 WILD-TYPE 
            14            353 
  GGT5 MUTATED GGT5 WILD-TYPE 
            14            353 
[1] "CXORF38 MUTATION ANALYSIS"
[1] 3
  CXORF38 MUTATED CXORF38 WILD-TYPE 
                5               362 
  CXORF38 MUTATED CXORF38 WILD-TYPE 
                5               362 
[1] "BST2 MUTATION ANALYSIS"
[1] 3
  BST2 MUTATED BST2 WILD-TYPE 
             6            361 
  BST2 MUTATED BST2 WILD-TYPE 
             6            361 
[1] "SFRS15 MUTATION ANALYSIS"
[1] 3
  SFRS15 MUTATED SFRS15 WILD-TYPE 
              19              348 
  SFRS15 MUTATED SFRS15 WILD-TYPE 
              19              348 
[1] "EIF2AK4 MUTATION ANALYSIS"
[1] 3
  EIF2AK4 MUTATED EIF2AK4 WILD-TYPE 
               18               349 
  EIF2AK4 MUTATED EIF2AK4 WILD-TYPE 
               18               349 
[1] "LAS1L MUTATION ANALYSIS"
[1] 3
  LAS1L MUTATED LAS1L WILD-TYPE 
              9             358 
  LAS1L MUTATED LAS1L WILD-TYPE 
              9             358 
[1] "CATSPER4 MUTATION ANALYSIS"
[1] 3
  CATSPER4 MUTATED CATSPER4 WILD-TYPE 
                11                356 
  CATSPER4 MUTATED CATSPER4 WILD-TYPE 
                11                356 
[1] "OR4M2 MUTATION ANALYSIS"
[1] 3
  OR4M2 MUTATED OR4M2 WILD-TYPE 
             14             353 
  OR4M2 MUTATED OR4M2 WILD-TYPE 
             14             353 
[1] "HIVEP2 MUTATION ANALYSIS"
[1] 3
  HIVEP2 MUTATED HIVEP2 WILD-TYPE 
              19              348 
  HIVEP2 MUTATED HIVEP2 WILD-TYPE 
              19              348 
[1] "ZC3H13 MUTATION ANALYSIS"
[1] 3
  ZC3H13 MUTATED ZC3H13 WILD-TYPE 
              34              333 
  ZC3H13 MUTATED ZC3H13 WILD-TYPE 
              34              333 
[1] "GPR115 MUTATION ANALYSIS"
[1] 3
  GPR115 MUTATED GPR115 WILD-TYPE 
              18              349 
  GPR115 MUTATED GPR115 WILD-TYPE 
              18              349 
[1] "NCOA6 MUTATION ANALYSIS"
[1] 3
  NCOA6 MUTATED NCOA6 WILD-TYPE 
             24             343 
  NCOA6 MUTATED NCOA6 WILD-TYPE 
             24             343 
[1] "LAMC1 MUTATION ANALYSIS"
[1] 3
  LAMC1 MUTATED LAMC1 WILD-TYPE 
             21             346 
  LAMC1 MUTATED LAMC1 WILD-TYPE 
             21             346 
[1] "CYP1B1 MUTATION ANALYSIS"
[1] 3
  CYP1B1 MUTATED CYP1B1 WILD-TYPE 
              11              356 
  CYP1B1 MUTATED CYP1B1 WILD-TYPE 
              11              356 
[1] "AFM MUTATION ANALYSIS"
[1] 3
  AFM MUTATED AFM WILD-TYPE 
           13           354 
  AFM MUTATED AFM WILD-TYPE 
           13           354 
[1] "SLC22A9 MUTATION ANALYSIS"
[1] 3
  SLC22A9 MUTATED SLC22A9 WILD-TYPE 
                9               358 
  SLC22A9 MUTATED SLC22A9 WILD-TYPE 
                9               358 
[1] "DDX59 MUTATION ANALYSIS"
[1] 3
  DDX59 MUTATED DDX59 WILD-TYPE 
             11             356 
  DDX59 MUTATED DDX59 WILD-TYPE 
             11             356 
[1] "SLC25A13 MUTATION ANALYSIS"
[1] 3
  SLC25A13 MUTATED SLC25A13 WILD-TYPE 
                14                353 
  SLC25A13 MUTATED SLC25A13 WILD-TYPE 
                14                353 
[1] "EXD2 MUTATION ANALYSIS"
[1] 3
  EXD2 MUTATED EXD2 WILD-TYPE 
            10            357 
  EXD2 MUTATED EXD2 WILD-TYPE 
            10            357 
[1] "ATP8B2 MUTATION ANALYSIS"
[1] 3
  ATP8B2 MUTATED ATP8B2 WILD-TYPE 
              17              350 
  ATP8B2 MUTATED ATP8B2 WILD-TYPE 
              17              350 
[1] "TBL1XR1 MUTATION ANALYSIS"
[1] 3
  TBL1XR1 MUTATED TBL1XR1 WILD-TYPE 
               13               354 
  TBL1XR1 MUTATED TBL1XR1 WILD-TYPE 
               13               354 
[1] "SPANXC MUTATION ANALYSIS"
[1] 3
  SPANXC MUTATED SPANXC WILD-TYPE 
               4              363 
  SPANXC MUTATED SPANXC WILD-TYPE 
               4              363 
[1] "HORMAD1 MUTATION ANALYSIS"
[1] 3
  HORMAD1 MUTATED HORMAD1 WILD-TYPE 
               13               354 
  HORMAD1 MUTATED HORMAD1 WILD-TYPE 
               13               354 
[1] "TMEM131 MUTATION ANALYSIS"
[1] 3
  TMEM131 MUTATED TMEM131 WILD-TYPE 
               21               346 
  TMEM131 MUTATED TMEM131 WILD-TYPE 
               21               346 
[1] "PVRL4 MUTATION ANALYSIS"
[1] 3
  PVRL4 MUTATED PVRL4 WILD-TYPE 
              9             358 
  PVRL4 MUTATED PVRL4 WILD-TYPE 
              9             358 
[1] "C12ORF49 MUTATION ANALYSIS"
[1] 3
  C12ORF49 MUTATED C12ORF49 WILD-TYPE 
                 4                363 
  C12ORF49 MUTATED C12ORF49 WILD-TYPE 
                 4                363 
[1] "CWF19L2 MUTATION ANALYSIS"
[1] 3
  CWF19L2 MUTATED CWF19L2 WILD-TYPE 
               15               352 
  CWF19L2 MUTATED CWF19L2 WILD-TYPE 
               15               352 
[1] "ATAD5 MUTATION ANALYSIS"
[1] 3
  ATAD5 MUTATED ATAD5 WILD-TYPE 
             21             346 
  ATAD5 MUTATED ATAD5 WILD-TYPE 
             21             346 
[1] "PHF21A MUTATION ANALYSIS"
[1] 3
  PHF21A MUTATED PHF21A WILD-TYPE 
              11              356 
  PHF21A MUTATED PHF21A WILD-TYPE 
              11              356 
[1] "BMPR1A MUTATION ANALYSIS"
[1] 3
  BMPR1A MUTATED BMPR1A WILD-TYPE 
              18              349 
  BMPR1A MUTATED BMPR1A WILD-TYPE 
              18              349 
[1] "C14ORF39 MUTATION ANALYSIS"
[1] 3
  C14ORF39 MUTATED C14ORF39 WILD-TYPE 
                13                354 
  C14ORF39 MUTATED C14ORF39 WILD-TYPE 
                13                354 
[1] "TAT MUTATION ANALYSIS"
[1] 3
  TAT MUTATED TAT WILD-TYPE 
           14           353 
  TAT MUTATED TAT WILD-TYPE 
           14           353 
[1] "FAS MUTATION ANALYSIS"
[1] 3
  FAS MUTATED FAS WILD-TYPE 
            7           360 
  FAS MUTATED FAS WILD-TYPE 
            7           360 
[1] "TXNDC17 MUTATION ANALYSIS"
[1] 3
  TXNDC17 MUTATED TXNDC17 WILD-TYPE 
                5               362 
  TXNDC17 MUTATED TXNDC17 WILD-TYPE 
                5               362 
[1] "SMTN MUTATION ANALYSIS"
[1] 3
  SMTN MUTATED SMTN WILD-TYPE 
            14            353 
  SMTN MUTATED SMTN WILD-TYPE 
            14            353 
[1] "STRADB MUTATION ANALYSIS"
[1] 3
  STRADB MUTATED STRADB WILD-TYPE 
               5              362 
  STRADB MUTATED STRADB WILD-TYPE 
               5              362 
[1] "ACVR2A MUTATION ANALYSIS"
[1] 3
  ACVR2A MUTATED ACVR2A WILD-TYPE 
              17              350 
  ACVR2A MUTATED ACVR2A WILD-TYPE 
              17              350 
[1] "WT1 MUTATION ANALYSIS"
[1] 3
  WT1 MUTATED WT1 WILD-TYPE 
           26           341 
  WT1 MUTATED WT1 WILD-TYPE 
           26           341 
[1] "EFHC1 MUTATION ANALYSIS"
[1] 3
  EFHC1 MUTATED EFHC1 WILD-TYPE 
             11             356 
  EFHC1 MUTATED EFHC1 WILD-TYPE 
             11             356 
[1] "MTMR8 MUTATION ANALYSIS"
[1] 3
  MTMR8 MUTATED MTMR8 WILD-TYPE 
             11             356 
  MTMR8 MUTATED MTMR8 WILD-TYPE 
             11             356 
[1] "ACTL6A MUTATION ANALYSIS"
[1] 3
  ACTL6A MUTATED ACTL6A WILD-TYPE 
               6              361 
  ACTL6A MUTATED ACTL6A WILD-TYPE 
               6              361 
[1] "FAM163B MUTATION ANALYSIS"
[1] 3
  FAM163B MUTATED FAM163B WILD-TYPE 
                4               363 
  FAM163B MUTATED FAM163B WILD-TYPE 
                4               363 
[1] "GPR22 MUTATION ANALYSIS"
[1] 3
  GPR22 MUTATED GPR22 WILD-TYPE 
              9             358 
  GPR22 MUTATED GPR22 WILD-TYPE 
              9             358 
[1] "MAPK9 MUTATION ANALYSIS"
[1] 3
  MAPK9 MUTATED MAPK9 WILD-TYPE 
             10             357 
  MAPK9 MUTATED MAPK9 WILD-TYPE 
             10             357 
[1] "APOB MUTATION ANALYSIS"
[1] 3
  APOB MUTATED APOB WILD-TYPE 
            54            313 
  APOB MUTATED APOB WILD-TYPE 
            54            313 
[1] "OR4D2 MUTATION ANALYSIS"
[1] 3
  OR4D2 MUTATED OR4D2 WILD-TYPE 
              4             363 
  OR4D2 MUTATED OR4D2 WILD-TYPE 
              4             363 
[1] "DSG4 MUTATION ANALYSIS"
[1] 3
  DSG4 MUTATED DSG4 WILD-TYPE 
            21            346 
  DSG4 MUTATED DSG4 WILD-TYPE 
            21            346 
[1] "KIAA0319L MUTATION ANALYSIS"
[1] 3
  KIAA0319L MUTATED KIAA0319L WILD-TYPE 
                 19                 348 
  KIAA0319L MUTATED KIAA0319L WILD-TYPE 
                 19                 348 
[1] "TXNDC6 MUTATION ANALYSIS"
[1] 3
  TXNDC6 MUTATED TXNDC6 WILD-TYPE 
               8              359 
  TXNDC6 MUTATED TXNDC6 WILD-TYPE 
               8              359 
[1] "PFN4 MUTATION ANALYSIS"
[1] 3
  PFN4 MUTATED PFN4 WILD-TYPE 
             6            361 
  PFN4 MUTATED PFN4 WILD-TYPE 
             6            361 
[1] "NOS3 MUTATION ANALYSIS"
[1] 3
  NOS3 MUTATED NOS3 WILD-TYPE 
            18            349 
  NOS3 MUTATED NOS3 WILD-TYPE 
            18            349 
[1] "MUC7 MUTATION ANALYSIS"
[1] 3
  MUC7 MUTATED MUC7 WILD-TYPE 
             9            358 
  MUC7 MUTATED MUC7 WILD-TYPE 
             9            358 
[1] "BCHE MUTATION ANALYSIS"
[1] 3
  BCHE MUTATED BCHE WILD-TYPE 
            25            342 
  BCHE MUTATED BCHE WILD-TYPE 
            25            342 
[1] "SLC27A2 MUTATION ANALYSIS"
[1] 3
  SLC27A2 MUTATED SLC27A2 WILD-TYPE 
                6               361 
  SLC27A2 MUTATED SLC27A2 WILD-TYPE 
                6               361 
[1] "KRT19 MUTATION ANALYSIS"
[1] 3
  KRT19 MUTATED KRT19 WILD-TYPE 
              4             363 
  KRT19 MUTATED KRT19 WILD-TYPE 
              4             363 
[1] "LASS3 MUTATION ANALYSIS"
[1] 3
  LASS3 MUTATED LASS3 WILD-TYPE 
             14             353 
  LASS3 MUTATED LASS3 WILD-TYPE 
             14             353 
[1] "GAB1 MUTATION ANALYSIS"
[1] 3
  GAB1 MUTATED GAB1 WILD-TYPE 
            15            352 
  GAB1 MUTATED GAB1 WILD-TYPE 
            15            352 
[1] "ZNF518B MUTATION ANALYSIS"
[1] 3
  ZNF518B MUTATED ZNF518B WILD-TYPE 
               10               357 
  ZNF518B MUTATED ZNF518B WILD-TYPE 
               10               357 
[1] "C14ORF159 MUTATION ANALYSIS"
[1] 3
  C14ORF159 MUTATED C14ORF159 WILD-TYPE 
                  9                 358 
  C14ORF159 MUTATED C14ORF159 WILD-TYPE 
                  9                 358 
[1] "EFEMP1 MUTATION ANALYSIS"
[1] 3
  EFEMP1 MUTATED EFEMP1 WILD-TYPE 
              20              347 
  EFEMP1 MUTATED EFEMP1 WILD-TYPE 
              20              347 
[1] "PDP2 MUTATION ANALYSIS"
[1] 3
  PDP2 MUTATED PDP2 WILD-TYPE 
             5            362 
  PDP2 MUTATED PDP2 WILD-TYPE 
             5            362 
[1] "ENSA MUTATION ANALYSIS"
[1] 3
  ENSA MUTATED ENSA WILD-TYPE 
             5            362 
  ENSA MUTATED ENSA WILD-TYPE 
             5            362 
[1] "C20ORF177 MUTATION ANALYSIS"
[1] 3
  C20ORF177 MUTATED C20ORF177 WILD-TYPE 
                  9                 358 
  C20ORF177 MUTATED C20ORF177 WILD-TYPE 
                  9                 358 
[1] "POMGNT1 MUTATION ANALYSIS"
[1] 3
  POMGNT1 MUTATED POMGNT1 WILD-TYPE 
                8               359 
  POMGNT1 MUTATED POMGNT1 WILD-TYPE 
                8               359 
[1] "SMG1 MUTATION ANALYSIS"
[1] 3
  SMG1 MUTATED SMG1 WILD-TYPE 
            25            342 
  SMG1 MUTATED SMG1 WILD-TYPE 
            25            342 
[1] "HMCN1 MUTATION ANALYSIS"
[1] 3
  HMCN1 MUTATED HMCN1 WILD-TYPE 
             72             295 
  HMCN1 MUTATED HMCN1 WILD-TYPE 
             72             295 
[1] "CHUK MUTATION ANALYSIS"
[1] 3
  CHUK MUTATED CHUK WILD-TYPE 
            21            346 
  CHUK MUTATED CHUK WILD-TYPE 
            21            346 
[1] "MYH3 MUTATION ANALYSIS"
[1] 3
  MYH3 MUTATED MYH3 WILD-TYPE 
            33            334 
  MYH3 MUTATED MYH3 WILD-TYPE 
            33            334 
[1] "ING2 MUTATION ANALYSIS"
[1] 3
  ING2 MUTATED ING2 WILD-TYPE 
             6            361 
  ING2 MUTATED ING2 WILD-TYPE 
             6            361 
[1] "VAV3 MUTATION ANALYSIS"
[1] 3
  VAV3 MUTATED VAV3 WILD-TYPE 
            24            343 
  VAV3 MUTATED VAV3 WILD-TYPE 
            24            343 
[1] "UIMC1 MUTATION ANALYSIS"
[1] 3
  UIMC1 MUTATED UIMC1 WILD-TYPE 
              6             361 
  UIMC1 MUTATED UIMC1 WILD-TYPE 
              6             361 
[1] "LAMB4 MUTATION ANALYSIS"
[1] 3
  LAMB4 MUTATED LAMB4 WILD-TYPE 
             26             341 
  LAMB4 MUTATED LAMB4 WILD-TYPE 
             26             341 
[1] "MOV10L1 MUTATION ANALYSIS"
[1] 3
  MOV10L1 MUTATED MOV10L1 WILD-TYPE 
               15               352 
  MOV10L1 MUTATED MOV10L1 WILD-TYPE 
               15               352 
[1] "CTBP2 MUTATION ANALYSIS"
[1] 3
  CTBP2 MUTATED CTBP2 WILD-TYPE 
              6             361 
  CTBP2 MUTATED CTBP2 WILD-TYPE 
              6             361 
[1] "TM9SF2 MUTATION ANALYSIS"
[1] 3
  TM9SF2 MUTATED TM9SF2 WILD-TYPE 
              10              357 
  TM9SF2 MUTATED TM9SF2 WILD-TYPE 
              10              357 
[1] "CCDC88A MUTATION ANALYSIS"
[1] 3
  CCDC88A MUTATED CCDC88A WILD-TYPE 
               30               337 
  CCDC88A MUTATED CCDC88A WILD-TYPE 
               30               337 
[1] "ART5 MUTATION ANALYSIS"
[1] 3
  ART5 MUTATED ART5 WILD-TYPE 
             9            358 
  ART5 MUTATED ART5 WILD-TYPE 
             9            358 
[1] "ASPG MUTATION ANALYSIS"
[1] 3
  ASPG MUTATED ASPG WILD-TYPE 
             7            360 
  ASPG MUTATED ASPG WILD-TYPE 
             7            360 
[1] "PLEKHB2 MUTATION ANALYSIS"
[1] 3
  PLEKHB2 MUTATED PLEKHB2 WILD-TYPE 
                6               361 
  PLEKHB2 MUTATED PLEKHB2 WILD-TYPE 
                6               361 
[1] "TMTC4 MUTATION ANALYSIS"
[1] 3
  TMTC4 MUTATED TMTC4 WILD-TYPE 
             13             354 
  TMTC4 MUTATED TMTC4 WILD-TYPE 
             13             354 
[1] "DOCK5 MUTATION ANALYSIS"
[1] 3
  DOCK5 MUTATED DOCK5 WILD-TYPE 
             26             341 
  DOCK5 MUTATED DOCK5 WILD-TYPE 
             26             341 
[1] "DNAJC16 MUTATION ANALYSIS"
[1] 3
  DNAJC16 MUTATED DNAJC16 WILD-TYPE 
                9               358 
  DNAJC16 MUTATED DNAJC16 WILD-TYPE 
                9               358 
[1] "PHF1 MUTATION ANALYSIS"
[1] 3
  PHF1 MUTATED PHF1 WILD-TYPE 
             6            361 
  PHF1 MUTATED PHF1 WILD-TYPE 
             6            361 
[1] "OR2V2 MUTATION ANALYSIS"
[1] 3
  OR2V2 MUTATED OR2V2 WILD-TYPE 
              6             361 
  OR2V2 MUTATED OR2V2 WILD-TYPE 
              6             361 
[1] "EIF2B5 MUTATION ANALYSIS"
[1] 3
  EIF2B5 MUTATED EIF2B5 WILD-TYPE 
              15              352 
  EIF2B5 MUTATED EIF2B5 WILD-TYPE 
              15              352 
[1] "SR140 MUTATION ANALYSIS"
[1] 3
  SR140 MUTATED SR140 WILD-TYPE 
             11             356 
  SR140 MUTATED SR140 WILD-TYPE 
             11             356 
[1] "ABI3BP MUTATION ANALYSIS"
[1] 3
  ABI3BP MUTATED ABI3BP WILD-TYPE 
              21              346 
  ABI3BP MUTATED ABI3BP WILD-TYPE 
              21              346 
[1] "FBN2 MUTATION ANALYSIS"
[1] 3
  FBN2 MUTATED FBN2 WILD-TYPE 
            43            324 
  FBN2 MUTATED FBN2 WILD-TYPE 
            43            324 
[1] "FAM98B MUTATION ANALYSIS"
[1] 3
  FAM98B MUTATED FAM98B WILD-TYPE 
               4              363 
  FAM98B MUTATED FAM98B WILD-TYPE 
               4              363 
[1] "KDM5C MUTATION ANALYSIS"
[1] 3
  KDM5C MUTATED KDM5C WILD-TYPE 
             21             346 
  KDM5C MUTATED KDM5C WILD-TYPE 
             21             346 
[1] "ARAP3 MUTATION ANALYSIS"
[1] 3
  ARAP3 MUTATED ARAP3 WILD-TYPE 
             21             346 
  ARAP3 MUTATED ARAP3 WILD-TYPE 
             21             346 
[1] "CHRNA3 MUTATION ANALYSIS"
[1] 3
  CHRNA3 MUTATED CHRNA3 WILD-TYPE 
              10              357 
  CHRNA3 MUTATED CHRNA3 WILD-TYPE 
              10              357 
[1] "FLT3 MUTATION ANALYSIS"
[1] 3
  FLT3 MUTATED FLT3 WILD-TYPE 
            24            343 
  FLT3 MUTATED FLT3 WILD-TYPE 
            24            343 
[1] "STX16 MUTATION ANALYSIS"
[1] 3
  STX16 MUTATED STX16 WILD-TYPE 
              7             360 
  STX16 MUTATED STX16 WILD-TYPE 
              7             360 
[1] "ERBB2IP MUTATION ANALYSIS"
[1] 3
  ERBB2IP MUTATED ERBB2IP WILD-TYPE 
               15               352 
  ERBB2IP MUTATED ERBB2IP WILD-TYPE 
               15               352 
[1] "RNF145 MUTATION ANALYSIS"
[1] 3
  RNF145 MUTATED RNF145 WILD-TYPE 
              14              353 
  RNF145 MUTATED RNF145 WILD-TYPE 
              14              353 
[1] "KTN1 MUTATION ANALYSIS"
[1] 3
  KTN1 MUTATED KTN1 WILD-TYPE 
            18            349 
  KTN1 MUTATED KTN1 WILD-TYPE 
            18            349 
[1] "NIPBL MUTATION ANALYSIS"
[1] 3
  NIPBL MUTATED NIPBL WILD-TYPE 
             32             335 
  NIPBL MUTATED NIPBL WILD-TYPE 
             32             335 
[1] "DOCK1 MUTATION ANALYSIS"
[1] 3
  DOCK1 MUTATED DOCK1 WILD-TYPE 
             24             343 
  DOCK1 MUTATED DOCK1 WILD-TYPE 
             24             343 
[1] "CDH8 MUTATION ANALYSIS"
[1] 3
  CDH8 MUTATED CDH8 WILD-TYPE 
            33            334 
  CDH8 MUTATED CDH8 WILD-TYPE 
            33            334 
[1] "POLDIP3 MUTATION ANALYSIS"
[1] 3
  POLDIP3 MUTATED POLDIP3 WILD-TYPE 
                5               362 
  POLDIP3 MUTATED POLDIP3 WILD-TYPE 
                5               362 
[1] "KLRC3 MUTATION ANALYSIS"
[1] 3
  KLRC3 MUTATED KLRC3 WILD-TYPE 
              5             362 
  KLRC3 MUTATED KLRC3 WILD-TYPE 
              5             362 
[1] "ARMC9 MUTATION ANALYSIS"
[1] 3
  ARMC9 MUTATED ARMC9 WILD-TYPE 
              7             360 
  ARMC9 MUTATED ARMC9 WILD-TYPE 
              7             360 
[1] "MAGEB2 MUTATION ANALYSIS"
[1] 3
  MAGEB2 MUTATED MAGEB2 WILD-TYPE 
              11              356 
  MAGEB2 MUTATED MAGEB2 WILD-TYPE 
              11              356 
[1] "ZNF83 MUTATION ANALYSIS"
[1] 3
  ZNF83 MUTATED ZNF83 WILD-TYPE 
             17             350 
  ZNF83 MUTATED ZNF83 WILD-TYPE 
             17             350 
[1] "ADAMTS4 MUTATION ANALYSIS"
[1] 3
  ADAMTS4 MUTATED ADAMTS4 WILD-TYPE 
               14               353 
  ADAMTS4 MUTATED ADAMTS4 WILD-TYPE 
               14               353 
[1] "TMEM50B MUTATION ANALYSIS"
[1] 3
  TMEM50B MUTATED TMEM50B WILD-TYPE 
                6               361 
  TMEM50B MUTATED TMEM50B WILD-TYPE 
                6               361 
[1] "CDH22 MUTATION ANALYSIS"
[1] 3
  CDH22 MUTATED CDH22 WILD-TYPE 
             16             351 
  CDH22 MUTATED CDH22 WILD-TYPE 
             16             351 
[1] "LRRC37B MUTATION ANALYSIS"
[1] 3
  LRRC37B MUTATED LRRC37B WILD-TYPE 
                6               361 
  LRRC37B MUTATED LRRC37B WILD-TYPE 
                6               361 
[1] "C19ORF66 MUTATION ANALYSIS"
[1] 3
  C19ORF66 MUTATED C19ORF66 WILD-TYPE 
                 4                363 
  C19ORF66 MUTATED C19ORF66 WILD-TYPE 
                 4                363 
[1] "WWC3 MUTATION ANALYSIS"
[1] 3
  WWC3 MUTATED WWC3 WILD-TYPE 
            22            345 
  WWC3 MUTATED WWC3 WILD-TYPE 
            22            345 
[1] "ZBTB24 MUTATION ANALYSIS"
[1] 3
  ZBTB24 MUTATED ZBTB24 WILD-TYPE 
               8              359 
  ZBTB24 MUTATED ZBTB24 WILD-TYPE 
               8              359 
[1] "TMEM48 MUTATION ANALYSIS"
[1] 3
  TMEM48 MUTATED TMEM48 WILD-TYPE 
              10              357 
  TMEM48 MUTATED TMEM48 WILD-TYPE 
              10              357 
[1] "EXPH5 MUTATION ANALYSIS"
[1] 3
  EXPH5 MUTATED EXPH5 WILD-TYPE 
             21             346 
  EXPH5 MUTATED EXPH5 WILD-TYPE 
             21             346 
[1] "MARVELD2 MUTATION ANALYSIS"
[1] 3
  MARVELD2 MUTATED MARVELD2 WILD-TYPE 
                10                357 
  MARVELD2 MUTATED MARVELD2 WILD-TYPE 
                10                357 
[1] "GDE1 MUTATION ANALYSIS"
[1] 3
  GDE1 MUTATED GDE1 WILD-TYPE 
             5            362 
  GDE1 MUTATED GDE1 WILD-TYPE 
             5            362 
[1] "ZNF721 MUTATION ANALYSIS"
[1] 3
  ZNF721 MUTATED ZNF721 WILD-TYPE 
              15              352 
  ZNF721 MUTATED ZNF721 WILD-TYPE 
              15              352 
[1] "PAX6 MUTATION ANALYSIS"
[1] 3
  PAX6 MUTATED PAX6 WILD-TYPE 
            14            353 
  PAX6 MUTATED PAX6 WILD-TYPE 
            14            353 
[1] "ENPP1 MUTATION ANALYSIS"
[1] 3
  ENPP1 MUTATED ENPP1 WILD-TYPE 
             14             353 
  ENPP1 MUTATED ENPP1 WILD-TYPE 
             14             353 
[1] "CHM MUTATION ANALYSIS"
[1] 3
  CHM MUTATED CHM WILD-TYPE 
            4           363 
  CHM MUTATED CHM WILD-TYPE 
            4           363 
[1] "THAP9 MUTATION ANALYSIS"
[1] 3
  THAP9 MUTATED THAP9 WILD-TYPE 
             12             355 
  THAP9 MUTATED THAP9 WILD-TYPE 
             12             355 
[1] "C1QL3 MUTATION ANALYSIS"
[1] 3
  C1QL3 MUTATED C1QL3 WILD-TYPE 
              4             363 
  C1QL3 MUTATED C1QL3 WILD-TYPE 
              4             363 
[1] "HCRTR2 MUTATION ANALYSIS"
[1] 3
  HCRTR2 MUTATED HCRTR2 WILD-TYPE 
               7              360 
  HCRTR2 MUTATED HCRTR2 WILD-TYPE 
               7              360 
[1] "C9ORF71 MUTATION ANALYSIS"
[1] 3
  C9ORF71 MUTATED C9ORF71 WILD-TYPE 
                4               363 
  C9ORF71 MUTATED C9ORF71 WILD-TYPE 
                4               363 
[1] "RIMBP3 MUTATION ANALYSIS"
[1] 3
  RIMBP3 MUTATED RIMBP3 WILD-TYPE 
               6              361 
  RIMBP3 MUTATED RIMBP3 WILD-TYPE 
               6              361 
[1] "HELQ MUTATION ANALYSIS"
[1] 3
  HELQ MUTATED HELQ WILD-TYPE 
            18            349 
  HELQ MUTATED HELQ WILD-TYPE 
            18            349 
[1] "VPS13B MUTATION ANALYSIS"
[1] 3
  VPS13B MUTATED VPS13B WILD-TYPE 
              52              315 
  VPS13B MUTATED VPS13B WILD-TYPE 
              52              315 
[1] "ZNF620 MUTATION ANALYSIS"
[1] 3
  ZNF620 MUTATED ZNF620 WILD-TYPE 
               8              359 
  ZNF620 MUTATED ZNF620 WILD-TYPE 
               8              359 
[1] "ZNF570 MUTATION ANALYSIS"
[1] 3
  ZNF570 MUTATED ZNF570 WILD-TYPE 
               9              358 
  ZNF570 MUTATED ZNF570 WILD-TYPE 
               9              358 
[1] "AP1G2 MUTATION ANALYSIS"
[1] 3
  AP1G2 MUTATED AP1G2 WILD-TYPE 
             13             354 
  AP1G2 MUTATED AP1G2 WILD-TYPE 
             13             354 
[1] "SLC22A16 MUTATION ANALYSIS"
[1] 3
  SLC22A16 MUTATED SLC22A16 WILD-TYPE 
                13                354 
  SLC22A16 MUTATED SLC22A16 WILD-TYPE 
                13                354 
[1] "FER MUTATION ANALYSIS"
[1] 3
  FER MUTATED FER WILD-TYPE 
           15           352 
  FER MUTATED FER WILD-TYPE 
           15           352 
[1] "SCN3A MUTATION ANALYSIS"
[1] 3
  SCN3A MUTATED SCN3A WILD-TYPE 
             42             325 
  SCN3A MUTATED SCN3A WILD-TYPE 
             42             325 
[1] "IQGAP2 MUTATION ANALYSIS"
[1] 3
  IQGAP2 MUTATED IQGAP2 WILD-TYPE 
              21              346 
  IQGAP2 MUTATED IQGAP2 WILD-TYPE 
              21              346 
[1] "CD3D MUTATION ANALYSIS"
[1] 3
  CD3D MUTATED CD3D WILD-TYPE 
             4            363 
  CD3D MUTATED CD3D WILD-TYPE 
             4            363 
[1] "ADORA3 MUTATION ANALYSIS"
[1] 3
  ADORA3 MUTATED ADORA3 WILD-TYPE 
              14              353 
  ADORA3 MUTATED ADORA3 WILD-TYPE 
              14              353 
[1] "ALDOB MUTATION ANALYSIS"
[1] 3
  ALDOB MUTATED ALDOB WILD-TYPE 
             15             352 
  ALDOB MUTATED ALDOB WILD-TYPE 
             15             352 
[1] "ELFN2 MUTATION ANALYSIS"
[1] 3
  ELFN2 MUTATED ELFN2 WILD-TYPE 
              9             358 
  ELFN2 MUTATED ELFN2 WILD-TYPE 
              9             358 
[1] "AWAT1 MUTATION ANALYSIS"
[1] 3
  AWAT1 MUTATED AWAT1 WILD-TYPE 
              8             359 
  AWAT1 MUTATED AWAT1 WILD-TYPE 
              8             359 
[1] "EXT1 MUTATION ANALYSIS"
[1] 3
  EXT1 MUTATED EXT1 WILD-TYPE 
            18            349 
  EXT1 MUTATED EXT1 WILD-TYPE 
            18            349 
[1] "DNAH17 MUTATION ANALYSIS"
[1] 3
  DNAH17 MUTATED DNAH17 WILD-TYPE 
              30              337 
  DNAH17 MUTATED DNAH17 WILD-TYPE 
              30              337 
[1] "SYNE1 MUTATION ANALYSIS"
[1] 3
  SYNE1 MUTATED SYNE1 WILD-TYPE 
            118             249 
  SYNE1 MUTATED SYNE1 WILD-TYPE 
            118             249 
[1] "C1ORF35 MUTATION ANALYSIS"
[1] 3
  C1ORF35 MUTATED C1ORF35 WILD-TYPE 
                4               363 
  C1ORF35 MUTATED C1ORF35 WILD-TYPE 
                4               363 
[1] "POLQ MUTATION ANALYSIS"
[1] 3
  POLQ MUTATED POLQ WILD-TYPE 
            30            337 
  POLQ MUTATED POLQ WILD-TYPE 
            30            337 
[1] "BAI3 MUTATION ANALYSIS"
[1] 3
  BAI3 MUTATED BAI3 WILD-TYPE 
            43            324 
  BAI3 MUTATED BAI3 WILD-TYPE 
            43            324 
[1] "WNK3 MUTATION ANALYSIS"
[1] 3
  WNK3 MUTATED WNK3 WILD-TYPE 
            24            343 
  WNK3 MUTATED WNK3 WILD-TYPE 
            24            343 
[1] "CASC1 MUTATION ANALYSIS"
[1] 3
  CASC1 MUTATED CASC1 WILD-TYPE 
             12             355 
  CASC1 MUTATED CASC1 WILD-TYPE 
             12             355 
[1] "IL2RG MUTATION ANALYSIS"
[1] 3
  IL2RG MUTATED IL2RG WILD-TYPE 
              7             360 
  IL2RG MUTATED IL2RG WILD-TYPE 
              7             360 
[1] "ACOT9 MUTATION ANALYSIS"
[1] 3
  ACOT9 MUTATED ACOT9 WILD-TYPE 
              4             363 
  ACOT9 MUTATED ACOT9 WILD-TYPE 
              4             363 
[1] "DCTN5 MUTATION ANALYSIS"
[1] 3
  DCTN5 MUTATED DCTN5 WILD-TYPE 
              6             361 
  DCTN5 MUTATED DCTN5 WILD-TYPE 
              6             361 
[1] "USH2A MUTATION ANALYSIS"
[1] 3
  USH2A MUTATED USH2A WILD-TYPE 
             74             293 
  USH2A MUTATED USH2A WILD-TYPE 
             74             293 
[1] "PARP1 MUTATION ANALYSIS"
[1] 3
  PARP1 MUTATED PARP1 WILD-TYPE 
             14             353 
  PARP1 MUTATED PARP1 WILD-TYPE 
             14             353 
[1] "CCDC141 MUTATION ANALYSIS"
[1] 3
  CCDC141 MUTATED CCDC141 WILD-TYPE 
               21               346 
  CCDC141 MUTATED CCDC141 WILD-TYPE 
               21               346 
[1] "OAS1 MUTATION ANALYSIS"
[1] 3
  OAS1 MUTATED OAS1 WILD-TYPE 
             8            359 
  OAS1 MUTATED OAS1 WILD-TYPE 
             8            359 
[1] "KIAA0406 MUTATION ANALYSIS"
[1] 3
  KIAA0406 MUTATED KIAA0406 WILD-TYPE 
                14                353 
  KIAA0406 MUTATED KIAA0406 WILD-TYPE 
                14                353 
[1] "DNASE1L3 MUTATION ANALYSIS"
[1] 3
  DNASE1L3 MUTATED DNASE1L3 WILD-TYPE 
                 8                359 
  DNASE1L3 MUTATED DNASE1L3 WILD-TYPE 
                 8                359 
[1] "OR8A1 MUTATION ANALYSIS"
[1] 3
  OR8A1 MUTATED OR8A1 WILD-TYPE 
              4             363 
  OR8A1 MUTATED OR8A1 WILD-TYPE 
              4             363 
[1] "RANBP1 MUTATION ANALYSIS"
[1] 3
  RANBP1 MUTATED RANBP1 WILD-TYPE 
               6              361 
  RANBP1 MUTATED RANBP1 WILD-TYPE 
               6              361 
[1] "RBMX2 MUTATION ANALYSIS"
[1] 3
  RBMX2 MUTATED RBMX2 WILD-TYPE 
             11             356 
  RBMX2 MUTATED RBMX2 WILD-TYPE 
             11             356 
[1] "SLC35A5 MUTATION ANALYSIS"
[1] 3
  SLC35A5 MUTATED SLC35A5 WILD-TYPE 
                7               360 
  SLC35A5 MUTATED SLC35A5 WILD-TYPE 
                7               360 
[1] "RAD51AP2 MUTATION ANALYSIS"
[1] 3
  RAD51AP2 MUTATED RAD51AP2 WILD-TYPE 
                16                351 
  RAD51AP2 MUTATED RAD51AP2 WILD-TYPE 
                16                351 
[1] "INADL MUTATION ANALYSIS"
[1] 3
  INADL MUTATED INADL WILD-TYPE 
             13             354 
  INADL MUTATED INADL WILD-TYPE 
             13             354 
[1] "LEF1 MUTATION ANALYSIS"
[1] 3
  LEF1 MUTATED LEF1 WILD-TYPE 
             9            358 
  LEF1 MUTATED LEF1 WILD-TYPE 
             9            358 
[1] "SLC2A3 MUTATION ANALYSIS"
[1] 3
  SLC2A3 MUTATED SLC2A3 WILD-TYPE 
              11              356 
  SLC2A3 MUTATED SLC2A3 WILD-TYPE 
              11              356 
[1] "MLL4 MUTATION ANALYSIS"
[1] 3
  MLL4 MUTATED MLL4 WILD-TYPE 
            33            334 
  MLL4 MUTATED MLL4 WILD-TYPE 
            33            334 
[1] "MTA2 MUTATION ANALYSIS"
[1] 3
  MTA2 MUTATED MTA2 WILD-TYPE 
            12            355 
  MTA2 MUTATED MTA2 WILD-TYPE 
            12            355 
[1] "MDN1 MUTATION ANALYSIS"
[1] 3
  MDN1 MUTATED MDN1 WILD-TYPE 
            53            314 
  MDN1 MUTATED MDN1 WILD-TYPE 
            53            314 
[1] "OR10G4 MUTATION ANALYSIS"
[1] 3
  OR10G4 MUTATED OR10G4 WILD-TYPE 
               5              362 
  OR10G4 MUTATED OR10G4 WILD-TYPE 
               5              362 
[1] "NEB MUTATION ANALYSIS"
[1] 3
  NEB MUTATED NEB WILD-TYPE 
           57           310 
  NEB MUTATED NEB WILD-TYPE 
           57           310 
[1] "PAXIP1 MUTATION ANALYSIS"
[1] 3
  PAXIP1 MUTATED PAXIP1 WILD-TYPE 
              16              351 
  PAXIP1 MUTATED PAXIP1 WILD-TYPE 
              16              351 
[1] "OSTM1 MUTATION ANALYSIS"
[1] 3
  OSTM1 MUTATED OSTM1 WILD-TYPE 
              5             362 
  OSTM1 MUTATED OSTM1 WILD-TYPE 
              5             362 
[1] "UGT1A7 MUTATION ANALYSIS"
[1] 3
  UGT1A7 MUTATED UGT1A7 WILD-TYPE 
               8              359 
  UGT1A7 MUTATED UGT1A7 WILD-TYPE 
               8              359 
[1] "ZNF658 MUTATION ANALYSIS"
[1] 3
  ZNF658 MUTATED ZNF658 WILD-TYPE 
              10              357 
  ZNF658 MUTATED ZNF658 WILD-TYPE 
              10              357 
[1] "ESCO2 MUTATION ANALYSIS"
[1] 3
  ESCO2 MUTATED ESCO2 WILD-TYPE 
             10             357 
  ESCO2 MUTATED ESCO2 WILD-TYPE 
             10             357 
[1] "SV2A MUTATION ANALYSIS"
[1] 3
  SV2A MUTATED SV2A WILD-TYPE 
            21            346 
  SV2A MUTATED SV2A WILD-TYPE 
            21            346 
[1] "PSMB8 MUTATION ANALYSIS"
[1] 3
  PSMB8 MUTATED PSMB8 WILD-TYPE 
              4             363 
  PSMB8 MUTATED PSMB8 WILD-TYPE 
              4             363 
[1] "CAMSAP1L1 MUTATION ANALYSIS"
[1] 3
  CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE 
                 21                 346 
  CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE 
                 21                 346 
[1] "MRPS18B MUTATION ANALYSIS"
[1] 3
  MRPS18B MUTATED MRPS18B WILD-TYPE 
                4               363 
  MRPS18B MUTATED MRPS18B WILD-TYPE 
                4               363 
[1] "INSRR MUTATION ANALYSIS"
[1] 3
  INSRR MUTATED INSRR WILD-TYPE 
             26             341 
  INSRR MUTATED INSRR WILD-TYPE 
             26             341 
[1] "PAAF1 MUTATION ANALYSIS"
[1] 3
  PAAF1 MUTATED PAAF1 WILD-TYPE 
              5             362 
  PAAF1 MUTATED PAAF1 WILD-TYPE 
              5             362 
[1] "JAK3 MUTATION ANALYSIS"
[1] 3
  JAK3 MUTATED JAK3 WILD-TYPE 
            24            343 
  JAK3 MUTATED JAK3 WILD-TYPE 
            24            343 
[1] "TMEM45A MUTATION ANALYSIS"
[1] 3
  TMEM45A MUTATED TMEM45A WILD-TYPE 
                4               363 
  TMEM45A MUTATED TMEM45A WILD-TYPE 
                4               363 
[1] "UAP1L1 MUTATION ANALYSIS"
[1] 3
  UAP1L1 MUTATED UAP1L1 WILD-TYPE 
               7              360 
  UAP1L1 MUTATED UAP1L1 WILD-TYPE 
               7              360 
[1] "OR6A2 MUTATION ANALYSIS"
[1] 3
  OR6A2 MUTATED OR6A2 WILD-TYPE 
              8             359 
  OR6A2 MUTATED OR6A2 WILD-TYPE 
              8             359 
[1] "PTPN12 MUTATION ANALYSIS"
[1] 3
  PTPN12 MUTATED PTPN12 WILD-TYPE 
              17              350 
  PTPN12 MUTATED PTPN12 WILD-TYPE 
              17              350 
[1] "OR2Y1 MUTATION ANALYSIS"
[1] 3
  OR2Y1 MUTATED OR2Y1 WILD-TYPE 
              7             360 
  OR2Y1 MUTATED OR2Y1 WILD-TYPE 
              7             360 
[1] "THOC6 MUTATION ANALYSIS"
[1] 3
  THOC6 MUTATED THOC6 WILD-TYPE 
              8             359 
  THOC6 MUTATED THOC6 WILD-TYPE 
              8             359 
[1] "VASH1 MUTATION ANALYSIS"
[1] 3
  VASH1 MUTATED VASH1 WILD-TYPE 
              5             362 
  VASH1 MUTATED VASH1 WILD-TYPE 
              5             362 
[1] "MAP7D3 MUTATION ANALYSIS"
[1] 3
  MAP7D3 MUTATED MAP7D3 WILD-TYPE 
              17              350 
  MAP7D3 MUTATED MAP7D3 WILD-TYPE 
              17              350 
[1] "SGK3 MUTATION ANALYSIS"
[1] 3
  SGK3 MUTATED SGK3 WILD-TYPE 
             8            359 
  SGK3 MUTATED SGK3 WILD-TYPE 
             8            359 
[1] "ARHGAP32 MUTATION ANALYSIS"
[1] 3
  ARHGAP32 MUTATED ARHGAP32 WILD-TYPE 
                24                343 
  ARHGAP32 MUTATED ARHGAP32 WILD-TYPE 
                24                343 
[1] "BRD8 MUTATION ANALYSIS"
[1] 3
  BRD8 MUTATED BRD8 WILD-TYPE 
            15            352 
  BRD8 MUTATED BRD8 WILD-TYPE 
            15            352 
[1] "SLC41A2 MUTATION ANALYSIS"
[1] 3
  SLC41A2 MUTATED SLC41A2 WILD-TYPE 
                8               359 
  SLC41A2 MUTATED SLC41A2 WILD-TYPE 
                8               359 
[1] "EAPP MUTATION ANALYSIS"
[1] 3
  EAPP MUTATED EAPP WILD-TYPE 
             4            363 
  EAPP MUTATED EAPP WILD-TYPE 
             4            363 
[1] "DNAJC7 MUTATION ANALYSIS"
[1] 3
  DNAJC7 MUTATED DNAJC7 WILD-TYPE 
               7              360 
  DNAJC7 MUTATED DNAJC7 WILD-TYPE 
               7              360 
[1] "LBP MUTATION ANALYSIS"
[1] 3
  LBP MUTATED LBP WILD-TYPE 
            7           360 
  LBP MUTATED LBP WILD-TYPE 
            7           360 
[1] "ZNF180 MUTATION ANALYSIS"
[1] 3
  ZNF180 MUTATED ZNF180 WILD-TYPE 
              14              353 
  ZNF180 MUTATED ZNF180 WILD-TYPE 
              14              353 
[1] "PCDH19 MUTATION ANALYSIS"
[1] 3
  PCDH19 MUTATED PCDH19 WILD-TYPE 
              14              353 
  PCDH19 MUTATED PCDH19 WILD-TYPE 
              14              353 
[1] "MACF1 MUTATION ANALYSIS"
[1] 3
  MACF1 MUTATED MACF1 WILD-TYPE 
             58             309 
  MACF1 MUTATED MACF1 WILD-TYPE 
             58             309 
[1] "MYH15 MUTATION ANALYSIS"
[1] 3
  MYH15 MUTATED MYH15 WILD-TYPE 
             25             342 
  MYH15 MUTATED MYH15 WILD-TYPE 
             25             342 
[1] "PLK2 MUTATION ANALYSIS"
[1] 3
  PLK2 MUTATED PLK2 WILD-TYPE 
             6            361 
  PLK2 MUTATED PLK2 WILD-TYPE 
             6            361 
[1] "ZNF619 MUTATION ANALYSIS"
[1] 3
  ZNF619 MUTATED ZNF619 WILD-TYPE 
              11              356 
  ZNF619 MUTATED ZNF619 WILD-TYPE 
              11              356 
[1] "WNK1 MUTATION ANALYSIS"
[1] 3
  WNK1 MUTATED WNK1 WILD-TYPE 
            19            348 
  WNK1 MUTATED WNK1 WILD-TYPE 
            19            348 
[1] "TRIM54 MUTATION ANALYSIS"
[1] 3
  TRIM54 MUTATED TRIM54 WILD-TYPE 
               9              358 
  TRIM54 MUTATED TRIM54 WILD-TYPE 
               9              358 
[1] "GTF3C3 MUTATION ANALYSIS"
[1] 3
  GTF3C3 MUTATED GTF3C3 WILD-TYPE 
              15              352 
  GTF3C3 MUTATED GTF3C3 WILD-TYPE 
              15              352 
[1] "OR51A4 MUTATION ANALYSIS"
[1] 3
  OR51A4 MUTATED OR51A4 WILD-TYPE 
               8              359 
  OR51A4 MUTATED OR51A4 WILD-TYPE 
               8              359 
[1] "SLC25A17 MUTATION ANALYSIS"
[1] 3
  SLC25A17 MUTATED SLC25A17 WILD-TYPE 
                 7                360 
  SLC25A17 MUTATED SLC25A17 WILD-TYPE 
                 7                360 
[1] "GNA14 MUTATION ANALYSIS"
[1] 3
  GNA14 MUTATED GNA14 WILD-TYPE 
             10             357 
  GNA14 MUTATED GNA14 WILD-TYPE 
             10             357 
[1] "PREX2 MUTATION ANALYSIS"
[1] 3
  PREX2 MUTATED PREX2 WILD-TYPE 
             31             336 
  PREX2 MUTATED PREX2 WILD-TYPE 
             31             336 
[1] "MAOA MUTATION ANALYSIS"
[1] 3
  MAOA MUTATED MAOA WILD-TYPE 
             5            362 
  MAOA MUTATED MAOA WILD-TYPE 
             5            362 
[1] "CD55 MUTATION ANALYSIS"
[1] 3
  CD55 MUTATED CD55 WILD-TYPE 
             7            360 
  CD55 MUTATED CD55 WILD-TYPE 
             7            360 
[1] "MATN3 MUTATION ANALYSIS"
[1] 3
  MATN3 MUTATED MATN3 WILD-TYPE 
              6             361 
  MATN3 MUTATED MATN3 WILD-TYPE 
              6             361 
[1] "OR6C75 MUTATION ANALYSIS"
[1] 3
  OR6C75 MUTATED OR6C75 WILD-TYPE 
               7              360 
  OR6C75 MUTATED OR6C75 WILD-TYPE 
               7              360 
[1] "NAP1L1 MUTATION ANALYSIS"
[1] 3
  NAP1L1 MUTATED NAP1L1 WILD-TYPE 
               7              360 
  NAP1L1 MUTATED NAP1L1 WILD-TYPE 
               7              360 
[1] "SLC22A3 MUTATION ANALYSIS"
[1] 3
  SLC22A3 MUTATED SLC22A3 WILD-TYPE 
               12               355 
  SLC22A3 MUTATED SLC22A3 WILD-TYPE 
               12               355 
[1] "HRSP12 MUTATION ANALYSIS"
[1] 3
  HRSP12 MUTATED HRSP12 WILD-TYPE 
               6              361 
  HRSP12 MUTATED HRSP12 WILD-TYPE 
               6              361 
[1] "RYR2 MUTATION ANALYSIS"
[1] 3
  RYR2 MUTATED RYR2 WILD-TYPE 
            84            283 
  RYR2 MUTATED RYR2 WILD-TYPE 
            84            283 
[1] "ZNF605 MUTATION ANALYSIS"
[1] 3
  ZNF605 MUTATED ZNF605 WILD-TYPE 
               8              359 
  ZNF605 MUTATED ZNF605 WILD-TYPE 
               8              359 
[1] "C1ORF168 MUTATION ANALYSIS"
[1] 3
  C1ORF168 MUTATED C1ORF168 WILD-TYPE 
                14                353 
  C1ORF168 MUTATED C1ORF168 WILD-TYPE 
                14                353 
[1] "PGAP3 MUTATION ANALYSIS"
[1] 3
  PGAP3 MUTATED PGAP3 WILD-TYPE 
              7             360 
  PGAP3 MUTATED PGAP3 WILD-TYPE 
              7             360 
[1] "AGTR2 MUTATION ANALYSIS"
[1] 3
  AGTR2 MUTATED AGTR2 WILD-TYPE 
             15             352 
  AGTR2 MUTATED AGTR2 WILD-TYPE 
             15             352 
[1] "RAE1 MUTATION ANALYSIS"
[1] 3
  RAE1 MUTATED RAE1 WILD-TYPE 
             6            361 
  RAE1 MUTATED RAE1 WILD-TYPE 
             6            361 
[1] "PAGE2 MUTATION ANALYSIS"
[1] 3
  PAGE2 MUTATED PAGE2 WILD-TYPE 
              8             359 
  PAGE2 MUTATED PAGE2 WILD-TYPE 
              8             359 
[1] "HNMT MUTATION ANALYSIS"
[1] 3
  HNMT MUTATED HNMT WILD-TYPE 
             8            359 
  HNMT MUTATED HNMT WILD-TYPE 
             8            359 
[1] "AHCTF1 MUTATION ANALYSIS"
[1] 3
  AHCTF1 MUTATED AHCTF1 WILD-TYPE 
              21              346 
  AHCTF1 MUTATED AHCTF1 WILD-TYPE 
              21              346 
[1] "PRPH2 MUTATION ANALYSIS"
[1] 3
  PRPH2 MUTATED PRPH2 WILD-TYPE 
             10             357 
  PRPH2 MUTATED PRPH2 WILD-TYPE 
             10             357 
[1] "NOD2 MUTATION ANALYSIS"
[1] 3
  NOD2 MUTATED NOD2 WILD-TYPE 
            16            351 
  NOD2 MUTATED NOD2 WILD-TYPE 
            16            351 
[1] "PTCH2 MUTATION ANALYSIS"
[1] 3
  PTCH2 MUTATED PTCH2 WILD-TYPE 
             17             350 
  PTCH2 MUTATED PTCH2 WILD-TYPE 
             17             350 
[1] "GPR126 MUTATION ANALYSIS"
[1] 3
  GPR126 MUTATED GPR126 WILD-TYPE 
              16              351 
  GPR126 MUTATED GPR126 WILD-TYPE 
              16              351 
[1] "DDX17 MUTATION ANALYSIS"
[1] 3
  DDX17 MUTATED DDX17 WILD-TYPE 
              8             359 
  DDX17 MUTATED DDX17 WILD-TYPE 
              8             359 
[1] "TOP2A MUTATION ANALYSIS"
[1] 3
  TOP2A MUTATED TOP2A WILD-TYPE 
             17             350 
  TOP2A MUTATED TOP2A WILD-TYPE 
             17             350 
[1] "CACNG3 MUTATION ANALYSIS"
[1] 3
  CACNG3 MUTATED CACNG3 WILD-TYPE 
               8              359 
  CACNG3 MUTATED CACNG3 WILD-TYPE 
               8              359 
[1] "CBX3 MUTATION ANALYSIS"
[1] 3
  CBX3 MUTATED CBX3 WILD-TYPE 
             6            361 
  CBX3 MUTATED CBX3 WILD-TYPE 
             6            361 
[1] "DLL3 MUTATION ANALYSIS"
[1] 3
  DLL3 MUTATED DLL3 WILD-TYPE 
             6            361 
  DLL3 MUTATED DLL3 WILD-TYPE 
             6            361 
[1] "KIFAP3 MUTATION ANALYSIS"
[1] 3
  KIFAP3 MUTATED KIFAP3 WILD-TYPE 
               9              358 
  KIFAP3 MUTATED KIFAP3 WILD-TYPE 
               9              358 
[1] "CRYGA MUTATION ANALYSIS"
[1] 3
  CRYGA MUTATED CRYGA WILD-TYPE 
              5             362 
  CRYGA MUTATED CRYGA WILD-TYPE 
              5             362 
[1] "MCF2 MUTATION ANALYSIS"
[1] 3
  MCF2 MUTATED MCF2 WILD-TYPE 
            28            339 
  MCF2 MUTATED MCF2 WILD-TYPE 
            28            339 
[1] "USP16 MUTATION ANALYSIS"
[1] 3
  USP16 MUTATED USP16 WILD-TYPE 
              8             359 
  USP16 MUTATED USP16 WILD-TYPE 
              8             359 
[1] "ASPM MUTATION ANALYSIS"
[1] 3
  ASPM MUTATED ASPM WILD-TYPE 
            42            325 
  ASPM MUTATED ASPM WILD-TYPE 
            42            325 
[1] "MACC1 MUTATION ANALYSIS"
[1] 3
  MACC1 MUTATED MACC1 WILD-TYPE 
             18             349 
  MACC1 MUTATED MACC1 WILD-TYPE 
             18             349 
[1] "YLPM1 MUTATION ANALYSIS"
[1] 3
  YLPM1 MUTATED YLPM1 WILD-TYPE 
             22             345 
  YLPM1 MUTATED YLPM1 WILD-TYPE 
             22             345 
[1] "MIA3 MUTATION ANALYSIS"
[1] 3
  MIA3 MUTATED MIA3 WILD-TYPE 
            19            348 
  MIA3 MUTATED MIA3 WILD-TYPE 
            19            348 
[1] "SLC7A6 MUTATION ANALYSIS"
[1] 3
  SLC7A6 MUTATED SLC7A6 WILD-TYPE 
               6              361 
  SLC7A6 MUTATED SLC7A6 WILD-TYPE 
               6              361 
[1] "TGFBR2 MUTATION ANALYSIS"
[1] 3
  TGFBR2 MUTATED TGFBR2 WILD-TYPE 
              21              346 
  TGFBR2 MUTATED TGFBR2 WILD-TYPE 
              21              346 
[1] "RAB42 MUTATION ANALYSIS"
[1] 3
  RAB42 MUTATED RAB42 WILD-TYPE 
              4             363 
  RAB42 MUTATED RAB42 WILD-TYPE 
              4             363 
[1] "PIK3C3 MUTATION ANALYSIS"
[1] 3
  PIK3C3 MUTATED PIK3C3 WILD-TYPE 
              23              344 
  PIK3C3 MUTATED PIK3C3 WILD-TYPE 
              23              344 
[1] "FAM189B MUTATION ANALYSIS"
[1] 3
  FAM189B MUTATED FAM189B WILD-TYPE 
               11               356 
  FAM189B MUTATED FAM189B WILD-TYPE 
               11               356 
[1] "SLC24A2 MUTATION ANALYSIS"
[1] 3
  SLC24A2 MUTATED SLC24A2 WILD-TYPE 
               17               350 
  SLC24A2 MUTATED SLC24A2 WILD-TYPE 
               17               350 
[1] "YES1 MUTATION ANALYSIS"
[1] 3
  YES1 MUTATED YES1 WILD-TYPE 
             9            358 
  YES1 MUTATED YES1 WILD-TYPE 
             9            358 
[1] "KIAA0649 MUTATION ANALYSIS"
[1] 3
  KIAA0649 MUTATED KIAA0649 WILD-TYPE 
                10                357 
  KIAA0649 MUTATED KIAA0649 WILD-TYPE 
                10                357 
[1] "TCEAL5 MUTATION ANALYSIS"
[1] 3
  TCEAL5 MUTATED TCEAL5 WILD-TYPE 
               5              362 
  TCEAL5 MUTATED TCEAL5 WILD-TYPE 
               5              362 
[1] "PIK3R4 MUTATION ANALYSIS"
[1] 3
  PIK3R4 MUTATED PIK3R4 WILD-TYPE 
              16              351 
  PIK3R4 MUTATED PIK3R4 WILD-TYPE 
              16              351 
[1] "MTF1 MUTATION ANALYSIS"
[1] 3
  MTF1 MUTATED MTF1 WILD-TYPE 
             9            358 
  MTF1 MUTATED MTF1 WILD-TYPE 
             9            358 
[1] "GAPVD1 MUTATION ANALYSIS"
[1] 3
  GAPVD1 MUTATED GAPVD1 WILD-TYPE 
              22              345 
  GAPVD1 MUTATED GAPVD1 WILD-TYPE 
              22              345 
[1] "CCDC3 MUTATION ANALYSIS"
[1] 3
  CCDC3 MUTATED CCDC3 WILD-TYPE 
              4             363 
  CCDC3 MUTATED CCDC3 WILD-TYPE 
              4             363 
[1] "SERPINA9 MUTATION ANALYSIS"
[1] 3
  SERPINA9 MUTATED SERPINA9 WILD-TYPE 
                10                357 
  SERPINA9 MUTATED SERPINA9 WILD-TYPE 
                10                357 
[1] "ZC3H12C MUTATION ANALYSIS"
[1] 3
  ZC3H12C MUTATED ZC3H12C WILD-TYPE 
               12               355 
  ZC3H12C MUTATED ZC3H12C WILD-TYPE 
               12               355 
[1] "PRRT2 MUTATION ANALYSIS"
[1] 3
  PRRT2 MUTATED PRRT2 WILD-TYPE 
              6             361 
  PRRT2 MUTATED PRRT2 WILD-TYPE 
              6             361 
[1] "H2AFJ MUTATION ANALYSIS"
[1] 3
  H2AFJ MUTATED H2AFJ WILD-TYPE 
              3             364 
  H2AFJ MUTATED H2AFJ WILD-TYPE 
              3             364 
[1] "SLC25A44 MUTATION ANALYSIS"
[1] 3
  SLC25A44 MUTATED SLC25A44 WILD-TYPE 
                 5                362 
  SLC25A44 MUTATED SLC25A44 WILD-TYPE 
                 5                362 
[1] "CHD1 MUTATION ANALYSIS"
[1] 3
  CHD1 MUTATED CHD1 WILD-TYPE 
            23            344 
  CHD1 MUTATED CHD1 WILD-TYPE 
            23            344 
[1] "ZBTB33 MUTATION ANALYSIS"
[1] 3
  ZBTB33 MUTATED ZBTB33 WILD-TYPE 
              16              351 
  ZBTB33 MUTATED ZBTB33 WILD-TYPE 
              16              351 
[1] "ZNF691 MUTATION ANALYSIS"
[1] 3
  ZNF691 MUTATED ZNF691 WILD-TYPE 
               7              360 
  ZNF691 MUTATED ZNF691 WILD-TYPE 
               7              360 
[1] "EFTUD2 MUTATION ANALYSIS"
[1] 3
  EFTUD2 MUTATED EFTUD2 WILD-TYPE 
              14              353 
  EFTUD2 MUTATED EFTUD2 WILD-TYPE 
              14              353 
[1] "METTL9 MUTATION ANALYSIS"
[1] 3
  METTL9 MUTATED METTL9 WILD-TYPE 
               4              363 
  METTL9 MUTATED METTL9 WILD-TYPE 
               4              363 
[1] "CEL MUTATION ANALYSIS"
[1] 3
  CEL MUTATED CEL WILD-TYPE 
            9           358 
  CEL MUTATED CEL WILD-TYPE 
            9           358 
[1] "OR10J1 MUTATION ANALYSIS"
[1] 3
  OR10J1 MUTATED OR10J1 WILD-TYPE 
              13              354 
  OR10J1 MUTATED OR10J1 WILD-TYPE 
              13              354 
[1] "PRKCD MUTATION ANALYSIS"
[1] 3
  PRKCD MUTATED PRKCD WILD-TYPE 
             13             354 
  PRKCD MUTATED PRKCD WILD-TYPE 
             13             354 
[1] "SMC1B MUTATION ANALYSIS"
[1] 3
  SMC1B MUTATED SMC1B WILD-TYPE 
             19             348 
  SMC1B MUTATED SMC1B WILD-TYPE 
             19             348 
[1] "AP1M1 MUTATION ANALYSIS"
[1] 3
  AP1M1 MUTATED AP1M1 WILD-TYPE 
              9             358 
  AP1M1 MUTATED AP1M1 WILD-TYPE 
              9             358 
[1] "CCDC55 MUTATION ANALYSIS"
[1] 3
  CCDC55 MUTATED CCDC55 WILD-TYPE 
              13              354 
  CCDC55 MUTATED CCDC55 WILD-TYPE 
              13              354 
[1] "MOV10 MUTATION ANALYSIS"
[1] 3
  MOV10 MUTATED MOV10 WILD-TYPE 
             13             354 
  MOV10 MUTATED MOV10 WILD-TYPE 
             13             354 
[1] "GRINA MUTATION ANALYSIS"
[1] 3
  GRINA MUTATED GRINA WILD-TYPE 
              4             363 
  GRINA MUTATED GRINA WILD-TYPE 
              4             363 
[1] "CAPRIN1 MUTATION ANALYSIS"
[1] 3
  CAPRIN1 MUTATED CAPRIN1 WILD-TYPE 
               11               356 
  CAPRIN1 MUTATED CAPRIN1 WILD-TYPE 
               11               356 
[1] "OR7C1 MUTATION ANALYSIS"
[1] 3
  OR7C1 MUTATED OR7C1 WILD-TYPE 
              9             358 
  OR7C1 MUTATED OR7C1 WILD-TYPE 
              9             358 
[1] "CBLL1 MUTATION ANALYSIS"
[1] 3
  CBLL1 MUTATED CBLL1 WILD-TYPE 
              5             362 
  CBLL1 MUTATED CBLL1 WILD-TYPE 
              5             362 
[1] "SNAPC1 MUTATION ANALYSIS"
[1] 3
  SNAPC1 MUTATED SNAPC1 WILD-TYPE 
               7              360 
  SNAPC1 MUTATED SNAPC1 WILD-TYPE 
               7              360 
[1] "CETN3 MUTATION ANALYSIS"
[1] 3
  CETN3 MUTATED CETN3 WILD-TYPE 
              6             361 
  CETN3 MUTATED CETN3 WILD-TYPE 
              6             361 
[1] "CXXC5 MUTATION ANALYSIS"
[1] 3
  CXXC5 MUTATED CXXC5 WILD-TYPE 
              6             361 
  CXXC5 MUTATED CXXC5 WILD-TYPE 
              6             361 
[1] "GMNN MUTATION ANALYSIS"
[1] 3
  GMNN MUTATED GMNN WILD-TYPE 
             3            364 
  GMNN MUTATED GMNN WILD-TYPE 
             3            364 
[1] "POLD3 MUTATION ANALYSIS"
[1] 3
  POLD3 MUTATED POLD3 WILD-TYPE 
             11             356 
  POLD3 MUTATED POLD3 WILD-TYPE 
             11             356 
[1] "FAM155B MUTATION ANALYSIS"
[1] 3
  FAM155B MUTATED FAM155B WILD-TYPE 
                8               359 
  FAM155B MUTATED FAM155B WILD-TYPE 
                8               359 
[1] "CTTN MUTATION ANALYSIS"
[1] 3
  CTTN MUTATED CTTN WILD-TYPE 
             4            363 
  CTTN MUTATED CTTN WILD-TYPE 
             4            363 
[1] "PIGC MUTATION ANALYSIS"
[1] 3
  PIGC MUTATED PIGC WILD-TYPE 
             4            363 
  PIGC MUTATED PIGC WILD-TYPE 
             4            363 
[1] "CSGALNACT1 MUTATION ANALYSIS"
[1] 3
  CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE 
                   8                  359 
  CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE 
                   8                  359 
[1] "CACHD1 MUTATION ANALYSIS"
[1] 3
  CACHD1 MUTATED CACHD1 WILD-TYPE 
              21              346 
  CACHD1 MUTATED CACHD1 WILD-TYPE 
              21              346 
[1] "DBN1 MUTATION ANALYSIS"
[1] 3
  DBN1 MUTATED DBN1 WILD-TYPE 
             9            358 
  DBN1 MUTATED DBN1 WILD-TYPE 
             9            358 
[1] "CRTC1 MUTATION ANALYSIS"
[1] 3
  CRTC1 MUTATED CRTC1 WILD-TYPE 
             13             354 
  CRTC1 MUTATED CRTC1 WILD-TYPE 
             13             354 
[1] "RRAGD MUTATION ANALYSIS"
[1] 3
  RRAGD MUTATED RRAGD WILD-TYPE 
              7             360 
  RRAGD MUTATED RRAGD WILD-TYPE 
              7             360 
[1] "CTNNA3 MUTATION ANALYSIS"
[1] 3
  CTNNA3 MUTATED CTNNA3 WILD-TYPE 
              26              341 
  CTNNA3 MUTATED CTNNA3 WILD-TYPE 
              26              341 
[1] "EML4 MUTATION ANALYSIS"
[1] 3
  EML4 MUTATED EML4 WILD-TYPE 
            10            357 
  EML4 MUTATED EML4 WILD-TYPE 
            10            357 
[1] "PLA2G15 MUTATION ANALYSIS"
[1] 3
  PLA2G15 MUTATED PLA2G15 WILD-TYPE 
                5               362 
  PLA2G15 MUTATED PLA2G15 WILD-TYPE 
                5               362 
[1] "USP29 MUTATION ANALYSIS"
[1] 3
  USP29 MUTATED USP29 WILD-TYPE 
             18             349 
  USP29 MUTATED USP29 WILD-TYPE 
             18             349 
[1] "BAIAP2L1 MUTATION ANALYSIS"
[1] 3
  BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE 
                12                355 
  BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE 
                12                355 
[1] "ZNF799 MUTATION ANALYSIS"
[1] 3
  ZNF799 MUTATED ZNF799 WILD-TYPE 
               6              361 
  ZNF799 MUTATED ZNF799 WILD-TYPE 
               6              361 
[1] "ATIC MUTATION ANALYSIS"
[1] 3
  ATIC MUTATED ATIC WILD-TYPE 
            13            354 
  ATIC MUTATED ATIC WILD-TYPE 
            13            354 
[1] "CPZ MUTATION ANALYSIS"
[1] 3
  CPZ MUTATED CPZ WILD-TYPE 
           15           352 
  CPZ MUTATED CPZ WILD-TYPE 
           15           352 
[1] "GRIA4 MUTATION ANALYSIS"
[1] 3
  GRIA4 MUTATED GRIA4 WILD-TYPE 
             30             337 
  GRIA4 MUTATED GRIA4 WILD-TYPE 
             30             337 
[1] "NDUFAF1 MUTATION ANALYSIS"
[1] 3
  NDUFAF1 MUTATED NDUFAF1 WILD-TYPE 
                7               360 
  NDUFAF1 MUTATED NDUFAF1 WILD-TYPE 
                7               360 
[1] "SKIL MUTATION ANALYSIS"
[1] 3
  SKIL MUTATED SKIL WILD-TYPE 
             7            360 
  SKIL MUTATED SKIL WILD-TYPE 
             7            360 
[1] "ATP10B MUTATION ANALYSIS"
[1] 3
  ATP10B MUTATED ATP10B WILD-TYPE 
              15              352 
  ATP10B MUTATED ATP10B WILD-TYPE 
              15              352 
[1] "NUP205 MUTATION ANALYSIS"
[1] 3
  NUP205 MUTATED NUP205 WILD-TYPE 
              24              343 
  NUP205 MUTATED NUP205 WILD-TYPE 
              24              343 
[1] "ALK MUTATION ANALYSIS"
[1] 3
  ALK MUTATED ALK WILD-TYPE 
           35           332 
  ALK MUTATED ALK WILD-TYPE 
           35           332 
[1] "GRB14 MUTATION ANALYSIS"
[1] 3
  GRB14 MUTATED GRB14 WILD-TYPE 
              9             358 
  GRB14 MUTATED GRB14 WILD-TYPE 
              9             358 
[1] "NSUN6 MUTATION ANALYSIS"
[1] 3
  NSUN6 MUTATED NSUN6 WILD-TYPE 
              8             359 
  NSUN6 MUTATED NSUN6 WILD-TYPE 
              8             359 
[1] "SAMD9L MUTATION ANALYSIS"
[1] 3
  SAMD9L MUTATED SAMD9L WILD-TYPE 
              22              345 
  SAMD9L MUTATED SAMD9L WILD-TYPE 
              22              345 
[1] "PPP2R5E MUTATION ANALYSIS"
[1] 3
  PPP2R5E MUTATED PPP2R5E WILD-TYPE 
                8               359 
  PPP2R5E MUTATED PPP2R5E WILD-TYPE 
                8               359 
[1] "LUM MUTATION ANALYSIS"
[1] 3
  LUM MUTATED LUM WILD-TYPE 
           12           355 
  LUM MUTATED LUM WILD-TYPE 
           12           355 
[1] "MTTP MUTATION ANALYSIS"
[1] 3
  MTTP MUTATED MTTP WILD-TYPE 
            23            344 
  MTTP MUTATED MTTP WILD-TYPE 
            23            344 
[1] "GAD2 MUTATION ANALYSIS"
[1] 3
  GAD2 MUTATED GAD2 WILD-TYPE 
            16            351 
  GAD2 MUTATED GAD2 WILD-TYPE 
            16            351 
[1] "UBR2 MUTATION ANALYSIS"
[1] 3
  UBR2 MUTATED UBR2 WILD-TYPE 
            15            352 
  UBR2 MUTATED UBR2 WILD-TYPE 
            15            352 
[1] "SMC2 MUTATION ANALYSIS"
[1] 3
  SMC2 MUTATED SMC2 WILD-TYPE 
            25            342 
  SMC2 MUTATED SMC2 WILD-TYPE 
            25            342 
[1] "PSD3 MUTATION ANALYSIS"
[1] 3
  PSD3 MUTATED PSD3 WILD-TYPE 
            10            357 
  PSD3 MUTATED PSD3 WILD-TYPE 
            10            357 
[1] "PANK1 MUTATION ANALYSIS"
[1] 3
  PANK1 MUTATED PANK1 WILD-TYPE 
              7             360 
  PANK1 MUTATED PANK1 WILD-TYPE 
              7             360 
[1] "C4ORF49 MUTATION ANALYSIS"
[1] 3
  C4ORF49 MUTATED C4ORF49 WILD-TYPE 
                5               362 
  C4ORF49 MUTATED C4ORF49 WILD-TYPE 
                5               362 
[1] "ADM MUTATION ANALYSIS"
[1] 3
  ADM MUTATED ADM WILD-TYPE 
            6           361 
  ADM MUTATED ADM WILD-TYPE 
            6           361 
[1] "DCAF12L2 MUTATION ANALYSIS"
[1] 3
  DCAF12L2 MUTATED DCAF12L2 WILD-TYPE 
                17                350 
  DCAF12L2 MUTATED DCAF12L2 WILD-TYPE 
                17                350 
[1] "DIAPH2 MUTATION ANALYSIS"
[1] 3
  DIAPH2 MUTATED DIAPH2 WILD-TYPE 
              21              346 
  DIAPH2 MUTATED DIAPH2 WILD-TYPE 
              21              346 
[1] "FBXO34 MUTATION ANALYSIS"
[1] 3
  FBXO34 MUTATED FBXO34 WILD-TYPE 
               9              358 
  FBXO34 MUTATED FBXO34 WILD-TYPE 
               9              358 
[1] "SCN4A MUTATION ANALYSIS"
[1] 3
  SCN4A MUTATED SCN4A WILD-TYPE 
             23             344 
  SCN4A MUTATED SCN4A WILD-TYPE 
             23             344 
[1] "SATB1 MUTATION ANALYSIS"
[1] 3
  SATB1 MUTATED SATB1 WILD-TYPE 
             16             351 
  SATB1 MUTATED SATB1 WILD-TYPE 
             16             351 
[1] "ZNF334 MUTATION ANALYSIS"
[1] 3
  ZNF334 MUTATED ZNF334 WILD-TYPE 
              19              348 
  ZNF334 MUTATED ZNF334 WILD-TYPE 
              19              348 
[1] "NCAPD3 MUTATION ANALYSIS"
[1] 3
  NCAPD3 MUTATED NCAPD3 WILD-TYPE 
              25              342 
  NCAPD3 MUTATED NCAPD3 WILD-TYPE 
              25              342 
[1] "KLF5 MUTATION ANALYSIS"
[1] 3
  KLF5 MUTATED KLF5 WILD-TYPE 
            11            356 
  KLF5 MUTATED KLF5 WILD-TYPE 
            11            356 
[1] "DSC2 MUTATION ANALYSIS"
[1] 3
  DSC2 MUTATED DSC2 WILD-TYPE 
            14            353 
  DSC2 MUTATED DSC2 WILD-TYPE 
            14            353 
[1] "NUPL2 MUTATION ANALYSIS"
[1] 3
  NUPL2 MUTATED NUPL2 WILD-TYPE 
             11             356 
  NUPL2 MUTATED NUPL2 WILD-TYPE 
             11             356 
[1] "ZSWIM3 MUTATION ANALYSIS"
[1] 3
  ZSWIM3 MUTATED ZSWIM3 WILD-TYPE 
              12              355 
  ZSWIM3 MUTATED ZSWIM3 WILD-TYPE 
              12              355 
[1] "C5ORF34 MUTATION ANALYSIS"
[1] 3
  C5ORF34 MUTATED C5ORF34 WILD-TYPE 
               10               357 
  C5ORF34 MUTATED C5ORF34 WILD-TYPE 
               10               357 
[1] "YSK4 MUTATION ANALYSIS"
[1] 3
  YSK4 MUTATED YSK4 WILD-TYPE 
            26            341 
  YSK4 MUTATED YSK4 WILD-TYPE 
            26            341 
[1] "CBLN3 MUTATION ANALYSIS"
[1] 3
  CBLN3 MUTATED CBLN3 WILD-TYPE 
              6             361 
  CBLN3 MUTATED CBLN3 WILD-TYPE 
              6             361 
[1] "GGA2 MUTATION ANALYSIS"
[1] 3
  GGA2 MUTATED GGA2 WILD-TYPE 
            12            355 
  GGA2 MUTATED GGA2 WILD-TYPE 
            12            355 
[1] "ING1 MUTATION ANALYSIS"
[1] 3
  ING1 MUTATED ING1 WILD-TYPE 
            10            357 
  ING1 MUTATED ING1 WILD-TYPE 
            10            357 
[1] "LYG1 MUTATION ANALYSIS"
[1] 3
  LYG1 MUTATED LYG1 WILD-TYPE 
             6            361 
  LYG1 MUTATED LYG1 WILD-TYPE 
             6            361 
[1] "PRPF4B MUTATION ANALYSIS"
[1] 3
  PRPF4B MUTATED PRPF4B WILD-TYPE 
              15              352 
  PRPF4B MUTATED PRPF4B WILD-TYPE 
              15              352 
[1] "TDRD7 MUTATION ANALYSIS"
[1] 3
  TDRD7 MUTATED TDRD7 WILD-TYPE 
             15             352 
  TDRD7 MUTATED TDRD7 WILD-TYPE 
             15             352 
[1] "ADAMTS19 MUTATION ANALYSIS"
[1] 3
  ADAMTS19 MUTATED ADAMTS19 WILD-TYPE 
                19                348 
  ADAMTS19 MUTATED ADAMTS19 WILD-TYPE 
                19                348 
[1] "MALT1 MUTATION ANALYSIS"
[1] 3
  MALT1 MUTATED MALT1 WILD-TYPE 
             11             356 
  MALT1 MUTATED MALT1 WILD-TYPE 
             11             356 
[1] "JMJD6 MUTATION ANALYSIS"
[1] 3
  JMJD6 MUTATED JMJD6 WILD-TYPE 
              8             359 
  JMJD6 MUTATED JMJD6 WILD-TYPE 
              8             359 
[1] "THUMPD3 MUTATION ANALYSIS"
[1] 3
  THUMPD3 MUTATED THUMPD3 WILD-TYPE 
               11               356 
  THUMPD3 MUTATED THUMPD3 WILD-TYPE 
               11               356 
[1] "STAU2 MUTATION ANALYSIS"
[1] 3
  STAU2 MUTATED STAU2 WILD-TYPE 
             10             357 
  STAU2 MUTATED STAU2 WILD-TYPE 
             10             357 
[1] "KIAA1797 MUTATION ANALYSIS"
[1] 3
  KIAA1797 MUTATED KIAA1797 WILD-TYPE 
                20                347 
  KIAA1797 MUTATED KIAA1797 WILD-TYPE 
                20                347 
[1] "MKI67 MUTATION ANALYSIS"
[1] 3
  MKI67 MUTATED MKI67 WILD-TYPE 
             36             331 
  MKI67 MUTATED MKI67 WILD-TYPE 
             36             331 
[1] "HAUS6 MUTATION ANALYSIS"
[1] 3
  HAUS6 MUTATED HAUS6 WILD-TYPE 
             12             355 
  HAUS6 MUTATED HAUS6 WILD-TYPE 
             12             355 
[1] "DNAH6 MUTATION ANALYSIS"
[1] 3
  DNAH6 MUTATED DNAH6 WILD-TYPE 
             20             347 
  DNAH6 MUTATED DNAH6 WILD-TYPE 
             20             347 
[1] "TRYX3 MUTATION ANALYSIS"
[1] 3
  TRYX3 MUTATED TRYX3 WILD-TYPE 
              6             361 
  TRYX3 MUTATED TRYX3 WILD-TYPE 
              6             361 
[1] "PER3 MUTATION ANALYSIS"
[1] 3
  PER3 MUTATED PER3 WILD-TYPE 
            17            350 
  PER3 MUTATED PER3 WILD-TYPE 
            17            350 
[1] "ZNF443 MUTATION ANALYSIS"
[1] 3
  ZNF443 MUTATED ZNF443 WILD-TYPE 
               8              359 
  ZNF443 MUTATED ZNF443 WILD-TYPE 
               8              359 
[1] "ACAT2 MUTATION ANALYSIS"
[1] 3
  ACAT2 MUTATED ACAT2 WILD-TYPE 
              8             359 
  ACAT2 MUTATED ACAT2 WILD-TYPE 
              8             359 
[1] "TRIM46 MUTATION ANALYSIS"
[1] 3
  TRIM46 MUTATED TRIM46 WILD-TYPE 
              15              352 
  TRIM46 MUTATED TRIM46 WILD-TYPE 
              15              352 
[1] "C16ORF45 MUTATION ANALYSIS"
[1] 3
  C16ORF45 MUTATED C16ORF45 WILD-TYPE 
                 5                362 
  C16ORF45 MUTATED C16ORF45 WILD-TYPE 
                 5                362 
[1] "APBB1IP MUTATION ANALYSIS"
[1] 3
  APBB1IP MUTATED APBB1IP WILD-TYPE 
               18               349 
  APBB1IP MUTATED APBB1IP WILD-TYPE 
               18               349 
[1] "HSD17B11 MUTATION ANALYSIS"
[1] 3
  HSD17B11 MUTATED HSD17B11 WILD-TYPE 
                 4                363 
  HSD17B11 MUTATED HSD17B11 WILD-TYPE 
                 4                363 
[1] "DPCR1 MUTATION ANALYSIS"
[1] 3
  DPCR1 MUTATED DPCR1 WILD-TYPE 
             12             355 
  DPCR1 MUTATED DPCR1 WILD-TYPE 
             12             355 
[1] "DCLRE1A MUTATION ANALYSIS"
[1] 3
  DCLRE1A MUTATED DCLRE1A WILD-TYPE 
               10               357 
  DCLRE1A MUTATED DCLRE1A WILD-TYPE 
               10               357 
[1] "C7ORF50 MUTATION ANALYSIS"
[1] 3
  C7ORF50 MUTATED C7ORF50 WILD-TYPE 
                5               362 
  C7ORF50 MUTATED C7ORF50 WILD-TYPE 
                5               362 
[1] "WDR5 MUTATION ANALYSIS"
[1] 3
  WDR5 MUTATED WDR5 WILD-TYPE 
             6            361 
  WDR5 MUTATED WDR5 WILD-TYPE 
             6            361 
[1] "MAGI1 MUTATION ANALYSIS"
[1] 3
  MAGI1 MUTATED MAGI1 WILD-TYPE 
             23             344 
  MAGI1 MUTATED MAGI1 WILD-TYPE 
             23             344 
[1] "PARG MUTATION ANALYSIS"
[1] 3
  PARG MUTATED PARG WILD-TYPE 
            11            356 
  PARG MUTATED PARG WILD-TYPE 
            11            356 
[1] "VPS52 MUTATION ANALYSIS"
[1] 3
  VPS52 MUTATED VPS52 WILD-TYPE 
             11             356 
  VPS52 MUTATED VPS52 WILD-TYPE 
             11             356 
[1] "RRM2B MUTATION ANALYSIS"
[1] 3
  RRM2B MUTATED RRM2B WILD-TYPE 
              5             362 
  RRM2B MUTATED RRM2B WILD-TYPE 
              5             362 
[1] "OR4C15 MUTATION ANALYSIS"
[1] 3
  OR4C15 MUTATED OR4C15 WILD-TYPE 
              13              354 
  OR4C15 MUTATED OR4C15 WILD-TYPE 
              13              354 
[1] "MANBA MUTATION ANALYSIS"
[1] 3
  MANBA MUTATED MANBA WILD-TYPE 
             12             355 
  MANBA MUTATED MANBA WILD-TYPE 
             12             355 
[1] "IKBKB MUTATION ANALYSIS"
[1] 3
  IKBKB MUTATED IKBKB WILD-TYPE 
              7             360 
  IKBKB MUTATED IKBKB WILD-TYPE 
              7             360 
[1] "PIK3C2G MUTATION ANALYSIS"
[1] 3
  PIK3C2G MUTATED PIK3C2G WILD-TYPE 
               20               347 
  PIK3C2G MUTATED PIK3C2G WILD-TYPE 
               20               347 
[1] "RTN4 MUTATION ANALYSIS"
[1] 3
  RTN4 MUTATED RTN4 WILD-TYPE 
            19            348 
  RTN4 MUTATED RTN4 WILD-TYPE 
            19            348 
[1] "C7ORF58 MUTATION ANALYSIS"
[1] 3
  C7ORF58 MUTATED C7ORF58 WILD-TYPE 
               21               346 
  C7ORF58 MUTATED C7ORF58 WILD-TYPE 
               21               346 
[1] "WDR75 MUTATION ANALYSIS"
[1] 3
  WDR75 MUTATED WDR75 WILD-TYPE 
              8             359 
  WDR75 MUTATED WDR75 WILD-TYPE 
              8             359 
[1] "FAM20B MUTATION ANALYSIS"
[1] 3
  FAM20B MUTATED FAM20B WILD-TYPE 
              10              357 
  FAM20B MUTATED FAM20B WILD-TYPE 
              10              357 
[1] "CEP164 MUTATION ANALYSIS"
[1] 3
  CEP164 MUTATED CEP164 WILD-TYPE 
              23              344 
  CEP164 MUTATED CEP164 WILD-TYPE 
              23              344 
[1] "SF1 MUTATION ANALYSIS"
[1] 3
  SF1 MUTATED SF1 WILD-TYPE 
           14           353 
  SF1 MUTATED SF1 WILD-TYPE 
           14           353 
[1] "KIF16B MUTATION ANALYSIS"
[1] 3
  KIF16B MUTATED KIF16B WILD-TYPE 
              26              341 
  KIF16B MUTATED KIF16B WILD-TYPE 
              26              341 
[1] "COL6A5 MUTATION ANALYSIS"
[1] 3
  COL6A5 MUTATED COL6A5 WILD-TYPE 
              33              334 
  COL6A5 MUTATED COL6A5 WILD-TYPE 
              33              334 
[1] "CYP2C18 MUTATION ANALYSIS"
[1] 3
  CYP2C18 MUTATED CYP2C18 WILD-TYPE 
                5               362 
  CYP2C18 MUTATED CYP2C18 WILD-TYPE 
                5               362 
[1] "ITGA5 MUTATION ANALYSIS"
[1] 3
  ITGA5 MUTATED ITGA5 WILD-TYPE 
             16             351 
  ITGA5 MUTATED ITGA5 WILD-TYPE 
             16             351 
[1] "KRTAP5-3 MUTATION ANALYSIS"
[1] 3
  KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE 
                 4                363 
  KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE 
                 4                363 
[1] "NOL9 MUTATION ANALYSIS"
[1] 3
  NOL9 MUTATED NOL9 WILD-TYPE 
             7            360 
  NOL9 MUTATED NOL9 WILD-TYPE 
             7            360 
[1] "RAPGEF6 MUTATION ANALYSIS"
[1] 3
  RAPGEF6 MUTATED RAPGEF6 WILD-TYPE 
               17               350 
  RAPGEF6 MUTATED RAPGEF6 WILD-TYPE 
               17               350 
[1] "ERCC3 MUTATION ANALYSIS"
[1] 3
  ERCC3 MUTATED ERCC3 WILD-TYPE 
             19             348 
  ERCC3 MUTATED ERCC3 WILD-TYPE 
             19             348 
[1] "GABPA MUTATION ANALYSIS"
[1] 3
  GABPA MUTATED GABPA WILD-TYPE 
             11             356 
  GABPA MUTATED GABPA WILD-TYPE 
             11             356 
[1] "NXF3 MUTATION ANALYSIS"
[1] 3
  NXF3 MUTATED NXF3 WILD-TYPE 
            10            357 
  NXF3 MUTATED NXF3 WILD-TYPE 
            10            357 
[1] "LRIG2 MUTATION ANALYSIS"
[1] 3
  LRIG2 MUTATED LRIG2 WILD-TYPE 
              9             358 
  LRIG2 MUTATED LRIG2 WILD-TYPE 
              9             358 
[1] "BRSK1 MUTATION ANALYSIS"
[1] 3
  BRSK1 MUTATED BRSK1 WILD-TYPE 
             17             350 
  BRSK1 MUTATED BRSK1 WILD-TYPE 
             17             350 
[1] "E2F5 MUTATION ANALYSIS"
[1] 3
  E2F5 MUTATED E2F5 WILD-TYPE 
             7            360 
  E2F5 MUTATED E2F5 WILD-TYPE 
             7            360 
[1] "SEC31A MUTATION ANALYSIS"
[1] 3
  SEC31A MUTATED SEC31A WILD-TYPE 
              13              354 
  SEC31A MUTATED SEC31A WILD-TYPE 
              13              354 
[1] "CTSZ MUTATION ANALYSIS"
[1] 3
  CTSZ MUTATED CTSZ WILD-TYPE 
             6            361 
  CTSZ MUTATED CTSZ WILD-TYPE 
             6            361 
[1] "NUFIP1 MUTATION ANALYSIS"
[1] 3
  NUFIP1 MUTATED NUFIP1 WILD-TYPE 
               8              359 
  NUFIP1 MUTATED NUFIP1 WILD-TYPE 
               8              359 
[1] "OR5H15 MUTATION ANALYSIS"
[1] 3
  OR5H15 MUTATED OR5H15 WILD-TYPE 
               5              362 
  OR5H15 MUTATED OR5H15 WILD-TYPE 
               5              362 
[1] "TPR MUTATION ANALYSIS"
[1] 3
  TPR MUTATED TPR WILD-TYPE 
           24           343 
  TPR MUTATED TPR WILD-TYPE 
           24           343 
[1] "BAZ2B MUTATION ANALYSIS"
[1] 3
  BAZ2B MUTATED BAZ2B WILD-TYPE 
             15             352 
  BAZ2B MUTATED BAZ2B WILD-TYPE 
             15             352 
[1] "USP44 MUTATION ANALYSIS"
[1] 3
  USP44 MUTATED USP44 WILD-TYPE 
             16             351 
  USP44 MUTATED USP44 WILD-TYPE 
             16             351 
[1] "EIF4G2 MUTATION ANALYSIS"
[1] 3
  EIF4G2 MUTATED EIF4G2 WILD-TYPE 
              15              352 
  EIF4G2 MUTATED EIF4G2 WILD-TYPE 
              15              352 
[1] "EYS MUTATION ANALYSIS"
[1] 3
  EYS MUTATED EYS WILD-TYPE 
           38           329 
  EYS MUTATED EYS WILD-TYPE 
           38           329 
[1] "ST8SIA6 MUTATION ANALYSIS"
[1] 3
  ST8SIA6 MUTATED ST8SIA6 WILD-TYPE 
               10               357 
  ST8SIA6 MUTATED ST8SIA6 WILD-TYPE 
               10               357 
[1] "C6ORF222 MUTATION ANALYSIS"
[1] 3
  C6ORF222 MUTATED C6ORF222 WILD-TYPE 
                 6                361 
  C6ORF222 MUTATED C6ORF222 WILD-TYPE 
                 6                361 
[1] "TPK1 MUTATION ANALYSIS"
[1] 3
  TPK1 MUTATED TPK1 WILD-TYPE 
             5            362 
  TPK1 MUTATED TPK1 WILD-TYPE 
             5            362 
[1] "ZNF555 MUTATION ANALYSIS"
[1] 3
  ZNF555 MUTATED ZNF555 WILD-TYPE 
               8              359 
  ZNF555 MUTATED ZNF555 WILD-TYPE 
               8              359 
[1] "CASP1 MUTATION ANALYSIS"
[1] 3
  CASP1 MUTATED CASP1 WILD-TYPE 
              6             361 
  CASP1 MUTATED CASP1 WILD-TYPE 
              6             361 
[1] "IFNA2 MUTATION ANALYSIS"
[1] 3
  IFNA2 MUTATED IFNA2 WILD-TYPE 
              9             358 
  IFNA2 MUTATED IFNA2 WILD-TYPE 
              9             358 
[1] "IL1RL1 MUTATION ANALYSIS"
[1] 3
  IL1RL1 MUTATED IL1RL1 WILD-TYPE 
              14              353 
  IL1RL1 MUTATED IL1RL1 WILD-TYPE 
              14              353 
[1] "UGT1A1 MUTATION ANALYSIS"
[1] 3
  UGT1A1 MUTATED UGT1A1 WILD-TYPE 
              11              356 
  UGT1A1 MUTATED UGT1A1 WILD-TYPE 
              11              356 
[1] "PTPRR MUTATION ANALYSIS"
[1] 3
  PTPRR MUTATED PTPRR WILD-TYPE 
             10             357 
  PTPRR MUTATED PTPRR WILD-TYPE 
             10             357 
[1] "STK11 MUTATION ANALYSIS"
[1] 3
  STK11 MUTATED STK11 WILD-TYPE 
             31             336 
  STK11 MUTATED STK11 WILD-TYPE 
             31             336 
[1] "AGFG2 MUTATION ANALYSIS"
[1] 3
  AGFG2 MUTATED AGFG2 WILD-TYPE 
              9             358 
  AGFG2 MUTATED AGFG2 WILD-TYPE 
              9             358 
[1] "MFSD9 MUTATION ANALYSIS"
[1] 3
  MFSD9 MUTATED MFSD9 WILD-TYPE 
             12             355 
  MFSD9 MUTATED MFSD9 WILD-TYPE 
             12             355 
[1] "C7ORF66 MUTATION ANALYSIS"
[1] 3
  C7ORF66 MUTATED C7ORF66 WILD-TYPE 
                7               360 
  C7ORF66 MUTATED C7ORF66 WILD-TYPE 
                7               360 
[1] "MCART1 MUTATION ANALYSIS"
[1] 3
  MCART1 MUTATED MCART1 WILD-TYPE 
              12              355 
  MCART1 MUTATED MCART1 WILD-TYPE 
              12              355 
[1] "P2RX7 MUTATION ANALYSIS"
[1] 3
  P2RX7 MUTATED P2RX7 WILD-TYPE 
             12             355 
  P2RX7 MUTATED P2RX7 WILD-TYPE 
             12             355 
[1] "SSX2IP MUTATION ANALYSIS"
[1] 3
  SSX2IP MUTATED SSX2IP WILD-TYPE 
               8              359 
  SSX2IP MUTATED SSX2IP WILD-TYPE 
               8              359 
[1] "MRPS5 MUTATION ANALYSIS"
[1] 3
  MRPS5 MUTATED MRPS5 WILD-TYPE 
             11             356 
  MRPS5 MUTATED MRPS5 WILD-TYPE 
             11             356 
[1] "DUSP19 MUTATION ANALYSIS"
[1] 3
  DUSP19 MUTATED DUSP19 WILD-TYPE 
               9              358 
  DUSP19 MUTATED DUSP19 WILD-TYPE 
               9              358 
[1] "STK35 MUTATION ANALYSIS"
[1] 3
  STK35 MUTATED STK35 WILD-TYPE 
              6             361 
  STK35 MUTATED STK35 WILD-TYPE 
              6             361 
[1] "CCDC110 MUTATION ANALYSIS"
[1] 3
  CCDC110 MUTATED CCDC110 WILD-TYPE 
               13               354 
  CCDC110 MUTATED CCDC110 WILD-TYPE 
               13               354 
[1] "RC3H2 MUTATION ANALYSIS"
[1] 3
  RC3H2 MUTATED RC3H2 WILD-TYPE 
              9             358 
  RC3H2 MUTATED RC3H2 WILD-TYPE 
              9             358 
[1] "LEO1 MUTATION ANALYSIS"
[1] 3
  LEO1 MUTATED LEO1 WILD-TYPE 
            10            357 
  LEO1 MUTATED LEO1 WILD-TYPE 
            10            357 
[1] "ANKRD23 MUTATION ANALYSIS"
[1] 3
  ANKRD23 MUTATED ANKRD23 WILD-TYPE 
                4               363 
  ANKRD23 MUTATED ANKRD23 WILD-TYPE 
                4               363 
[1] "FBXL19 MUTATION ANALYSIS"
[1] 3
  FBXL19 MUTATED FBXL19 WILD-TYPE 
               7              360 
  FBXL19 MUTATED FBXL19 WILD-TYPE 
               7              360 
[1] "BFSP1 MUTATION ANALYSIS"
[1] 3
  BFSP1 MUTATED BFSP1 WILD-TYPE 
              8             359 
  BFSP1 MUTATED BFSP1 WILD-TYPE 
              8             359 
[1] "C18ORF19 MUTATION ANALYSIS"
[1] 3
  C18ORF19 MUTATED C18ORF19 WILD-TYPE 
                 8                359 
  C18ORF19 MUTATED C18ORF19 WILD-TYPE 
                 8                359 
[1] "RNF20 MUTATION ANALYSIS"
[1] 3
  RNF20 MUTATED RNF20 WILD-TYPE 
             18             349 
  RNF20 MUTATED RNF20 WILD-TYPE 
             18             349 
[1] "TRIM24 MUTATION ANALYSIS"
[1] 3
  TRIM24 MUTATED TRIM24 WILD-TYPE 
              17              350 
  TRIM24 MUTATED TRIM24 WILD-TYPE 
              17              350 
[1] "ODAM MUTATION ANALYSIS"
[1] 3
  ODAM MUTATED ODAM WILD-TYPE 
             5            362 
  ODAM MUTATED ODAM WILD-TYPE 
             5            362 
[1] "CDKL2 MUTATION ANALYSIS"
[1] 3
  CDKL2 MUTATED CDKL2 WILD-TYPE 
             11             356 
  CDKL2 MUTATED CDKL2 WILD-TYPE 
             11             356 
[1] "LRP2 MUTATION ANALYSIS"
[1] 3
  LRP2 MUTATED LRP2 WILD-TYPE 
            77            290 
  LRP2 MUTATED LRP2 WILD-TYPE 
            77            290 
[1] "KCNG4 MUTATION ANALYSIS"
[1] 3
  KCNG4 MUTATED KCNG4 WILD-TYPE 
             10             357 
  KCNG4 MUTATED KCNG4 WILD-TYPE 
             10             357 
[1] "PAK7 MUTATION ANALYSIS"
[1] 3
  PAK7 MUTATED PAK7 WILD-TYPE 
            20            347 
  PAK7 MUTATED PAK7 WILD-TYPE 
            20            347 
[1] "CHD7 MUTATION ANALYSIS"
[1] 3
  CHD7 MUTATED CHD7 WILD-TYPE 
            37            330 
  CHD7 MUTATED CHD7 WILD-TYPE 
            37            330 
[1] "ZNF585B MUTATION ANALYSIS"
[1] 3
  ZNF585B MUTATED ZNF585B WILD-TYPE 
                7               360 
  ZNF585B MUTATED ZNF585B WILD-TYPE 
                7               360 
[1] "NSUN2 MUTATION ANALYSIS"
[1] 3
  NSUN2 MUTATED NSUN2 WILD-TYPE 
             11             356 
  NSUN2 MUTATED NSUN2 WILD-TYPE 
             11             356 
[1] "CCNH MUTATION ANALYSIS"
[1] 3
  CCNH MUTATED CCNH WILD-TYPE 
             7            360 
  CCNH MUTATED CCNH WILD-TYPE 
             7            360 
[1] "IVD MUTATION ANALYSIS"
[1] 3
  IVD MUTATED IVD WILD-TYPE 
            5           362 
  IVD MUTATED IVD WILD-TYPE 
            5           362 
[1] "PSMA2 MUTATION ANALYSIS"
[1] 3
  PSMA2 MUTATED PSMA2 WILD-TYPE 
              6             361 
  PSMA2 MUTATED PSMA2 WILD-TYPE 
              6             361 
[1] "TUT1 MUTATION ANALYSIS"
[1] 3
  TUT1 MUTATED TUT1 WILD-TYPE 
             9            358 
  TUT1 MUTATED TUT1 WILD-TYPE 
             9            358 
[1] "AFF1 MUTATION ANALYSIS"
[1] 3
  AFF1 MUTATED AFF1 WILD-TYPE 
            12            355 
  AFF1 MUTATED AFF1 WILD-TYPE 
            12            355 
[1] "KRTAP10-11 MUTATION ANALYSIS"
[1] 3
  KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE 
                   5                  362 
  KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE 
                   5                  362 
[1] "CTCF MUTATION ANALYSIS"
[1] 3
  CTCF MUTATED CTCF WILD-TYPE 
            17            350 
  CTCF MUTATED CTCF WILD-TYPE 
            17            350 
[1] "STYK1 MUTATION ANALYSIS"
[1] 3
  STYK1 MUTATED STYK1 WILD-TYPE 
              7             360 
  STYK1 MUTATED STYK1 WILD-TYPE 
              7             360 
[1] "BCAP29 MUTATION ANALYSIS"
[1] 3
  BCAP29 MUTATED BCAP29 WILD-TYPE 
               7              360 
  BCAP29 MUTATED BCAP29 WILD-TYPE 
               7              360 
[1] "SERPINB7 MUTATION ANALYSIS"
[1] 3
  SERPINB7 MUTATED SERPINB7 WILD-TYPE 
                 8                359 
  SERPINB7 MUTATED SERPINB7 WILD-TYPE 
                 8                359 
[1] "SPAST MUTATION ANALYSIS"
[1] 3
  SPAST MUTATED SPAST WILD-TYPE 
              9             358 
  SPAST MUTATED SPAST WILD-TYPE 
              9             358 
[1] "NFKBIB MUTATION ANALYSIS"
[1] 3
  NFKBIB MUTATED NFKBIB WILD-TYPE 
               5              362 
  NFKBIB MUTATED NFKBIB WILD-TYPE 
               5              362 
[1] "ARID5A MUTATION ANALYSIS"
[1] 3
  ARID5A MUTATED ARID5A WILD-TYPE 
               8              359 
  ARID5A MUTATED ARID5A WILD-TYPE 
               8              359 
[1] "CSNK2A2 MUTATION ANALYSIS"
[1] 3
  CSNK2A2 MUTATED CSNK2A2 WILD-TYPE 
                7               360 
  CSNK2A2 MUTATED CSNK2A2 WILD-TYPE 
                7               360 
[1] "AK3L1 MUTATION ANALYSIS"
[1] 3
  AK3L1 MUTATED AK3L1 WILD-TYPE 
              3             364 
  AK3L1 MUTATED AK3L1 WILD-TYPE 
              3             364 
[1] "IFITM3 MUTATION ANALYSIS"
[1] 3
  IFITM3 MUTATED IFITM3 WILD-TYPE 
               6              361 
  IFITM3 MUTATED IFITM3 WILD-TYPE 
               6              361 
[1] "ACTN1 MUTATION ANALYSIS"
[1] 3
  ACTN1 MUTATED ACTN1 WILD-TYPE 
              9             358 
  ACTN1 MUTATED ACTN1 WILD-TYPE 
              9             358 
[1] "FAM193A MUTATION ANALYSIS"
[1] 3
  FAM193A MUTATED FAM193A WILD-TYPE 
               17               350 
  FAM193A MUTATED FAM193A WILD-TYPE 
               17               350 
[1] "TAF6 MUTATION ANALYSIS"
[1] 3
  TAF6 MUTATED TAF6 WILD-TYPE 
             9            358 
  TAF6 MUTATED TAF6 WILD-TYPE 
             9            358 
[1] "CYP4F11 MUTATION ANALYSIS"
[1] 3
  CYP4F11 MUTATED CYP4F11 WILD-TYPE 
                6               361 
  CYP4F11 MUTATED CYP4F11 WILD-TYPE 
                6               361 
[1] "MED13 MUTATION ANALYSIS"
[1] 3
  MED13 MUTATED MED13 WILD-TYPE 
             20             347 
  MED13 MUTATED MED13 WILD-TYPE 
             20             347 
[1] "DACT1 MUTATION ANALYSIS"
[1] 3
  DACT1 MUTATED DACT1 WILD-TYPE 
             15             352 
  DACT1 MUTATED DACT1 WILD-TYPE 
             15             352 
[1] "PTTG1IP MUTATION ANALYSIS"
[1] 3
  PTTG1IP MUTATED PTTG1IP WILD-TYPE 
                7               360 
  PTTG1IP MUTATED PTTG1IP WILD-TYPE 
                7               360 
[1] "ATP12A MUTATION ANALYSIS"
[1] 3
  ATP12A MUTATED ATP12A WILD-TYPE 
              26              341 
  ATP12A MUTATED ATP12A WILD-TYPE 
              26              341 
[1] "DHX32 MUTATION ANALYSIS"
[1] 3
  DHX32 MUTATED DHX32 WILD-TYPE 
             10             357 
  DHX32 MUTATED DHX32 WILD-TYPE 
             10             357 
[1] "SLITRK2 MUTATION ANALYSIS"
[1] 3
  SLITRK2 MUTATED SLITRK2 WILD-TYPE 
               21               346 
  SLITRK2 MUTATED SLITRK2 WILD-TYPE 
               21               346 
[1] "TMC8 MUTATION ANALYSIS"
[1] 3
  TMC8 MUTATED TMC8 WILD-TYPE 
             7            360 
  TMC8 MUTATED TMC8 WILD-TYPE 
             7            360 
[1] "EMR3 MUTATION ANALYSIS"
[1] 3
  EMR3 MUTATED EMR3 WILD-TYPE 
            16            351 
  EMR3 MUTATED EMR3 WILD-TYPE 
            16            351 
[1] "VPS33A MUTATION ANALYSIS"
[1] 3
  VPS33A MUTATED VPS33A WILD-TYPE 
               8              359 
  VPS33A MUTATED VPS33A WILD-TYPE 
               8              359 
[1] "BRE MUTATION ANALYSIS"
[1] 3
  BRE MUTATED BRE WILD-TYPE 
           10           357 
  BRE MUTATED BRE WILD-TYPE 
           10           357 
[1] "NKTR MUTATION ANALYSIS"
[1] 3
  NKTR MUTATED NKTR WILD-TYPE 
            13            354 
  NKTR MUTATED NKTR WILD-TYPE 
            13            354 
[1] "ICA1 MUTATION ANALYSIS"
[1] 3
  ICA1 MUTATED ICA1 WILD-TYPE 
             6            361 
  ICA1 MUTATED ICA1 WILD-TYPE 
             6            361 
[1] "ZFYVE16 MUTATION ANALYSIS"
[1] 3
  ZFYVE16 MUTATED ZFYVE16 WILD-TYPE 
               17               350 
  ZFYVE16 MUTATED ZFYVE16 WILD-TYPE 
               17               350 
[1] "RDBP MUTATION ANALYSIS"
[1] 3
  RDBP MUTATED RDBP WILD-TYPE 
             6            361 
  RDBP MUTATED RDBP WILD-TYPE 
             6            361 
[1] "LMOD1 MUTATION ANALYSIS"
[1] 3
  LMOD1 MUTATED LMOD1 WILD-TYPE 
             12             355 
  LMOD1 MUTATED LMOD1 WILD-TYPE 
             12             355 
[1] "AP1G1 MUTATION ANALYSIS"
[1] 3
  AP1G1 MUTATED AP1G1 WILD-TYPE 
             11             356 
  AP1G1 MUTATED AP1G1 WILD-TYPE 
             11             356 
[1] "TRPV2 MUTATION ANALYSIS"
[1] 3
  TRPV2 MUTATED TRPV2 WILD-TYPE 
             11             356 
  TRPV2 MUTATED TRPV2 WILD-TYPE 
             11             356 
[1] "ABLIM3 MUTATION ANALYSIS"
[1] 3
  ABLIM3 MUTATED ABLIM3 WILD-TYPE 
              16              351 
  ABLIM3 MUTATED ABLIM3 WILD-TYPE 
              16              351 
[1] "STX7 MUTATION ANALYSIS"
[1] 3
  STX7 MUTATED STX7 WILD-TYPE 
             4            363 
  STX7 MUTATED STX7 WILD-TYPE 
             4            363 
[1] "LEPRE1 MUTATION ANALYSIS"
[1] 3
  LEPRE1 MUTATED LEPRE1 WILD-TYPE 
               9              358 
  LEPRE1 MUTATED LEPRE1 WILD-TYPE 
               9              358 
[1] "KIAA0240 MUTATION ANALYSIS"
[1] 3
  KIAA0240 MUTATED KIAA0240 WILD-TYPE 
                 9                358 
  KIAA0240 MUTATED KIAA0240 WILD-TYPE 
                 9                358 
[1] "HLA-B MUTATION ANALYSIS"
[1] 3
  HLA-B MUTATED HLA-B WILD-TYPE 
             11             356 
  HLA-B MUTATED HLA-B WILD-TYPE 
             11             356 
[1] "NEK1 MUTATION ANALYSIS"
[1] 3
  NEK1 MUTATED NEK1 WILD-TYPE 
            12            355 
  NEK1 MUTATED NEK1 WILD-TYPE 
            12            355 
[1] "RNASEL MUTATION ANALYSIS"
[1] 3
  RNASEL MUTATED RNASEL WILD-TYPE 
              12              355 
  RNASEL MUTATED RNASEL WILD-TYPE 
              12              355 
[1] "ALCAM MUTATION ANALYSIS"
[1] 3
  ALCAM MUTATED ALCAM WILD-TYPE 
             11             356 
  ALCAM MUTATED ALCAM WILD-TYPE 
             11             356 
[1] "SLC30A8 MUTATION ANALYSIS"
[1] 3
  SLC30A8 MUTATED SLC30A8 WILD-TYPE 
               14               353 
  SLC30A8 MUTATED SLC30A8 WILD-TYPE 
               14               353 
[1] "CREG2 MUTATION ANALYSIS"
[1] 3
  CREG2 MUTATED CREG2 WILD-TYPE 
              5             362 
  CREG2 MUTATED CREG2 WILD-TYPE 
              5             362 
[1] "MSH4 MUTATION ANALYSIS"
[1] 3
  MSH4 MUTATED MSH4 WILD-TYPE 
            12            355 
  MSH4 MUTATED MSH4 WILD-TYPE 
            12            355 
[1] "PANK3 MUTATION ANALYSIS"
[1] 3
  PANK3 MUTATED PANK3 WILD-TYPE 
              6             361 
  PANK3 MUTATED PANK3 WILD-TYPE 
              6             361 
[1] "DNMT1 MUTATION ANALYSIS"
[1] 3
  DNMT1 MUTATED DNMT1 WILD-TYPE 
             18             349 
  DNMT1 MUTATED DNMT1 WILD-TYPE 
             18             349 
[1] "UCHL5 MUTATION ANALYSIS"
[1] 3
  UCHL5 MUTATED UCHL5 WILD-TYPE 
              4             363 
  UCHL5 MUTATED UCHL5 WILD-TYPE 
              4             363 
[1] "HERC1 MUTATION ANALYSIS"
[1] 3
  HERC1 MUTATED HERC1 WILD-TYPE 
             31             336 
  HERC1 MUTATED HERC1 WILD-TYPE 
             31             336 
[1] "PROM1 MUTATION ANALYSIS"
[1] 3
  PROM1 MUTATED PROM1 WILD-TYPE 
             12             355 
  PROM1 MUTATED PROM1 WILD-TYPE 
             12             355 
[1] "TMCO6 MUTATION ANALYSIS"
[1] 3
  TMCO6 MUTATED TMCO6 WILD-TYPE 
              7             360 
  TMCO6 MUTATED TMCO6 WILD-TYPE 
              7             360 
[1] "RAB38 MUTATION ANALYSIS"
[1] 3
  RAB38 MUTATED RAB38 WILD-TYPE 
              5             362 
  RAB38 MUTATED RAB38 WILD-TYPE 
              5             362 
[1] "LRMP MUTATION ANALYSIS"
[1] 3
  LRMP MUTATED LRMP WILD-TYPE 
             5            362 
  LRMP MUTATED LRMP WILD-TYPE 
             5            362 
[1] "NHLRC2 MUTATION ANALYSIS"
[1] 3
  NHLRC2 MUTATED NHLRC2 WILD-TYPE 
               9              358 
  NHLRC2 MUTATED NHLRC2 WILD-TYPE 
               9              358 
[1] "DCBLD1 MUTATION ANALYSIS"
[1] 3
  DCBLD1 MUTATED DCBLD1 WILD-TYPE 
               5              362 
  DCBLD1 MUTATED DCBLD1 WILD-TYPE 
               5              362 
[1] "JAK1 MUTATION ANALYSIS"
[1] 3
  JAK1 MUTATED JAK1 WILD-TYPE 
            18            349 
  JAK1 MUTATED JAK1 WILD-TYPE 
            18            349 
[1] "PAK4 MUTATION ANALYSIS"
[1] 3
  PAK4 MUTATED PAK4 WILD-TYPE 
             6            361 
  PAK4 MUTATED PAK4 WILD-TYPE 
             6            361 
[1] "SNX2 MUTATION ANALYSIS"
[1] 3
  SNX2 MUTATED SNX2 WILD-TYPE 
            11            356 
  SNX2 MUTATED SNX2 WILD-TYPE 
            11            356 
[1] "LIMCH1 MUTATION ANALYSIS"
[1] 3
  LIMCH1 MUTATED LIMCH1 WILD-TYPE 
              13              354 
  LIMCH1 MUTATED LIMCH1 WILD-TYPE 
              13              354 
[1] "CD34 MUTATION ANALYSIS"
[1] 3
  CD34 MUTATED CD34 WILD-TYPE 
             6            361 
  CD34 MUTATED CD34 WILD-TYPE 
             6            361 
[1] "KIAA0564 MUTATION ANALYSIS"
[1] 3
  KIAA0564 MUTATED KIAA0564 WILD-TYPE 
                22                345 
  KIAA0564 MUTATED KIAA0564 WILD-TYPE 
                22                345 
[1] "CEACAM6 MUTATION ANALYSIS"
[1] 3
  CEACAM6 MUTATED CEACAM6 WILD-TYPE 
                4               363 
  CEACAM6 MUTATED CEACAM6 WILD-TYPE 
                4               363 
[1] "CASP4 MUTATION ANALYSIS"
[1] 3
  CASP4 MUTATED CASP4 WILD-TYPE 
              8             359 
  CASP4 MUTATED CASP4 WILD-TYPE 
              8             359 
[1] "AKAP11 MUTATION ANALYSIS"
[1] 3
  AKAP11 MUTATED AKAP11 WILD-TYPE 
              22              345 
  AKAP11 MUTATED AKAP11 WILD-TYPE 
              22              345 
[1] "OSMR MUTATION ANALYSIS"
[1] 3
  OSMR MUTATED OSMR WILD-TYPE 
            20            347 
  OSMR MUTATED OSMR WILD-TYPE 
            20            347 
[1] "HDAC5 MUTATION ANALYSIS"
[1] 3
  HDAC5 MUTATED HDAC5 WILD-TYPE 
             11             356 
  HDAC5 MUTATED HDAC5 WILD-TYPE 
             11             356 
[1] "NCR3 MUTATION ANALYSIS"
[1] 3
  NCR3 MUTATED NCR3 WILD-TYPE 
             5            362 
  NCR3 MUTATED NCR3 WILD-TYPE 
             5            362 
[1] "ORC4L MUTATION ANALYSIS"
[1] 3
  ORC4L MUTATED ORC4L WILD-TYPE 
              6             361 
  ORC4L MUTATED ORC4L WILD-TYPE 
              6             361 
[1] "SECISBP2 MUTATION ANALYSIS"
[1] 3
  SECISBP2 MUTATED SECISBP2 WILD-TYPE 
                 7                360 
  SECISBP2 MUTATED SECISBP2 WILD-TYPE 
                 7                360 
[1] "OR51T1 MUTATION ANALYSIS"
[1] 3
  OR51T1 MUTATED OR51T1 WILD-TYPE 
              11              356 
  OR51T1 MUTATED OR51T1 WILD-TYPE 
              11              356 
[1] "SNAPC2 MUTATION ANALYSIS"
[1] 3
  SNAPC2 MUTATED SNAPC2 WILD-TYPE 
               6              361 
  SNAPC2 MUTATED SNAPC2 WILD-TYPE 
               6              361 
[1] "ABHD2 MUTATION ANALYSIS"
[1] 3
  ABHD2 MUTATED ABHD2 WILD-TYPE 
             10             357 
  ABHD2 MUTATED ABHD2 WILD-TYPE 
             10             357 
[1] "RNF38 MUTATION ANALYSIS"
[1] 3
  RNF38 MUTATED RNF38 WILD-TYPE 
              5             362 
  RNF38 MUTATED RNF38 WILD-TYPE 
              5             362 
[1] "FGD4 MUTATION ANALYSIS"
[1] 3
  FGD4 MUTATED FGD4 WILD-TYPE 
             5            362 
  FGD4 MUTATED FGD4 WILD-TYPE 
             5            362 
[1] "IRS4 MUTATION ANALYSIS"
[1] 3
  IRS4 MUTATED IRS4 WILD-TYPE 
            27            340 
  IRS4 MUTATED IRS4 WILD-TYPE 
            27            340 
[1] "GABRA6 MUTATION ANALYSIS"
[1] 3
  GABRA6 MUTATED GABRA6 WILD-TYPE 
              19              348 
  GABRA6 MUTATED GABRA6 WILD-TYPE 
              19              348 
[1] "HECTD2 MUTATION ANALYSIS"
[1] 3
  HECTD2 MUTATED HECTD2 WILD-TYPE 
              10              357 
  HECTD2 MUTATED HECTD2 WILD-TYPE 
              10              357 
[1] "ARHGAP11A MUTATION ANALYSIS"
[1] 3
  ARHGAP11A MUTATED ARHGAP11A WILD-TYPE 
                 14                 353 
  ARHGAP11A MUTATED ARHGAP11A WILD-TYPE 
                 14                 353 
[1] "OR4A16 MUTATION ANALYSIS"
[1] 3
  OR4A16 MUTATED OR4A16 WILD-TYPE 
              14              353 
  OR4A16 MUTATED OR4A16 WILD-TYPE 
              14              353 
[1] "TSHZ1 MUTATION ANALYSIS"
[1] 3
  TSHZ1 MUTATED TSHZ1 WILD-TYPE 
             12             355 
  TSHZ1 MUTATED TSHZ1 WILD-TYPE 
             12             355 
[1] "URGCP MUTATION ANALYSIS"
[1] 3
  URGCP MUTATED URGCP WILD-TYPE 
             15             352 
  URGCP MUTATED URGCP WILD-TYPE 
             15             352 
[1] "FRMD6 MUTATION ANALYSIS"
[1] 3
  FRMD6 MUTATED FRMD6 WILD-TYPE 
             10             357 
  FRMD6 MUTATED FRMD6 WILD-TYPE 
             10             357 
[1] "CPS1 MUTATION ANALYSIS"
[1] 3
  CPS1 MUTATED CPS1 WILD-TYPE 
            30            337 
  CPS1 MUTATED CPS1 WILD-TYPE 
            30            337 
[1] "TUBB4 MUTATION ANALYSIS"
[1] 3
  TUBB4 MUTATED TUBB4 WILD-TYPE 
              5             362 
  TUBB4 MUTATED TUBB4 WILD-TYPE 
              5             362 
[1] "USF1 MUTATION ANALYSIS"
[1] 3
  USF1 MUTATED USF1 WILD-TYPE 
             5            362 
  USF1 MUTATED USF1 WILD-TYPE 
             5            362 
[1] "TM7SF4 MUTATION ANALYSIS"
[1] 3
  TM7SF4 MUTATED TM7SF4 WILD-TYPE 
               7              360 
  TM7SF4 MUTATED TM7SF4 WILD-TYPE 
               7              360 
[1] "PPP1R12A MUTATION ANALYSIS"
[1] 3
  PPP1R12A MUTATED PPP1R12A WILD-TYPE 
                13                354 
  PPP1R12A MUTATED PPP1R12A WILD-TYPE 
                13                354 
[1] "APOBEC4 MUTATION ANALYSIS"
[1] 3
  APOBEC4 MUTATED APOBEC4 WILD-TYPE 
                7               360 
  APOBEC4 MUTATED APOBEC4 WILD-TYPE 
                7               360 
[1] "SPOPL MUTATION ANALYSIS"
[1] 3
  SPOPL MUTATED SPOPL WILD-TYPE 
             10             357 
  SPOPL MUTATED SPOPL WILD-TYPE 
             10             357 
[1] "GPR98 MUTATION ANALYSIS"
[1] 3
  GPR98 MUTATED GPR98 WILD-TYPE 
             61             306 
  GPR98 MUTATED GPR98 WILD-TYPE 
             61             306 
[1] "TMEM41B MUTATION ANALYSIS"
[1] 3
  TMEM41B MUTATED TMEM41B WILD-TYPE 
                4               363 
  TMEM41B MUTATED TMEM41B WILD-TYPE 
                4               363 
[1] "RGS3 MUTATION ANALYSIS"
[1] 3
  RGS3 MUTATED RGS3 WILD-TYPE 
            15            352 
  RGS3 MUTATED RGS3 WILD-TYPE 
            15            352 
[1] "FAM119A MUTATION ANALYSIS"
[1] 3
  FAM119A MUTATED FAM119A WILD-TYPE 
                5               362 
  FAM119A MUTATED FAM119A WILD-TYPE 
                5               362 
[1] "TRIM45 MUTATION ANALYSIS"
[1] 3
  TRIM45 MUTATED TRIM45 WILD-TYPE 
              14              353 
  TRIM45 MUTATED TRIM45 WILD-TYPE 
              14              353 
[1] "MAGEA4 MUTATION ANALYSIS"
[1] 3
  MAGEA4 MUTATED MAGEA4 WILD-TYPE 
               6              361 
  MAGEA4 MUTATED MAGEA4 WILD-TYPE 
               6              361 
[1] "MANF MUTATION ANALYSIS"
[1] 3
  MANF MUTATED MANF WILD-TYPE 
             4            363 
  MANF MUTATED MANF WILD-TYPE 
             4            363 
[1] "TBC1D10C MUTATION ANALYSIS"
[1] 3
  TBC1D10C MUTATED TBC1D10C WILD-TYPE 
                 8                359 
  TBC1D10C MUTATED TBC1D10C WILD-TYPE 
                 8                359 
[1] "DPF3 MUTATION ANALYSIS"
[1] 3
  DPF3 MUTATED DPF3 WILD-TYPE 
             5            362 
  DPF3 MUTATED DPF3 WILD-TYPE 
             5            362 
[1] "DBF4B MUTATION ANALYSIS"
[1] 3
  DBF4B MUTATED DBF4B WILD-TYPE 
              7             360 
  DBF4B MUTATED DBF4B WILD-TYPE 
              7             360 
[1] "AKAP7 MUTATION ANALYSIS"
[1] 3
  AKAP7 MUTATED AKAP7 WILD-TYPE 
              5             362 
  AKAP7 MUTATED AKAP7 WILD-TYPE 
              5             362 
[1] "RNF215 MUTATION ANALYSIS"
[1] 3
  RNF215 MUTATED RNF215 WILD-TYPE 
               3              364 
  RNF215 MUTATED RNF215 WILD-TYPE 
               3              364 
[1] "KIRREL2 MUTATION ANALYSIS"
[1] 3
  KIRREL2 MUTATED KIRREL2 WILD-TYPE 
               12               355 
  KIRREL2 MUTATED KIRREL2 WILD-TYPE 
               12               355 
[1] "METTL5 MUTATION ANALYSIS"
[1] 3
  METTL5 MUTATED METTL5 WILD-TYPE 
               5              362 
  METTL5 MUTATED METTL5 WILD-TYPE 
               5              362 
[1] "CCR8 MUTATION ANALYSIS"
[1] 3
  CCR8 MUTATED CCR8 WILD-TYPE 
             7            360 
  CCR8 MUTATED CCR8 WILD-TYPE 
             7            360 
[1] "OR5AK2 MUTATION ANALYSIS"
[1] 3
  OR5AK2 MUTATED OR5AK2 WILD-TYPE 
               9              358 
  OR5AK2 MUTATED OR5AK2 WILD-TYPE 
               9              358 
[1] "NTRK2 MUTATION ANALYSIS"
[1] 3
  NTRK2 MUTATED NTRK2 WILD-TYPE 
             23             344 
  NTRK2 MUTATED NTRK2 WILD-TYPE 
             23             344 
[1] "SMARCB1 MUTATION ANALYSIS"
[1] 3
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
               23               344 
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
               23               344 
[1] "ERCC6 MUTATION ANALYSIS"
[1] 3
  ERCC6 MUTATED ERCC6 WILD-TYPE 
             28             339 
  ERCC6 MUTATED ERCC6 WILD-TYPE 
             28             339 
[1] "RARG MUTATION ANALYSIS"
[1] 3
  RARG MUTATED RARG WILD-TYPE 
            10            357 
  RARG MUTATED RARG WILD-TYPE 
            10            357 
[1] "HEPH MUTATION ANALYSIS"
[1] 3
  HEPH MUTATED HEPH WILD-TYPE 
            15            352 
  HEPH MUTATED HEPH WILD-TYPE 
            15            352 
[1] "RASGRF2 MUTATION ANALYSIS"
[1] 3
  RASGRF2 MUTATED RASGRF2 WILD-TYPE 
               17               350 
  RASGRF2 MUTATED RASGRF2 WILD-TYPE 
               17               350 
[1] "LCN9 MUTATION ANALYSIS"
[1] 3
  LCN9 MUTATED LCN9 WILD-TYPE 
             4            363 
  LCN9 MUTATED LCN9 WILD-TYPE 
             4            363 
[1] "DST MUTATION ANALYSIS"
[1] 3
  DST MUTATED DST WILD-TYPE 
           66           301 
  DST MUTATED DST WILD-TYPE 
           66           301 
[1] "FBXO38 MUTATION ANALYSIS"
[1] 3
  FBXO38 MUTATED FBXO38 WILD-TYPE 
              18              349 
  FBXO38 MUTATED FBXO38 WILD-TYPE 
              18              349 
[1] "STAT3 MUTATION ANALYSIS"
[1] 3
  STAT3 MUTATED STAT3 WILD-TYPE 
              9             358 
  STAT3 MUTATED STAT3 WILD-TYPE 
              9             358 
[1] "ATP11C MUTATION ANALYSIS"
[1] 3
  ATP11C MUTATED ATP11C WILD-TYPE 
              25              342 
  ATP11C MUTATED ATP11C WILD-TYPE 
              25              342 
[1] "IRF6 MUTATION ANALYSIS"
[1] 3
  IRF6 MUTATED IRF6 WILD-TYPE 
             6            361 
  IRF6 MUTATED IRF6 WILD-TYPE 
             6            361 
[1] "DNAJC11 MUTATION ANALYSIS"
[1] 3
  DNAJC11 MUTATED DNAJC11 WILD-TYPE 
                9               358 
  DNAJC11 MUTATED DNAJC11 WILD-TYPE 
                9               358 
[1] "CLDN10 MUTATION ANALYSIS"
[1] 3
  CLDN10 MUTATED CLDN10 WILD-TYPE 
              11              356 
  CLDN10 MUTATED CLDN10 WILD-TYPE 
              11              356 
[1] "IGSF5 MUTATION ANALYSIS"
[1] 3
  IGSF5 MUTATED IGSF5 WILD-TYPE 
             14             353 
  IGSF5 MUTATED IGSF5 WILD-TYPE 
             14             353 
[1] "PCSK5 MUTATION ANALYSIS"
[1] 3
  PCSK5 MUTATED PCSK5 WILD-TYPE 
             14             353 
  PCSK5 MUTATED PCSK5 WILD-TYPE 
             14             353 
[1] "DDHD2 MUTATION ANALYSIS"
[1] 3
  DDHD2 MUTATED DDHD2 WILD-TYPE 
              9             358 
  DDHD2 MUTATED DDHD2 WILD-TYPE 
              9             358 
[1] "SPAG7 MUTATION ANALYSIS"
[1] 3
  SPAG7 MUTATED SPAG7 WILD-TYPE 
              3             364 
  SPAG7 MUTATED SPAG7 WILD-TYPE 
              3             364 
[1] "RARRES3 MUTATION ANALYSIS"
[1] 3
  RARRES3 MUTATED RARRES3 WILD-TYPE 
                5               362 
  RARRES3 MUTATED RARRES3 WILD-TYPE 
                5               362 
[1] "TRAF3IP1 MUTATION ANALYSIS"
[1] 3
  TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE 
                 6                361 
  TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE 
                 6                361 
[1] "C14ORF50 MUTATION ANALYSIS"
[1] 3
  C14ORF50 MUTATED C14ORF50 WILD-TYPE 
                 6                361 
  C14ORF50 MUTATED C14ORF50 WILD-TYPE 
                 6                361 
[1] "ALAS1 MUTATION ANALYSIS"
[1] 3
  ALAS1 MUTATED ALAS1 WILD-TYPE 
              9             358 
  ALAS1 MUTATED ALAS1 WILD-TYPE 
              9             358 
[1] "FAM151A MUTATION ANALYSIS"
[1] 3
  FAM151A MUTATED FAM151A WILD-TYPE 
                6               361 
  FAM151A MUTATED FAM151A WILD-TYPE 
                6               361 
[1] "SYNGR4 MUTATION ANALYSIS"
[1] 3
  SYNGR4 MUTATED SYNGR4 WILD-TYPE 
               6              361 
  SYNGR4 MUTATED SYNGR4 WILD-TYPE 
               6              361 
[1] "ADH7 MUTATION ANALYSIS"
[1] 3
  ADH7 MUTATED ADH7 WILD-TYPE 
             7            360 
  ADH7 MUTATED ADH7 WILD-TYPE 
             7            360 
[1] "KLF3 MUTATION ANALYSIS"
[1] 3
  KLF3 MUTATED KLF3 WILD-TYPE 
             7            360 
  KLF3 MUTATED KLF3 WILD-TYPE 
             7            360 
[1] "ARHGAP28 MUTATION ANALYSIS"
[1] 3
  ARHGAP28 MUTATED ARHGAP28 WILD-TYPE 
                13                354 
  ARHGAP28 MUTATED ARHGAP28 WILD-TYPE 
                13                354 
[1] "SLC38A5 MUTATION ANALYSIS"
[1] 3
  SLC38A5 MUTATED SLC38A5 WILD-TYPE 
                6               361 
  SLC38A5 MUTATED SLC38A5 WILD-TYPE 
                6               361 
[1] "HIST1H1A MUTATION ANALYSIS"
[1] 3
  HIST1H1A MUTATED HIST1H1A WILD-TYPE 
                 9                358 
  HIST1H1A MUTATED HIST1H1A WILD-TYPE 
                 9                358 
[1] "OR7D4 MUTATION ANALYSIS"
[1] 3
  OR7D4 MUTATED OR7D4 WILD-TYPE 
              9             358 
  OR7D4 MUTATED OR7D4 WILD-TYPE 
              9             358 
[1] "OSR1 MUTATION ANALYSIS"
[1] 3
  OSR1 MUTATED OSR1 WILD-TYPE 
             4            363 
  OSR1 MUTATED OSR1 WILD-TYPE 
             4            363 
[1] "MAP2 MUTATION ANALYSIS"
[1] 3
  MAP2 MUTATED MAP2 WILD-TYPE 
            36            331 
  MAP2 MUTATED MAP2 WILD-TYPE 
            36            331 
[1] "UPF2 MUTATION ANALYSIS"
[1] 3
  UPF2 MUTATED UPF2 WILD-TYPE 
            16            351 
  UPF2 MUTATED UPF2 WILD-TYPE 
            16            351 
[1] "MFSD6 MUTATION ANALYSIS"
[1] 3
  MFSD6 MUTATED MFSD6 WILD-TYPE 
              7             360 
  MFSD6 MUTATED MFSD6 WILD-TYPE 
              7             360 
[1] "CACNA1D MUTATION ANALYSIS"
[1] 3
  CACNA1D MUTATED CACNA1D WILD-TYPE 
               22               345 
  CACNA1D MUTATED CACNA1D WILD-TYPE 
               22               345 
[1] "OR9Q1 MUTATION ANALYSIS"
[1] 3
  OR9Q1 MUTATED OR9Q1 WILD-TYPE 
              6             361 
  OR9Q1 MUTATED OR9Q1 WILD-TYPE 
              6             361 
[1] "SSRP1 MUTATION ANALYSIS"
[1] 3
  SSRP1 MUTATED SSRP1 WILD-TYPE 
             13             354 
  SSRP1 MUTATED SSRP1 WILD-TYPE 
             13             354 
[1] "ST6GALNAC3 MUTATION ANALYSIS"
[1] 3
  ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE 
                  12                  355 
  ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE 
                  12                  355 
[1] "TCF7L2 MUTATION ANALYSIS"
[1] 3
  TCF7L2 MUTATED TCF7L2 WILD-TYPE 
              23              344 
  TCF7L2 MUTATED TCF7L2 WILD-TYPE 
              23              344 
[1] "PACS2 MUTATION ANALYSIS"
[1] 3
  PACS2 MUTATED PACS2 WILD-TYPE 
              5             362 
  PACS2 MUTATED PACS2 WILD-TYPE 
              5             362 
[1] "STAT5B MUTATION ANALYSIS"
[1] 3
  STAT5B MUTATED STAT5B WILD-TYPE 
              12              355 
  STAT5B MUTATED STAT5B WILD-TYPE 
              12              355 
[1] "ZNF622 MUTATION ANALYSIS"
[1] 3
  ZNF622 MUTATED ZNF622 WILD-TYPE 
               7              360 
  ZNF622 MUTATED ZNF622 WILD-TYPE 
               7              360 
[1] "ABCB6 MUTATION ANALYSIS"
[1] 3
  ABCB6 MUTATED ABCB6 WILD-TYPE 
              7             360 
  ABCB6 MUTATED ABCB6 WILD-TYPE 
              7             360 
[1] "ZKSCAN1 MUTATION ANALYSIS"
[1] 3
  ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE 
                7               360 
  ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE 
                7               360 
[1] "C10ORF119 MUTATION ANALYSIS"
[1] 3
  C10ORF119 MUTATED C10ORF119 WILD-TYPE 
                  9                 358 
  C10ORF119 MUTATED C10ORF119 WILD-TYPE 
                  9                 358 
[1] "CLTCL1 MUTATION ANALYSIS"
[1] 3
  CLTCL1 MUTATED CLTCL1 WILD-TYPE 
              18              349 
  CLTCL1 MUTATED CLTCL1 WILD-TYPE 
              18              349 
[1] "GFRA4 MUTATION ANALYSIS"
[1] 3
  GFRA4 MUTATED GFRA4 WILD-TYPE 
              3             364 
  GFRA4 MUTATED GFRA4 WILD-TYPE 
              3             364 
[1] "CYP3A7 MUTATION ANALYSIS"
[1] 3
  CYP3A7 MUTATED CYP3A7 WILD-TYPE 
              10              357 
  CYP3A7 MUTATED CYP3A7 WILD-TYPE 
              10              357 
[1] "THRAP3 MUTATION ANALYSIS"
[1] 3
  THRAP3 MUTATED THRAP3 WILD-TYPE 
              11              356 
  THRAP3 MUTATED THRAP3 WILD-TYPE 
              11              356 
[1] "DNAH8 MUTATION ANALYSIS"
[1] 3
  DNAH8 MUTATED DNAH8 WILD-TYPE 
             59             308 
  DNAH8 MUTATED DNAH8 WILD-TYPE 
             59             308 
[1] "PDGFC MUTATION ANALYSIS"
[1] 3
  PDGFC MUTATED PDGFC WILD-TYPE 
              9             358 
  PDGFC MUTATED PDGFC WILD-TYPE 
              9             358 
[1] "STAG2 MUTATION ANALYSIS"
[1] 3
  STAG2 MUTATED STAG2 WILD-TYPE 
             13             354 
  STAG2 MUTATED STAG2 WILD-TYPE 
             13             354 
[1] "CNOT10 MUTATION ANALYSIS"
[1] 3
  CNOT10 MUTATED CNOT10 WILD-TYPE 
               9              358 
  CNOT10 MUTATED CNOT10 WILD-TYPE 
               9              358 
[1] "RSPO2 MUTATION ANALYSIS"
[1] 3
  RSPO2 MUTATED RSPO2 WILD-TYPE 
             17             350 
  RSPO2 MUTATED RSPO2 WILD-TYPE 
             17             350 
[1] "LPAR6 MUTATION ANALYSIS"
[1] 3
  LPAR6 MUTATED LPAR6 WILD-TYPE 
              7             360 
  LPAR6 MUTATED LPAR6 WILD-TYPE 
              7             360 
[1] "FAM175A MUTATION ANALYSIS"
[1] 3
  FAM175A MUTATED FAM175A WILD-TYPE 
                8               359 
  FAM175A MUTATED FAM175A WILD-TYPE 
                8               359 
[1] "SLC8A3 MUTATION ANALYSIS"
[1] 3
  SLC8A3 MUTATED SLC8A3 WILD-TYPE 
              12              355 
  SLC8A3 MUTATED SLC8A3 WILD-TYPE 
              12              355 
[1] "A1CF MUTATION ANALYSIS"
[1] 3
  A1CF MUTATED A1CF WILD-TYPE 
             8            359 
  A1CF MUTATED A1CF WILD-TYPE 
             8            359 
[1] "ARHGEF1 MUTATION ANALYSIS"
[1] 3
  ARHGEF1 MUTATED ARHGEF1 WILD-TYPE 
               13               354 
  ARHGEF1 MUTATED ARHGEF1 WILD-TYPE 
               13               354 
[1] "ZNF559 MUTATION ANALYSIS"
[1] 3
  ZNF559 MUTATED ZNF559 WILD-TYPE 
              15              352 
  ZNF559 MUTATED ZNF559 WILD-TYPE 
              15              352 
[1] "EPHA7 MUTATION ANALYSIS"
[1] 3
  EPHA7 MUTATED EPHA7 WILD-TYPE 
             35             332 
  EPHA7 MUTATED EPHA7 WILD-TYPE 
             35             332 
[1] "KCTD9 MUTATION ANALYSIS"
[1] 3
  KCTD9 MUTATED KCTD9 WILD-TYPE 
              5             362 
  KCTD9 MUTATED KCTD9 WILD-TYPE 
              5             362 
[1] "CD47 MUTATION ANALYSIS"
[1] 3
  CD47 MUTATED CD47 WILD-TYPE 
             8            359 
  CD47 MUTATED CD47 WILD-TYPE 
             8            359 
[1] "PTPRB MUTATION ANALYSIS"
[1] 3
  PTPRB MUTATED PTPRB WILD-TYPE 
             17             350 
  PTPRB MUTATED PTPRB WILD-TYPE 
             17             350 
[1] "GPR113 MUTATION ANALYSIS"
[1] 3
  GPR113 MUTATED GPR113 WILD-TYPE 
              14              353 
  GPR113 MUTATED GPR113 WILD-TYPE 
              14              353 
[1] "KIAA1407 MUTATION ANALYSIS"
[1] 3
  KIAA1407 MUTATED KIAA1407 WILD-TYPE 
                11                356 
  KIAA1407 MUTATED KIAA1407 WILD-TYPE 
                11                356 
[1] "PCDH20 MUTATION ANALYSIS"
[1] 3
  PCDH20 MUTATED PCDH20 WILD-TYPE 
              21              346 
  PCDH20 MUTATED PCDH20 WILD-TYPE 
              21              346 
[1] "ADH1B MUTATION ANALYSIS"
[1] 3
  ADH1B MUTATED ADH1B WILD-TYPE 
              7             360 
  ADH1B MUTATED ADH1B WILD-TYPE 
              7             360 
[1] "TGIF1 MUTATION ANALYSIS"
[1] 3
  TGIF1 MUTATED TGIF1 WILD-TYPE 
              9             358 
  TGIF1 MUTATED TGIF1 WILD-TYPE 
              9             358 
[1] "IGFBP3 MUTATION ANALYSIS"
[1] 3
  IGFBP3 MUTATED IGFBP3 WILD-TYPE 
               6              361 
  IGFBP3 MUTATED IGFBP3 WILD-TYPE 
               6              361 
[1] "POPDC3 MUTATION ANALYSIS"
[1] 3
  POPDC3 MUTATED POPDC3 WILD-TYPE 
               6              361 
  POPDC3 MUTATED POPDC3 WILD-TYPE 
               6              361 
[1] "SNRNP200 MUTATION ANALYSIS"
[1] 3
  SNRNP200 MUTATED SNRNP200 WILD-TYPE 
                20                347 
  SNRNP200 MUTATED SNRNP200 WILD-TYPE 
                20                347 
[1] "BEND2 MUTATION ANALYSIS"
[1] 3
  BEND2 MUTATED BEND2 WILD-TYPE 
             23             344 
  BEND2 MUTATED BEND2 WILD-TYPE 
             23             344 
[1] "MAP3K13 MUTATION ANALYSIS"
[1] 3
  MAP3K13 MUTATED MAP3K13 WILD-TYPE 
               18               349 
  MAP3K13 MUTATED MAP3K13 WILD-TYPE 
               18               349 
[1] "ADAMTS16 MUTATION ANALYSIS"
[1] 3
  ADAMTS16 MUTATED ADAMTS16 WILD-TYPE 
                30                337 
  ADAMTS16 MUTATED ADAMTS16 WILD-TYPE 
                30                337 
[1] "MAP3K10 MUTATION ANALYSIS"
[1] 3
  MAP3K10 MUTATED MAP3K10 WILD-TYPE 
               10               357 
  MAP3K10 MUTATED MAP3K10 WILD-TYPE 
               10               357 
[1] "RUNX2 MUTATION ANALYSIS"
[1] 3
  RUNX2 MUTATED RUNX2 WILD-TYPE 
              8             359 
  RUNX2 MUTATED RUNX2 WILD-TYPE 
              8             359 
[1] "SMARCA1 MUTATION ANALYSIS"
[1] 3
  SMARCA1 MUTATED SMARCA1 WILD-TYPE 
               19               348 
  SMARCA1 MUTATED SMARCA1 WILD-TYPE 
               19               348 
[1] "ZNF41 MUTATION ANALYSIS"
[1] 3
  ZNF41 MUTATED ZNF41 WILD-TYPE 
              9             358 
  ZNF41 MUTATED ZNF41 WILD-TYPE 
              9             358 
[1] "CD79A MUTATION ANALYSIS"
[1] 3
  CD79A MUTATED CD79A WILD-TYPE 
              6             361 
  CD79A MUTATED CD79A WILD-TYPE 
              6             361 
[1] "TBX4 MUTATION ANALYSIS"
[1] 3
  TBX4 MUTATED TBX4 WILD-TYPE 
            11            356 
  TBX4 MUTATED TBX4 WILD-TYPE 
            11            356 
[1] "EPSTI1 MUTATION ANALYSIS"
[1] 3
  EPSTI1 MUTATED EPSTI1 WILD-TYPE 
               7              360 
  EPSTI1 MUTATED EPSTI1 WILD-TYPE 
               7              360 
[1] "TSPAN7 MUTATION ANALYSIS"
[1] 3
  TSPAN7 MUTATED TSPAN7 WILD-TYPE 
               9              358 
  TSPAN7 MUTATED TSPAN7 WILD-TYPE 
               9              358 
[1] "MED14 MUTATION ANALYSIS"
[1] 3
  MED14 MUTATED MED14 WILD-TYPE 
             19             348 
  MED14 MUTATED MED14 WILD-TYPE 
             19             348 
[1] "DOCK7 MUTATION ANALYSIS"
[1] 3
  DOCK7 MUTATED DOCK7 WILD-TYPE 
             17             350 
  DOCK7 MUTATED DOCK7 WILD-TYPE 
             17             350 
[1] "DBF4 MUTATION ANALYSIS"
[1] 3
  DBF4 MUTATED DBF4 WILD-TYPE 
             7            360 
  DBF4 MUTATED DBF4 WILD-TYPE 
             7            360 
[1] "OR13C5 MUTATION ANALYSIS"
[1] 3
  OR13C5 MUTATED OR13C5 WILD-TYPE 
              11              356 
  OR13C5 MUTATED OR13C5 WILD-TYPE 
              11              356 
[1] "GOLIM4 MUTATION ANALYSIS"
[1] 3
  GOLIM4 MUTATED GOLIM4 WILD-TYPE 
               9              358 
  GOLIM4 MUTATED GOLIM4 WILD-TYPE 
               9              358 
[1] "IRGQ MUTATION ANALYSIS"
[1] 3
  IRGQ MUTATED IRGQ WILD-TYPE 
             3            364 
  IRGQ MUTATED IRGQ WILD-TYPE 
             3            364 
[1] "CYP2C9 MUTATION ANALYSIS"
[1] 3
  CYP2C9 MUTATED CYP2C9 WILD-TYPE 
               8              359 
  CYP2C9 MUTATED CYP2C9 WILD-TYPE 
               8              359 
[1] "IL6R MUTATION ANALYSIS"
[1] 3
  IL6R MUTATED IL6R WILD-TYPE 
             7            360 
  IL6R MUTATED IL6R WILD-TYPE 
             7            360 
[1] "ZNF235 MUTATION ANALYSIS"
[1] 3
  ZNF235 MUTATED ZNF235 WILD-TYPE 
               9              358 
  ZNF235 MUTATED ZNF235 WILD-TYPE 
               9              358 
[1] "C20ORF151 MUTATION ANALYSIS"
[1] 3
  C20ORF151 MUTATED C20ORF151 WILD-TYPE 
                  9                 358 
  C20ORF151 MUTATED C20ORF151 WILD-TYPE 
                  9                 358 
[1] "CEPT1 MUTATION ANALYSIS"
[1] 3
  CEPT1 MUTATED CEPT1 WILD-TYPE 
              5             362 
  CEPT1 MUTATED CEPT1 WILD-TYPE 
              5             362 
[1] "GGNBP2 MUTATION ANALYSIS"
[1] 3
  GGNBP2 MUTATED GGNBP2 WILD-TYPE 
              11              356 
  GGNBP2 MUTATED GGNBP2 WILD-TYPE 
              11              356 
[1] "CTCFL MUTATION ANALYSIS"
[1] 3
  CTCFL MUTATED CTCFL WILD-TYPE 
             15             352 
  CTCFL MUTATED CTCFL WILD-TYPE 
             15             352 
[1] "SLC16A1 MUTATION ANALYSIS"
[1] 3
  SLC16A1 MUTATED SLC16A1 WILD-TYPE 
                7               360 
  SLC16A1 MUTATED SLC16A1 WILD-TYPE 
                7               360 
[1] "MAP2K4 MUTATION ANALYSIS"
[1] 3
  MAP2K4 MUTATED MAP2K4 WILD-TYPE 
              30              337 
  MAP2K4 MUTATED MAP2K4 WILD-TYPE 
              30              337 
[1] "DUSP9 MUTATION ANALYSIS"
[1] 3
  DUSP9 MUTATED DUSP9 WILD-TYPE 
              9             358 
  DUSP9 MUTATED DUSP9 WILD-TYPE 
              9             358 
[1] "BRD2 MUTATION ANALYSIS"
[1] 3
  BRD2 MUTATED BRD2 WILD-TYPE 
            11            356 
  BRD2 MUTATED BRD2 WILD-TYPE 
            11            356 
[1] "AP4B1 MUTATION ANALYSIS"
[1] 3
  AP4B1 MUTATED AP4B1 WILD-TYPE 
             12             355 
  AP4B1 MUTATED AP4B1 WILD-TYPE 
             12             355 
[1] "NTNG1 MUTATION ANALYSIS"
[1] 3
  NTNG1 MUTATED NTNG1 WILD-TYPE 
             14             353 
  NTNG1 MUTATED NTNG1 WILD-TYPE 
             14             353 
[1] "LGALS9C MUTATION ANALYSIS"
[1] 3
  LGALS9C MUTATED LGALS9C WILD-TYPE 
                5               362 
  LGALS9C MUTATED LGALS9C WILD-TYPE 
                5               362 
[1] "CHMP4C MUTATION ANALYSIS"
[1] 3
  CHMP4C MUTATED CHMP4C WILD-TYPE 
               3              364 
  CHMP4C MUTATED CHMP4C WILD-TYPE 
               3              364 
[1] "ZNF630 MUTATION ANALYSIS"
[1] 3
  ZNF630 MUTATED ZNF630 WILD-TYPE 
               7              360 
  ZNF630 MUTATED ZNF630 WILD-TYPE 
               7              360 
[1] "PTPDC1 MUTATION ANALYSIS"
[1] 3
  PTPDC1 MUTATED PTPDC1 WILD-TYPE 
               8              359 
  PTPDC1 MUTATED PTPDC1 WILD-TYPE 
               8              359 
[1] "DMXL2 MUTATION ANALYSIS"
[1] 3
  DMXL2 MUTATED DMXL2 WILD-TYPE 
             33             334 
  DMXL2 MUTATED DMXL2 WILD-TYPE 
             33             334 
[1] "DIAPH3 MUTATION ANALYSIS"
[1] 3
  DIAPH3 MUTATED DIAPH3 WILD-TYPE 
              16              351 
  DIAPH3 MUTATED DIAPH3 WILD-TYPE 
              16              351 
[1] "KLF11 MUTATION ANALYSIS"
[1] 3
  KLF11 MUTATED KLF11 WILD-TYPE 
              7             360 
  KLF11 MUTATED KLF11 WILD-TYPE 
              7             360 
[1] "TAX1BP1 MUTATION ANALYSIS"
[1] 3
  TAX1BP1 MUTATED TAX1BP1 WILD-TYPE 
               12               355 
  TAX1BP1 MUTATED TAX1BP1 WILD-TYPE 
               12               355 
[1] "MCM9 MUTATION ANALYSIS"
[1] 3
  MCM9 MUTATED MCM9 WILD-TYPE 
             7            360 
  MCM9 MUTATED MCM9 WILD-TYPE 
             7            360 
[1] "SBDS MUTATION ANALYSIS"
[1] 3
  SBDS MUTATED SBDS WILD-TYPE 
             3            364 
  SBDS MUTATED SBDS WILD-TYPE 
             3            364 
[1] "ANXA11 MUTATION ANALYSIS"
[1] 3
  ANXA11 MUTATED ANXA11 WILD-TYPE 
               7              360 
  ANXA11 MUTATED ANXA11 WILD-TYPE 
               7              360 
[1] "OR2A5 MUTATION ANALYSIS"
[1] 3
  OR2A5 MUTATED OR2A5 WILD-TYPE 
             10             357 
  OR2A5 MUTATED OR2A5 WILD-TYPE 
             10             357 
[1] "SLC45A2 MUTATION ANALYSIS"
[1] 3
  SLC45A2 MUTATED SLC45A2 WILD-TYPE 
                9               358 
  SLC45A2 MUTATED SLC45A2 WILD-TYPE 
                9               358 
[1] "SYNJ1 MUTATION ANALYSIS"
[1] 3
  SYNJ1 MUTATED SYNJ1 WILD-TYPE 
             16             351 
  SYNJ1 MUTATED SYNJ1 WILD-TYPE 
             16             351 
[1] "SLC9A2 MUTATION ANALYSIS"
[1] 3
  SLC9A2 MUTATED SLC9A2 WILD-TYPE 
              10              357 
  SLC9A2 MUTATED SLC9A2 WILD-TYPE 
              10              357 
[1] "DUSP7 MUTATION ANALYSIS"
[1] 3
  DUSP7 MUTATED DUSP7 WILD-TYPE 
              6             361 
  DUSP7 MUTATED DUSP7 WILD-TYPE 
              6             361 
[1] "EFCAB4B MUTATION ANALYSIS"
[1] 3
  EFCAB4B MUTATED EFCAB4B WILD-TYPE 
                5               362 
  EFCAB4B MUTATED EFCAB4B WILD-TYPE 
                5               362 
[1] "PAK1 MUTATION ANALYSIS"
[1] 3
  PAK1 MUTATED PAK1 WILD-TYPE 
            10            357 
  PAK1 MUTATED PAK1 WILD-TYPE 
            10            357 
[1] "OR4N4 MUTATION ANALYSIS"
[1] 3
  OR4N4 MUTATED OR4N4 WILD-TYPE 
             12             355 
  OR4N4 MUTATED OR4N4 WILD-TYPE 
             12             355 
[1] "IFI44 MUTATION ANALYSIS"
[1] 3
  IFI44 MUTATED IFI44 WILD-TYPE 
              8             359 
  IFI44 MUTATED IFI44 WILD-TYPE 
              8             359 
[1] "IPPK MUTATION ANALYSIS"
[1] 3
  IPPK MUTATED IPPK WILD-TYPE 
             9            358 
  IPPK MUTATED IPPK WILD-TYPE 
             9            358 
[1] "SPATA16 MUTATION ANALYSIS"
[1] 3
  SPATA16 MUTATED SPATA16 WILD-TYPE 
               12               355 
  SPATA16 MUTATED SPATA16 WILD-TYPE 
               12               355 
[1] "ACAN MUTATION ANALYSIS"
[1] 3
  ACAN MUTATED ACAN WILD-TYPE 
            27            340 
  ACAN MUTATED ACAN WILD-TYPE 
            27            340 
[1] "C16ORF88 MUTATION ANALYSIS"
[1] 3
  C16ORF88 MUTATED C16ORF88 WILD-TYPE 
                 7                360 
  C16ORF88 MUTATED C16ORF88 WILD-TYPE 
                 7                360 
[1] "ABCG2 MUTATION ANALYSIS"
[1] 3
  ABCG2 MUTATED ABCG2 WILD-TYPE 
             12             355 
  ABCG2 MUTATED ABCG2 WILD-TYPE 
             12             355 
[1] "EPC1 MUTATION ANALYSIS"
[1] 3
  EPC1 MUTATED EPC1 WILD-TYPE 
            13            354 
  EPC1 MUTATED EPC1 WILD-TYPE 
            13            354 
[1] "PTPN3 MUTATION ANALYSIS"
[1] 3
  PTPN3 MUTATED PTPN3 WILD-TYPE 
             15             352 
  PTPN3 MUTATED PTPN3 WILD-TYPE 
             15             352 
[1] "DGKH MUTATION ANALYSIS"
[1] 3
  DGKH MUTATED DGKH WILD-TYPE 
            15            352 
  DGKH MUTATED DGKH WILD-TYPE 
            15            352 
[1] "LEMD1 MUTATION ANALYSIS"
[1] 3
  LEMD1 MUTATED LEMD1 WILD-TYPE 
              3             364 
  LEMD1 MUTATED LEMD1 WILD-TYPE 
              3             364 
[1] "ABCD4 MUTATION ANALYSIS"
[1] 3
  ABCD4 MUTATED ABCD4 WILD-TYPE 
             10             357 
  ABCD4 MUTATED ABCD4 WILD-TYPE 
             10             357 
[1] "HCLS1 MUTATION ANALYSIS"
[1] 3
  HCLS1 MUTATED HCLS1 WILD-TYPE 
             15             352 
  HCLS1 MUTATED HCLS1 WILD-TYPE 
             15             352 
[1] "SULT1C4 MUTATION ANALYSIS"
[1] 3
  SULT1C4 MUTATED SULT1C4 WILD-TYPE 
                3               364 
  SULT1C4 MUTATED SULT1C4 WILD-TYPE 
                3               364 
[1] "TRAF2 MUTATION ANALYSIS"
[1] 3
  TRAF2 MUTATED TRAF2 WILD-TYPE 
              7             360 
  TRAF2 MUTATED TRAF2 WILD-TYPE 
              7             360 
[1] "ZNF564 MUTATION ANALYSIS"
[1] 3
  ZNF564 MUTATED ZNF564 WILD-TYPE 
              10              357 
  ZNF564 MUTATED ZNF564 WILD-TYPE 
              10              357 
[1] "JMJD1C MUTATION ANALYSIS"
[1] 3
  JMJD1C MUTATED JMJD1C WILD-TYPE 
              24              343 
  JMJD1C MUTATED JMJD1C WILD-TYPE 
              24              343 
[1] "CCDC111 MUTATION ANALYSIS"
[1] 3
  CCDC111 MUTATED CCDC111 WILD-TYPE 
                7               360 
  CCDC111 MUTATED CCDC111 WILD-TYPE 
                7               360 
[1] "PAK2 MUTATION ANALYSIS"
[1] 3
  PAK2 MUTATED PAK2 WILD-TYPE 
            10            357 
  PAK2 MUTATED PAK2 WILD-TYPE 
            10            357 
[1] "SGOL2 MUTATION ANALYSIS"
[1] 3
  SGOL2 MUTATED SGOL2 WILD-TYPE 
             12             355 
  SGOL2 MUTATED SGOL2 WILD-TYPE 
             12             355 
[1] "HECW2 MUTATION ANALYSIS"
[1] 3
  HECW2 MUTATED HECW2 WILD-TYPE 
             28             339 
  HECW2 MUTATED HECW2 WILD-TYPE 
             28             339 
[1] "BTNL3 MUTATION ANALYSIS"
[1] 3
  BTNL3 MUTATED BTNL3 WILD-TYPE 
              7             360 
  BTNL3 MUTATED BTNL3 WILD-TYPE 
              7             360 
[1] "ATF2 MUTATION ANALYSIS"
[1] 3
  ATF2 MUTATED ATF2 WILD-TYPE 
             6            361 
  ATF2 MUTATED ATF2 WILD-TYPE 
             6            361 
[1] "STK38L MUTATION ANALYSIS"
[1] 3
  STK38L MUTATED STK38L WILD-TYPE 
               7              360 
  STK38L MUTATED STK38L WILD-TYPE 
               7              360 
[1] "B4GALT6 MUTATION ANALYSIS"
[1] 3
  B4GALT6 MUTATED B4GALT6 WILD-TYPE 
               10               357 
  B4GALT6 MUTATED B4GALT6 WILD-TYPE 
               10               357 
[1] "MFSD4 MUTATION ANALYSIS"
[1] 3
  MFSD4 MUTATED MFSD4 WILD-TYPE 
              6             361 
  MFSD4 MUTATED MFSD4 WILD-TYPE 
              6             361 
[1] "LRRC6 MUTATION ANALYSIS"
[1] 3
  LRRC6 MUTATED LRRC6 WILD-TYPE 
              3             364 
  LRRC6 MUTATED LRRC6 WILD-TYPE 
              3             364 
[1] "MPP7 MUTATION ANALYSIS"
[1] 3
  MPP7 MUTATED MPP7 WILD-TYPE 
             5            362 
  MPP7 MUTATED MPP7 WILD-TYPE 
             5            362 
[1] "IKBKE MUTATION ANALYSIS"
[1] 3
  IKBKE MUTATED IKBKE WILD-TYPE 
              7             360 
  IKBKE MUTATED IKBKE WILD-TYPE 
              7             360 
[1] "MRPS22 MUTATION ANALYSIS"
[1] 3
  MRPS22 MUTATED MRPS22 WILD-TYPE 
              10              357 
  MRPS22 MUTATED MRPS22 WILD-TYPE 
              10              357 
[1] "HEATR4 MUTATION ANALYSIS"
[1] 3
  HEATR4 MUTATED HEATR4 WILD-TYPE 
              14              353 
  HEATR4 MUTATED HEATR4 WILD-TYPE 
              14              353 
[1] "PSMD11 MUTATION ANALYSIS"
[1] 3
  PSMD11 MUTATED PSMD11 WILD-TYPE 
               8              359 
  PSMD11 MUTATED PSMD11 WILD-TYPE 
               8              359 
[1] "KRTAP12-3 MUTATION ANALYSIS"
[1] 3
  KRTAP12-3 MUTATED KRTAP12-3 WILD-TYPE 
                  3                 364 
  KRTAP12-3 MUTATED KRTAP12-3 WILD-TYPE 
                  3                 364 
[1] "FLNB MUTATION ANALYSIS"
[1] 3
  FLNB MUTATED FLNB WILD-TYPE 
            28            339 
  FLNB MUTATED FLNB WILD-TYPE 
            28            339 
[1] "PALLD MUTATION ANALYSIS"
[1] 3
  PALLD MUTATED PALLD WILD-TYPE 
              9             358 
  PALLD MUTATED PALLD WILD-TYPE 
              9             358 
[1] "GATA1 MUTATION ANALYSIS"
[1] 3
  GATA1 MUTATED GATA1 WILD-TYPE 
             16             351 
  GATA1 MUTATED GATA1 WILD-TYPE 
             16             351 
[1] "TRIP12 MUTATION ANALYSIS"
[1] 3
  TRIP12 MUTATED TRIP12 WILD-TYPE 
              28              339 
  TRIP12 MUTATED TRIP12 WILD-TYPE 
              28              339 
[1] "ZFP91 MUTATION ANALYSIS"
[1] 3
  ZFP91 MUTATED ZFP91 WILD-TYPE 
              7             360 
  ZFP91 MUTATED ZFP91 WILD-TYPE 
              7             360 
[1] "OR9Q2 MUTATION ANALYSIS"
[1] 3
  OR9Q2 MUTATED OR9Q2 WILD-TYPE 
             14             353 
  OR9Q2 MUTATED OR9Q2 WILD-TYPE 
             14             353 
[1] "HIST1H2BC MUTATION ANALYSIS"
[1] 3
  HIST1H2BC MUTATED HIST1H2BC WILD-TYPE 
                  4                 363 
  HIST1H2BC MUTATED HIST1H2BC WILD-TYPE 
                  4                 363 
[1] "CLK4 MUTATION ANALYSIS"
[1] 3
  CLK4 MUTATED CLK4 WILD-TYPE 
             9            358 
  CLK4 MUTATED CLK4 WILD-TYPE 
             9            358 
[1] "LPGAT1 MUTATION ANALYSIS"
[1] 3
  LPGAT1 MUTATED LPGAT1 WILD-TYPE 
               3              364 
  LPGAT1 MUTATED LPGAT1 WILD-TYPE 
               3              364 
[1] "C1ORF85 MUTATION ANALYSIS"
[1] 3
  C1ORF85 MUTATED C1ORF85 WILD-TYPE 
                7               360 
  C1ORF85 MUTATED C1ORF85 WILD-TYPE 
                7               360 
[1] "UGT2A1 MUTATION ANALYSIS"
[1] 3
  UGT2A1 MUTATED UGT2A1 WILD-TYPE 
              10              357 
  UGT2A1 MUTATED UGT2A1 WILD-TYPE 
              10              357 
[1] "TMEM229B MUTATION ANALYSIS"
[1] 3
  TMEM229B MUTATED TMEM229B WILD-TYPE 
                 4                363 
  TMEM229B MUTATED TMEM229B WILD-TYPE 
                 4                363 
[1] "FSHR MUTATION ANALYSIS"
[1] 3
  FSHR MUTATED FSHR WILD-TYPE 
            15            352 
  FSHR MUTATED FSHR WILD-TYPE 
            15            352 
[1] "VEPH1 MUTATION ANALYSIS"
[1] 3
  VEPH1 MUTATED VEPH1 WILD-TYPE 
             17             350 
  VEPH1 MUTATED VEPH1 WILD-TYPE 
             17             350 
[1] "IFITM5 MUTATION ANALYSIS"
[1] 3
  IFITM5 MUTATED IFITM5 WILD-TYPE 
               3              364 
  IFITM5 MUTATED IFITM5 WILD-TYPE 
               3              364 
[1] "SBSN MUTATION ANALYSIS"
[1] 3
  SBSN MUTATED SBSN WILD-TYPE 
            10            357 
  SBSN MUTATED SBSN WILD-TYPE 
            10            357 
[1] "RUSC2 MUTATION ANALYSIS"
[1] 3
  RUSC2 MUTATED RUSC2 WILD-TYPE 
             12             355 
  RUSC2 MUTATED RUSC2 WILD-TYPE 
             12             355 
[1] "CLVS1 MUTATION ANALYSIS"
[1] 3
  CLVS1 MUTATED CLVS1 WILD-TYPE 
             10             357 
  CLVS1 MUTATED CLVS1 WILD-TYPE 
             10             357 
[1] "FOXA2 MUTATION ANALYSIS"
[1] 3
  FOXA2 MUTATED FOXA2 WILD-TYPE 
              6             361 
  FOXA2 MUTATED FOXA2 WILD-TYPE 
              6             361 
[1] "FAM70A MUTATION ANALYSIS"
[1] 3
  FAM70A MUTATED FAM70A WILD-TYPE 
               7              360 
  FAM70A MUTATED FAM70A WILD-TYPE 
               7              360 
[1] "MAOB MUTATION ANALYSIS"
[1] 3
  MAOB MUTATED MAOB WILD-TYPE 
             6            361 
  MAOB MUTATED MAOB WILD-TYPE 
             6            361 
[1] "CCDC6 MUTATION ANALYSIS"
[1] 3
  CCDC6 MUTATED CCDC6 WILD-TYPE 
             11             356 
  CCDC6 MUTATED CCDC6 WILD-TYPE 
             11             356 
[1] "WNK4 MUTATION ANALYSIS"
[1] 3
  WNK4 MUTATED WNK4 WILD-TYPE 
            11            356 
  WNK4 MUTATED WNK4 WILD-TYPE 
            11            356 
[1] "METT5D1 MUTATION ANALYSIS"
[1] 3
  METT5D1 MUTATED METT5D1 WILD-TYPE 
                6               361 
  METT5D1 MUTATED METT5D1 WILD-TYPE 
                6               361 
[1] "SCYL2 MUTATION ANALYSIS"
[1] 3
  SCYL2 MUTATED SCYL2 WILD-TYPE 
             16             351 
  SCYL2 MUTATED SCYL2 WILD-TYPE 
             16             351 
[1] "RBM15B MUTATION ANALYSIS"
[1] 3
  RBM15B MUTATED RBM15B WILD-TYPE 
               8              359 
  RBM15B MUTATED RBM15B WILD-TYPE 
               8              359 
[1] "DHX36 MUTATION ANALYSIS"
[1] 3
  DHX36 MUTATED DHX36 WILD-TYPE 
             12             355 
  DHX36 MUTATED DHX36 WILD-TYPE 
             12             355 
[1] "GFRAL MUTATION ANALYSIS"
[1] 3
  GFRAL MUTATED GFRAL WILD-TYPE 
              4             363 
  GFRAL MUTATED GFRAL WILD-TYPE 
              4             363 
[1] "TAB3 MUTATION ANALYSIS"
[1] 3
  TAB3 MUTATED TAB3 WILD-TYPE 
            10            357 
  TAB3 MUTATED TAB3 WILD-TYPE 
            10            357 
[1] "NXPH1 MUTATION ANALYSIS"
[1] 3
  NXPH1 MUTATED NXPH1 WILD-TYPE 
              8             359 
  NXPH1 MUTATED NXPH1 WILD-TYPE 
              8             359 
[1] "KCNN4 MUTATION ANALYSIS"
[1] 3
  KCNN4 MUTATED KCNN4 WILD-TYPE 
              7             360 
  KCNN4 MUTATED KCNN4 WILD-TYPE 
              7             360 
[1] "SLC9A9 MUTATION ANALYSIS"
[1] 3
  SLC9A9 MUTATED SLC9A9 WILD-TYPE 
              21              346 
  SLC9A9 MUTATED SLC9A9 WILD-TYPE 
              21              346 
[1] "ATP6V0A4 MUTATION ANALYSIS"
[1] 3
  ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE 
                11                356 
  ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE 
                11                356 
[1] "ATG10 MUTATION ANALYSIS"
[1] 3
  ATG10 MUTATED ATG10 WILD-TYPE 
              4             363 
  ATG10 MUTATED ATG10 WILD-TYPE 
              4             363 
[1] "MORC2 MUTATION ANALYSIS"
[1] 3
  MORC2 MUTATED MORC2 WILD-TYPE 
             12             355 
  MORC2 MUTATED MORC2 WILD-TYPE 
             12             355 
[1] "GRIN2B MUTATION ANALYSIS"
[1] 3
  GRIN2B MUTATED GRIN2B WILD-TYPE 
              26              341 
  GRIN2B MUTATED GRIN2B WILD-TYPE 
              26              341 
[1] "FSCB MUTATION ANALYSIS"
[1] 3
  FSCB MUTATED FSCB WILD-TYPE 
            20            347 
  FSCB MUTATED FSCB WILD-TYPE 
            20            347 
[1] "DLGAP5 MUTATION ANALYSIS"
[1] 3
  DLGAP5 MUTATED DLGAP5 WILD-TYPE 
               8              359 
  DLGAP5 MUTATED DLGAP5 WILD-TYPE 
               8              359 
[1] "ACCN5 MUTATION ANALYSIS"
[1] 3
  ACCN5 MUTATED ACCN5 WILD-TYPE 
             13             354 
  ACCN5 MUTATED ACCN5 WILD-TYPE 
             13             354 
[1] "DLGAP3 MUTATION ANALYSIS"
[1] 3
  DLGAP3 MUTATED DLGAP3 WILD-TYPE 
              16              351 
  DLGAP3 MUTATED DLGAP3 WILD-TYPE 
              16              351 
[1] "HSPBAP1 MUTATION ANALYSIS"
[1] 3
  HSPBAP1 MUTATED HSPBAP1 WILD-TYPE 
                7               360 
  HSPBAP1 MUTATED HSPBAP1 WILD-TYPE 
                7               360 
[1] "COLEC12 MUTATION ANALYSIS"
[1] 3
  COLEC12 MUTATED COLEC12 WILD-TYPE 
               17               350 
  COLEC12 MUTATED COLEC12 WILD-TYPE 
               17               350 
[1] "KIFC2 MUTATION ANALYSIS"
[1] 3
  KIFC2 MUTATED KIFC2 WILD-TYPE 
              6             361 
  KIFC2 MUTATED KIFC2 WILD-TYPE 
              6             361 
[1] "PPYR1 MUTATION ANALYSIS"
[1] 3
  PPYR1 MUTATED PPYR1 WILD-TYPE 
              5             362 
  PPYR1 MUTATED PPYR1 WILD-TYPE 
              5             362 
[1] "CASP10 MUTATION ANALYSIS"
[1] 3
  CASP10 MUTATED CASP10 WILD-TYPE 
               7              360 
  CASP10 MUTATED CASP10 WILD-TYPE 
               7              360 
[1] "STAU1 MUTATION ANALYSIS"
[1] 3
  STAU1 MUTATED STAU1 WILD-TYPE 
              7             360 
  STAU1 MUTATED STAU1 WILD-TYPE 
              7             360 
[1] "EFNB3 MUTATION ANALYSIS"
[1] 3
  EFNB3 MUTATED EFNB3 WILD-TYPE 
              8             359 
  EFNB3 MUTATED EFNB3 WILD-TYPE 
              8             359 
[1] "ICAM5 MUTATION ANALYSIS"
[1] 3
  ICAM5 MUTATED ICAM5 WILD-TYPE 
             10             357 
  ICAM5 MUTATED ICAM5 WILD-TYPE 
             10             357 
[1] "ZP2 MUTATION ANALYSIS"
[1] 3
  ZP2 MUTATED ZP2 WILD-TYPE 
           12           355 
  ZP2 MUTATED ZP2 WILD-TYPE 
           12           355 
[1] "RXRA MUTATION ANALYSIS"
[1] 3
  RXRA MUTATED RXRA WILD-TYPE 
             8            359 
  RXRA MUTATED RXRA WILD-TYPE 
             8            359 
[1] "CCT5 MUTATION ANALYSIS"
[1] 3
  CCT5 MUTATED CCT5 WILD-TYPE 
             8            359 
  CCT5 MUTATED CCT5 WILD-TYPE 
             8            359 
[1] "DOCK8 MUTATION ANALYSIS"
[1] 3
  DOCK8 MUTATED DOCK8 WILD-TYPE 
             20             347 
  DOCK8 MUTATED DOCK8 WILD-TYPE 
             20             347 
[1] "ZNF512 MUTATION ANALYSIS"
[1] 3
  ZNF512 MUTATED ZNF512 WILD-TYPE 
               3              364 
  ZNF512 MUTATED ZNF512 WILD-TYPE 
               3              364 
[1] "TBCA MUTATION ANALYSIS"
[1] 3
  TBCA MUTATED TBCA WILD-TYPE 
             4            363 
  TBCA MUTATED TBCA WILD-TYPE 
             4            363 
[1] "EPHA2 MUTATION ANALYSIS"
[1] 3
  EPHA2 MUTATED EPHA2 WILD-TYPE 
             11             356 
  EPHA2 MUTATED EPHA2 WILD-TYPE 
             11             356 
[1] "OR6K2 MUTATION ANALYSIS"
[1] 3
  OR6K2 MUTATED OR6K2 WILD-TYPE 
             14             353 
  OR6K2 MUTATED OR6K2 WILD-TYPE 
             14             353 
[1] "CTR9 MUTATION ANALYSIS"
[1] 3
  CTR9 MUTATED CTR9 WILD-TYPE 
            17            350 
  CTR9 MUTATED CTR9 WILD-TYPE 
            17            350 
[1] "RWDD4A MUTATION ANALYSIS"
[1] 3
  RWDD4A MUTATED RWDD4A WILD-TYPE 
               5              362 
  RWDD4A MUTATED RWDD4A WILD-TYPE 
               5              362 
[1] "STK40 MUTATION ANALYSIS"
[1] 3
  STK40 MUTATED STK40 WILD-TYPE 
              7             360 
  STK40 MUTATED STK40 WILD-TYPE 
              7             360 
[1] "SLC44A1 MUTATION ANALYSIS"
[1] 3
  SLC44A1 MUTATED SLC44A1 WILD-TYPE 
                9               358 
  SLC44A1 MUTATED SLC44A1 WILD-TYPE 
                9               358 
[1] "LPIN2 MUTATION ANALYSIS"
[1] 3
  LPIN2 MUTATED LPIN2 WILD-TYPE 
              9             358 
  LPIN2 MUTATED LPIN2 WILD-TYPE 
              9             358 
[1] "BLM MUTATION ANALYSIS"
[1] 3
  BLM MUTATED BLM WILD-TYPE 
           17           350 
  BLM MUTATED BLM WILD-TYPE 
           17           350 
[1] "C4ORF29 MUTATION ANALYSIS"
[1] 3
  C4ORF29 MUTATED C4ORF29 WILD-TYPE 
                5               362 
  C4ORF29 MUTATED C4ORF29 WILD-TYPE 
                5               362 
[1] "GPR161 MUTATION ANALYSIS"
[1] 3
  GPR161 MUTATED GPR161 WILD-TYPE 
               9              358 
  GPR161 MUTATED GPR161 WILD-TYPE 
               9              358 
[1] "HAUS1 MUTATION ANALYSIS"
[1] 3
  HAUS1 MUTATED HAUS1 WILD-TYPE 
              6             361 
  HAUS1 MUTATED HAUS1 WILD-TYPE 
              6             361 
[1] "BTBD3 MUTATION ANALYSIS"
[1] 3
  BTBD3 MUTATED BTBD3 WILD-TYPE 
             13             354 
  BTBD3 MUTATED BTBD3 WILD-TYPE 
             13             354 
[1] "KLKB1 MUTATION ANALYSIS"
[1] 3
  KLKB1 MUTATED KLKB1 WILD-TYPE 
             13             354 
  KLKB1 MUTATED KLKB1 WILD-TYPE 
             13             354 
[1] "SENP8 MUTATION ANALYSIS"
[1] 3
  SENP8 MUTATED SENP8 WILD-TYPE 
              4             363 
  SENP8 MUTATED SENP8 WILD-TYPE 
              4             363 
[1] "DPP8 MUTATION ANALYSIS"
[1] 3
  DPP8 MUTATED DPP8 WILD-TYPE 
            13            354 
  DPP8 MUTATED DPP8 WILD-TYPE 
            13            354 
[1] "SLC22A10 MUTATION ANALYSIS"
[1] 3
  SLC22A10 MUTATED SLC22A10 WILD-TYPE 
                15                352 
  SLC22A10 MUTATED SLC22A10 WILD-TYPE 
                15                352 
[1] "FANCD2 MUTATION ANALYSIS"
[1] 3
  FANCD2 MUTATED FANCD2 WILD-TYPE 
              15              352 
  FANCD2 MUTATED FANCD2 WILD-TYPE 
              15              352 
[1] "CDS2 MUTATION ANALYSIS"
[1] 3
  CDS2 MUTATED CDS2 WILD-TYPE 
             9            358 
  CDS2 MUTATED CDS2 WILD-TYPE 
             9            358 
[1] "CCDC66 MUTATION ANALYSIS"
[1] 3
  CCDC66 MUTATED CCDC66 WILD-TYPE 
               9              358 
  CCDC66 MUTATED CCDC66 WILD-TYPE 
               9              358 
[1] "TTC13 MUTATION ANALYSIS"
[1] 3
  TTC13 MUTATED TTC13 WILD-TYPE 
              9             358 
  TTC13 MUTATED TTC13 WILD-TYPE 
              9             358 
[1] "GLT8D1 MUTATION ANALYSIS"
[1] 3
  GLT8D1 MUTATED GLT8D1 WILD-TYPE 
               8              359 
  GLT8D1 MUTATED GLT8D1 WILD-TYPE 
               8              359 
[1] "UBC MUTATION ANALYSIS"
[1] 3
  UBC MUTATED UBC WILD-TYPE 
            4           363 
  UBC MUTATED UBC WILD-TYPE 
            4           363 
[1] "ZNF594 MUTATION ANALYSIS"
[1] 3
  ZNF594 MUTATED ZNF594 WILD-TYPE 
              14              353 
  ZNF594 MUTATED ZNF594 WILD-TYPE 
              14              353 
[1] "BTF3L4 MUTATION ANALYSIS"
[1] 3
  BTF3L4 MUTATED BTF3L4 WILD-TYPE 
               5              362 
  BTF3L4 MUTATED BTF3L4 WILD-TYPE 
               5              362 
[1] "C14ORF105 MUTATION ANALYSIS"
[1] 3
  C14ORF105 MUTATED C14ORF105 WILD-TYPE 
                  3                 364 
  C14ORF105 MUTATED C14ORF105 WILD-TYPE 
                  3                 364 
[1] "UBA3 MUTATION ANALYSIS"
[1] 3
  UBA3 MUTATED UBA3 WILD-TYPE 
             6            361 
  UBA3 MUTATED UBA3 WILD-TYPE 
             6            361 
[1] "UBE3C MUTATION ANALYSIS"
[1] 3
  UBE3C MUTATED UBE3C WILD-TYPE 
             18             349 
  UBE3C MUTATED UBE3C WILD-TYPE 
             18             349 
[1] "ZCWPW2 MUTATION ANALYSIS"
[1] 3
  ZCWPW2 MUTATED ZCWPW2 WILD-TYPE 
              11              356 
  ZCWPW2 MUTATED ZCWPW2 WILD-TYPE 
              11              356 
[1] "ZNF711 MUTATION ANALYSIS"
[1] 3
  ZNF711 MUTATED ZNF711 WILD-TYPE 
              10              357 
  ZNF711 MUTATED ZNF711 WILD-TYPE 
              10              357 
[1] "PRSS48 MUTATION ANALYSIS"
[1] 3
  PRSS48 MUTATED PRSS48 WILD-TYPE 
               7              360 
  PRSS48 MUTATED PRSS48 WILD-TYPE 
               7              360 
[1] "MMP7 MUTATION ANALYSIS"
[1] 3
  MMP7 MUTATED MMP7 WILD-TYPE 
             8            359 
  MMP7 MUTATED MMP7 WILD-TYPE 
             8            359 
[1] "FAM120C MUTATION ANALYSIS"
[1] 3
  FAM120C MUTATED FAM120C WILD-TYPE 
                8               359 
  FAM120C MUTATED FAM120C WILD-TYPE 
                8               359 
[1] "TMSB15B MUTATION ANALYSIS"
[1] 3
  TMSB15B MUTATED TMSB15B WILD-TYPE 
                3               364 
  TMSB15B MUTATED TMSB15B WILD-TYPE 
                3               364 
[1] "UHRF1BP1L MUTATION ANALYSIS"
[1] 3
  UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE 
                 20                 347 
  UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE 
                 20                 347 
[1] "PLEKHH2 MUTATION ANALYSIS"
[1] 3
  PLEKHH2 MUTATED PLEKHH2 WILD-TYPE 
               19               348 
  PLEKHH2 MUTATED PLEKHH2 WILD-TYPE 
               19               348 
[1] "VPRBP MUTATION ANALYSIS"
[1] 3
  VPRBP MUTATED VPRBP WILD-TYPE 
             12             355 
  VPRBP MUTATED VPRBP WILD-TYPE 
             12             355 
[1] "ZP3 MUTATION ANALYSIS"
[1] 3
  ZP3 MUTATED ZP3 WILD-TYPE 
            6           361 
  ZP3 MUTATED ZP3 WILD-TYPE 
            6           361 
[1] "OR11H12 MUTATION ANALYSIS"
[1] 3
  OR11H12 MUTATED OR11H12 WILD-TYPE 
                3               364 
  OR11H12 MUTATED OR11H12 WILD-TYPE 
                3               364 
[1] "MMAA MUTATION ANALYSIS"
[1] 3
  MMAA MUTATED MMAA WILD-TYPE 
             9            358 
  MMAA MUTATED MMAA WILD-TYPE 
             9            358 
[1] "CALCOCO2 MUTATION ANALYSIS"
[1] 3
  CALCOCO2 MUTATED CALCOCO2 WILD-TYPE 
                 7                360 
  CALCOCO2 MUTATED CALCOCO2 WILD-TYPE 
                 7                360 
[1] "ZNF385B MUTATION ANALYSIS"
[1] 3
  ZNF385B MUTATED ZNF385B WILD-TYPE 
                7               360 
  ZNF385B MUTATED ZNF385B WILD-TYPE 
                7               360 
[1] "SUPT3H MUTATION ANALYSIS"
[1] 3
  SUPT3H MUTATED SUPT3H WILD-TYPE 
              11              356 
  SUPT3H MUTATED SUPT3H WILD-TYPE 
              11              356 
[1] "FMO5 MUTATION ANALYSIS"
[1] 3
  FMO5 MUTATED FMO5 WILD-TYPE 
            10            357 
  FMO5 MUTATED FMO5 WILD-TYPE 
            10            357 
[1] "CHRM3 MUTATION ANALYSIS"
[1] 3
  CHRM3 MUTATED CHRM3 WILD-TYPE 
             13             354 
  CHRM3 MUTATED CHRM3 WILD-TYPE 
             13             354 
[1] "SYT2 MUTATION ANALYSIS"
[1] 3
  SYT2 MUTATED SYT2 WILD-TYPE 
             8            359 
  SYT2 MUTATED SYT2 WILD-TYPE 
             8            359 
[1] "NCL MUTATION ANALYSIS"
[1] 3
  NCL MUTATED NCL WILD-TYPE 
           10           357 
  NCL MUTATED NCL WILD-TYPE 
           10           357 
[1] "ZNF462 MUTATION ANALYSIS"
[1] 3
  ZNF462 MUTATED ZNF462 WILD-TYPE 
              26              341 
  ZNF462 MUTATED ZNF462 WILD-TYPE 
              26              341 
[1] "SIX5 MUTATION ANALYSIS"
[1] 3
  SIX5 MUTATED SIX5 WILD-TYPE 
             5            362 
  SIX5 MUTATED SIX5 WILD-TYPE 
             5            362 
[1] "C9ORF125 MUTATION ANALYSIS"
[1] 3
  C9ORF125 MUTATED C9ORF125 WILD-TYPE 
                12                355 
  C9ORF125 MUTATED C9ORF125 WILD-TYPE 
                12                355 
[1] "AMBRA1 MUTATION ANALYSIS"
[1] 3
  AMBRA1 MUTATED AMBRA1 WILD-TYPE 
              18              349 
  AMBRA1 MUTATED AMBRA1 WILD-TYPE 
              18              349 
[1] "ANAPC16 MUTATION ANALYSIS"
[1] 3
  ANAPC16 MUTATED ANAPC16 WILD-TYPE 
                3               364 
  ANAPC16 MUTATED ANAPC16 WILD-TYPE 
                3               364 
[1] "SETX MUTATION ANALYSIS"
[1] 3
  SETX MUTATED SETX WILD-TYPE 
            26            341 
  SETX MUTATED SETX WILD-TYPE 
            26            341 
[1] "PEBP4 MUTATION ANALYSIS"
[1] 3
  PEBP4 MUTATED PEBP4 WILD-TYPE 
              7             360 
  PEBP4 MUTATED PEBP4 WILD-TYPE 
              7             360 
[1] "LEPROTL1 MUTATION ANALYSIS"
[1] 3
  LEPROTL1 MUTATED LEPROTL1 WILD-TYPE 
                 5                362 
  LEPROTL1 MUTATED LEPROTL1 WILD-TYPE 
                 5                362 
[1] "MAP7 MUTATION ANALYSIS"
[1] 3
  MAP7 MUTATED MAP7 WILD-TYPE 
            11            356 
  MAP7 MUTATED MAP7 WILD-TYPE 
            11            356 
[1] "MCF2L2 MUTATION ANALYSIS"
[1] 3
  MCF2L2 MUTATED MCF2L2 WILD-TYPE 
              19              348 
  MCF2L2 MUTATED MCF2L2 WILD-TYPE 
              19              348 
[1] "ANKRD26 MUTATION ANALYSIS"
[1] 3
  ANKRD26 MUTATED ANKRD26 WILD-TYPE 
               19               348 
  ANKRD26 MUTATED ANKRD26 WILD-TYPE 
               19               348 
[1] "DNAJC18 MUTATION ANALYSIS"
[1] 3
  DNAJC18 MUTATED DNAJC18 WILD-TYPE 
                7               360 
  DNAJC18 MUTATED DNAJC18 WILD-TYPE 
                7               360 
[1] "ESRP2 MUTATION ANALYSIS"
[1] 3
  ESRP2 MUTATED ESRP2 WILD-TYPE 
              9             358 
  ESRP2 MUTATED ESRP2 WILD-TYPE 
              9             358 
[1] "NLRP13 MUTATION ANALYSIS"
[1] 3
  NLRP13 MUTATED NLRP13 WILD-TYPE 
              27              340 
  NLRP13 MUTATED NLRP13 WILD-TYPE 
              27              340 
[1] "LRRN1 MUTATION ANALYSIS"
[1] 3
  LRRN1 MUTATED LRRN1 WILD-TYPE 
             17             350 
  LRRN1 MUTATED LRRN1 WILD-TYPE 
             17             350 
[1] "VIM MUTATION ANALYSIS"
[1] 3
  VIM MUTATED VIM WILD-TYPE 
            7           360 
  VIM MUTATED VIM WILD-TYPE 
            7           360 
[1] "WDR45L MUTATION ANALYSIS"
[1] 3
  WDR45L MUTATED WDR45L WILD-TYPE 
               7              360 
  WDR45L MUTATED WDR45L WILD-TYPE 
               7              360 
[1] "PISD MUTATION ANALYSIS"
[1] 3
  PISD MUTATED PISD WILD-TYPE 
             3            364 
  PISD MUTATED PISD WILD-TYPE 
             3            364 
[1] "ST18 MUTATION ANALYSIS"
[1] 3
  ST18 MUTATED ST18 WILD-TYPE 
            23            344 
  ST18 MUTATED ST18 WILD-TYPE 
            23            344 
[1] "MAGOHB MUTATION ANALYSIS"
[1] 3
  MAGOHB MUTATED MAGOHB WILD-TYPE 
               3              364 
  MAGOHB MUTATED MAGOHB WILD-TYPE 
               3              364 
[1] "DEFB129 MUTATION ANALYSIS"
[1] 3
  DEFB129 MUTATED DEFB129 WILD-TYPE 
                5               362 
  DEFB129 MUTATED DEFB129 WILD-TYPE 
                5               362 
[1] "OR8K3 MUTATION ANALYSIS"
[1] 3
  OR8K3 MUTATED OR8K3 WILD-TYPE 
             10             357 
  OR8K3 MUTATED OR8K3 WILD-TYPE 
             10             357 
[1] "G2E3 MUTATION ANALYSIS"
[1] 3
  G2E3 MUTATED G2E3 WILD-TYPE 
            12            355 
  G2E3 MUTATED G2E3 WILD-TYPE 
            12            355 
[1] "GRK5 MUTATION ANALYSIS"
[1] 3
  GRK5 MUTATED GRK5 WILD-TYPE 
            11            356 
  GRK5 MUTATED GRK5 WILD-TYPE 
            11            356 
[1] "GLDN MUTATION ANALYSIS"
[1] 3
  GLDN MUTATED GLDN WILD-TYPE 
             7            360 
  GLDN MUTATED GLDN WILD-TYPE 
             7            360 
[1] "LAMA3 MUTATION ANALYSIS"
[1] 3
  LAMA3 MUTATED LAMA3 WILD-TYPE 
             34             333 
  LAMA3 MUTATED LAMA3 WILD-TYPE 
             34             333 
[1] "GNG12 MUTATION ANALYSIS"
[1] 3
  GNG12 MUTATED GNG12 WILD-TYPE 
              8             359 
  GNG12 MUTATED GNG12 WILD-TYPE 
              8             359 
[1] "GUCY1A3 MUTATION ANALYSIS"
[1] 3
  GUCY1A3 MUTATED GUCY1A3 WILD-TYPE 
               22               345 
  GUCY1A3 MUTATED GUCY1A3 WILD-TYPE 
               22               345 
[1] "CALB2 MUTATION ANALYSIS"
[1] 3
  CALB2 MUTATED CALB2 WILD-TYPE 
              4             363 
  CALB2 MUTATED CALB2 WILD-TYPE 
              4             363 
[1] "LRRN3 MUTATION ANALYSIS"
[1] 3
  LRRN3 MUTATED LRRN3 WILD-TYPE 
             21             346 
  LRRN3 MUTATED LRRN3 WILD-TYPE 
             21             346 
[1] "DEK MUTATION ANALYSIS"
[1] 3
  DEK MUTATED DEK WILD-TYPE 
            6           361 
  DEK MUTATED DEK WILD-TYPE 
            6           361 
[1] "PCDH9 MUTATION ANALYSIS"
[1] 3
  PCDH9 MUTATED PCDH9 WILD-TYPE 
             38             329 
  PCDH9 MUTATED PCDH9 WILD-TYPE 
             38             329 
[1] "LIX1 MUTATION ANALYSIS"
[1] 3
  LIX1 MUTATED LIX1 WILD-TYPE 
             9            358 
  LIX1 MUTATED LIX1 WILD-TYPE 
             9            358 
[1] "C3ORF63 MUTATION ANALYSIS"
[1] 3
  C3ORF63 MUTATED C3ORF63 WILD-TYPE 
               21               346 
  C3ORF63 MUTATED C3ORF63 WILD-TYPE 
               21               346 
[1] "FAM199X MUTATION ANALYSIS"
[1] 3
  FAM199X MUTATED FAM199X WILD-TYPE 
               10               357 
  FAM199X MUTATED FAM199X WILD-TYPE 
               10               357 
[1] "SKIV2L MUTATION ANALYSIS"
[1] 3
  SKIV2L MUTATED SKIV2L WILD-TYPE 
              12              355 
  SKIV2L MUTATED SKIV2L WILD-TYPE 
              12              355 
[1] "TAPBP MUTATION ANALYSIS"
[1] 3
  TAPBP MUTATED TAPBP WILD-TYPE 
              3             364 
  TAPBP MUTATED TAPBP WILD-TYPE 
              3             364 
[1] "CDHR3 MUTATION ANALYSIS"
[1] 3
  CDHR3 MUTATED CDHR3 WILD-TYPE 
             13             354 
  CDHR3 MUTATED CDHR3 WILD-TYPE 
             13             354 
[1] "TJP1 MUTATION ANALYSIS"
[1] 3
  TJP1 MUTATED TJP1 WILD-TYPE 
            18            349 
  TJP1 MUTATED TJP1 WILD-TYPE 
            18            349 
[1] "DPPA2 MUTATION ANALYSIS"
[1] 3
  DPPA2 MUTATED DPPA2 WILD-TYPE 
              7             360 
  DPPA2 MUTATED DPPA2 WILD-TYPE 
              7             360 
[1] "HIST1H4L MUTATION ANALYSIS"
[1] 3
  HIST1H4L MUTATED HIST1H4L WILD-TYPE 
                 6                361 
  HIST1H4L MUTATED HIST1H4L WILD-TYPE 
                 6                361 
[1] "AFF3 MUTATION ANALYSIS"
[1] 3
  AFF3 MUTATED AFF3 WILD-TYPE 
            22            345 
  AFF3 MUTATED AFF3 WILD-TYPE 
            22            345 
[1] "TRAF3IP3 MUTATION ANALYSIS"
[1] 3
  TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE 
                12                355 
  TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE 
                12                355 
[1] "CDH24 MUTATION ANALYSIS"
[1] 3
  CDH24 MUTATED CDH24 WILD-TYPE 
             12             355 
  CDH24 MUTATED CDH24 WILD-TYPE 
             12             355 
[1] "TYW3 MUTATION ANALYSIS"
[1] 3
  TYW3 MUTATED TYW3 WILD-TYPE 
             6            361 
  TYW3 MUTATED TYW3 WILD-TYPE 
             6            361 
[1] "ZNF197 MUTATION ANALYSIS"
[1] 3
  ZNF197 MUTATED ZNF197 WILD-TYPE 
               9              358 
  ZNF197 MUTATED ZNF197 WILD-TYPE 
               9              358 
[1] "ESCO1 MUTATION ANALYSIS"
[1] 3
  ESCO1 MUTATED ESCO1 WILD-TYPE 
             13             354 
  ESCO1 MUTATED ESCO1 WILD-TYPE 
             13             354 
[1] "NT5C3L MUTATION ANALYSIS"
[1] 3
  NT5C3L MUTATED NT5C3L WILD-TYPE 
               5              362 
  NT5C3L MUTATED NT5C3L WILD-TYPE 
               5              362 
[1] "KIAA1919 MUTATION ANALYSIS"
[1] 3
  KIAA1919 MUTATED KIAA1919 WILD-TYPE 
                 9                358 
  KIAA1919 MUTATED KIAA1919 WILD-TYPE 
                 9                358 
[1] "EPB41L4B MUTATION ANALYSIS"
[1] 3
  EPB41L4B MUTATED EPB41L4B WILD-TYPE 
                12                355 
  EPB41L4B MUTATED EPB41L4B WILD-TYPE 
                12                355 
[1] "SRL MUTATION ANALYSIS"
[1] 3
  SRL MUTATED SRL WILD-TYPE 
           12           355 
  SRL MUTATED SRL WILD-TYPE 
           12           355 
[1] "SKIV2L2 MUTATION ANALYSIS"
[1] 3
  SKIV2L2 MUTATED SKIV2L2 WILD-TYPE 
               11               356 
  SKIV2L2 MUTATED SKIV2L2 WILD-TYPE 
               11               356 
[1] "KBTBD4 MUTATION ANALYSIS"
[1] 3
  KBTBD4 MUTATED KBTBD4 WILD-TYPE 
               7              360 
  KBTBD4 MUTATED KBTBD4 WILD-TYPE 
               7              360 
[1] "OLFML1 MUTATION ANALYSIS"
[1] 3
  OLFML1 MUTATED OLFML1 WILD-TYPE 
              11              356 
  OLFML1 MUTATED OLFML1 WILD-TYPE 
              11              356 
[1] "C7ORF60 MUTATION ANALYSIS"
[1] 3
  C7ORF60 MUTATED C7ORF60 WILD-TYPE 
                6               361 
  C7ORF60 MUTATED C7ORF60 WILD-TYPE 
                6               361 
[1] "IDE MUTATION ANALYSIS"
[1] 3
  IDE MUTATED IDE WILD-TYPE 
           10           357 
  IDE MUTATED IDE WILD-TYPE 
           10           357 
[1] "C1ORF124 MUTATION ANALYSIS"
[1] 3
  C1ORF124 MUTATED C1ORF124 WILD-TYPE 
                 8                359 
  C1ORF124 MUTATED C1ORF124 WILD-TYPE 
                 8                359 
[1] "PIGK MUTATION ANALYSIS"
[1] 3
  PIGK MUTATED PIGK WILD-TYPE 
            10            357 
  PIGK MUTATED PIGK WILD-TYPE 
            10            357 
[1] "TRIB1 MUTATION ANALYSIS"
[1] 3
  TRIB1 MUTATED TRIB1 WILD-TYPE 
              7             360 
  TRIB1 MUTATED TRIB1 WILD-TYPE 
              7             360 
[1] "MYST3 MUTATION ANALYSIS"
[1] 3
  MYST3 MUTATED MYST3 WILD-TYPE 
             24             343 
  MYST3 MUTATED MYST3 WILD-TYPE 
             24             343 
[1] "KLF12 MUTATION ANALYSIS"
[1] 3
  KLF12 MUTATED KLF12 WILD-TYPE 
              3             364 
  KLF12 MUTATED KLF12 WILD-TYPE 
              3             364 
[1] "APLP1 MUTATION ANALYSIS"
[1] 3
  APLP1 MUTATED APLP1 WILD-TYPE 
             16             351 
  APLP1 MUTATED APLP1 WILD-TYPE 
             16             351 
[1] "SPARCL1 MUTATION ANALYSIS"
[1] 3
  SPARCL1 MUTATED SPARCL1 WILD-TYPE 
               14               353 
  SPARCL1 MUTATED SPARCL1 WILD-TYPE 
               14               353 
[1] "UGT1A9 MUTATION ANALYSIS"
[1] 3
  UGT1A9 MUTATED UGT1A9 WILD-TYPE 
               9              358 
  UGT1A9 MUTATED UGT1A9 WILD-TYPE 
               9              358 
[1] "MBP MUTATION ANALYSIS"
[1] 3
  MBP MUTATED MBP WILD-TYPE 
            6           361 
  MBP MUTATED MBP WILD-TYPE 
            6           361 
[1] "AAMP MUTATION ANALYSIS"
[1] 3
  AAMP MUTATED AAMP WILD-TYPE 
             3            364 
  AAMP MUTATED AAMP WILD-TYPE 
             3            364 
[1] "MGEA5 MUTATION ANALYSIS"
[1] 3
  MGEA5 MUTATED MGEA5 WILD-TYPE 
              8             359 
  MGEA5 MUTATED MGEA5 WILD-TYPE 
              8             359 
[1] "BEX5 MUTATION ANALYSIS"
[1] 3
  BEX5 MUTATED BEX5 WILD-TYPE 
             7            360 
  BEX5 MUTATED BEX5 WILD-TYPE 
             7            360 
[1] "HAUS3 MUTATION ANALYSIS"
[1] 3
  HAUS3 MUTATED HAUS3 WILD-TYPE 
              9             358 
  HAUS3 MUTATED HAUS3 WILD-TYPE 
              9             358 
[1] "HYDIN MUTATION ANALYSIS"
[1] 3
  HYDIN MUTATED HYDIN WILD-TYPE 
             80             287 
  HYDIN MUTATED HYDIN WILD-TYPE 
             80             287 
[1] "NUDT16L1 MUTATION ANALYSIS"
[1] 3
  NUDT16L1 MUTATED NUDT16L1 WILD-TYPE 
                 3                364 
  NUDT16L1 MUTATED NUDT16L1 WILD-TYPE 
                 3                364 
[1] "AGBL5 MUTATION ANALYSIS"
[1] 3
  AGBL5 MUTATED AGBL5 WILD-TYPE 
             12             355 
  AGBL5 MUTATED AGBL5 WILD-TYPE 
             12             355 
[1] "C14ORF104 MUTATION ANALYSIS"
[1] 3
  C14ORF104 MUTATED C14ORF104 WILD-TYPE 
                  4                 363 
  C14ORF104 MUTATED C14ORF104 WILD-TYPE 
                  4                 363 
[1] "ZSCAN20 MUTATION ANALYSIS"
[1] 3
  ZSCAN20 MUTATED ZSCAN20 WILD-TYPE 
               13               354 
  ZSCAN20 MUTATED ZSCAN20 WILD-TYPE 
               13               354 
[1] "PLCB2 MUTATION ANALYSIS"
[1] 3
  PLCB2 MUTATED PLCB2 WILD-TYPE 
              9             358 
  PLCB2 MUTATED PLCB2 WILD-TYPE 
              9             358 
[1] "SAFB MUTATION ANALYSIS"
[1] 3
  SAFB MUTATED SAFB WILD-TYPE 
            14            353 
  SAFB MUTATED SAFB WILD-TYPE 
            14            353 
[1] "GSK3B MUTATION ANALYSIS"
[1] 3
  GSK3B MUTATED GSK3B WILD-TYPE 
             14             353 
  GSK3B MUTATED GSK3B WILD-TYPE 
             14             353 
[1] "DNAJB11 MUTATION ANALYSIS"
[1] 3
  DNAJB11 MUTATED DNAJB11 WILD-TYPE 
                9               358 
  DNAJB11 MUTATED DNAJB11 WILD-TYPE 
                9               358 
[1] "SLC46A3 MUTATION ANALYSIS"
[1] 3
  SLC46A3 MUTATED SLC46A3 WILD-TYPE 
                8               359 
  SLC46A3 MUTATED SLC46A3 WILD-TYPE 
                8               359 
[1] "C9ORF102 MUTATION ANALYSIS"
[1] 3
  C9ORF102 MUTATED C9ORF102 WILD-TYPE 
                 8                359 
  C9ORF102 MUTATED C9ORF102 WILD-TYPE 
                 8                359 
[1] "NSF MUTATION ANALYSIS"
[1] 3
  NSF MUTATED NSF WILD-TYPE 
            4           363 
  NSF MUTATED NSF WILD-TYPE 
            4           363 
[1] "MTIF2 MUTATION ANALYSIS"
[1] 3
  MTIF2 MUTATED MTIF2 WILD-TYPE 
              9             358 
  MTIF2 MUTATED MTIF2 WILD-TYPE 
              9             358 
[1] "MEGF8 MUTATION ANALYSIS"
[1] 3
  MEGF8 MUTATED MEGF8 WILD-TYPE 
             24             343 
  MEGF8 MUTATED MEGF8 WILD-TYPE 
             24             343 
[1] "ARID2 MUTATION ANALYSIS"
[1] 3
  ARID2 MUTATED ARID2 WILD-TYPE 
             31             336 
  ARID2 MUTATED ARID2 WILD-TYPE 
             31             336 
[1] "PCDHGA4 MUTATION ANALYSIS"
[1] 3
  PCDHGA4 MUTATED PCDHGA4 WILD-TYPE 
               18               349 
  PCDHGA4 MUTATED PCDHGA4 WILD-TYPE 
               18               349 
[1] "NRAP MUTATION ANALYSIS"
[1] 3
  NRAP MUTATED NRAP WILD-TYPE 
            24            343 
  NRAP MUTATED NRAP WILD-TYPE 
            24            343 
[1] "DDX11 MUTATION ANALYSIS"
[1] 3
  DDX11 MUTATED DDX11 WILD-TYPE 
              7             360 
  DDX11 MUTATED DDX11 WILD-TYPE 
              7             360 
[1] "KIF5B MUTATION ANALYSIS"
[1] 3
  KIF5B MUTATED KIF5B WILD-TYPE 
             14             353 
  KIF5B MUTATED KIF5B WILD-TYPE 
             14             353 
[1] "ZNF418 MUTATION ANALYSIS"
[1] 3
  ZNF418 MUTATED ZNF418 WILD-TYPE 
              14              353 
  ZNF418 MUTATED ZNF418 WILD-TYPE 
              14              353 
[1] "TRPC1 MUTATION ANALYSIS"
[1] 3
  TRPC1 MUTATED TRPC1 WILD-TYPE 
             13             354 
  TRPC1 MUTATED TRPC1 WILD-TYPE 
             13             354 
[1] "ZNF124 MUTATION ANALYSIS"
[1] 3
  ZNF124 MUTATED ZNF124 WILD-TYPE 
               8              359 
  ZNF124 MUTATED ZNF124 WILD-TYPE 
               8              359 
[1] "KLC3 MUTATION ANALYSIS"
[1] 3
  KLC3 MUTATED KLC3 WILD-TYPE 
             6            361 
  KLC3 MUTATED KLC3 WILD-TYPE 
             6            361 
[1] "KIAA0528 MUTATION ANALYSIS"
[1] 3
  KIAA0528 MUTATED KIAA0528 WILD-TYPE 
                15                352 
  KIAA0528 MUTATED KIAA0528 WILD-TYPE 
                15                352 
[1] "RNF219 MUTATION ANALYSIS"
[1] 3
  RNF219 MUTATED RNF219 WILD-TYPE 
              14              353 
  RNF219 MUTATED RNF219 WILD-TYPE 
              14              353 
[1] "MED12L MUTATION ANALYSIS"
[1] 3
  MED12L MUTATED MED12L WILD-TYPE 
              28              339 
  MED12L MUTATED MED12L WILD-TYPE 
              28              339 
[1] "PIWIL1 MUTATION ANALYSIS"
[1] 3
  PIWIL1 MUTATED PIWIL1 WILD-TYPE 
              22              345 
  PIWIL1 MUTATED PIWIL1 WILD-TYPE 
              22              345 
[1] "ZNF546 MUTATION ANALYSIS"
[1] 3
  ZNF546 MUTATED ZNF546 WILD-TYPE 
              15              352 
  ZNF546 MUTATED ZNF546 WILD-TYPE 
              15              352 
[1] "ZNF643 MUTATION ANALYSIS"
[1] 3
  ZNF643 MUTATED ZNF643 WILD-TYPE 
               9              358 
  ZNF643 MUTATED ZNF643 WILD-TYPE 
               9              358 
[1] "ANK3 MUTATION ANALYSIS"
[1] 3
  ANK3 MUTATED ANK3 WILD-TYPE 
            48            319 
  ANK3 MUTATED ANK3 WILD-TYPE 
            48            319 
[1] "KRT25 MUTATION ANALYSIS"
[1] 3
  KRT25 MUTATED KRT25 WILD-TYPE 
             10             357 
  KRT25 MUTATED KRT25 WILD-TYPE 
             10             357 
[1] "ACTA1 MUTATION ANALYSIS"
[1] 3
  ACTA1 MUTATED ACTA1 WILD-TYPE 
             12             355 
  ACTA1 MUTATED ACTA1 WILD-TYPE 
             12             355 
[1] "RNF10 MUTATION ANALYSIS"
[1] 3
  RNF10 MUTATED RNF10 WILD-TYPE 
             13             354 
  RNF10 MUTATED RNF10 WILD-TYPE 
             13             354 
[1] "ZNF577 MUTATION ANALYSIS"
[1] 3
  ZNF577 MUTATED ZNF577 WILD-TYPE 
              12              355 
  ZNF577 MUTATED ZNF577 WILD-TYPE 
              12              355 
[1] "SRGAP3 MUTATION ANALYSIS"
[1] 3
  SRGAP3 MUTATED SRGAP3 WILD-TYPE 
              17              350 
  SRGAP3 MUTATED SRGAP3 WILD-TYPE 
              17              350 
[1] "ZMYND8 MUTATION ANALYSIS"
[1] 3
  ZMYND8 MUTATED ZMYND8 WILD-TYPE 
              25              342 
  ZMYND8 MUTATED ZMYND8 WILD-TYPE 
              25              342 
[1] "KIAA0319 MUTATION ANALYSIS"
[1] 3
  KIAA0319 MUTATED KIAA0319 WILD-TYPE 
                15                352 
  KIAA0319 MUTATED KIAA0319 WILD-TYPE 
                15                352 
[1] "PUS7 MUTATION ANALYSIS"
[1] 3
  PUS7 MUTATED PUS7 WILD-TYPE 
            13            354 
  PUS7 MUTATED PUS7 WILD-TYPE 
            13            354 
[1] "DCLRE1C MUTATION ANALYSIS"
[1] 3
  DCLRE1C MUTATED DCLRE1C WILD-TYPE 
                9               358 
  DCLRE1C MUTATED DCLRE1C WILD-TYPE 
                9               358 
[1] "TEX2 MUTATION ANALYSIS"
[1] 3
  TEX2 MUTATED TEX2 WILD-TYPE 
            12            355 
  TEX2 MUTATED TEX2 WILD-TYPE 
            12            355 
[1] "BRD4 MUTATION ANALYSIS"
[1] 3
  BRD4 MUTATED BRD4 WILD-TYPE 
            20            347 
  BRD4 MUTATED BRD4 WILD-TYPE 
            20            347 
[1] "ZMIZ1 MUTATION ANALYSIS"
[1] 3
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
              9             358 
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
              9             358 
[1] "SLC44A4 MUTATION ANALYSIS"
[1] 3
  SLC44A4 MUTATED SLC44A4 WILD-TYPE 
               12               355 
  SLC44A4 MUTATED SLC44A4 WILD-TYPE 
               12               355 
[1] "NCF2 MUTATION ANALYSIS"
[1] 3
  NCF2 MUTATED NCF2 WILD-TYPE 
             8            359 
  NCF2 MUTATED NCF2 WILD-TYPE 
             8            359 
[1] "MFRP MUTATION ANALYSIS"
[1] 3
  MFRP MUTATED MFRP WILD-TYPE 
            11            356 
  MFRP MUTATED MFRP WILD-TYPE 
            11            356 
[1] "PKHD1 MUTATION ANALYSIS"
[1] 3
  PKHD1 MUTATED PKHD1 WILD-TYPE 
             57             310 
  PKHD1 MUTATED PKHD1 WILD-TYPE 
             57             310 
[1] "TAF4 MUTATION ANALYSIS"
[1] 3
  TAF4 MUTATED TAF4 WILD-TYPE 
             9            358 
  TAF4 MUTATED TAF4 WILD-TYPE 
             9            358 
[1] "USP1 MUTATION ANALYSIS"
[1] 3
  USP1 MUTATED USP1 WILD-TYPE 
             9            358 
  USP1 MUTATED USP1 WILD-TYPE 
             9            358 
[1] "TRHDE MUTATION ANALYSIS"
[1] 3
  TRHDE MUTATED TRHDE WILD-TYPE 
             27             340 
  TRHDE MUTATED TRHDE WILD-TYPE 
             27             340 
[1] "STK3 MUTATION ANALYSIS"
[1] 3
  STK3 MUTATED STK3 WILD-TYPE 
             9            358 
  STK3 MUTATED STK3 WILD-TYPE 
             9            358 
[1] "SEC14L1 MUTATION ANALYSIS"
[1] 3
  SEC14L1 MUTATED SEC14L1 WILD-TYPE 
               10               357 
  SEC14L1 MUTATED SEC14L1 WILD-TYPE 
               10               357 
[1] "IL18R1 MUTATION ANALYSIS"
[1] 3
  IL18R1 MUTATED IL18R1 WILD-TYPE 
              13              354 
  IL18R1 MUTATED IL18R1 WILD-TYPE 
              13              354 
[1] "TOX MUTATION ANALYSIS"
[1] 3
  TOX MUTATED TOX WILD-TYPE 
           15           352 
  TOX MUTATED TOX WILD-TYPE 
           15           352 
[1] "ROCK1 MUTATION ANALYSIS"
[1] 3
  ROCK1 MUTATED ROCK1 WILD-TYPE 
             17             350 
  ROCK1 MUTATED ROCK1 WILD-TYPE 
             17             350 
[1] "CCDC158 MUTATION ANALYSIS"
[1] 3
  CCDC158 MUTATED CCDC158 WILD-TYPE 
               16               351 
  CCDC158 MUTATED CCDC158 WILD-TYPE 
               16               351 
[1] "XPO4 MUTATION ANALYSIS"
[1] 3
  XPO4 MUTATED XPO4 WILD-TYPE 
            18            349 
  XPO4 MUTATED XPO4 WILD-TYPE 
            18            349 
[1] "ULK2 MUTATION ANALYSIS"
[1] 3
  ULK2 MUTATED ULK2 WILD-TYPE 
            12            355 
  ULK2 MUTATED ULK2 WILD-TYPE 
            12            355 
[1] "TMEM62 MUTATION ANALYSIS"
[1] 3
  TMEM62 MUTATED TMEM62 WILD-TYPE 
               6              361 
  TMEM62 MUTATED TMEM62 WILD-TYPE 
               6              361 
[1] "ATR MUTATION ANALYSIS"
[1] 3
  ATR MUTATED ATR WILD-TYPE 
           28           339 
  ATR MUTATED ATR WILD-TYPE 
           28           339 
[1] "FABP2 MUTATION ANALYSIS"
[1] 3
  FABP2 MUTATED FABP2 WILD-TYPE 
              7             360 
  FABP2 MUTATED FABP2 WILD-TYPE 
              7             360 
[1] "CTNND1 MUTATION ANALYSIS"
[1] 3
  CTNND1 MUTATED CTNND1 WILD-TYPE 
              18              349 
  CTNND1 MUTATED CTNND1 WILD-TYPE 
              18              349 
[1] "NEDD9 MUTATION ANALYSIS"
[1] 3
  NEDD9 MUTATED NEDD9 WILD-TYPE 
             12             355 
  NEDD9 MUTATED NEDD9 WILD-TYPE 
             12             355 
[1] "HCFC1R1 MUTATION ANALYSIS"
[1] 3
  HCFC1R1 MUTATED HCFC1R1 WILD-TYPE 
                5               362 
  HCFC1R1 MUTATED HCFC1R1 WILD-TYPE 
                5               362 
[1] "PRKCQ MUTATION ANALYSIS"
[1] 3
  PRKCQ MUTATED PRKCQ WILD-TYPE 
             15             352 
  PRKCQ MUTATED PRKCQ WILD-TYPE 
             15             352 
[1] "CAMK1 MUTATION ANALYSIS"
[1] 3
  CAMK1 MUTATED CAMK1 WILD-TYPE 
              7             360 
  CAMK1 MUTATED CAMK1 WILD-TYPE 
              7             360 
[1] "VCX3A MUTATION ANALYSIS"
[1] 3
  VCX3A MUTATED VCX3A WILD-TYPE 
              5             362 
  VCX3A MUTATED VCX3A WILD-TYPE 
              5             362 
[1] "ATAD1 MUTATION ANALYSIS"
[1] 3
  ATAD1 MUTATED ATAD1 WILD-TYPE 
              8             359 
  ATAD1 MUTATED ATAD1 WILD-TYPE 
              8             359 
[1] "C6ORF150 MUTATION ANALYSIS"
[1] 3
  C6ORF150 MUTATED C6ORF150 WILD-TYPE 
                 9                358 
  C6ORF150 MUTATED C6ORF150 WILD-TYPE 
                 9                358 
[1] "IGFN1 MUTATION ANALYSIS"
[1] 3
  IGFN1 MUTATED IGFN1 WILD-TYPE 
             16             351 
  IGFN1 MUTATED IGFN1 WILD-TYPE 
             16             351 
[1] "CCDC14 MUTATION ANALYSIS"
[1] 3
  CCDC14 MUTATED CCDC14 WILD-TYPE 
              11              356 
  CCDC14 MUTATED CCDC14 WILD-TYPE 
              11              356 
[1] "ENPP3 MUTATION ANALYSIS"
[1] 3
  ENPP3 MUTATED ENPP3 WILD-TYPE 
              9             358 
  ENPP3 MUTATED ENPP3 WILD-TYPE 
              9             358 
[1] "TAB1 MUTATION ANALYSIS"
[1] 3
  TAB1 MUTATED TAB1 WILD-TYPE 
             3            364 
  TAB1 MUTATED TAB1 WILD-TYPE 
             3            364 
[1] "CDK5RAP2 MUTATION ANALYSIS"
[1] 3
  CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE 
                23                344 
  CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE 
                23                344 
[1] "CASP5 MUTATION ANALYSIS"
[1] 3
  CASP5 MUTATED CASP5 WILD-TYPE 
             13             354 
  CASP5 MUTATED CASP5 WILD-TYPE 
             13             354 
[1] "NONO MUTATION ANALYSIS"
[1] 3
  NONO MUTATED NONO WILD-TYPE 
            11            356 
  NONO MUTATED NONO WILD-TYPE 
            11            356 
[1] "SLC16A5 MUTATION ANALYSIS"
[1] 3
  SLC16A5 MUTATED SLC16A5 WILD-TYPE 
               10               357 
  SLC16A5 MUTATED SLC16A5 WILD-TYPE 
               10               357 
[1] "GUCY2F MUTATION ANALYSIS"
[1] 3
  GUCY2F MUTATED GUCY2F WILD-TYPE 
              19              348 
  GUCY2F MUTATED GUCY2F WILD-TYPE 
              19              348 
[1] "CXCR7 MUTATION ANALYSIS"
[1] 3
  CXCR7 MUTATED CXCR7 WILD-TYPE 
             19             348 
  CXCR7 MUTATED CXCR7 WILD-TYPE 
             19             348 
[1] "RELA MUTATION ANALYSIS"
[1] 3
  RELA MUTATED RELA WILD-TYPE 
             9            358 
  RELA MUTATED RELA WILD-TYPE 
             9            358 
[1] "WDR65 MUTATION ANALYSIS"
[1] 3
  WDR65 MUTATED WDR65 WILD-TYPE 
              6             361 
  WDR65 MUTATED WDR65 WILD-TYPE 
              6             361 
[1] "DTX3L MUTATION ANALYSIS"
[1] 3
  DTX3L MUTATED DTX3L WILD-TYPE 
             10             357 
  DTX3L MUTATED DTX3L WILD-TYPE 
             10             357 
[1] "ARID4B MUTATION ANALYSIS"
[1] 3
  ARID4B MUTATED ARID4B WILD-TYPE 
              11              356 
  ARID4B MUTATED ARID4B WILD-TYPE 
              11              356 
[1] "ZNF295 MUTATION ANALYSIS"
[1] 3
  ZNF295 MUTATED ZNF295 WILD-TYPE 
              10              357 
  ZNF295 MUTATED ZNF295 WILD-TYPE 
              10              357 
[1] "FBLIM1 MUTATION ANALYSIS"
[1] 3
  FBLIM1 MUTATED FBLIM1 WILD-TYPE 
               5              362 
  FBLIM1 MUTATED FBLIM1 WILD-TYPE 
               5              362 
[1] "WFDC10B MUTATION ANALYSIS"
[1] 3
  WFDC10B MUTATED WFDC10B WILD-TYPE 
                5               362 
  WFDC10B MUTATED WFDC10B WILD-TYPE 
                5               362 
[1] "NAA15 MUTATION ANALYSIS"
[1] 3
  NAA15 MUTATED NAA15 WILD-TYPE 
             15             352 
  NAA15 MUTATED NAA15 WILD-TYPE 
             15             352 
[1] "ACTL7B MUTATION ANALYSIS"
[1] 3
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               4              363 
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               4              363 
[1] "COL4A6 MUTATION ANALYSIS"
[1] 3
  COL4A6 MUTATED COL4A6 WILD-TYPE 
              21              346 
  COL4A6 MUTATED COL4A6 WILD-TYPE 
              21              346 
[1] "FGD3 MUTATION ANALYSIS"
[1] 3
  FGD3 MUTATED FGD3 WILD-TYPE 
            13            354 
  FGD3 MUTATED FGD3 WILD-TYPE 
            13            354 
[1] "PHKB MUTATION ANALYSIS"
[1] 3
  PHKB MUTATED PHKB WILD-TYPE 
            12            355 
  PHKB MUTATED PHKB WILD-TYPE 
            12            355 
[1] "CHD5 MUTATION ANALYSIS"
[1] 3
  CHD5 MUTATED CHD5 WILD-TYPE 
            28            339 
  CHD5 MUTATED CHD5 WILD-TYPE 
            28            339 
[1] "GSTA5 MUTATION ANALYSIS"
[1] 3
  GSTA5 MUTATED GSTA5 WILD-TYPE 
              6             361 
  GSTA5 MUTATED GSTA5 WILD-TYPE 
              6             361 
[1] "C5ORF42 MUTATION ANALYSIS"
[1] 3
  C5ORF42 MUTATED C5ORF42 WILD-TYPE 
               32               335 
  C5ORF42 MUTATED C5ORF42 WILD-TYPE 
               32               335 
[1] "ESYT1 MUTATION ANALYSIS"
[1] 3
  ESYT1 MUTATED ESYT1 WILD-TYPE 
              9             358 
  ESYT1 MUTATED ESYT1 WILD-TYPE 
              9             358 
[1] "ADAM30 MUTATION ANALYSIS"
[1] 3
  ADAM30 MUTATED ADAM30 WILD-TYPE 
               8              359 
  ADAM30 MUTATED ADAM30 WILD-TYPE 
               8              359 
[1] "PNPLA5 MUTATION ANALYSIS"
[1] 3
  PNPLA5 MUTATED PNPLA5 WILD-TYPE 
              10              357 
  PNPLA5 MUTATED PNPLA5 WILD-TYPE 
              10              357 
[1] "TMPRSS5 MUTATION ANALYSIS"
[1] 3
  TMPRSS5 MUTATED TMPRSS5 WILD-TYPE 
                7               360 
  TMPRSS5 MUTATED TMPRSS5 WILD-TYPE 
                7               360 
[1] "CSF3R MUTATION ANALYSIS"
[1] 3
  CSF3R MUTATED CSF3R WILD-TYPE 
             14             353 
  CSF3R MUTATED CSF3R WILD-TYPE 
             14             353 
[1] "VANGL1 MUTATION ANALYSIS"
[1] 3
  VANGL1 MUTATED VANGL1 WILD-TYPE 
              10              357 
  VANGL1 MUTATED VANGL1 WILD-TYPE 
              10              357 
[1] "MST1R MUTATION ANALYSIS"
[1] 3
  MST1R MUTATED MST1R WILD-TYPE 
             14             353 
  MST1R MUTATED MST1R WILD-TYPE 
             14             353 
[1] "OR5H1 MUTATION ANALYSIS"
[1] 3
  OR5H1 MUTATED OR5H1 WILD-TYPE 
             10             357 
  OR5H1 MUTATED OR5H1 WILD-TYPE 
             10             357 
[1] "VWA5A MUTATION ANALYSIS"
[1] 3
  VWA5A MUTATED VWA5A WILD-TYPE 
             12             355 
  VWA5A MUTATED VWA5A WILD-TYPE 
             12             355 
[1] "ABCF3 MUTATION ANALYSIS"
[1] 3
  ABCF3 MUTATED ABCF3 WILD-TYPE 
             15             352 
  ABCF3 MUTATED ABCF3 WILD-TYPE 
             15             352 
[1] "CUBN MUTATION ANALYSIS"
[1] 3
  CUBN MUTATED CUBN WILD-TYPE 
            52            315 
  CUBN MUTATED CUBN WILD-TYPE 
            52            315 
[1] "LIPH MUTATION ANALYSIS"
[1] 3
  LIPH MUTATED LIPH WILD-TYPE 
             9            358 
  LIPH MUTATED LIPH WILD-TYPE 
             9            358 
[1] "SHQ1 MUTATION ANALYSIS"
[1] 3
  SHQ1 MUTATED SHQ1 WILD-TYPE 
             8            359 
  SHQ1 MUTATED SHQ1 WILD-TYPE 
             8            359 
[1] "DAB2 MUTATION ANALYSIS"
[1] 3
  DAB2 MUTATED DAB2 WILD-TYPE 
            13            354 
  DAB2 MUTATED DAB2 WILD-TYPE 
            13            354 
[1] "IFLTD1 MUTATION ANALYSIS"
[1] 3
  IFLTD1 MUTATED IFLTD1 WILD-TYPE 
              12              355 
  IFLTD1 MUTATED IFLTD1 WILD-TYPE 
              12              355 
[1] "TEX11 MUTATION ANALYSIS"
[1] 3
  TEX11 MUTATED TEX11 WILD-TYPE 
             17             350 
  TEX11 MUTATED TEX11 WILD-TYPE 
             17             350 
[1] "GOLGA1 MUTATION ANALYSIS"
[1] 3
  GOLGA1 MUTATED GOLGA1 WILD-TYPE 
               7              360 
  GOLGA1 MUTATED GOLGA1 WILD-TYPE 
               7              360 
[1] "ZHX2 MUTATION ANALYSIS"
[1] 3
  ZHX2 MUTATED ZHX2 WILD-TYPE 
            17            350 
  ZHX2 MUTATED ZHX2 WILD-TYPE 
            17            350 
[1] "FAM167B MUTATION ANALYSIS"
[1] 3
  FAM167B MUTATED FAM167B WILD-TYPE 
                4               363 
  FAM167B MUTATED FAM167B WILD-TYPE 
                4               363 
[1] "UFSP2 MUTATION ANALYSIS"
[1] 3
  UFSP2 MUTATED UFSP2 WILD-TYPE 
              4             363 
  UFSP2 MUTATED UFSP2 WILD-TYPE 
              4             363 
[1] "BTBD11 MUTATION ANALYSIS"
[1] 3
  BTBD11 MUTATED BTBD11 WILD-TYPE 
              22              345 
  BTBD11 MUTATED BTBD11 WILD-TYPE 
              22              345 
[1] "BFAR MUTATION ANALYSIS"
[1] 3
  BFAR MUTATED BFAR WILD-TYPE 
             8            359 
  BFAR MUTATED BFAR WILD-TYPE 
             8            359 
[1] "SBNO1 MUTATION ANALYSIS"
[1] 3
  SBNO1 MUTATED SBNO1 WILD-TYPE 
             15             352 
  SBNO1 MUTATED SBNO1 WILD-TYPE 
             15             352 
[1] "MR1 MUTATION ANALYSIS"
[1] 3
  MR1 MUTATED MR1 WILD-TYPE 
            5           362 
  MR1 MUTATED MR1 WILD-TYPE 
            5           362 
[1] "OR5R1 MUTATION ANALYSIS"
[1] 3
  OR5R1 MUTATED OR5R1 WILD-TYPE 
             14             353 
  OR5R1 MUTATED OR5R1 WILD-TYPE 
             14             353 
[1] "RIMS2 MUTATION ANALYSIS"
[1] 3
  RIMS2 MUTATED RIMS2 WILD-TYPE 
             36             331 
  RIMS2 MUTATED RIMS2 WILD-TYPE 
             36             331 
[1] "ZNF660 MUTATION ANALYSIS"
[1] 3
  ZNF660 MUTATED ZNF660 WILD-TYPE 
               7              360 
  ZNF660 MUTATED ZNF660 WILD-TYPE 
               7              360 
[1] "GSS MUTATION ANALYSIS"
[1] 3
  GSS MUTATED GSS WILD-TYPE 
            8           359 
  GSS MUTATED GSS WILD-TYPE 
            8           359 
[1] "SLC38A9 MUTATION ANALYSIS"
[1] 3
  SLC38A9 MUTATED SLC38A9 WILD-TYPE 
               11               356 
  SLC38A9 MUTATED SLC38A9 WILD-TYPE 
               11               356 
[1] "VPS72 MUTATION ANALYSIS"
[1] 3
  VPS72 MUTATED VPS72 WILD-TYPE 
              8             359 
  VPS72 MUTATED VPS72 WILD-TYPE 
              8             359 
[1] "LCK MUTATION ANALYSIS"
[1] 3
  LCK MUTATED LCK WILD-TYPE 
            8           359 
  LCK MUTATED LCK WILD-TYPE 
            8           359 
[1] "AGTPBP1 MUTATION ANALYSIS"
[1] 3
  AGTPBP1 MUTATED AGTPBP1 WILD-TYPE 
               17               350 
  AGTPBP1 MUTATED AGTPBP1 WILD-TYPE 
               17               350 
[1] "GRIN2A MUTATION ANALYSIS"
[1] 3
  GRIN2A MUTATED GRIN2A WILD-TYPE 
              41              326 
  GRIN2A MUTATED GRIN2A WILD-TYPE 
              41              326 
[1] "FGD1 MUTATION ANALYSIS"
[1] 3
  FGD1 MUTATED FGD1 WILD-TYPE 
            16            351 
  FGD1 MUTATED FGD1 WILD-TYPE 
            16            351 
[1] "ZNF286A MUTATION ANALYSIS"
[1] 3
  ZNF286A MUTATED ZNF286A WILD-TYPE 
                7               360 
  ZNF286A MUTATED ZNF286A WILD-TYPE 
                7               360 
[1] "BRCA1 MUTATION ANALYSIS"
[1] 3
  BRCA1 MUTATED BRCA1 WILD-TYPE 
             26             341 
  BRCA1 MUTATED BRCA1 WILD-TYPE 
             26             341 
[1] "AOX1 MUTATION ANALYSIS"
[1] 3
  AOX1 MUTATED AOX1 WILD-TYPE 
            12            355 
  AOX1 MUTATED AOX1 WILD-TYPE 
            12            355 
[1] "ZNF323 MUTATION ANALYSIS"
[1] 3
  ZNF323 MUTATED ZNF323 WILD-TYPE 
              10              357 
  ZNF323 MUTATED ZNF323 WILD-TYPE 
              10              357 
[1] "ESR1 MUTATION ANALYSIS"
[1] 3
  ESR1 MUTATED ESR1 WILD-TYPE 
            19            348 
  ESR1 MUTATED ESR1 WILD-TYPE 
            19            348 
[1] "LDLRAD3 MUTATION ANALYSIS"
[1] 3
  LDLRAD3 MUTATED LDLRAD3 WILD-TYPE 
                5               362 
  LDLRAD3 MUTATED LDLRAD3 WILD-TYPE 
                5               362 
[1] "BAZ1B MUTATION ANALYSIS"
[1] 3
  BAZ1B MUTATED BAZ1B WILD-TYPE 
             21             346 
  BAZ1B MUTATED BAZ1B WILD-TYPE 
             21             346 
[1] "SLAMF9 MUTATION ANALYSIS"
[1] 3
  SLAMF9 MUTATED SLAMF9 WILD-TYPE 
               6              361 
  SLAMF9 MUTATED SLAMF9 WILD-TYPE 
               6              361 
[1] "C6ORF203 MUTATION ANALYSIS"
[1] 3
  C6ORF203 MUTATED C6ORF203 WILD-TYPE 
                 4                363 
  C6ORF203 MUTATED C6ORF203 WILD-TYPE 
                 4                363 
[1] "CCPG1 MUTATION ANALYSIS"
[1] 3
  CCPG1 MUTATED CCPG1 WILD-TYPE 
             11             356 
  CCPG1 MUTATED CCPG1 WILD-TYPE 
             11             356 
[1] "RIC8B MUTATION ANALYSIS"
[1] 3
  RIC8B MUTATED RIC8B WILD-TYPE 
              9             358 
  RIC8B MUTATED RIC8B WILD-TYPE 
              9             358 
[1] "KIAA1429 MUTATION ANALYSIS"
[1] 3
  KIAA1429 MUTATED KIAA1429 WILD-TYPE 
                17                350 
  KIAA1429 MUTATED KIAA1429 WILD-TYPE 
                17                350 
[1] "SPATA6 MUTATION ANALYSIS"
[1] 3
  SPATA6 MUTATED SPATA6 WILD-TYPE 
               6              361 
  SPATA6 MUTATED SPATA6 WILD-TYPE 
               6              361 
[1] "PIGN MUTATION ANALYSIS"
[1] 3
  PIGN MUTATED PIGN WILD-TYPE 
             7            360 
  PIGN MUTATED PIGN WILD-TYPE 
             7            360 
[1] "OR4N2 MUTATION ANALYSIS"
[1] 3
  OR4N2 MUTATED OR4N2 WILD-TYPE 
             10             357 
  OR4N2 MUTATED OR4N2 WILD-TYPE 
             10             357 
[1] "RALA MUTATION ANALYSIS"
[1] 3
  RALA MUTATED RALA WILD-TYPE 
             7            360 
  RALA MUTATED RALA WILD-TYPE 
             7            360 
[1] "MUS81 MUTATION ANALYSIS"
[1] 3
  MUS81 MUTATED MUS81 WILD-TYPE 
              7             360 
  MUS81 MUTATED MUS81 WILD-TYPE 
              7             360 
[1] "CDHR5 MUTATION ANALYSIS"
[1] 3
  CDHR5 MUTATED CDHR5 WILD-TYPE 
             11             356 
  CDHR5 MUTATED CDHR5 WILD-TYPE 
             11             356 
[1] "ZNF318 MUTATION ANALYSIS"
[1] 3
  ZNF318 MUTATED ZNF318 WILD-TYPE 
              28              339 
  ZNF318 MUTATED ZNF318 WILD-TYPE 
              28              339 
[1] "IL7R MUTATION ANALYSIS"
[1] 3
  IL7R MUTATED IL7R WILD-TYPE 
            11            356 
  IL7R MUTATED IL7R WILD-TYPE 
            11            356 
[1] "LRRTM2 MUTATION ANALYSIS"
[1] 3
  LRRTM2 MUTATED LRRTM2 WILD-TYPE 
               5              362 
  LRRTM2 MUTATED LRRTM2 WILD-TYPE 
               5              362 
[1] "IGSF1 MUTATION ANALYSIS"
[1] 3
  IGSF1 MUTATED IGSF1 WILD-TYPE 
             21             346 
  IGSF1 MUTATED IGSF1 WILD-TYPE 
             21             346 
[1] "GCC2 MUTATION ANALYSIS"
[1] 3
  GCC2 MUTATED GCC2 WILD-TYPE 
            10            357 
  GCC2 MUTATED GCC2 WILD-TYPE 
            10            357 
[1] "ATRNL1 MUTATION ANALYSIS"
[1] 3
  ATRNL1 MUTATED ATRNL1 WILD-TYPE 
              22              345 
  ATRNL1 MUTATED ATRNL1 WILD-TYPE 
              22              345 
[1] "ERN1 MUTATION ANALYSIS"
[1] 3
  ERN1 MUTATED ERN1 WILD-TYPE 
             3            364 
  ERN1 MUTATED ERN1 WILD-TYPE 
             3            364 
[1] "BTBD7 MUTATION ANALYSIS"
[1] 3
  BTBD7 MUTATED BTBD7 WILD-TYPE 
             12             355 
  BTBD7 MUTATED BTBD7 WILD-TYPE 
             12             355 
[1] "COL11A1 MUTATION ANALYSIS"
[1] 3
  COL11A1 MUTATED COL11A1 WILD-TYPE 
               45               322 
  COL11A1 MUTATED COL11A1 WILD-TYPE 
               45               322 
[1] "TTLL13 MUTATION ANALYSIS"
[1] 3
  TTLL13 MUTATED TTLL13 WILD-TYPE 
               5              362 
  TTLL13 MUTATED TTLL13 WILD-TYPE 
               5              362 
[1] "RPS6KC1 MUTATION ANALYSIS"
[1] 3
  RPS6KC1 MUTATED RPS6KC1 WILD-TYPE 
               15               352 
  RPS6KC1 MUTATED RPS6KC1 WILD-TYPE 
               15               352 
[1] "ZNF350 MUTATION ANALYSIS"
[1] 3
  ZNF350 MUTATED ZNF350 WILD-TYPE 
               9              358 
  ZNF350 MUTATED ZNF350 WILD-TYPE 
               9              358 
[1] "ITPRIPL1 MUTATION ANALYSIS"
[1] 3
  ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE 
                 7                360 
  ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE 
                 7                360 
[1] "CCDC18 MUTATION ANALYSIS"
[1] 3
  CCDC18 MUTATED CCDC18 WILD-TYPE 
              11              356 
  CCDC18 MUTATED CCDC18 WILD-TYPE 
              11              356 
[1] "CUTC MUTATION ANALYSIS"
[1] 3
  CUTC MUTATED CUTC WILD-TYPE 
             5            362 
  CUTC MUTATED CUTC WILD-TYPE 
             5            362 
[1] "GON4L MUTATION ANALYSIS"
[1] 3
  GON4L MUTATED GON4L WILD-TYPE 
             20             347 
  GON4L MUTATED GON4L WILD-TYPE 
             20             347 
[1] "PLCG2 MUTATION ANALYSIS"
[1] 3
  PLCG2 MUTATED PLCG2 WILD-TYPE 
             18             349 
  PLCG2 MUTATED PLCG2 WILD-TYPE 
             18             349 
[1] "GLTSCR1 MUTATION ANALYSIS"
[1] 3
  GLTSCR1 MUTATED GLTSCR1 WILD-TYPE 
               11               356 
  GLTSCR1 MUTATED GLTSCR1 WILD-TYPE 
               11               356 
[1] "OR9G4 MUTATION ANALYSIS"
[1] 3
  OR9G4 MUTATED OR9G4 WILD-TYPE 
              8             359 
  OR9G4 MUTATED OR9G4 WILD-TYPE 
              8             359 
[1] "NFATC2IP MUTATION ANALYSIS"
[1] 3
  NFATC2IP MUTATED NFATC2IP WILD-TYPE 
                 3                364 
  NFATC2IP MUTATED NFATC2IP WILD-TYPE 
                 3                364 
[1] "C14ORF180 MUTATION ANALYSIS"
[1] 3
  C14ORF180 MUTATED C14ORF180 WILD-TYPE 
                  4                 363 
  C14ORF180 MUTATED C14ORF180 WILD-TYPE 
                  4                 363 
[1] "MYLK4 MUTATION ANALYSIS"
[1] 3
  MYLK4 MUTATED MYLK4 WILD-TYPE 
             12             355 
  MYLK4 MUTATED MYLK4 WILD-TYPE 
             12             355 
[1] "CENPJ MUTATION ANALYSIS"
[1] 3
  CENPJ MUTATED CENPJ WILD-TYPE 
             21             346 
  CENPJ MUTATED CENPJ WILD-TYPE 
             21             346 
[1] "CHMP4B MUTATION ANALYSIS"
[1] 3
  CHMP4B MUTATED CHMP4B WILD-TYPE 
               3              364 
  CHMP4B MUTATED CHMP4B WILD-TYPE 
               3              364 
[1] "C20ORF43 MUTATION ANALYSIS"
[1] 3
  C20ORF43 MUTATED C20ORF43 WILD-TYPE 
                 3                364 
  C20ORF43 MUTATED C20ORF43 WILD-TYPE 
                 3                364 
[1] "CIZ1 MUTATION ANALYSIS"
[1] 3
  CIZ1 MUTATED CIZ1 WILD-TYPE 
            15            352 
  CIZ1 MUTATED CIZ1 WILD-TYPE 
            15            352 
[1] "ZNF416 MUTATION ANALYSIS"
[1] 3
  ZNF416 MUTATED ZNF416 WILD-TYPE 
               8              359 
  ZNF416 MUTATED ZNF416 WILD-TYPE 
               8              359 
[1] "RBM16 MUTATION ANALYSIS"
[1] 3
  RBM16 MUTATED RBM16 WILD-TYPE 
             15             352 
  RBM16 MUTATED RBM16 WILD-TYPE 
             15             352 
[1] "MORC1 MUTATION ANALYSIS"
[1] 3
  MORC1 MUTATED MORC1 WILD-TYPE 
             13             354 
  MORC1 MUTATED MORC1 WILD-TYPE 
             13             354 
[1] "ROR1 MUTATION ANALYSIS"
[1] 3
  ROR1 MUTATED ROR1 WILD-TYPE 
            20            347 
  ROR1 MUTATED ROR1 WILD-TYPE 
            20            347 
[1] "HSPA4L MUTATION ANALYSIS"
[1] 3
  HSPA4L MUTATED HSPA4L WILD-TYPE 
               8              359 
  HSPA4L MUTATED HSPA4L WILD-TYPE 
               8              359 
[1] "GSG2 MUTATION ANALYSIS"
[1] 3
  GSG2 MUTATED GSG2 WILD-TYPE 
             6            361 
  GSG2 MUTATED GSG2 WILD-TYPE 
             6            361 
[1] "MIPEP MUTATION ANALYSIS"
[1] 3
  MIPEP MUTATED MIPEP WILD-TYPE 
              8             359 
  MIPEP MUTATED MIPEP WILD-TYPE 
              8             359 
[1] "CENPA MUTATION ANALYSIS"
[1] 3
  CENPA MUTATED CENPA WILD-TYPE 
              5             362 
  CENPA MUTATED CENPA WILD-TYPE 
              5             362 
[1] "OTUD4 MUTATION ANALYSIS"
[1] 3
  OTUD4 MUTATED OTUD4 WILD-TYPE 
             19             348 
  OTUD4 MUTATED OTUD4 WILD-TYPE 
             19             348 
[1] "CASC4 MUTATION ANALYSIS"
[1] 3
  CASC4 MUTATED CASC4 WILD-TYPE 
              5             362 
  CASC4 MUTATED CASC4 WILD-TYPE 
              5             362 
[1] "OR2F2 MUTATION ANALYSIS"
[1] 3
  OR2F2 MUTATED OR2F2 WILD-TYPE 
              7             360 
  OR2F2 MUTATED OR2F2 WILD-TYPE 
              7             360 
[1] "MPZL1 MUTATION ANALYSIS"
[1] 3
  MPZL1 MUTATED MPZL1 WILD-TYPE 
              7             360 
  MPZL1 MUTATED MPZL1 WILD-TYPE 
              7             360 
[1] "VN1R4 MUTATION ANALYSIS"
[1] 3
  VN1R4 MUTATED VN1R4 WILD-TYPE 
              6             361 
  VN1R4 MUTATED VN1R4 WILD-TYPE 
              6             361 
[1] "KIF14 MUTATION ANALYSIS"
[1] 3
  KIF14 MUTATED KIF14 WILD-TYPE 
             11             356 
  KIF14 MUTATED KIF14 WILD-TYPE 
             11             356 
[1] "TRIM33 MUTATION ANALYSIS"
[1] 3
  TRIM33 MUTATED TRIM33 WILD-TYPE 
              15              352 
  TRIM33 MUTATED TRIM33 WILD-TYPE 
              15              352 
[1] "XRCC6 MUTATION ANALYSIS"
[1] 3
  XRCC6 MUTATED XRCC6 WILD-TYPE 
              7             360 
  XRCC6 MUTATED XRCC6 WILD-TYPE 
              7             360 
[1] "GTDC1 MUTATION ANALYSIS"
[1] 3
  GTDC1 MUTATED GTDC1 WILD-TYPE 
              9             358 
  GTDC1 MUTATED GTDC1 WILD-TYPE 
              9             358 
[1] "SERPINB10 MUTATION ANALYSIS"
[1] 3
  SERPINB10 MUTATED SERPINB10 WILD-TYPE 
                 10                 357 
  SERPINB10 MUTATED SERPINB10 WILD-TYPE 
                 10                 357 
[1] "PCDHGA8 MUTATION ANALYSIS"
[1] 3
  PCDHGA8 MUTATED PCDHGA8 WILD-TYPE 
               14               353 
  PCDHGA8 MUTATED PCDHGA8 WILD-TYPE 
               14               353 
[1] "F2R MUTATION ANALYSIS"
[1] 3
  F2R MUTATED F2R WILD-TYPE 
           11           356 
  F2R MUTATED F2R WILD-TYPE 
           11           356 
[1] "C17ORF58 MUTATION ANALYSIS"
[1] 3
  C17ORF58 MUTATED C17ORF58 WILD-TYPE 
                 3                364 
  C17ORF58 MUTATED C17ORF58 WILD-TYPE 
                 3                364 
[1] "TEX13A MUTATION ANALYSIS"
[1] 3
  TEX13A MUTATED TEX13A WILD-TYPE 
              10              357 
  TEX13A MUTATED TEX13A WILD-TYPE 
              10              357 
[1] "LCT MUTATION ANALYSIS"
[1] 3
  LCT MUTATED LCT WILD-TYPE 
           33           334 
  LCT MUTATED LCT WILD-TYPE 
           33           334 
[1] "IDI1 MUTATION ANALYSIS"
[1] 3
  IDI1 MUTATED IDI1 WILD-TYPE 
             4            363 
  IDI1 MUTATED IDI1 WILD-TYPE 
             4            363 
[1] "C6ORF15 MUTATION ANALYSIS"
[1] 3
  C6ORF15 MUTATED C6ORF15 WILD-TYPE 
                6               361 
  C6ORF15 MUTATED C6ORF15 WILD-TYPE 
                6               361 
[1] "MYO3A MUTATION ANALYSIS"
[1] 3
  MYO3A MUTATED MYO3A WILD-TYPE 
             37             330 
  MYO3A MUTATED MYO3A WILD-TYPE 
             37             330 
[1] "C5 MUTATION ANALYSIS"
[1] 3
  C5 MUTATED C5 WILD-TYPE 
          17          350 
  C5 MUTATED C5 WILD-TYPE 
          17          350 
[1] "MICAL1 MUTATION ANALYSIS"
[1] 3
  MICAL1 MUTATED MICAL1 WILD-TYPE 
               9              358 
  MICAL1 MUTATED MICAL1 WILD-TYPE 
               9              358 
[1] "PTPN13 MUTATION ANALYSIS"
[1] 3
  PTPN13 MUTATED PTPN13 WILD-TYPE 
              22              345 
  PTPN13 MUTATED PTPN13 WILD-TYPE 
              22              345 
[1] "TMPRSS15 MUTATION ANALYSIS"
[1] 3
  TMPRSS15 MUTATED TMPRSS15 WILD-TYPE 
                22                345 
  TMPRSS15 MUTATED TMPRSS15 WILD-TYPE 
                22                345 
[1] "C17ORF71 MUTATION ANALYSIS"
[1] 3
  C17ORF71 MUTATED C17ORF71 WILD-TYPE 
                 9                358 
  C17ORF71 MUTATED C17ORF71 WILD-TYPE 
                 9                358 
[1] "WDR17 MUTATION ANALYSIS"
[1] 3
  WDR17 MUTATED WDR17 WILD-TYPE 
             23             344 
  WDR17 MUTATED WDR17 WILD-TYPE 
             23             344 
[1] "FBXO40 MUTATION ANALYSIS"
[1] 3
  FBXO40 MUTATED FBXO40 WILD-TYPE 
              16              351 
  FBXO40 MUTATED FBXO40 WILD-TYPE 
              16              351 
[1] "PDK1 MUTATION ANALYSIS"
[1] 3
  PDK1 MUTATED PDK1 WILD-TYPE 
             5            362 
  PDK1 MUTATED PDK1 WILD-TYPE 
             5            362 
[1] "FAM81B MUTATION ANALYSIS"
[1] 3
  FAM81B MUTATED FAM81B WILD-TYPE 
               9              358 
  FAM81B MUTATED FAM81B WILD-TYPE 
               9              358 
[1] "HIP1 MUTATION ANALYSIS"
[1] 3
  HIP1 MUTATED HIP1 WILD-TYPE 
            12            355 
  HIP1 MUTATED HIP1 WILD-TYPE 
            12            355 
[1] "PHLDB2 MUTATION ANALYSIS"
[1] 3
  PHLDB2 MUTATED PHLDB2 WILD-TYPE 
              18              349 
  PHLDB2 MUTATED PHLDB2 WILD-TYPE 
              18              349 
[1] "TATDN2 MUTATION ANALYSIS"
[1] 3
  TATDN2 MUTATED TATDN2 WILD-TYPE 
               9              358 
  TATDN2 MUTATED TATDN2 WILD-TYPE 
               9              358 
[1] "SFRP2 MUTATION ANALYSIS"
[1] 3
  SFRP2 MUTATED SFRP2 WILD-TYPE 
              8             359 
  SFRP2 MUTATED SFRP2 WILD-TYPE 
              8             359 
[1] "EPRS MUTATION ANALYSIS"
[1] 3
  EPRS MUTATED EPRS WILD-TYPE 
            19            348 
  EPRS MUTATED EPRS WILD-TYPE 
            19            348 
[1] "CELSR1 MUTATION ANALYSIS"
[1] 3
  CELSR1 MUTATED CELSR1 WILD-TYPE 
              22              345 
  CELSR1 MUTATED CELSR1 WILD-TYPE 
              22              345 
[1] "PIAS2 MUTATION ANALYSIS"
[1] 3
  PIAS2 MUTATED PIAS2 WILD-TYPE 
              4             363 
  PIAS2 MUTATED PIAS2 WILD-TYPE 
              4             363 
[1] "CNGA3 MUTATION ANALYSIS"
[1] 3
  CNGA3 MUTATED CNGA3 WILD-TYPE 
             13             354 
  CNGA3 MUTATED CNGA3 WILD-TYPE 
             13             354 
[1] "OR51E2 MUTATION ANALYSIS"
[1] 3
  OR51E2 MUTATED OR51E2 WILD-TYPE 
               5              362 
  OR51E2 MUTATED OR51E2 WILD-TYPE 
               5              362 
[1] "OR6C1 MUTATION ANALYSIS"
[1] 3
  OR6C1 MUTATED OR6C1 WILD-TYPE 
              7             360 
  OR6C1 MUTATED OR6C1 WILD-TYPE 
              7             360 
[1] "EVI2A MUTATION ANALYSIS"
[1] 3
  EVI2A MUTATED EVI2A WILD-TYPE 
              7             360 
  EVI2A MUTATED EVI2A WILD-TYPE 
              7             360 
[1] "KIAA0415 MUTATION ANALYSIS"
[1] 3
  KIAA0415 MUTATED KIAA0415 WILD-TYPE 
                12                355 
  KIAA0415 MUTATED KIAA0415 WILD-TYPE 
                12                355 
[1] "ELANE MUTATION ANALYSIS"
[1] 3
  ELANE MUTATED ELANE WILD-TYPE 
              7             360 
  ELANE MUTATED ELANE WILD-TYPE 
              7             360 
[1] "UGGT1 MUTATION ANALYSIS"
[1] 3
  UGGT1 MUTATED UGGT1 WILD-TYPE 
             18             349 
  UGGT1 MUTATED UGGT1 WILD-TYPE 
             18             349 
[1] "CCDC19 MUTATION ANALYSIS"
[1] 3
  CCDC19 MUTATED CCDC19 WILD-TYPE 
              15              352 
  CCDC19 MUTATED CCDC19 WILD-TYPE 
              15              352 
[1] "C13ORF23 MUTATION ANALYSIS"
[1] 3
  C13ORF23 MUTATED C13ORF23 WILD-TYPE 
                12                355 
  C13ORF23 MUTATED C13ORF23 WILD-TYPE 
                12                355 
[1] "SMC4 MUTATION ANALYSIS"
[1] 3
  SMC4 MUTATED SMC4 WILD-TYPE 
            18            349 
  SMC4 MUTATED SMC4 WILD-TYPE 
            18            349 
[1] "KIF13A MUTATION ANALYSIS"
[1] 3
  KIF13A MUTATED KIF13A WILD-TYPE 
              21              346 
  KIF13A MUTATED KIF13A WILD-TYPE 
              21              346 
[1] "DONSON MUTATION ANALYSIS"
[1] 3
  DONSON MUTATED DONSON WILD-TYPE 
               4              363 
  DONSON MUTATED DONSON WILD-TYPE 
               4              363 
[1] "SLC26A7 MUTATION ANALYSIS"
[1] 3
  SLC26A7 MUTATED SLC26A7 WILD-TYPE 
               17               350 
  SLC26A7 MUTATED SLC26A7 WILD-TYPE 
               17               350 
[1] "ACSL3 MUTATION ANALYSIS"
[1] 3
  ACSL3 MUTATED ACSL3 WILD-TYPE 
             10             357 
  ACSL3 MUTATED ACSL3 WILD-TYPE 
             10             357 
[1] "CDC7 MUTATION ANALYSIS"
[1] 3
  CDC7 MUTATED CDC7 WILD-TYPE 
            10            357 
  CDC7 MUTATED CDC7 WILD-TYPE 
            10            357 
[1] "C12ORF51 MUTATION ANALYSIS"
[1] 3
  C12ORF51 MUTATED C12ORF51 WILD-TYPE 
                31                336 
  C12ORF51 MUTATED C12ORF51 WILD-TYPE 
                31                336 
[1] "LARP7 MUTATION ANALYSIS"
[1] 3
  LARP7 MUTATED LARP7 WILD-TYPE 
              8             359 
  LARP7 MUTATED LARP7 WILD-TYPE 
              8             359 
[1] "TRIP6 MUTATION ANALYSIS"
[1] 3
  TRIP6 MUTATED TRIP6 WILD-TYPE 
             10             357 
  TRIP6 MUTATED TRIP6 WILD-TYPE 
             10             357 
[1] "FOLR3 MUTATION ANALYSIS"
[1] 3
  FOLR3 MUTATED FOLR3 WILD-TYPE 
              6             361 
  FOLR3 MUTATED FOLR3 WILD-TYPE 
              6             361 
[1] "ANKRD40 MUTATION ANALYSIS"
[1] 3
  ANKRD40 MUTATED ANKRD40 WILD-TYPE 
                8               359 
  ANKRD40 MUTATED ANKRD40 WILD-TYPE 
                8               359 
[1] "MRPL10 MUTATION ANALYSIS"
[1] 3
  MRPL10 MUTATED MRPL10 WILD-TYPE 
               4              363 
  MRPL10 MUTATED MRPL10 WILD-TYPE 
               4              363 
[1] "ACADVL MUTATION ANALYSIS"
[1] 3
  ACADVL MUTATED ACADVL WILD-TYPE 
               6              361 
  ACADVL MUTATED ACADVL WILD-TYPE 
               6              361 
[1] "SLIT3 MUTATION ANALYSIS"
[1] 3
  SLIT3 MUTATED SLIT3 WILD-TYPE 
             25             342 
  SLIT3 MUTATED SLIT3 WILD-TYPE 
             25             342 
[1] "CCL14 MUTATION ANALYSIS"
[1] 3
  CCL14 MUTATED CCL14 WILD-TYPE 
              5             362 
  CCL14 MUTATED CCL14 WILD-TYPE 
              5             362 
[1] "KLK11 MUTATION ANALYSIS"
[1] 3
  KLK11 MUTATED KLK11 WILD-TYPE 
              5             362 
  KLK11 MUTATED KLK11 WILD-TYPE 
              5             362 
[1] "UBR5 MUTATION ANALYSIS"
[1] 3
  UBR5 MUTATED UBR5 WILD-TYPE 
            28            339 
  UBR5 MUTATED UBR5 WILD-TYPE 
            28            339 
[1] "ZNF557 MUTATION ANALYSIS"
[1] 3
  ZNF557 MUTATED ZNF557 WILD-TYPE 
               9              358 
  ZNF557 MUTATED ZNF557 WILD-TYPE 
               9              358 
[1] "UVRAG MUTATION ANALYSIS"
[1] 3
  UVRAG MUTATED UVRAG WILD-TYPE 
              7             360 
  UVRAG MUTATED UVRAG WILD-TYPE 
              7             360 
[1] "C14ORF118 MUTATION ANALYSIS"
[1] 3
  C14ORF118 MUTATED C14ORF118 WILD-TYPE 
                  9                 358 
  C14ORF118 MUTATED C14ORF118 WILD-TYPE 
                  9                 358 
[1] "XKR3 MUTATION ANALYSIS"
[1] 3
  XKR3 MUTATED XKR3 WILD-TYPE 
            12            355 
  XKR3 MUTATED XKR3 WILD-TYPE 
            12            355 
[1] "EPHA4 MUTATION ANALYSIS"
[1] 3
  EPHA4 MUTATED EPHA4 WILD-TYPE 
             19             348 
  EPHA4 MUTATED EPHA4 WILD-TYPE 
             19             348 
[1] "PARVB MUTATION ANALYSIS"
[1] 3
  PARVB MUTATED PARVB WILD-TYPE 
              9             358 
  PARVB MUTATED PARVB WILD-TYPE 
              9             358 
[1] "TAF2 MUTATION ANALYSIS"
[1] 3
  TAF2 MUTATED TAF2 WILD-TYPE 
            17            350 
  TAF2 MUTATED TAF2 WILD-TYPE 
            17            350 
[1] "KIAA0196 MUTATION ANALYSIS"
[1] 3
  KIAA0196 MUTATED KIAA0196 WILD-TYPE 
                10                357 
  KIAA0196 MUTATED KIAA0196 WILD-TYPE 
                10                357 
[1] "FRY MUTATION ANALYSIS"
[1] 3
  FRY MUTATED FRY WILD-TYPE 
           38           329 
  FRY MUTATED FRY WILD-TYPE 
           38           329 
[1] "EIF2AK3 MUTATION ANALYSIS"
[1] 3
  EIF2AK3 MUTATED EIF2AK3 WILD-TYPE 
               11               356 
  EIF2AK3 MUTATED EIF2AK3 WILD-TYPE 
               11               356 
[1] "IFI35 MUTATION ANALYSIS"
[1] 3
  IFI35 MUTATED IFI35 WILD-TYPE 
              8             359 
  IFI35 MUTATED IFI35 WILD-TYPE 
              8             359 
[1] "MYPN MUTATION ANALYSIS"
[1] 3
  MYPN MUTATED MYPN WILD-TYPE 
            19            348 
  MYPN MUTATED MYPN WILD-TYPE 
            19            348 
[1] "DTD1 MUTATION ANALYSIS"
[1] 3
  DTD1 MUTATED DTD1 WILD-TYPE 
             5            362 
  DTD1 MUTATED DTD1 WILD-TYPE 
             5            362 
[1] "MGAT5 MUTATION ANALYSIS"
[1] 3
  MGAT5 MUTATED MGAT5 WILD-TYPE 
             13             354 
  MGAT5 MUTATED MGAT5 WILD-TYPE 
             13             354 
[1] "GLUD2 MUTATION ANALYSIS"
[1] 3
  GLUD2 MUTATED GLUD2 WILD-TYPE 
             20             347 
  GLUD2 MUTATED GLUD2 WILD-TYPE 
             20             347 
[1] "PTPRZ1 MUTATION ANALYSIS"
[1] 3
  PTPRZ1 MUTATED PTPRZ1 WILD-TYPE 
              28              339 
  PTPRZ1 MUTATED PTPRZ1 WILD-TYPE 
              28              339 
[1] "C3ORF27 MUTATION ANALYSIS"
[1] 3
  C3ORF27 MUTATED C3ORF27 WILD-TYPE 
                3               364 
  C3ORF27 MUTATED C3ORF27 WILD-TYPE 
                3               364 
[1] "CCT4 MUTATION ANALYSIS"
[1] 3
  CCT4 MUTATED CCT4 WILD-TYPE 
            12            355 
  CCT4 MUTATED CCT4 WILD-TYPE 
            12            355 
[1] "PON3 MUTATION ANALYSIS"
[1] 3
  PON3 MUTATED PON3 WILD-TYPE 
            10            357 
  PON3 MUTATED PON3 WILD-TYPE 
            10            357 
[1] "TGM1 MUTATION ANALYSIS"
[1] 3
  TGM1 MUTATED TGM1 WILD-TYPE 
            11            356 
  TGM1 MUTATED TGM1 WILD-TYPE 
            11            356 
[1] "NEK3 MUTATION ANALYSIS"
[1] 3
  NEK3 MUTATED NEK3 WILD-TYPE 
            11            356 
  NEK3 MUTATED NEK3 WILD-TYPE 
            11            356 
[1] "GSTM5 MUTATION ANALYSIS"
[1] 3
  GSTM5 MUTATED GSTM5 WILD-TYPE 
              5             362 
  GSTM5 MUTATED GSTM5 WILD-TYPE 
              5             362 
[1] "CLEC1A MUTATION ANALYSIS"
[1] 3
  CLEC1A MUTATED CLEC1A WILD-TYPE 
               8              359 
  CLEC1A MUTATED CLEC1A WILD-TYPE 
               8              359 
[1] "CCDC64B MUTATION ANALYSIS"
[1] 3
  CCDC64B MUTATED CCDC64B WILD-TYPE 
                5               362 
  CCDC64B MUTATED CCDC64B WILD-TYPE 
                5               362 
[1] "TEK MUTATION ANALYSIS"
[1] 3
  TEK MUTATED TEK WILD-TYPE 
           28           339 
  TEK MUTATED TEK WILD-TYPE 
           28           339 
[1] "IL8 MUTATION ANALYSIS"
[1] 3
  IL8 MUTATED IL8 WILD-TYPE 
            5           362 
  IL8 MUTATED IL8 WILD-TYPE 
            5           362 
[1] "ADCY9 MUTATION ANALYSIS"
[1] 3
  ADCY9 MUTATED ADCY9 WILD-TYPE 
             18             349 
  ADCY9 MUTATED ADCY9 WILD-TYPE 
             18             349 
[1] "TNXB MUTATION ANALYSIS"
[1] 3
  TNXB MUTATED TNXB WILD-TYPE 
            39            328 
  TNXB MUTATED TNXB WILD-TYPE 
            39            328 
[1] "MOGAT3 MUTATION ANALYSIS"
[1] 3
  MOGAT3 MUTATED MOGAT3 WILD-TYPE 
               6              361 
  MOGAT3 MUTATED MOGAT3 WILD-TYPE 
               6              361 
[1] "HIST1H3B MUTATION ANALYSIS"
[1] 3
  HIST1H3B MUTATED HIST1H3B WILD-TYPE 
                 4                363 
  HIST1H3B MUTATED HIST1H3B WILD-TYPE 
                 4                363 
[1] "ERCC6L MUTATION ANALYSIS"
[1] 3
  ERCC6L MUTATED ERCC6L WILD-TYPE 
              12              355 
  ERCC6L MUTATED ERCC6L WILD-TYPE 
              12              355 
[1] "SBF1 MUTATION ANALYSIS"
[1] 3
  SBF1 MUTATED SBF1 WILD-TYPE 
            14            353 
  SBF1 MUTATED SBF1 WILD-TYPE 
            14            353 
[1] "ZNF391 MUTATION ANALYSIS"
[1] 3
  ZNF391 MUTATED ZNF391 WILD-TYPE 
               8              359 
  ZNF391 MUTATED ZNF391 WILD-TYPE 
               8              359 
[1] "SORBS1 MUTATION ANALYSIS"
[1] 3
  SORBS1 MUTATED SORBS1 WILD-TYPE 
              10              357 
  SORBS1 MUTATED SORBS1 WILD-TYPE 
              10              357 
[1] "MOGAT1 MUTATION ANALYSIS"
[1] 3
  MOGAT1 MUTATED MOGAT1 WILD-TYPE 
               4              363 
  MOGAT1 MUTATED MOGAT1 WILD-TYPE 
               4              363 
[1] "GAB3 MUTATION ANALYSIS"
[1] 3
  GAB3 MUTATED GAB3 WILD-TYPE 
            11            356 
  GAB3 MUTATED GAB3 WILD-TYPE 
            11            356 
[1] "SIGLEC14 MUTATION ANALYSIS"
[1] 3
  SIGLEC14 MUTATED SIGLEC14 WILD-TYPE 
                 8                359 
  SIGLEC14 MUTATED SIGLEC14 WILD-TYPE 
                 8                359 
[1] "GBA2 MUTATION ANALYSIS"
[1] 3
  GBA2 MUTATED GBA2 WILD-TYPE 
            15            352 
  GBA2 MUTATED GBA2 WILD-TYPE 
            15            352 
[1] "RTTN MUTATION ANALYSIS"
[1] 3
  RTTN MUTATED RTTN WILD-TYPE 
            17            350 
  RTTN MUTATED RTTN WILD-TYPE 
            17            350 
[1] "SFRS12IP1 MUTATION ANALYSIS"
[1] 3
  SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE 
                  3                 364 
  SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE 
                  3                 364 
[1] "TOMM70A MUTATION ANALYSIS"
[1] 3
  TOMM70A MUTATED TOMM70A WILD-TYPE 
               10               357 
  TOMM70A MUTATED TOMM70A WILD-TYPE 
               10               357 
[1] "RRP9 MUTATION ANALYSIS"
[1] 3
  RRP9 MUTATED RRP9 WILD-TYPE 
            12            355 
  RRP9 MUTATED RRP9 WILD-TYPE 
            12            355 
[1] "FSTL4 MUTATION ANALYSIS"
[1] 3
  FSTL4 MUTATED FSTL4 WILD-TYPE 
             15             352 
  FSTL4 MUTATED FSTL4 WILD-TYPE 
             15             352 
[1] "HIST4H4 MUTATION ANALYSIS"
[1] 3
  HIST4H4 MUTATED HIST4H4 WILD-TYPE 
                3               364 
  HIST4H4 MUTATED HIST4H4 WILD-TYPE 
                3               364 
[1] "C1ORF88 MUTATION ANALYSIS"
[1] 3
  C1ORF88 MUTATED C1ORF88 WILD-TYPE 
                6               361 
  C1ORF88 MUTATED C1ORF88 WILD-TYPE 
                6               361 
[1] "SESTD1 MUTATION ANALYSIS"
[1] 3
  SESTD1 MUTATED SESTD1 WILD-TYPE 
              15              352 
  SESTD1 MUTATED SESTD1 WILD-TYPE 
              15              352 
[1] "CAPZA3 MUTATION ANALYSIS"
[1] 3
  CAPZA3 MUTATED CAPZA3 WILD-TYPE 
               9              358 
  CAPZA3 MUTATED CAPZA3 WILD-TYPE 
               9              358 
[1] "LGALS9 MUTATION ANALYSIS"
[1] 3
  LGALS9 MUTATED LGALS9 WILD-TYPE 
               4              363 
  LGALS9 MUTATED LGALS9 WILD-TYPE 
               4              363 
[1] "MC3R MUTATION ANALYSIS"
[1] 3
  MC3R MUTATED MC3R WILD-TYPE 
            13            354 
  MC3R MUTATED MC3R WILD-TYPE 
            13            354 
[1] "ACTL6B MUTATION ANALYSIS"
[1] 3
  ACTL6B MUTATED ACTL6B WILD-TYPE 
               9              358 
  ACTL6B MUTATED ACTL6B WILD-TYPE 
               9              358 
[1] "BACH2 MUTATION ANALYSIS"
[1] 3
  BACH2 MUTATED BACH2 WILD-TYPE 
             16             351 
  BACH2 MUTATED BACH2 WILD-TYPE 
             16             351 
[1] "PGM2 MUTATION ANALYSIS"
[1] 3
  PGM2 MUTATED PGM2 WILD-TYPE 
             3            364 
  PGM2 MUTATED PGM2 WILD-TYPE 
             3            364 
[1] "EPHB1 MUTATION ANALYSIS"
[1] 3
  EPHB1 MUTATED EPHB1 WILD-TYPE 
             36             331 
  EPHB1 MUTATED EPHB1 WILD-TYPE 
             36             331 
[1] "NFS1 MUTATION ANALYSIS"
[1] 3
  NFS1 MUTATED NFS1 WILD-TYPE 
             5            362 
  NFS1 MUTATED NFS1 WILD-TYPE 
             5            362 
[1] "CLDN17 MUTATION ANALYSIS"
[1] 3
  CLDN17 MUTATED CLDN17 WILD-TYPE 
              13              354 
  CLDN17 MUTATED CLDN17 WILD-TYPE 
              13              354 
[1] "UEVLD MUTATION ANALYSIS"
[1] 3
  UEVLD MUTATED UEVLD WILD-TYPE 
              3             364 
  UEVLD MUTATED UEVLD WILD-TYPE 
              3             364 
[1] "GABRQ MUTATION ANALYSIS"
[1] 3
  GABRQ MUTATED GABRQ WILD-TYPE 
             15             352 
  GABRQ MUTATED GABRQ WILD-TYPE 
             15             352 
[1] "NTSR2 MUTATION ANALYSIS"
[1] 3
  NTSR2 MUTATED NTSR2 WILD-TYPE 
              8             359 
  NTSR2 MUTATED NTSR2 WILD-TYPE 
              8             359 
[1] "FRAS1 MUTATION ANALYSIS"
[1] 3
  FRAS1 MUTATED FRAS1 WILD-TYPE 
             37             330 
  FRAS1 MUTATED FRAS1 WILD-TYPE 
             37             330 
[1] "NDUFV2 MUTATION ANALYSIS"
[1] 3
  NDUFV2 MUTATED NDUFV2 WILD-TYPE 
               3              364 
  NDUFV2 MUTATED NDUFV2 WILD-TYPE 
               3              364 
[1] "ATP2B4 MUTATION ANALYSIS"
[1] 3
  ATP2B4 MUTATED ATP2B4 WILD-TYPE 
              18              349 
  ATP2B4 MUTATED ATP2B4 WILD-TYPE 
              18              349 
[1] "PLEKHA4 MUTATION ANALYSIS"
[1] 3
  PLEKHA4 MUTATED PLEKHA4 WILD-TYPE 
               10               357 
  PLEKHA4 MUTATED PLEKHA4 WILD-TYPE 
               10               357 
[1] "AHNAK MUTATION ANALYSIS"
[1] 3
  AHNAK MUTATED AHNAK WILD-TYPE 
             39             328 
  AHNAK MUTATED AHNAK WILD-TYPE 
             39             328 
[1] "TRIM25 MUTATION ANALYSIS"
[1] 3
  TRIM25 MUTATED TRIM25 WILD-TYPE 
               4              363 
  TRIM25 MUTATED TRIM25 WILD-TYPE 
               4              363 
[1] "STK10 MUTATION ANALYSIS"
[1] 3
  STK10 MUTATED STK10 WILD-TYPE 
             14             353 
  STK10 MUTATED STK10 WILD-TYPE 
             14             353 
[1] "TLR9 MUTATION ANALYSIS"
[1] 3
  TLR9 MUTATED TLR9 WILD-TYPE 
            11            356 
  TLR9 MUTATED TLR9 WILD-TYPE 
            11            356 
[1] "VWA3A MUTATION ANALYSIS"
[1] 3
  VWA3A MUTATED VWA3A WILD-TYPE 
             11             356 
  VWA3A MUTATED VWA3A WILD-TYPE 
             11             356 
[1] "S1PR1 MUTATION ANALYSIS"
[1] 3
  S1PR1 MUTATED S1PR1 WILD-TYPE 
             11             356 
  S1PR1 MUTATED S1PR1 WILD-TYPE 
             11             356 
[1] "RAPGEF2 MUTATION ANALYSIS"
[1] 3
  RAPGEF2 MUTATED RAPGEF2 WILD-TYPE 
               21               346 
  RAPGEF2 MUTATED RAPGEF2 WILD-TYPE 
               21               346 
[1] "SFRS2IP MUTATION ANALYSIS"
[1] 3
  SFRS2IP MUTATED SFRS2IP WILD-TYPE 
               26               341 
  SFRS2IP MUTATED SFRS2IP WILD-TYPE 
               26               341 
[1] "LUZP1 MUTATION ANALYSIS"
[1] 3
  LUZP1 MUTATED LUZP1 WILD-TYPE 
             15             352 
  LUZP1 MUTATED LUZP1 WILD-TYPE 
             15             352 
[1] "NDUFB2 MUTATION ANALYSIS"
[1] 3
  NDUFB2 MUTATED NDUFB2 WILD-TYPE 
               3              364 
  NDUFB2 MUTATED NDUFB2 WILD-TYPE 
               3              364 
[1] "LRRFIP1 MUTATION ANALYSIS"
[1] 3
  LRRFIP1 MUTATED LRRFIP1 WILD-TYPE 
               12               355 
  LRRFIP1 MUTATED LRRFIP1 WILD-TYPE 
               12               355 
[1] "PTPRN MUTATION ANALYSIS"
[1] 3
  PTPRN MUTATED PTPRN WILD-TYPE 
             14             353 
  PTPRN MUTATED PTPRN WILD-TYPE 
             14             353 
[1] "AVPR1A MUTATION ANALYSIS"
[1] 3
  AVPR1A MUTATED AVPR1A WILD-TYPE 
              11              356 
  AVPR1A MUTATED AVPR1A WILD-TYPE 
              11              356 
[1] "KCNC4 MUTATION ANALYSIS"
[1] 3
  KCNC4 MUTATED KCNC4 WILD-TYPE 
              8             359 
  KCNC4 MUTATED KCNC4 WILD-TYPE 
              8             359 
[1] "RPAP2 MUTATION ANALYSIS"
[1] 3
  RPAP2 MUTATED RPAP2 WILD-TYPE 
              6             361 
  RPAP2 MUTATED RPAP2 WILD-TYPE 
              6             361 
[1] "DDX24 MUTATION ANALYSIS"
[1] 3
  DDX24 MUTATED DDX24 WILD-TYPE 
             13             354 
  DDX24 MUTATED DDX24 WILD-TYPE 
             13             354 
[1] "CUL1 MUTATION ANALYSIS"
[1] 3
  CUL1 MUTATED CUL1 WILD-TYPE 
            15            352 
  CUL1 MUTATED CUL1 WILD-TYPE 
            15            352 
[1] "FOXF2 MUTATION ANALYSIS"
[1] 3
  FOXF2 MUTATED FOXF2 WILD-TYPE 
              4             363 
  FOXF2 MUTATED FOXF2 WILD-TYPE 
              4             363 
[1] "CNKSR3 MUTATION ANALYSIS"
[1] 3
  CNKSR3 MUTATED CNKSR3 WILD-TYPE 
               9              358 
  CNKSR3 MUTATED CNKSR3 WILD-TYPE 
               9              358 
[1] "C1ORF116 MUTATION ANALYSIS"
[1] 3
  C1ORF116 MUTATED C1ORF116 WILD-TYPE 
                 6                361 
  C1ORF116 MUTATED C1ORF116 WILD-TYPE 
                 6                361 
[1] "DENND2C MUTATION ANALYSIS"
[1] 3
  DENND2C MUTATED DENND2C WILD-TYPE 
               18               349 
  DENND2C MUTATED DENND2C WILD-TYPE 
               18               349 
[1] "ITGA9 MUTATION ANALYSIS"
[1] 3
  ITGA9 MUTATED ITGA9 WILD-TYPE 
              9             358 
  ITGA9 MUTATED ITGA9 WILD-TYPE 
              9             358 
[1] "COPB2 MUTATION ANALYSIS"
[1] 3
  COPB2 MUTATED COPB2 WILD-TYPE 
             13             354 
  COPB2 MUTATED COPB2 WILD-TYPE 
             13             354 
[1] "GATAD2A MUTATION ANALYSIS"
[1] 3
  GATAD2A MUTATED GATAD2A WILD-TYPE 
                9               358 
  GATAD2A MUTATED GATAD2A WILD-TYPE 
                9               358 
[1] "TAOK1 MUTATION ANALYSIS"
[1] 3
  TAOK1 MUTATED TAOK1 WILD-TYPE 
             16             351 
  TAOK1 MUTATED TAOK1 WILD-TYPE 
             16             351 
[1] "KRT1 MUTATION ANALYSIS"
[1] 3
  KRT1 MUTATED KRT1 WILD-TYPE 
            14            353 
  KRT1 MUTATED KRT1 WILD-TYPE 
            14            353 
[1] "TACC2 MUTATION ANALYSIS"
[1] 3
  TACC2 MUTATED TACC2 WILD-TYPE 
             25             342 
  TACC2 MUTATED TACC2 WILD-TYPE 
             25             342 
[1] "GATA6 MUTATION ANALYSIS"
[1] 3
  GATA6 MUTATED GATA6 WILD-TYPE 
              4             363 
  GATA6 MUTATED GATA6 WILD-TYPE 
              4             363 
[1] "NDC80 MUTATION ANALYSIS"
[1] 3
  NDC80 MUTATED NDC80 WILD-TYPE 
              8             359 
  NDC80 MUTATED NDC80 WILD-TYPE 
              8             359 
[1] "HLA-G MUTATION ANALYSIS"
[1] 3
  HLA-G MUTATED HLA-G WILD-TYPE 
             11             356 
  HLA-G MUTATED HLA-G WILD-TYPE 
             11             356 
[1] "TNNT2 MUTATION ANALYSIS"
[1] 3
  TNNT2 MUTATED TNNT2 WILD-TYPE 
              8             359 
  TNNT2 MUTATED TNNT2 WILD-TYPE 
              8             359 
[1] "PPM1B MUTATION ANALYSIS"
[1] 3
  PPM1B MUTATED PPM1B WILD-TYPE 
              5             362 
  PPM1B MUTATED PPM1B WILD-TYPE 
              5             362 
[1] "ZNF232 MUTATION ANALYSIS"
[1] 3
  ZNF232 MUTATED ZNF232 WILD-TYPE 
               4              363 
  ZNF232 MUTATED ZNF232 WILD-TYPE 
               4              363 
[1] "HRASLS5 MUTATION ANALYSIS"
[1] 3
  HRASLS5 MUTATED HRASLS5 WILD-TYPE 
                5               362 
  HRASLS5 MUTATED HRASLS5 WILD-TYPE 
                5               362 
[1] "PRSS35 MUTATION ANALYSIS"
[1] 3
  PRSS35 MUTATED PRSS35 WILD-TYPE 
              12              355 
  PRSS35 MUTATED PRSS35 WILD-TYPE 
              12              355 
[1] "SF3B2 MUTATION ANALYSIS"
[1] 3
  SF3B2 MUTATED SF3B2 WILD-TYPE 
             10             357 
  SF3B2 MUTATED SF3B2 WILD-TYPE 
             10             357 
[1] "OR5L2 MUTATION ANALYSIS"
[1] 3
  OR5L2 MUTATED OR5L2 WILD-TYPE 
             14             353 
  OR5L2 MUTATED OR5L2 WILD-TYPE 
             14             353 
[1] "APAF1 MUTATION ANALYSIS"
[1] 3
  APAF1 MUTATED APAF1 WILD-TYPE 
             18             349 
  APAF1 MUTATED APAF1 WILD-TYPE 
             18             349 
[1] "KRT39 MUTATION ANALYSIS"
[1] 3
  KRT39 MUTATED KRT39 WILD-TYPE 
              7             360 
  KRT39 MUTATED KRT39 WILD-TYPE 
              7             360 
[1] "IL3 MUTATION ANALYSIS"
[1] 3
  IL3 MUTATED IL3 WILD-TYPE 
            6           361 
  IL3 MUTATED IL3 WILD-TYPE 
            6           361 
[1] "UST MUTATION ANALYSIS"
[1] 3
  UST MUTATED UST WILD-TYPE 
            9           358 
  UST MUTATED UST WILD-TYPE 
            9           358 
[1] "CYTSA MUTATION ANALYSIS"
[1] 3
  CYTSA MUTATED CYTSA WILD-TYPE 
             11             356 
  CYTSA MUTATED CYTSA WILD-TYPE 
             11             356 
[1] "PEAR1 MUTATION ANALYSIS"
[1] 3
  PEAR1 MUTATED PEAR1 WILD-TYPE 
             11             356 
  PEAR1 MUTATED PEAR1 WILD-TYPE 
             11             356 
[1] "HIST1H1B MUTATION ANALYSIS"
[1] 3
  HIST1H1B MUTATED HIST1H1B WILD-TYPE 
                 7                360 
  HIST1H1B MUTATED HIST1H1B WILD-TYPE 
                 7                360 
[1] "SIRT4 MUTATION ANALYSIS"
[1] 3
  SIRT4 MUTATED SIRT4 WILD-TYPE 
              6             361 
  SIRT4 MUTATED SIRT4 WILD-TYPE 
              6             361 
[1] "OLFM1 MUTATION ANALYSIS"
[1] 3
  OLFM1 MUTATED OLFM1 WILD-TYPE 
             11             356 
  OLFM1 MUTATED OLFM1 WILD-TYPE 
             11             356 
[1] "DDX55 MUTATION ANALYSIS"
[1] 3
  DDX55 MUTATED DDX55 WILD-TYPE 
             10             357 
  DDX55 MUTATED DDX55 WILD-TYPE 
             10             357 
[1] "CLGN MUTATION ANALYSIS"
[1] 3
  CLGN MUTATED CLGN WILD-TYPE 
            11            356 
  CLGN MUTATED CLGN WILD-TYPE 
            11            356 
[1] "EHBP1L1 MUTATION ANALYSIS"
[1] 3
  EHBP1L1 MUTATED EHBP1L1 WILD-TYPE 
                7               360 
  EHBP1L1 MUTATED EHBP1L1 WILD-TYPE 
                7               360 
[1] "ATP2A2 MUTATION ANALYSIS"
[1] 3
  ATP2A2 MUTATED ATP2A2 WILD-TYPE 
              15              352 
  ATP2A2 MUTATED ATP2A2 WILD-TYPE 
              15              352 
[1] "GRAMD1C MUTATION ANALYSIS"
[1] 3
  GRAMD1C MUTATED GRAMD1C WILD-TYPE 
               11               356 
  GRAMD1C MUTATED GRAMD1C WILD-TYPE 
               11               356 
[1] "TIPARP MUTATION ANALYSIS"
[1] 3
  TIPARP MUTATED TIPARP WILD-TYPE 
               5              362 
  TIPARP MUTATED TIPARP WILD-TYPE 
               5              362 
[1] "POLA1 MUTATION ANALYSIS"
[1] 3
  POLA1 MUTATED POLA1 WILD-TYPE 
              9             358 
  POLA1 MUTATED POLA1 WILD-TYPE 
              9             358 
[1] "SAPS3 MUTATION ANALYSIS"
[1] 3
  SAPS3 MUTATED SAPS3 WILD-TYPE 
             11             356 
  SAPS3 MUTATED SAPS3 WILD-TYPE 
             11             356 
[1] "ZFP1 MUTATION ANALYSIS"
[1] 3
  ZFP1 MUTATED ZFP1 WILD-TYPE 
             4            363 
  ZFP1 MUTATED ZFP1 WILD-TYPE 
             4            363 
[1] "MLL MUTATION ANALYSIS"
[1] 3
  MLL MUTATED MLL WILD-TYPE 
           38           329 
  MLL MUTATED MLL WILD-TYPE 
           38           329 
[1] "TSC2 MUTATION ANALYSIS"
[1] 3
  TSC2 MUTATED TSC2 WILD-TYPE 
            15            352 
  TSC2 MUTATED TSC2 WILD-TYPE 
            15            352 
[1] "MAK MUTATION ANALYSIS"
[1] 3
  MAK MUTATED MAK WILD-TYPE 
            9           358 
  MAK MUTATED MAK WILD-TYPE 
            9           358 
[1] "FAAH2 MUTATION ANALYSIS"
[1] 3
  FAAH2 MUTATED FAAH2 WILD-TYPE 
             11             356 
  FAAH2 MUTATED FAAH2 WILD-TYPE 
             11             356 
[1] "KIAA0355 MUTATION ANALYSIS"
[1] 3
  KIAA0355 MUTATED KIAA0355 WILD-TYPE 
                 7                360 
  KIAA0355 MUTATED KIAA0355 WILD-TYPE 
                 7                360 
[1] "SLC17A6 MUTATION ANALYSIS"
[1] 3
  SLC17A6 MUTATED SLC17A6 WILD-TYPE 
               13               354 
  SLC17A6 MUTATED SLC17A6 WILD-TYPE 
               13               354 
[1] "HDAC2 MUTATION ANALYSIS"
[1] 3
  HDAC2 MUTATED HDAC2 WILD-TYPE 
              7             360 
  HDAC2 MUTATED HDAC2 WILD-TYPE 
              7             360 
[1] "F9 MUTATION ANALYSIS"
[1] 3
  F9 MUTATED F9 WILD-TYPE 
          19          348 
  F9 MUTATED F9 WILD-TYPE 
          19          348 
[1] "ZNF185 MUTATION ANALYSIS"
[1] 3
  ZNF185 MUTATED ZNF185 WILD-TYPE 
              10              357 
  ZNF185 MUTATED ZNF185 WILD-TYPE 
              10              357 
[1] "NXT1 MUTATION ANALYSIS"
[1] 3
  NXT1 MUTATED NXT1 WILD-TYPE 
             5            362 
  NXT1 MUTATED NXT1 WILD-TYPE 
             5            362 
[1] "CHGB MUTATION ANALYSIS"
[1] 3
  CHGB MUTATED CHGB WILD-TYPE 
            12            355 
  CHGB MUTATED CHGB WILD-TYPE 
            12            355 
[1] "OR14J1 MUTATION ANALYSIS"
[1] 3
  OR14J1 MUTATED OR14J1 WILD-TYPE 
               8              359 
  OR14J1 MUTATED OR14J1 WILD-TYPE 
               8              359 
[1] "LYST MUTATION ANALYSIS"
[1] 3
  LYST MUTATED LYST WILD-TYPE 
            34            333 
  LYST MUTATED LYST WILD-TYPE 
            34            333 
[1] "PPP2R2B MUTATION ANALYSIS"
[1] 3
  PPP2R2B MUTATED PPP2R2B WILD-TYPE 
                8               359 
  PPP2R2B MUTATED PPP2R2B WILD-TYPE 
                8               359 
[1] "ACTBL2 MUTATION ANALYSIS"
[1] 3
  ACTBL2 MUTATED ACTBL2 WILD-TYPE 
              16              351 
  ACTBL2 MUTATED ACTBL2 WILD-TYPE 
              16              351 
[1] "C9ORF41 MUTATION ANALYSIS"
[1] 3
  C9ORF41 MUTATED C9ORF41 WILD-TYPE 
               10               357 
  C9ORF41 MUTATED C9ORF41 WILD-TYPE 
               10               357 
[1] "BATF3 MUTATION ANALYSIS"
[1] 3
  BATF3 MUTATED BATF3 WILD-TYPE 
              4             363 
  BATF3 MUTATED BATF3 WILD-TYPE 
              4             363 
[1] "SEC23IP MUTATION ANALYSIS"
[1] 3
  SEC23IP MUTATED SEC23IP WILD-TYPE 
               16               351 
  SEC23IP MUTATED SEC23IP WILD-TYPE 
               16               351 
[1] "GIMAP5 MUTATION ANALYSIS"
[1] 3
  GIMAP5 MUTATED GIMAP5 WILD-TYPE 
               6              361 
  GIMAP5 MUTATED GIMAP5 WILD-TYPE 
               6              361 
[1] "FAM91A1 MUTATION ANALYSIS"
[1] 3
  FAM91A1 MUTATED FAM91A1 WILD-TYPE 
               10               357 
  FAM91A1 MUTATED FAM91A1 WILD-TYPE 
               10               357 
[1] "OSBPL5 MUTATION ANALYSIS"
[1] 3
  OSBPL5 MUTATED OSBPL5 WILD-TYPE 
              14              353 
  OSBPL5 MUTATED OSBPL5 WILD-TYPE 
              14              353 
[1] "TTLL5 MUTATION ANALYSIS"
[1] 3
  TTLL5 MUTATED TTLL5 WILD-TYPE 
             11             356 
  TTLL5 MUTATED TTLL5 WILD-TYPE 
             11             356 
[1] "TMEM171 MUTATION ANALYSIS"
[1] 3
  TMEM171 MUTATED TMEM171 WILD-TYPE 
                5               362 
  TMEM171 MUTATED TMEM171 WILD-TYPE 
                5               362 
[1] "GPSM2 MUTATION ANALYSIS"
[1] 3
  GPSM2 MUTATED GPSM2 WILD-TYPE 
             12             355 
  GPSM2 MUTATED GPSM2 WILD-TYPE 
             12             355 
[1] "ANKRD32 MUTATION ANALYSIS"
[1] 3
  ANKRD32 MUTATED ANKRD32 WILD-TYPE 
               13               354 
  ANKRD32 MUTATED ANKRD32 WILD-TYPE 
               13               354 
[1] "HDAC11 MUTATION ANALYSIS"
[1] 3
  HDAC11 MUTATED HDAC11 WILD-TYPE 
               8              359 
  HDAC11 MUTATED HDAC11 WILD-TYPE 
               8              359 
[1] "BUB1 MUTATION ANALYSIS"
[1] 3
  BUB1 MUTATED BUB1 WILD-TYPE 
            13            354 
  BUB1 MUTATED BUB1 WILD-TYPE 
            13            354 
[1] "KMO MUTATION ANALYSIS"
[1] 3
  KMO MUTATED KMO WILD-TYPE 
           12           355 
  KMO MUTATED KMO WILD-TYPE 
           12           355 
[1] "COL6A3 MUTATION ANALYSIS"
[1] 3
  COL6A3 MUTATED COL6A3 WILD-TYPE 
              51              316 
  COL6A3 MUTATED COL6A3 WILD-TYPE 
              51              316 
[1] "FKBP5 MUTATION ANALYSIS"
[1] 3
  FKBP5 MUTATED FKBP5 WILD-TYPE 
              6             361 
  FKBP5 MUTATED FKBP5 WILD-TYPE 
              6             361 
[1] "ASPN MUTATION ANALYSIS"
[1] 3
  ASPN MUTATED ASPN WILD-TYPE 
             7            360 
  ASPN MUTATED ASPN WILD-TYPE 
             7            360 
[1] "RARS2 MUTATION ANALYSIS"
[1] 3
  RARS2 MUTATED RARS2 WILD-TYPE 
              7             360 
  RARS2 MUTATED RARS2 WILD-TYPE 
              7             360 
[1] "SMPDL3B MUTATION ANALYSIS"
[1] 3
  SMPDL3B MUTATED SMPDL3B WILD-TYPE 
                9               358 
  SMPDL3B MUTATED SMPDL3B WILD-TYPE 
                9               358 
[1] "SEMA3C MUTATION ANALYSIS"
[1] 3
  SEMA3C MUTATED SEMA3C WILD-TYPE 
              12              355 
  SEMA3C MUTATED SEMA3C WILD-TYPE 
              12              355 
[1] "GABRG2 MUTATION ANALYSIS"
[1] 3
  GABRG2 MUTATED GABRG2 WILD-TYPE 
              14              353 
  GABRG2 MUTATED GABRG2 WILD-TYPE 
              14              353 
[1] "MTOR MUTATION ANALYSIS"
[1] 3
  MTOR MUTATED MTOR WILD-TYPE 
            34            333 
  MTOR MUTATED MTOR WILD-TYPE 
            34            333 
[1] "CD84 MUTATION ANALYSIS"
[1] 3
  CD84 MUTATED CD84 WILD-TYPE 
             9            358 
  CD84 MUTATED CD84 WILD-TYPE 
             9            358 
[1] "PRKD1 MUTATION ANALYSIS"
[1] 3
  PRKD1 MUTATED PRKD1 WILD-TYPE 
             24             343 
  PRKD1 MUTATED PRKD1 WILD-TYPE 
             24             343 
[1] "TET1 MUTATION ANALYSIS"
[1] 3
  TET1 MUTATED TET1 WILD-TYPE 
            23            344 
  TET1 MUTATED TET1 WILD-TYPE 
            23            344 
[1] "FLG MUTATION ANALYSIS"
[1] 3
  FLG MUTATED FLG WILD-TYPE 
           64           303 
  FLG MUTATED FLG WILD-TYPE 
           64           303 
[1] "SCNN1G MUTATION ANALYSIS"
[1] 3
  SCNN1G MUTATED SCNN1G WILD-TYPE 
               9              358 
  SCNN1G MUTATED SCNN1G WILD-TYPE 
               9              358 
[1] "SLC19A2 MUTATION ANALYSIS"
[1] 3
  SLC19A2 MUTATED SLC19A2 WILD-TYPE 
                7               360 
  SLC19A2 MUTATED SLC19A2 WILD-TYPE 
                7               360 
[1] "TBC1D25 MUTATION ANALYSIS"
[1] 3
  TBC1D25 MUTATED TBC1D25 WILD-TYPE 
               11               356 
  TBC1D25 MUTATED TBC1D25 WILD-TYPE 
               11               356 
[1] "PCDHGA9 MUTATION ANALYSIS"
[1] 3
  PCDHGA9 MUTATED PCDHGA9 WILD-TYPE 
               12               355 
  PCDHGA9 MUTATED PCDHGA9 WILD-TYPE 
               12               355 
[1] "HIF1A MUTATION ANALYSIS"
[1] 3
  HIF1A MUTATED HIF1A WILD-TYPE 
             11             356 
  HIF1A MUTATED HIF1A WILD-TYPE 
             11             356 
[1] "ZNF521 MUTATION ANALYSIS"
[1] 3
  ZNF521 MUTATED ZNF521 WILD-TYPE 
              28              339 
  ZNF521 MUTATED ZNF521 WILD-TYPE 
              28              339 
[1] "TFEC MUTATION ANALYSIS"
[1] 3
  TFEC MUTATED TFEC WILD-TYPE 
            10            357 
  TFEC MUTATED TFEC WILD-TYPE 
            10            357 
[1] "NEFH MUTATION ANALYSIS"
[1] 3
  NEFH MUTATED NEFH WILD-TYPE 
            13            354 
  NEFH MUTATED NEFH WILD-TYPE 
            13            354 
[1] "AKAP13 MUTATION ANALYSIS"
[1] 3
  AKAP13 MUTATED AKAP13 WILD-TYPE 
              20              347 
  AKAP13 MUTATED AKAP13 WILD-TYPE 
              20              347 
[1] "FAM133A MUTATION ANALYSIS"
[1] 3
  FAM133A MUTATED FAM133A WILD-TYPE 
               11               356 
  FAM133A MUTATED FAM133A WILD-TYPE 
               11               356 
[1] "RAG1 MUTATION ANALYSIS"
[1] 3
  RAG1 MUTATED RAG1 WILD-TYPE 
            14            353 
  RAG1 MUTATED RAG1 WILD-TYPE 
            14            353 
[1] "ZNF615 MUTATION ANALYSIS"
[1] 3
  ZNF615 MUTATED ZNF615 WILD-TYPE 
              17              350 
  ZNF615 MUTATED ZNF615 WILD-TYPE 
              17              350 
[1] "ENGASE MUTATION ANALYSIS"
[1] 3
  ENGASE MUTATED ENGASE WILD-TYPE 
               4              363 
  ENGASE MUTATED ENGASE WILD-TYPE 
               4              363 
[1] "CCDC144A MUTATION ANALYSIS"
[1] 3
  CCDC144A MUTATED CCDC144A WILD-TYPE 
                 9                358 
  CCDC144A MUTATED CCDC144A WILD-TYPE 
                 9                358 
[1] "CCDC112 MUTATION ANALYSIS"
[1] 3
  CCDC112 MUTATED CCDC112 WILD-TYPE 
                7               360 
  CCDC112 MUTATED CCDC112 WILD-TYPE 
                7               360 
[1] "ZNF286B MUTATION ANALYSIS"
[1] 3
  ZNF286B MUTATED ZNF286B WILD-TYPE 
                5               362 
  ZNF286B MUTATED ZNF286B WILD-TYPE 
                5               362 
[1] "SFTPB MUTATION ANALYSIS"
[1] 3
  SFTPB MUTATED SFTPB WILD-TYPE 
              9             358 
  SFTPB MUTATED SFTPB WILD-TYPE 
              9             358 
[1] "WNT8A MUTATION ANALYSIS"
[1] 3
  WNT8A MUTATED WNT8A WILD-TYPE 
              5             362 
  WNT8A MUTATED WNT8A WILD-TYPE 
              5             362 
[1] "GPR61 MUTATION ANALYSIS"
[1] 3
  GPR61 MUTATED GPR61 WILD-TYPE 
              9             358 
  GPR61 MUTATED GPR61 WILD-TYPE 
              9             358 
[1] "CACNA1H MUTATION ANALYSIS"
[1] 3
  CACNA1H MUTATED CACNA1H WILD-TYPE 
               27               340 
  CACNA1H MUTATED CACNA1H WILD-TYPE 
               27               340 
[1] "G3BP1 MUTATION ANALYSIS"
[1] 3
  G3BP1 MUTATED G3BP1 WILD-TYPE 
             11             356 
  G3BP1 MUTATED G3BP1 WILD-TYPE 
             11             356 
[1] "SULF2 MUTATION ANALYSIS"
[1] 3
  SULF2 MUTATED SULF2 WILD-TYPE 
             22             345 
  SULF2 MUTATED SULF2 WILD-TYPE 
             22             345 
[1] "KDR MUTATION ANALYSIS"
[1] 3
  KDR MUTATED KDR WILD-TYPE 
           28           339 
  KDR MUTATED KDR WILD-TYPE 
           28           339 
[1] "CPB2 MUTATION ANALYSIS"
[1] 3
  CPB2 MUTATED CPB2 WILD-TYPE 
             9            358 
  CPB2 MUTATED CPB2 WILD-TYPE 
             9            358 
[1] "TMEM20 MUTATION ANALYSIS"
[1] 3
  TMEM20 MUTATED TMEM20 WILD-TYPE 
               3              364 
  TMEM20 MUTATED TMEM20 WILD-TYPE 
               3              364 
[1] "KCNQ1 MUTATION ANALYSIS"
[1] 3
  KCNQ1 MUTATED KCNQ1 WILD-TYPE 
              8             359 
  KCNQ1 MUTATED KCNQ1 WILD-TYPE 
              8             359 
[1] "CAMK2G MUTATION ANALYSIS"
[1] 3
  CAMK2G MUTATED CAMK2G WILD-TYPE 
              13              354 
  CAMK2G MUTATED CAMK2G WILD-TYPE 
              13              354 
[1] "SAMD11 MUTATION ANALYSIS"
[1] 3
  SAMD11 MUTATED SAMD11 WILD-TYPE 
               6              361 
  SAMD11 MUTATED SAMD11 WILD-TYPE 
               6              361 
[1] "FAM83D MUTATION ANALYSIS"
[1] 3
  FAM83D MUTATED FAM83D WILD-TYPE 
              11              356 
  FAM83D MUTATED FAM83D WILD-TYPE 
              11              356 
[1] "ALG9 MUTATION ANALYSIS"
[1] 3
  ALG9 MUTATED ALG9 WILD-TYPE 
             3            364 
  ALG9 MUTATED ALG9 WILD-TYPE 
             3            364 
[1] "BCL7A MUTATION ANALYSIS"
[1] 3
  BCL7A MUTATED BCL7A WILD-TYPE 
              5             362 
  BCL7A MUTATED BCL7A WILD-TYPE 
              5             362 
[1] "HOXA1 MUTATION ANALYSIS"
[1] 3
  HOXA1 MUTATED HOXA1 WILD-TYPE 
             10             357 
  HOXA1 MUTATED HOXA1 WILD-TYPE 
             10             357 
[1] "data2feature, selection=ALL"
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 12 rows and 367 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "## **** detect survival parameters (defined in index such as ind_OS, ind_MFS, ind_RFS, ind_RFS, ind_BCR and ind_d2ssd) *** ##"
[1] "detected survival parameters using [ind_OS, overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_OS, curated_overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_TCGAOS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survivial parameters using [ind_MFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_RFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_BCR]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_Progression]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [index_additional_survival_time]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using condition: [is.null(surv.mat)&&(selection=='SURV')]"
[1] "survival parameters accumulated so far"
NULL
[1] "************ conversion from categorical data to rank data ********** "
[1] "****** SUMMARY ***** "
Output Data has 367 columns, 0 survival variables, and 12 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
MRNA_CNMF, nv=5, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=9, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=9, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=6, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=9, binary=FALSE, numeric=FALSE

Clustering(1) Variable = APC MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APC MUTATED       16     13     34     22     15
  APC WILD-TYPE     16      5     12      5      8
D1V1, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          16            16
  CLUS_2          13             5
  CLUS_3          34            12
  CLUS_4          22             5
  CLUS_5          15             8
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED       23     51     26
  APC WILD-TYPE     20     16     10
D1V2, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          23            20
  CLUS_2          51            16
  CLUS_3          26            10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED       36    148    106
  APC WILD-TYPE      6     25     41
D1V3, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          36             6
  CLUS_2         148            25
  CLUS_3         106            41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED       54     71     64
  APC WILD-TYPE      8      2     11
D1V4, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          54             8
  CLUS_2          71             2
  CLUS_3          64            11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED       52    102     81
  APC WILD-TYPE     18     18     19
D1V5, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          52            18
  CLUS_2         102            18
  CLUS_3          81            19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  APC MUTATED       35     21     23     25     26     55     16     13     21
  APC WILD-TYPE      6      5      7      4     13     14      4      1      1
D1V6, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          35             6
  CLUS_2          21             5
  CLUS_3          23             7
  CLUS_4          25             4
  CLUS_5          26            13
  CLUS_6          55            14
  CLUS_7          16             4
  CLUS_8          13             1
  CLUS_9          21             1
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED       88     63     62     80
  APC WILD-TYPE     12      9     10     41
D1V7, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          88            12
  CLUS_2          63             9
  CLUS_3          62            10
  CLUS_4          80            41
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APC MUTATED       51     70     62     89     21
  APC WILD-TYPE      8      5     12     30     17
D1V8, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          51             8
  CLUS_2          70             5
  CLUS_3          62            12
  CLUS_4          89            30
  CLUS_5          21            17
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APC MUTATED       49     66     50     60     61
  APC WILD-TYPE      2     10     11     11     34
D1V9, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          49             2
  CLUS_2          66            10
  CLUS_3          50            11
  CLUS_4          60            11
  CLUS_5          61            34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  APC MUTATED       63     41     32     13     42     19     13     24     39
  APC WILD-TYPE      6      7      7      3     11      1      8     14     11
D1V10, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          63             6
  CLUS_2          41             7
  CLUS_3          32             7
  CLUS_4          13             3
  CLUS_5          42            11
  CLUS_6          19             1
  CLUS_7          13             8
  CLUS_8          24            14
  CLUS_9          39            11
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  APC MUTATED       13     12     11     11      9      8
  APC WILD-TYPE      0      4      3      0      2      1
D1V11, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          13             0
  CLUS_2          12             4
  CLUS_3          11             3
  CLUS_4          11             0
  CLUS_5           9             2
  CLUS_6           8             1
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  APC MUTATED       10      6      6      8      6      5      9      9      5
  APC WILD-TYPE      1      1      1      1      2      2      2      0      0
D1V12, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          10             1
  CLUS_2           6             1
  CLUS_3           6             1
  CLUS_4           8             1
  CLUS_5           6             2
  CLUS_6           5             2
  CLUS_7           9             2
  CLUS_8           9             0
  CLUS_9           5             0
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(2) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED        9     10     34     10     10
  TP53 WILD-TYPE     23      8     12     17     13
D2V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            9             23
  CLUS_2           10              8
  CLUS_3           34             12
  CLUS_4           10             17
  CLUS_5           10             13
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       12     40     21
  TP53 WILD-TYPE     31     27     15
D2V2, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           12             31
  CLUS_2           40             27
  CLUS_3           21             15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       27    141     60
  TP53 WILD-TYPE     15     32     87
D2V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           27             15
  CLUS_2          141             32
  CLUS_3           60             87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       47     58     50
  TP53 WILD-TYPE     15     15     25
D2V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           47             15
  CLUS_2           58             15
  CLUS_3           50             25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       39     78     65
  TP53 WILD-TYPE     31     42     35
D2V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           39             31
  CLUS_2           78             42
  CLUS_3           65             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TP53 MUTATED       30     12     20     21     18     41     13      9     18
  TP53 WILD-TYPE     11     14     10      8     21     28      7      5      4
D2V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           30             11
  CLUS_2           12             14
  CLUS_3           20             10
  CLUS_4           21              8
  CLUS_5           18             21
  CLUS_6           41             28
  CLUS_7           13              7
  CLUS_8            9              5
  CLUS_9           18              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       74     44     52     61
  TP53 WILD-TYPE     26     28     20     60
D2V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           74             26
  CLUS_2           44             28
  CLUS_3           52             20
  CLUS_4           61             60
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED       48     56     48     70      9
  TP53 WILD-TYPE     11     19     26     49     29
D2V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           48             11
  CLUS_2           56             19
  CLUS_3           48             26
  CLUS_4           70             49
  CLUS_5            9             29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED       40     50     42     53     42
  TP53 WILD-TYPE     11     26     19     18     53
D2V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           40             11
  CLUS_2           50             26
  CLUS_3           42             19
  CLUS_4           53             18
  CLUS_5           42             53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TP53 MUTATED       50     36     23      8     37     16      9     14     34
  TP53 WILD-TYPE     19     12     16      8     16      4     12     24     16
D2V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           50             19
  CLUS_2           36             12
  CLUS_3           23             16
  CLUS_4            8              8
  CLUS_5           37             16
  CLUS_6           16              4
  CLUS_7            9             12
  CLUS_8           14             24
  CLUS_9           34             16
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED       11     13     10      8      5      9
  TP53 WILD-TYPE      2      3      4      3      6      0
D2V11, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           11              2
  CLUS_2           13              3
  CLUS_3           10              4
  CLUS_4            8              3
  CLUS_5            5              6
  CLUS_6            9              0
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TP53 MUTATED        9      6      6      6      5      5      7      8      4
  TP53 WILD-TYPE      2      1      1      3      3      2      4      1      1
D2V12, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            9              2
  CLUS_2            6              1
  CLUS_3            6              1
  CLUS_4            6              3
  CLUS_5            5              3
  CLUS_6            5              2
  CLUS_7            7              4
  CLUS_8            8              1
  CLUS_9            4              1
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(3) Variable = ARID1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID1A MUTATED        9      2      2      1      1
  ARID1A WILD-TYPE     23     16     44     26     22
D3V1, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              9               23
  CLUS_2              2               16
  CLUS_3              2               44
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        9      3      3
  ARID1A WILD-TYPE     34     64     33
D3V2, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              9               34
  CLUS_2              3               64
  CLUS_3              3               33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        8     21     43
  ARID1A WILD-TYPE     34    152    104
D3V3, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              8               34
  CLUS_2             21              152
  CLUS_3             43              104
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED       15     15     26
  ARID1A WILD-TYPE     47     58     49
D3V4, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             15               47
  CLUS_2             15               58
  CLUS_3             26               49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED       11     22     26
  ARID1A WILD-TYPE     59     98     74
D3V5, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             11               59
  CLUS_2             22               98
  CLUS_3             26               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID1A MUTATED        7      4      5      5      4     19      5      4
  ARID1A WILD-TYPE     34     22     25     24     35     50     15     10
                  vv
clus               CLUS_9
  ARID1A MUTATED        6
  ARID1A WILD-TYPE     16
D3V6, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              7               34
  CLUS_2              4               22
  CLUS_3              5               25
  CLUS_4              5               24
  CLUS_5              4               35
  CLUS_6             19               50
  CLUS_7              5               15
  CLUS_8              4               10
  CLUS_9              6               16
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED       17     23     17     15
  ARID1A WILD-TYPE     83     49     55    106
D3V7, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             17               83
  CLUS_2             23               49
  CLUS_3             17               55
  CLUS_4             15              106
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID1A MUTATED        9     18     28      9      8
  ARID1A WILD-TYPE     50     57     46    110     30
D3V8, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              9               50
  CLUS_2             18               57
  CLUS_3             28               46
  CLUS_4              9              110
  CLUS_5              8               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID1A MUTATED       14     25     12      7     11
  ARID1A WILD-TYPE     37     51     49     64     84
D3V9, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             14               37
  CLUS_2             25               51
  CLUS_3             12               49
  CLUS_4              7               64
  CLUS_5             11               84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID1A MUTATED       15     10      7      9     11      6      1      8
  ARID1A WILD-TYPE     54     38     32      7     42     14     20     30
                  vv
clus               CLUS_9
  ARID1A MUTATED        2
  ARID1A WILD-TYPE     48
D3V10, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             15               54
  CLUS_2             10               38
  CLUS_3              7               32
  CLUS_4              9                7
  CLUS_5             11               42
  CLUS_6              6               14
  CLUS_7              1               20
  CLUS_8              8               30
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID1A MUTATED        1      1      6      1      4      2
  ARID1A WILD-TYPE     12     15      8     10      7      7
D3V11, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              6                8
  CLUS_4              1               10
  CLUS_5              4                7
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID1A MUTATED        3      0      1      1      3      2      3      1
  ARID1A WILD-TYPE      8      7      6      8      5      5      8      8
                  vv
clus               CLUS_9
  ARID1A MUTATED        1
  ARID1A WILD-TYPE      4
D3V12, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3                8
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              3                5
  CLUS_6              2                5
  CLUS_7              3                8
  CLUS_8              1                8
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(4) Variable = RNF43 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF43 MUTATED        6      0      0      3      0
  RNF43 WILD-TYPE     26     18     46     24     23
D4V1, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF43 MUTATED        6      3      0
  RNF43 WILD-TYPE     37     64     36
D4V2, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF43 MUTATED        2      2     42
  RNF43 WILD-TYPE     40    171    105
D4V3, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3            42             105
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF43 MUTATED       12      2     22
  RNF43 WILD-TYPE     50     71     53
D4V4, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1            12              50
  CLUS_2             2              71
  CLUS_3            22              53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF43 MUTATED        8     13     20
  RNF43 WILD-TYPE     62    107     80
D4V5, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             8              62
  CLUS_2            13             107
  CLUS_3            20              80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF43 MUTATED        4      5      2      6      4     15      3      1
  RNF43 WILD-TYPE     37     21     28     23     35     54     17     13
                 vv
clus              CLUS_9
  RNF43 MUTATED        1
  RNF43 WILD-TYPE     21
D4V6, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             5              21
  CLUS_3             2              28
  CLUS_4             6              23
  CLUS_5             4              35
  CLUS_6            15              54
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF43 MUTATED        2     21     14      9
  RNF43 WILD-TYPE     98     51     58    112
D4V7, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             2              98
  CLUS_2            21              51
  CLUS_3            14              58
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF43 MUTATED        0      2     33      6      5
  RNF43 WILD-TYPE     59     73     41    113     33
D4V8, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3            33              41
  CLUS_4             6             113
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF43 MUTATED        2     26      5      1     10
  RNF43 WILD-TYPE     49     50     56     70     85
D4V9, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             2              49
  CLUS_2            26              50
  CLUS_3             5              56
  CLUS_4             1              70
  CLUS_5            10              85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF43 MUTATED        7     10      1     13      2      2      3      6
  RNF43 WILD-TYPE     62     38     38      3     51     18     18     32
                 vv
clus              CLUS_9
  RNF43 MUTATED        0
  RNF43 WILD-TYPE     50
D4V10, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             7              62
  CLUS_2            10              38
  CLUS_3             1              38
  CLUS_4            13               3
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             3              18
  CLUS_8             6              32
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF43 MUTATED        0      1      4      1      7      0
  RNF43 WILD-TYPE     13     15     10     10      4      9
D4V11, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             4              10
  CLUS_4             1              10
  CLUS_5             7               4
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF43 MUTATED        0      0      0      4      3      2      4      0
  RNF43 WILD-TYPE     11      7      7      5      5      5      7      9
                 vv
clus              CLUS_9
  RNF43 MUTATED        0
  RNF43 WILD-TYPE      5
D4V12, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             4               5
  CLUS_5             3               5
  CLUS_6             2               5
  CLUS_7             4               7
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(5) Variable = SOX9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SOX9 MUTATED        2      0      3      0      3
  SOX9 WILD-TYPE     30     18     43     27     20
D5V1, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            3             43
  CLUS_4            0             27
  CLUS_5            3             20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX9 MUTATED        1      4      3
  SOX9 WILD-TYPE     42     63     33
D5V2, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            4             63
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX9 MUTATED        3      9     24
  SOX9 WILD-TYPE     39    164    123
D5V3, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            9            164
  CLUS_3           24            123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX9 MUTATED        6      4     17
  SOX9 WILD-TYPE     56     69     58
D5V4, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            4             69
  CLUS_3           17             58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX9 MUTATED        5     10      8
  SOX9 WILD-TYPE     65    110     92
D5V5, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            5             65
  CLUS_2           10            110
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SOX9 MUTATED        1      4      1      1      4      7      1      3      1
  SOX9 WILD-TYPE     40     22     29     28     35     62     19     11     21
D5V6, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            4             22
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            4             35
  CLUS_6            7             62
  CLUS_7            1             19
  CLUS_8            3             11
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOX9 MUTATED        6     17      4      9
  SOX9 WILD-TYPE     94     55     68    112
D5V7, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            6             94
  CLUS_2           17             55
  CLUS_3            4             68
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SOX9 MUTATED        0     11     14     11      0
  SOX9 WILD-TYPE     59     64     60    108     38
D5V8, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            0             59
  CLUS_2           11             64
  CLUS_3           14             60
  CLUS_4           11            108
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SOX9 MUTATED        5     12      3      8      8
  SOX9 WILD-TYPE     46     64     58     63     87
D5V9, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            5             46
  CLUS_2           12             64
  CLUS_3            3             58
  CLUS_4            8             63
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SOX9 MUTATED       15      3      4      1      2      2      2      4      3
  SOX9 WILD-TYPE     54     45     35     15     51     18     19     34     47
D5V10, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1           15             54
  CLUS_2            3             45
  CLUS_3            4             35
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            2             19
  CLUS_8            4             34
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SOX9 MUTATED        2      0      4      0      2      0
  SOX9 WILD-TYPE     11     16     10     11      9      9
D5V11, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            0             16
  CLUS_3            4             10
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SOX9 MUTATED        1      0      0      2      1      1      1      0      2
  SOX9 WILD-TYPE     10      7      7      7      7      6     10      9      3
D5V12, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            2              3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(6) Variable = FAM123B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM123B MUTATED        7      2      6      3      1
  FAM123B WILD-TYPE     25     16     40     24     22
D6V1, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               7                25
  CLUS_2               2                16
  CLUS_3               6                40
  CLUS_4               3                24
  CLUS_5               1                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM123B MUTATED        9      8      2
  FAM123B WILD-TYPE     34     59     34
D6V2, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               9                34
  CLUS_2               8                59
  CLUS_3               2                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM123B MUTATED        5     13     31
  FAM123B WILD-TYPE     37    160    116
D6V3, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               5                37
  CLUS_2              13               160
  CLUS_3              31               116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM123B MUTATED        6      7     18
  FAM123B WILD-TYPE     56     66     57
D6V4, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               6                56
  CLUS_2               7                66
  CLUS_3              18                57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM123B MUTATED        7     14     13
  FAM123B WILD-TYPE     63    106     87
D6V5, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               7                63
  CLUS_2              14               106
  CLUS_3              13                87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM123B MUTATED        6      2      3      1      6     10      3      2
  FAM123B WILD-TYPE     35     24     27     28     33     59     17     12
                   vv
clus                CLUS_9
  FAM123B MUTATED        1
  FAM123B WILD-TYPE     21
D6V6, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               6                35
  CLUS_2               2                24
  CLUS_3               3                27
  CLUS_4               1                28
  CLUS_5               6                33
  CLUS_6              10                59
  CLUS_7               3                17
  CLUS_8               2                12
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM123B MUTATED       11     12     11     16
  FAM123B WILD-TYPE     89     60     61    105
D6V7, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1              11                89
  CLUS_2              12                60
  CLUS_3              11                61
  CLUS_4              16               105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM123B MUTATED        7     14     10     12      7
  FAM123B WILD-TYPE     52     61     64    107     31
D6V8, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               7                52
  CLUS_2              14                61
  CLUS_3              10                64
  CLUS_4              12               107
  CLUS_5               7                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM123B MUTATED        6     11      7      8     17
  FAM123B WILD-TYPE     45     65     54     63     78
D6V9, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               6                45
  CLUS_2              11                65
  CLUS_3               7                54
  CLUS_4               8                63
  CLUS_5              17                78
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM123B MUTATED       12      7      2      3      5      4      2     10
  FAM123B WILD-TYPE     57     41     37     13     48     16     19     28
                   vv
clus                CLUS_9
  FAM123B MUTATED        4
  FAM123B WILD-TYPE     46
D6V10, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1              12                57
  CLUS_2               7                41
  CLUS_3               2                37
  CLUS_4               3                13
  CLUS_5               5                48
  CLUS_6               4                16
  CLUS_7               2                19
  CLUS_8              10                28
  CLUS_9               4                46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM123B MUTATED        4      2      1      1      1      2
  FAM123B WILD-TYPE      9     14     13     10     10      7
D6V11, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               4                 9
  CLUS_2               2                14
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               2                 7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM123B MUTATED        2      2      1      1      1      0      0      3
  FAM123B WILD-TYPE      9      5      6      8      7      7     11      6
                   vv
clus                CLUS_9
  FAM123B MUTATED        1
  FAM123B WILD-TYPE      4
D6V12, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               2                 5
  CLUS_3               1                 6
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               3                 6
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(7) Variable = TXNDC2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC2 MUTATED        2      0      0      0      0
  TXNDC2 WILD-TYPE     30     18     46     27     23
D7V1, multiclass
[1] "Remove cluster labels:" "TXNDC2 MUTATED"        
clus
  TXNDC2 MUTATED TXNDC2 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNDC2 MUTATED        2      0      0
  TXNDC2 WILD-TYPE     41     67     36
D7V2, multiclass
[1] "Remove cluster labels:" "TXNDC2 MUTATED"        
clus
  TXNDC2 MUTATED TXNDC2 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" "TXNDC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNDC2 MUTATED        1     11     10
  TXNDC2 WILD-TYPE     41    162    137
D7V3, multiclass
        clus
vv       TXNDC2 MUTATED TXNDC2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2             11              162
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNDC2 MUTATED        5      9      6
  TXNDC2 WILD-TYPE     57     64     69
D7V4, multiclass
        clus
vv       TXNDC2 MUTATED TXNDC2 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              9               64
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNDC2 MUTATED        4      5      9
  TXNDC2 WILD-TYPE     66    115     91
D7V5, multiclass
        clus
vv       TXNDC2 MUTATED TXNDC2 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              5              115
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC2 MUTATED        4      1      0      2      1      7      1      2
  TXNDC2 WILD-TYPE     37     25     30     27     38     62     19     12
                  vv
clus               CLUS_9
  TXNDC2 MUTATED        0
  TXNDC2 WILD-TYPE     22
D7V6, multiclass
        clus
vv       TXNDC2 MUTATED TXNDC2 WILD-TYPE
  CLUS_1              4               37
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TXNDC2 MUTATED        9      5      6      2
  TXNDC2 WILD-TYPE     91     67     66    119
D7V7, multiclass
        clus
vv       TXNDC2 MUTATED TXNDC2 WILD-TYPE
  CLUS_1              9               91
  CLUS_2              5               67
  CLUS_3              6               66
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC2 MUTATED        8      9      3      1      1
  TXNDC2 WILD-TYPE     51     66     71    118     37
D7V8, multiclass
        clus
vv       TXNDC2 MUTATED TXNDC2 WILD-TYPE
  CLUS_1              8               51
  CLUS_2              9               66
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC2 MUTATED        8      5      5      2      2
  TXNDC2 WILD-TYPE     43     71     56     69     93
D7V9, multiclass
        clus
vv       TXNDC2 MUTATED TXNDC2 WILD-TYPE
  CLUS_1              8               43
  CLUS_2              5               71
  CLUS_3              5               56
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC2 MUTATED        9      4      3      0      2      2      1      1
  TXNDC2 WILD-TYPE     60     44     36     16     51     18     20     37
                  vv
clus               CLUS_9
  TXNDC2 MUTATED        0
  TXNDC2 WILD-TYPE     50
D7V10, multiclass
        clus
vv       TXNDC2 MUTATED TXNDC2 WILD-TYPE
  CLUS_1              9               60
  CLUS_2              4               44
  CLUS_3              3               36
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TXNDC2 MUTATED        1      1      1      2      0      1
  TXNDC2 WILD-TYPE     12     15     13      9     11      8
D7V11, multiclass
        clus
vv       TXNDC2 MUTATED TXNDC2 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              2                9
  CLUS_5              0               11
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC2 MUTATED        1      1      1      0      0      1      1      1
  TXNDC2 WILD-TYPE     10      6      6      9      8      6     10      8
                  vv
clus               CLUS_9
  TXNDC2 MUTATED        0
  TXNDC2 WILD-TYPE      5
D7V12, multiclass
        clus
vv       TXNDC2 MUTATED TXNDC2 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              1                6
  CLUS_3              1                6
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(8) Variable = ACVR1B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACVR1B MUTATED        5      1      1      3      1
  ACVR1B WILD-TYPE     27     17     45     24     22
D8V1, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              5               27
  CLUS_2              1               17
  CLUS_3              1               45
  CLUS_4              3               24
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED        6      4      1
  ACVR1B WILD-TYPE     37     63     35
D8V2, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              6               37
  CLUS_2              4               63
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED        2      5     19
  ACVR1B WILD-TYPE     40    168    128
D8V3, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              2               40
  CLUS_2              5              168
  CLUS_3             19              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED        7      3      3
  ACVR1B WILD-TYPE     55     70     72
D8V4, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              7               55
  CLUS_2              3               70
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED        2     10     11
  ACVR1B WILD-TYPE     68    110     89
D8V5, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              2               68
  CLUS_2             10              110
  CLUS_3             11               89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACVR1B MUTATED        2      1      5      1      3      9      1      0
  ACVR1B WILD-TYPE     39     25     25     28     36     60     19     14
                  vv
clus               CLUS_9
  ACVR1B MUTATED        1
  ACVR1B WILD-TYPE     21
D8V6, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              5               25
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              9               60
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR1B MUTATED        4      4      6     12
  ACVR1B WILD-TYPE     96     68     66    109
D8V7, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              4               96
  CLUS_2              4               68
  CLUS_3              6               66
  CLUS_4             12              109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACVR1B MUTATED        2      3      7      6      8
  ACVR1B WILD-TYPE     57     72     67    113     30
D8V8, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              6              113
  CLUS_5              8               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACVR1B MUTATED        1      7      5      3     10
  ACVR1B WILD-TYPE     50     69     56     68     85
D8V9, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              1               50
  CLUS_2              7               69
  CLUS_3              5               56
  CLUS_4              3               68
  CLUS_5             10               85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACVR1B MUTATED        3      6      4      1      0      1      3      7
  ACVR1B WILD-TYPE     66     42     35     15     53     19     18     31
                  vv
clus               CLUS_9
  ACVR1B MUTATED        1
  ACVR1B WILD-TYPE     49
D8V10, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              3               66
  CLUS_2              6               42
  CLUS_3              4               35
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              3               18
  CLUS_8              7               31
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACVR1B MUTATED        0      0      1      1      2      0
  ACVR1B WILD-TYPE     13     16     13     10      9      9
D8V11, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACVR1B MUTATED        0      0      0      0      0      1      3      0
  ACVR1B WILD-TYPE     11      7      7      9      8      6      8      9
                  vv
clus               CLUS_9
  ACVR1B MUTATED        0
  ACVR1B WILD-TYPE      5
D8V12, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              3                8
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(9) Variable = B2M MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  B2M MUTATED        2      0      0      1      0
  B2M WILD-TYPE     30     18     46     26     23
D9V1, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  B2M MUTATED        2      1      0
  B2M WILD-TYPE     41     66     36
D9V2, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           2            41
  CLUS_2           1            66
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  B2M MUTATED        0      2     13
  B2M WILD-TYPE     42    171    134
D9V3, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           0            42
  CLUS_2           2           171
  CLUS_3          13           134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  B2M MUTATED        6      1      6
  B2M WILD-TYPE     56     72     69
D9V4, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           6            56
  CLUS_2           1            72
  CLUS_3           6            69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  B2M MUTATED        1      5      8
  B2M WILD-TYPE     69    115     92
D9V5, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           1            69
  CLUS_2           5           115
  CLUS_3           8            92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  B2M MUTATED        1      1      1      1      2      7      0      0      1
  B2M WILD-TYPE     40     25     29     28     37     62     20     14     21
D9V6, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           1            40
  CLUS_2           1            25
  CLUS_3           1            29
  CLUS_4           1            28
  CLUS_5           2            37
  CLUS_6           7            62
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           1            21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  B2M MUTATED        1      4      6      4
  B2M WILD-TYPE     99     68     66    117
D9V7, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           1            99
  CLUS_2           4            68
  CLUS_3           6            66
  CLUS_4           4           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  B2M MUTATED        1      3      7      2      2
  B2M WILD-TYPE     58     72     67    117     36
D9V8, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           1            58
  CLUS_2           3            72
  CLUS_3           7            67
  CLUS_4           2           117
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  B2M MUTATED        1      7      2      1      4
  B2M WILD-TYPE     50     69     59     70     91
D9V9, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           1            50
  CLUS_2           7            69
  CLUS_3           2            59
  CLUS_4           1            70
  CLUS_5           4            91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  B2M MUTATED        1      4      0      3      4      1      0      1      1
  B2M WILD-TYPE     68     44     39     13     49     19     21     37     49
D9V10, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           1            68
  CLUS_2           4            44
  CLUS_3           0            39
  CLUS_4           3            13
  CLUS_5           4            49
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  B2M MUTATED        1      0      1      0      3      0
  B2M WILD-TYPE     12     16     13     11      8      9
D9V11, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           1            12
  CLUS_2           0            16
  CLUS_3           1            13
  CLUS_4           0            11
  CLUS_5           3             8
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  B2M MUTATED        0      0      0      2      0      0      3      0      0
  B2M WILD-TYPE     11      7      7      7      8      7      8      9      5
D9V12, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           2             7
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           3             8
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(10) Variable = BCOR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCOR MUTATED        4      0      0      1      0
  BCOR WILD-TYPE     28     18     46     26     23
D10V1, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        4      1      0
  BCOR WILD-TYPE     39     66     36
D10V2, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        3      5     19
  BCOR WILD-TYPE     39    168    128
D10V3, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            3             39
  CLUS_2            5            168
  CLUS_3           19            128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        8      3     11
  BCOR WILD-TYPE     54     70     64
D10V4, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            8             54
  CLUS_2            3             70
  CLUS_3           11             64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        4      7     13
  BCOR WILD-TYPE     66    113     87
D10V5, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            4             66
  CLUS_2            7            113
  CLUS_3           13             87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BCOR MUTATED        1      0      3      3      2     10      4      0      1
  BCOR WILD-TYPE     40     26     27     26     37     59     16     14     21
D10V6, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            3             27
  CLUS_4            3             26
  CLUS_5            2             37
  CLUS_6           10             59
  CLUS_7            4             16
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCOR MUTATED        3      7     11      6
  BCOR WILD-TYPE     97     65     61    115
D10V7, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            3             97
  CLUS_2            7             65
  CLUS_3           11             61
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCOR MUTATED        4      4     13      3      3
  BCOR WILD-TYPE     55     71     61    116     35
D10V8, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            4             55
  CLUS_2            4             71
  CLUS_3           13             61
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCOR MUTATED        5     10      6      1      5
  BCOR WILD-TYPE     46     66     55     70     90
D10V9, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            5             46
  CLUS_2           10             66
  CLUS_3            6             55
  CLUS_4            1             70
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BCOR MUTATED        2      7      1      5      4      3      1      4      0
  BCOR WILD-TYPE     67     41     38     11     49     17     20     34     50
D10V10, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            2             67
  CLUS_2            7             41
  CLUS_3            1             38
  CLUS_4            5             11
  CLUS_5            4             49
  CLUS_6            3             17
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BCOR MUTATED        0      2      1      0      3      0
  BCOR WILD-TYPE     13     14     13     11      8      9
D10V11, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BCOR MUTATED        1      1      0      2      1      0      1      0      0
  BCOR WILD-TYPE     10      6      7      7      7      7     10      9      5
D10V12, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = CDH1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH1 MUTATED        2      0      0      2      0
  CDH1 WILD-TYPE     30     18     46     25     23
D11V1, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH1 MUTATED        3      1      0
  CDH1 WILD-TYPE     40     66     36
D11V2, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH1 MUTATED        8     28     37
  CDH1 WILD-TYPE     34    145    110
D11V3, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            8             34
  CLUS_2           28            145
  CLUS_3           37            110
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH1 MUTATED       21     22     26
  CDH1 WILD-TYPE     41     51     49
D11V4, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1           21             41
  CLUS_2           22             51
  CLUS_3           26             49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH1 MUTATED       12     23     30
  CDH1 WILD-TYPE     58     97     70
D11V5, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1           12             58
  CLUS_2           23             97
  CLUS_3           30             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDH1 MUTATED        8      3      4      7      5     22      9      7      0
  CDH1 WILD-TYPE     33     23     26     22     34     47     11      7     22
D11V6, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            8             33
  CLUS_2            3             23
  CLUS_3            4             26
  CLUS_4            7             22
  CLUS_5            5             34
  CLUS_6           22             47
  CLUS_7            9             11
  CLUS_8            7              7
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDH1 MUTATED       27     26     15      6
  CDH1 WILD-TYPE     73     46     57    115
D11V7, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1           27             73
  CLUS_2           26             46
  CLUS_3           15             57
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH1 MUTATED       16     23     29      2      4
  CDH1 WILD-TYPE     43     52     45    117     34
D11V8, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1           16             43
  CLUS_2           23             52
  CLUS_3           29             45
  CLUS_4            2            117
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH1 MUTATED       14     34     13      8      4
  CDH1 WILD-TYPE     37     42     48     63     91
D11V9, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1           14             37
  CLUS_2           34             42
  CLUS_3           13             48
  CLUS_4            8             63
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDH1 MUTATED       24     14      7      9     12      4      0      3      0
  CDH1 WILD-TYPE     45     34     32      7     41     16     21     35     50
D11V10, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1           24             45
  CLUS_2           14             34
  CLUS_3            7             32
  CLUS_4            9              7
  CLUS_5           12             41
  CLUS_6            4             16
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDH1 MUTATED        3      3      3      3      4      1
  CDH1 WILD-TYPE     10     13     11      8      7      8
D11V11, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            3             10
  CLUS_2            3             13
  CLUS_3            3             11
  CLUS_4            3              8
  CLUS_5            4              7
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDH1 MUTATED        2      1      0      5      4      0      4      1      0
  CDH1 WILD-TYPE      9      6      7      4      4      7      7      8      5
D11V12, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            5              4
  CLUS_5            4              4
  CLUS_6            0              7
  CLUS_7            4              7
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(12) Variable = MLH1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLH1 MUTATED        2      0      1      1      0
  MLH1 WILD-TYPE     30     18     45     26     23
D12V1, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLH1 MUTATED        3      1      0
  MLH1 WILD-TYPE     40     66     36
D12V2, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLH1 MUTATED        1     22     30
  MLH1 WILD-TYPE     41    151    117
D12V3, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2           22            151
  CLUS_3           30            117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLH1 MUTATED       14     14     21
  MLH1 WILD-TYPE     48     59     54
D12V4, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1           14             48
  CLUS_2           14             59
  CLUS_3           21             54
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLH1 MUTATED        9     20     20
  MLH1 WILD-TYPE     61    100     80
D12V5, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1            9             61
  CLUS_2           20            100
  CLUS_3           20             80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLH1 MUTATED        8      5      3      2      6     18      3      3      1
  MLH1 WILD-TYPE     33     21     27     27     33     51     17     11     21
D12V6, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1            8             33
  CLUS_2            5             21
  CLUS_3            3             27
  CLUS_4            2             27
  CLUS_5            6             33
  CLUS_6           18             51
  CLUS_7            3             17
  CLUS_8            3             11
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLH1 MUTATED       15     19     14      5
  MLH1 WILD-TYPE     85     53     58    116
D12V7, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1           15             85
  CLUS_2           19             53
  CLUS_3           14             58
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLH1 MUTATED       13     15     18      4      3
  MLH1 WILD-TYPE     46     60     56    115     35
D12V8, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1           13             46
  CLUS_2           15             60
  CLUS_3           18             56
  CLUS_4            4            115
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLH1 MUTATED       10     26      8      4      5
  MLH1 WILD-TYPE     41     50     53     67     90
D12V9, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1           10             41
  CLUS_2           26             50
  CLUS_3            8             53
  CLUS_4            4             67
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLH1 MUTATED       17     13      4      5      4      4      2      4      0
  MLH1 WILD-TYPE     52     35     35     11     49     16     19     34     50
D12V10, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1           17             52
  CLUS_2           13             35
  CLUS_3            4             35
  CLUS_4            5             11
  CLUS_5            4             49
  CLUS_6            4             16
  CLUS_7            2             19
  CLUS_8            4             34
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MLH1 MUTATED        2      7      2      1      4      1
  MLH1 WILD-TYPE     11      9     12     10      7      8
D12V11, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            7              9
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            4              7
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLH1 MUTATED        3      3      1      2      1      3      3      1      0
  MLH1 WILD-TYPE      8      4      6      7      7      4      8      8      5
D12V12, multiclass
        clus
vv       MLH1 MUTATED MLH1 WILD-TYPE
  CLUS_1            3              8
  CLUS_2            3              4
  CLUS_3            1              6
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            3              4
  CLUS_7            3              8
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(13) Variable = NTAN1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTAN1 MUTATED        2      0      0      1      0
  NTAN1 WILD-TYPE     30     18     46     26     23
D13V1, multiclass
        clus
vv       NTAN1 MUTATED NTAN1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTAN1 MUTATED        3      0      0
  NTAN1 WILD-TYPE     40     67     36
D13V2, multiclass
        clus
vv       NTAN1 MUTATED NTAN1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTAN1 MUTATED        0      0     10
  NTAN1 WILD-TYPE     42    173    137
D13V3, multiclass
        clus
vv       NTAN1 MUTATED NTAN1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTAN1 MUTATED        2      0      5
  NTAN1 WILD-TYPE     60     73     70
D13V4, multiclass
        clus
vv       NTAN1 MUTATED NTAN1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTAN1 MUTATED        1      3      5
  NTAN1 WILD-TYPE     69    117     95
D13V5, multiclass
        clus
vv       NTAN1 MUTATED NTAN1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTAN1 MUTATED        1      0      0      1      1      5      0      0
  NTAN1 WILD-TYPE     40     26     30     28     38     64     20     14
                 vv
clus              CLUS_9
  NTAN1 MUTATED        1
  NTAN1 WILD-TYPE     21
D13V6, multiclass
        clus
vv       NTAN1 MUTATED NTAN1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NTAN1 MUTATED        0      5      2      3
  NTAN1 WILD-TYPE    100     67     70    118
D13V7, multiclass
        clus
vv       NTAN1 MUTATED NTAN1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTAN1 MUTATED        0      0      7      0      3
  NTAN1 WILD-TYPE     59     75     67    119     35
D13V8, multiclass
        clus
vv       NTAN1 MUTATED NTAN1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             7              67
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTAN1 MUTATED        0      7      0      0      2
  NTAN1 WILD-TYPE     51     69     61     71     93
D13V9, multiclass
        clus
vv       NTAN1 MUTATED NTAN1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTAN1 MUTATED        3      1      0      3      0      0      0      2
  NTAN1 WILD-TYPE     66     47     39     13     53     20     21     36
                 vv
clus              CLUS_9
  NTAN1 MUTATED        0
  NTAN1 WILD-TYPE     50
D13V10, multiclass
        clus
vv       NTAN1 MUTATED NTAN1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NTAN1 MUTATED        0      1      1      0      0      0
  NTAN1 WILD-TYPE     13     15     13     11     11      9
D13V11, multiclass
[1] "Remove cluster labels:" "NTAN1 MUTATED"         
clus
  NTAN1 MUTATED NTAN1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTAN1 MUTATED        0      0      0      0      0      0      2      0
  NTAN1 WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  NTAN1 MUTATED        0
  NTAN1 WILD-TYPE      5
D13V12, multiclass
[1] "Remove cluster labels:" "NTAN1 MUTATED"         
clus
  NTAN1 MUTATED NTAN1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" "NTAN1 WILD-TYPE" 

Clustering(14) Variable = ZFP36L2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFP36L2 MUTATED        0      0      1      0      0
  ZFP36L2 WILD-TYPE     32     18     45     27     23
D14V1, multiclass
[1] "Remove cluster labels:" "ZFP36L2 MUTATED"       
clus
  ZFP36L2 MUTATED ZFP36L2 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AY-4071 
"ZFP36L2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFP36L2 MUTATED        0      1      0
  ZFP36L2 WILD-TYPE     43     66     36
D14V2, multiclass
[1] "Remove cluster labels:" "ZFP36L2 MUTATED"       
clus
  ZFP36L2 MUTATED ZFP36L2 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" "ZFP36L2 WILD-TYPE" 
       TCGA-AY-4071 
"ZFP36L2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFP36L2 MUTATED        2      6      6
  ZFP36L2 WILD-TYPE     40    167    141
D14V3, multiclass
        clus
vv       ZFP36L2 MUTATED ZFP36L2 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               6               167
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFP36L2 MUTATED        4      2      7
  ZFP36L2 WILD-TYPE     58     71     68
D14V4, multiclass
        clus
vv       ZFP36L2 MUTATED ZFP36L2 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               2                71
  CLUS_3               7                68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFP36L2 MUTATED        0      6      6
  ZFP36L2 WILD-TYPE     70    114     94
D14V5, multiclass
        clus
vv       ZFP36L2 MUTATED ZFP36L2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               6               114
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFP36L2 MUTATED        1      0      2      4      0      4      1      0
  ZFP36L2 WILD-TYPE     40     26     28     25     39     65     19     14
                   vv
clus                CLUS_9
  ZFP36L2 MUTATED        0
  ZFP36L2 WILD-TYPE     22
D14V6, multiclass
        clus
vv       ZFP36L2 MUTATED ZFP36L2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               4                25
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFP36L2 MUTATED        4      5      3      2
  ZFP36L2 WILD-TYPE     96     67     69    119
D14V7, multiclass
        clus
vv       ZFP36L2 MUTATED ZFP36L2 WILD-TYPE
  CLUS_1               4                96
  CLUS_2               5                67
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFP36L2 MUTATED        2      2      8      2      0
  ZFP36L2 WILD-TYPE     57     73     66    117     38
D14V8, multiclass
        clus
vv       ZFP36L2 MUTATED ZFP36L2 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               8                66
  CLUS_4               2               117
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFP36L2 MUTATED        3      6      2      1      2
  ZFP36L2 WILD-TYPE     48     70     59     70     93
D14V9, multiclass
        clus
vv       ZFP36L2 MUTATED ZFP36L2 WILD-TYPE
  CLUS_1               3                48
  CLUS_2               6                70
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFP36L2 MUTATED        1      2      1      5      4      0      0      0
  ZFP36L2 WILD-TYPE     68     46     38     11     49     20     21     38
                   vv
clus                CLUS_9
  ZFP36L2 MUTATED        1
  ZFP36L2 WILD-TYPE     49
D14V10, multiclass
        clus
vv       ZFP36L2 MUTATED ZFP36L2 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               5                11
  CLUS_5               4                49
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZFP36L2 MUTATED        1      0      1      1      2      0
  ZFP36L2 WILD-TYPE     12     16     13     10      9      9
D14V11, multiclass
        clus
vv       ZFP36L2 MUTATED ZFP36L2 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFP36L2 MUTATED        0      0      0      2      1      0      1      1
  ZFP36L2 WILD-TYPE     11      7      7      7      7      7     10      8
                   vv
clus                CLUS_9
  ZFP36L2 MUTATED        0
  ZFP36L2 WILD-TYPE      5
D14V12, multiclass
        clus
vv       ZFP36L2 MUTATED ZFP36L2 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(15) Variable = WNT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNT1 MUTATED        0      0      0      0      0
  WNT1 WILD-TYPE     32     18     46     27     23
D15V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNT1 MUTATED        0      0      0
  WNT1 WILD-TYPE     43     67     36
D15V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNT1 MUTATED        1      0      6
  WNT1 WILD-TYPE     41    173    141
D15V3, multiclass
        clus
vv       WNT1 MUTATED WNT1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNT1 MUTATED        1      0      5
  WNT1 WILD-TYPE     61     73     70
D15V4, multiclass
        clus
vv       WNT1 MUTATED WNT1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNT1 MUTATED        1      2      4
  WNT1 WILD-TYPE     69    118     96
D15V5, multiclass
        clus
vv       WNT1 MUTATED WNT1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNT1 MUTATED        0      1      1      1      0      4      0      0      0
  WNT1 WILD-TYPE     41     25     29     28     39     65     20     14     22
D15V6, multiclass
        clus
vv       WNT1 MUTATED WNT1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WNT1 MUTATED        0      5      1      1
  WNT1 WILD-TYPE    100     67     71    120
D15V7, multiclass
        clus
vv       WNT1 MUTATED WNT1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            5             67
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNT1 MUTATED        0      0      6      0      1
  WNT1 WILD-TYPE     59     75     68    119     37
D15V8, multiclass
        clus
vv       WNT1 MUTATED WNT1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            6             68
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNT1 MUTATED        0      6      0      0      1
  WNT1 WILD-TYPE     51     70     61     71     94
D15V9, multiclass
        clus
vv       WNT1 MUTATED WNT1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNT1 MUTATED        1      1      0      4      0      0      0      1      0
  WNT1 WILD-TYPE     68     47     39     12     53     20     21     37     50
D15V10, multiclass
        clus
vv       WNT1 MUTATED WNT1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WNT1 MUTATED        0      0      0      0      3      0
  WNT1 WILD-TYPE     13     16     14     11      8      9
D15V11, multiclass
        clus
vv       WNT1 MUTATED WNT1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNT1 MUTATED        0      0      0      2      0      0      1      0      0
  WNT1 WILD-TYPE     11      7      7      7      8      7     10      9      5
D15V12, multiclass
        clus
vv       WNT1 MUTATED WNT1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(16) Variable = BMPR2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BMPR2 MUTATED        8      0      0      1      0
  BMPR2 WILD-TYPE     24     18     46     26     23
D16V1, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             8              24
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BMPR2 MUTATED        9      0      0
  BMPR2 WILD-TYPE     34     67     36
D16V2, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             9              34
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BMPR2 MUTATED        1      4     29
  BMPR2 WILD-TYPE     41    169    118
D16V3, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            29             118
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BMPR2 MUTATED        6      4     17
  BMPR2 WILD-TYPE     56     69     58
D16V4, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             4              69
  CLUS_3            17              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BMPR2 MUTATED        4     14     14
  BMPR2 WILD-TYPE     66    106     86
D16V5, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             4              66
  CLUS_2            14             106
  CLUS_3            14              86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BMPR2 MUTATED        3      2      1      4      2     12      5      3
  BMPR2 WILD-TYPE     38     24     29     25     37     57     15     11
                 vv
clus              CLUS_9
  BMPR2 MUTATED        0
  BMPR2 WILD-TYPE     22
D16V6, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             2              37
  CLUS_6            12              57
  CLUS_7             5              15
  CLUS_8             3              11
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BMPR2 MUTATED        3     17      7      8
  BMPR2 WILD-TYPE     97     55     65    113
D16V7, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2            17              55
  CLUS_3             7              65
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BMPR2 MUTATED        2      4     20      1      8
  BMPR2 WILD-TYPE     57     71     54    118     30
D16V8, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3            20              54
  CLUS_4             1             118
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BMPR2 MUTATED        3     16      3      2      9
  BMPR2 WILD-TYPE     48     60     58     69     86
D16V9, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2            16              60
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BMPR2 MUTATED        6      5      1      9      1      2      1      7
  BMPR2 WILD-TYPE     63     43     38      7     52     18     20     31
                 vv
clus              CLUS_9
  BMPR2 MUTATED        1
  BMPR2 WILD-TYPE     49
D16V10, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             9               7
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             7              31
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BMPR2 MUTATED        1      2      0      1      4      0
  BMPR2 WILD-TYPE     12     14     14     10      7      9
D16V11, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BMPR2 MUTATED        1      0      0      3      1      0      1      1
  BMPR2 WILD-TYPE     10      7      7      6      7      7     10      8
                 vv
clus              CLUS_9
  BMPR2 MUTATED        1
  BMPR2 WILD-TYPE      4
D16V12, multiclass
        clus
vv       BMPR2 MUTATED BMPR2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(17) Variable = SELPLG MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SELPLG MUTATED        0      0      0      1      0
  SELPLG WILD-TYPE     32     18     46     26     23
D17V1, multiclass
[1] "Remove cluster labels:" "SELPLG MUTATED"        
clus
  SELPLG MUTATED SELPLG WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AY-4071 
"SELPLG WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SELPLG MUTATED        1      0      0
  SELPLG WILD-TYPE     42     67     36
D17V2, multiclass
[1] "Remove cluster labels:" "SELPLG MUTATED"        
clus
  SELPLG MUTATED SELPLG WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" "SELPLG WILD-TYPE" 
      TCGA-AY-4071 
"SELPLG WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SELPLG MUTATED        2      9      5
  SELPLG WILD-TYPE     40    164    142
D17V3, multiclass
        clus
vv       SELPLG MUTATED SELPLG WILD-TYPE
  CLUS_1              2               40
  CLUS_2              9              164
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SELPLG MUTATED        6      8      1
  SELPLG WILD-TYPE     56     65     74
D17V4, multiclass
        clus
vv       SELPLG MUTATED SELPLG WILD-TYPE
  CLUS_1              6               56
  CLUS_2              8               65
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SELPLG MUTATED        3      6      7
  SELPLG WILD-TYPE     67    114     93
D17V5, multiclass
        clus
vv       SELPLG MUTATED SELPLG WILD-TYPE
  CLUS_1              3               67
  CLUS_2              6              114
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SELPLG MUTATED        1      1      1      2      2      7      1      0
  SELPLG WILD-TYPE     40     25     29     27     37     62     19     14
                  vv
clus               CLUS_9
  SELPLG MUTATED        1
  SELPLG WILD-TYPE     21
D17V6, multiclass
        clus
vv       SELPLG MUTATED SELPLG WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SELPLG MUTATED        7      2      5      2
  SELPLG WILD-TYPE     93     70     67    119
D17V7, multiclass
        clus
vv       SELPLG MUTATED SELPLG WILD-TYPE
  CLUS_1              7               93
  CLUS_2              2               70
  CLUS_3              5               67
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SELPLG MUTATED        5      8      1      1      1
  SELPLG WILD-TYPE     54     67     73    118     37
D17V8, multiclass
        clus
vv       SELPLG MUTATED SELPLG WILD-TYPE
  CLUS_1              5               54
  CLUS_2              8               67
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SELPLG MUTATED        5      5      3      1      2
  SELPLG WILD-TYPE     46     71     58     70     93
D17V9, multiclass
        clus
vv       SELPLG MUTATED SELPLG WILD-TYPE
  CLUS_1              5               46
  CLUS_2              5               71
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SELPLG MUTATED        6      1      4      0      3      0      0      1
  SELPLG WILD-TYPE     63     47     35     16     50     20     21     37
                  vv
clus               CLUS_9
  SELPLG MUTATED        1
  SELPLG WILD-TYPE     49
D17V10, multiclass
        clus
vv       SELPLG MUTATED SELPLG WILD-TYPE
  CLUS_1              6               63
  CLUS_2              1               47
  CLUS_3              4               35
  CLUS_4              0               16
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SELPLG MUTATED        1      0      1      1      0      1
  SELPLG WILD-TYPE     12     16     13     10     11      8
D17V11, multiclass
        clus
vv       SELPLG MUTATED SELPLG WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              0               11
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SELPLG MUTATED        1      0      0      0      1      0      1      1
  SELPLG WILD-TYPE     10      7      7      9      7      7     10      8
                  vv
clus               CLUS_9
  SELPLG MUTATED        0
  SELPLG WILD-TYPE      5
D17V12, multiclass
        clus
vv       SELPLG MUTATED SELPLG WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(18) Variable = CRIPAK MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRIPAK MUTATED        0      0      0      0      0
  CRIPAK WILD-TYPE     32     18     46     27     23
D18V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        0      0      0
  CRIPAK WILD-TYPE     43     67     36
D18V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        4      6      8
  CRIPAK WILD-TYPE     38    167    139
D18V3, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              4               38
  CLUS_2              6              167
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        7      1     10
  CRIPAK WILD-TYPE     55     72     65
D18V4, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              7               55
  CLUS_2              1               72
  CLUS_3             10               65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        5      6      6
  CRIPAK WILD-TYPE     65    114     94
D18V5, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              5               65
  CLUS_2              6              114
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CRIPAK MUTATED        0      0      1      3      2      6      2      2
  CRIPAK WILD-TYPE     41     26     29     26     37     63     18     12
                  vv
clus               CLUS_9
  CRIPAK MUTATED        1
  CRIPAK WILD-TYPE     21
D18V6, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              2               18
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRIPAK MUTATED        5      5      8      0
  CRIPAK WILD-TYPE     95     67     64    121
D18V7, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              5               95
  CLUS_2              5               67
  CLUS_3              8               64
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRIPAK MUTATED        4      6      8      0      0
  CRIPAK WILD-TYPE     55     69     66    119     38
D18V8, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              4               55
  CLUS_2              6               69
  CLUS_3              8               66
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRIPAK MUTATED        3      5      6      3      1
  CRIPAK WILD-TYPE     48     71     55     68     94
D18V9, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              3               48
  CLUS_2              5               71
  CLUS_3              6               55
  CLUS_4              3               68
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CRIPAK MUTATED        6      4      0      2      2      2      0      1
  CRIPAK WILD-TYPE     63     44     39     14     51     18     21     37
                  vv
clus               CLUS_9
  CRIPAK MUTATED        1
  CRIPAK WILD-TYPE     49
D18V10, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              6               63
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CRIPAK MUTATED        2      2      0      1      2      0
  CRIPAK WILD-TYPE     11     14     14     10      9      9
D18V11, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              2               11
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CRIPAK MUTATED        2      0      0      1      1      1      0      2
  CRIPAK WILD-TYPE      9      7      7      8      7      6     11      7
                  vv
clus               CLUS_9
  CRIPAK MUTATED        0
  CRIPAK WILD-TYPE      5
D18V12, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              2                7
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(19) Variable = KDM6A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM6A MUTATED        1      0      0      1      0
  KDM6A WILD-TYPE     31     18     46     26     23
D19V1, multiclass
[1] "Remove cluster labels:" "KDM6A MUTATED"         
clus
  KDM6A MUTATED KDM6A WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM6A MUTATED        1      1      0
  KDM6A WILD-TYPE     42     66     36
D19V2, multiclass
[1] "Remove cluster labels:" "KDM6A MUTATED"         
clus
  KDM6A MUTATED KDM6A WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" "KDM6A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM6A MUTATED        2     11     14
  KDM6A WILD-TYPE     40    162    133
D19V3, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             2              40
  CLUS_2            11             162
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM6A MUTATED       10      7      9
  KDM6A WILD-TYPE     52     66     66
D19V4, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1            10              52
  CLUS_2             7              66
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM6A MUTATED        3      8     13
  KDM6A WILD-TYPE     67    112     87
D19V5, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             3              67
  CLUS_2             8             112
  CLUS_3            13              87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM6A MUTATED        4      0      2      3      3      8      0      1
  KDM6A WILD-TYPE     37     26     28     26     36     61     20     13
                 vv
clus              CLUS_9
  KDM6A MUTATED        3
  KDM6A WILD-TYPE     19
D19V6, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             4              37
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6             8              61
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM6A MUTATED        9      6     10      2
  KDM6A WILD-TYPE     91     66     62    119
D19V7, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             9              91
  CLUS_2             6              66
  CLUS_3            10              62
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM6A MUTATED       10      9      6      1      1
  KDM6A WILD-TYPE     49     66     68    118     37
D19V8, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1            10              49
  CLUS_2             9              66
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM6A MUTATED        3      9      8      4      3
  KDM6A WILD-TYPE     48     67     53     67     92
D19V9, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             3              48
  CLUS_2             9              67
  CLUS_3             8              53
  CLUS_4             4              67
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM6A MUTATED        6      7      3      2      5      1      0      1
  KDM6A WILD-TYPE     63     41     36     14     48     19     21     37
                 vv
clus              CLUS_9
  KDM6A MUTATED        2
  KDM6A WILD-TYPE     48
D19V10, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             6              63
  CLUS_2             7              41
  CLUS_3             3              36
  CLUS_4             2              14
  CLUS_5             5              48
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KDM6A MUTATED        1      1      1      2      0      1
  KDM6A WILD-TYPE     12     15     13      9     11      8
D19V11, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             2               9
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM6A MUTATED        0      1      1      1      1      0      0      2
  KDM6A WILD-TYPE     11      6      6      8      7      7     11      7
                 vv
clus              CLUS_9
  KDM6A MUTATED        0
  KDM6A WILD-TYPE      5
D19V12, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             2               7
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(20) Variable = MAPK6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAPK6 MUTATED        2      0      0      0      0
  MAPK6 WILD-TYPE     30     18     46     27     23
D20V1, multiclass
[1] "Remove cluster labels:" "MAPK6 MUTATED"         
clus
  MAPK6 MUTATED MAPK6 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK6 MUTATED        2      0      0
  MAPK6 WILD-TYPE     41     67     36
D20V2, multiclass
[1] "Remove cluster labels:" "MAPK6 MUTATED"         
clus
  MAPK6 MUTATED MAPK6 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" "MAPK6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK6 MUTATED        2      6     10
  MAPK6 WILD-TYPE     40    167    137
D20V3, multiclass
        clus
vv       MAPK6 MUTATED MAPK6 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             6             167
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK6 MUTATED        7      2      7
  MAPK6 WILD-TYPE     55     71     68
D20V4, multiclass
        clus
vv       MAPK6 MUTATED MAPK6 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             2              71
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK6 MUTATED        1      4      9
  MAPK6 WILD-TYPE     69    116     91
D20V5, multiclass
        clus
vv       MAPK6 MUTATED MAPK6 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAPK6 MUTATED        4      1      0      2      1      5      1      0
  MAPK6 WILD-TYPE     37     25     30     27     38     64     19     14
                 vv
clus              CLUS_9
  MAPK6 MUTATED        0
  MAPK6 WILD-TYPE     22
D20V6, multiclass
        clus
vv       MAPK6 MUTATED MAPK6 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAPK6 MUTATED        3      6      5      4
  MAPK6 WILD-TYPE     97     66     67    117
D20V7, multiclass
        clus
vv       MAPK6 MUTATED MAPK6 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             6              66
  CLUS_3             5              67
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAPK6 MUTATED        4      2      8      3      1
  MAPK6 WILD-TYPE     55     73     66    116     37
D20V8, multiclass
        clus
vv       MAPK6 MUTATED MAPK6 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             2              73
  CLUS_3             8              66
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAPK6 MUTATED        2      9      3      1      3
  MAPK6 WILD-TYPE     49     67     58     70     92
D20V9, multiclass
        clus
vv       MAPK6 MUTATED MAPK6 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             9              67
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAPK6 MUTATED        6      5      0      3      1      0      1      1
  MAPK6 WILD-TYPE     63     43     39     13     52     20     20     37
                 vv
clus              CLUS_9
  MAPK6 MUTATED        1
  MAPK6 WILD-TYPE     49
D20V10, multiclass
        clus
vv       MAPK6 MUTATED MAPK6 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAPK6 MUTATED        1      0      1      1      2      1
  MAPK6 WILD-TYPE     12     16     13     10      9      8
D20V11, multiclass
        clus
vv       MAPK6 MUTATED MAPK6 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAPK6 MUTATED        0      0      1      1      1      1      1      0
  MAPK6 WILD-TYPE     11      7      6      8      7      6     10      9
                 vv
clus              CLUS_9
  MAPK6 MUTATED        1
  MAPK6 WILD-TYPE      4
D20V12, multiclass
        clus
vv       MAPK6 MUTATED MAPK6 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(21) Variable = RHOA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RHOA MUTATED        1      0      1      0      0
  RHOA WILD-TYPE     31     18     45     27     23
D21V1, multiclass
[1] "Remove cluster labels:" "RHOA MUTATED"          
clus
  RHOA MUTATED RHOA WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3846 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3973     TCGA-AA-3975 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHOA MUTATED        1      1      0
  RHOA WILD-TYPE     42     66     36
D21V2, multiclass
[1] "Remove cluster labels:" "RHOA MUTATED"          
clus
  RHOA MUTATED RHOA WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3846 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3973     TCGA-AA-3975 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHOA MUTATED        1      5      6
  RHOA WILD-TYPE     41    168    141
D21V3, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            1             41
  CLUS_2            5            168
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHOA MUTATED        2      2      4
  RHOA WILD-TYPE     60     71     71
D21V4, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHOA MUTATED        2      4      3
  RHOA WILD-TYPE     68    116     97
D21V5, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4            116
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RHOA MUTATED        1      1      2      1      2      1      1      0      0
  RHOA WILD-TYPE     40     25     28     28     37     68     19     14     22
D21V6, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RHOA MUTATED        4      2      3      3
  RHOA WILD-TYPE     96     70     69    118
D21V7, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            4             96
  CLUS_2            2             70
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RHOA MUTATED        3      2      4      1      2
  RHOA WILD-TYPE     56     73     70    118     36
D21V8, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RHOA MUTATED        1      4      2      2      3
  RHOA WILD-TYPE     50     72     59     69     92
D21V9, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RHOA MUTATED        2      3      0      1      3      0      1      1      1
  RHOA WILD-TYPE     67     45     39     15     50     20     20     37     49
D21V10, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RHOA MUTATED        1      0      0      2      1      0
  RHOA WILD-TYPE     12     16     14      9     10      9
D21V11, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            2              9
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RHOA MUTATED        0      0      0      1      0      0      2      0      1
  RHOA WILD-TYPE     11      7      7      8      8      7      9      9      4
D21V12, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(22) Variable = FMN2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FMN2 MUTATED        0      1      0      3      1
  FMN2 WILD-TYPE     32     17     46     24     22
D22V1, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            0             32
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMN2 MUTATED        1      3      1
  FMN2 WILD-TYPE     42     64     35
D22V2, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            3             64
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMN2 MUTATED        1     15     32
  FMN2 WILD-TYPE     41    158    115
D22V3, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2           15            158
  CLUS_3           32            115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMN2 MUTATED       11     10     23
  FMN2 WILD-TYPE     51     63     52
D22V4, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1           11             51
  CLUS_2           10             63
  CLUS_3           23             52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMN2 MUTATED        3     20     22
  FMN2 WILD-TYPE     67    100     78
D22V5, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            3             67
  CLUS_2           20            100
  CLUS_3           22             78
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FMN2 MUTATED        3      5      3      6      1     18      4      4      1
  FMN2 WILD-TYPE     38     21     27     23     38     51     16     10     21
D22V6, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            5             21
  CLUS_3            3             27
  CLUS_4            6             23
  CLUS_5            1             38
  CLUS_6           18             51
  CLUS_7            4             16
  CLUS_8            4             10
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FMN2 MUTATED       12     20     14      3
  FMN2 WILD-TYPE     88     52     58    118
D22V7, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1           12             88
  CLUS_2           20             52
  CLUS_3           14             58
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FMN2 MUTATED        8     12     23      5      1
  FMN2 WILD-TYPE     51     63     51    114     37
D22V8, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            8             51
  CLUS_2           12             63
  CLUS_3           23             51
  CLUS_4            5            114
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FMN2 MUTATED        7     23     10      5      3
  FMN2 WILD-TYPE     44     53     51     66     92
D22V9, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            7             44
  CLUS_2           23             53
  CLUS_3           10             51
  CLUS_4            5             66
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FMN2 MUTATED       14     11      4      9      3      4      2      1      0
  FMN2 WILD-TYPE     55     37     35      7     50     16     19     37     50
D22V10, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1           14             55
  CLUS_2           11             37
  CLUS_3            4             35
  CLUS_4            9              7
  CLUS_5            3             50
  CLUS_6            4             16
  CLUS_7            2             19
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FMN2 MUTATED        2      4      2      1      5      2
  FMN2 WILD-TYPE     11     12     12     10      6      7
D22V11, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            4             12
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            5              6
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FMN2 MUTATED        2      2      0      2      1      2      5      2      0
  FMN2 WILD-TYPE      9      5      7      7      7      5      6      7      5
D22V12, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            2              5
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            2              5
  CLUS_7            5              6
  CLUS_8            2              7
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(23) Variable = STARD3NL MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STARD3NL MUTATED        0      0      0      1      0
  STARD3NL WILD-TYPE     32     18     46     26     23
D23V1, multiclass
[1] "Remove cluster labels:" "STARD3NL MUTATED"      
clus
  STARD3NL MUTATED STARD3NL WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3980         TCGA-AA-3982 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3984         TCGA-AA-3986         TCGA-AA-3989 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3994         TCGA-AA-A004         TCGA-AA-A00A 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A00D         TCGA-AA-A00E         TCGA-AA-A00F 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A00J         TCGA-AA-A00K         TCGA-AA-A00L 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A00N         TCGA-AA-A00O         TCGA-AA-A00Q 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A017         TCGA-AA-A01D 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AY-4071 
"STARD3NL WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  STARD3NL MUTATED        0      1      0
  STARD3NL WILD-TYPE     43     66     36
D23V2, multiclass
[1] "Remove cluster labels:" "STARD3NL MUTATED"      
clus
  STARD3NL MUTATED STARD3NL WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3980         TCGA-AA-3982 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3984         TCGA-AA-3986         TCGA-AA-3989 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-3994         TCGA-AA-A004         TCGA-AA-A00A 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A00D         TCGA-AA-A00E         TCGA-AA-A00F 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A00J         TCGA-AA-A00K         TCGA-AA-A00L 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A00N         TCGA-AA-A00O         TCGA-AA-A00Q 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A017         TCGA-AA-A01D 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" "STARD3NL WILD-TYPE" 
        TCGA-AY-4071 
"STARD3NL WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  STARD3NL MUTATED        0      3     10
  STARD3NL WILD-TYPE     42    170    137
D23V3, multiclass
        clus
vv       STARD3NL MUTATED STARD3NL WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3               10                137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  STARD3NL MUTATED        3      1      7
  STARD3NL WILD-TYPE     59     72     68
D23V4, multiclass
        clus
vv       STARD3NL MUTATED STARD3NL WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                1                 72
  CLUS_3                7                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  STARD3NL MUTATED        2      5      3
  STARD3NL WILD-TYPE     68    115     97
D23V5, multiclass
        clus
vv       STARD3NL MUTATED STARD3NL WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                5                115
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STARD3NL MUTATED        1      0      2      0      0      2      3      1
  STARD3NL WILD-TYPE     40     26     28     29     39     67     17     13
                    vv
clus                 CLUS_9
  STARD3NL MUTATED        1
  STARD3NL WILD-TYPE     21
D23V6, multiclass
        clus
vv       STARD3NL MUTATED STARD3NL WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                2                 28
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                2                 67
  CLUS_7                3                 17
  CLUS_8                1                 13
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STARD3NL MUTATED        2      6      3      2
  STARD3NL WILD-TYPE     98     66     69    119
D23V7, multiclass
        clus
vv       STARD3NL MUTATED STARD3NL WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                6                 66
  CLUS_3                3                 69
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STARD3NL MUTATED        3      1      7      1      1
  STARD3NL WILD-TYPE     56     74     67    118     37
D23V8, multiclass
        clus
vv       STARD3NL MUTATED STARD3NL WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                1                 74
  CLUS_3                7                 67
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STARD3NL MUTATED        3      7      1      0      2
  STARD3NL WILD-TYPE     48     69     60     71     93
D23V9, multiclass
        clus
vv       STARD3NL MUTATED STARD3NL WILD-TYPE
  CLUS_1                3                 48
  CLUS_2                7                 69
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STARD3NL MUTATED        2      2      1      2      4      1      0      1
  STARD3NL WILD-TYPE     67     46     38     14     49     19     21     37
                    vv
clus                 CLUS_9
  STARD3NL MUTATED        0
  STARD3NL WILD-TYPE     50
D23V10, multiclass
        clus
vv       STARD3NL MUTATED STARD3NL WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                2                 46
  CLUS_3                1                 38
  CLUS_4                2                 14
  CLUS_5                4                 49
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STARD3NL MUTATED        0      1      0      1      1      0
  STARD3NL WILD-TYPE     13     15     14     10     10      9
D23V11, multiclass
        clus
vv       STARD3NL MUTATED STARD3NL WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                0                 14
  CLUS_4                1                 10
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STARD3NL MUTATED        0      1      0      0      0      1      1      0
  STARD3NL WILD-TYPE     11      6      7      9      8      6     10      9
                    vv
clus                 CLUS_9
  STARD3NL MUTATED        0
  STARD3NL WILD-TYPE      5
D23V12, multiclass
        clus
vv       STARD3NL MUTATED STARD3NL WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  6
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(24) Variable = NF2 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NF2 MUTATED        2      0      1      0      0
  NF2 WILD-TYPE     30     18     45     27     23
D24V1, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           1            45
  CLUS_4           0            27
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        2      0      1
  NF2 WILD-TYPE     41     67     35
D24V2, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           2            41
  CLUS_2           0            67
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        7     24     31
  NF2 WILD-TYPE     35    149    116
D24V3, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           7            35
  CLUS_2          24           149
  CLUS_3          31           116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED       21     16     21
  NF2 WILD-TYPE     41     57     54
D24V4, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1          21            41
  CLUS_2          16            57
  CLUS_3          21            54
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        9     16     29
  NF2 WILD-TYPE     61    104     71
D24V5, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           9            61
  CLUS_2          16           104
  CLUS_3          29            71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NF2 MUTATED        5      0      3      7      3     20      6      6      4
  NF2 WILD-TYPE     36     26     27     22     36     49     14      8     18
D24V6, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           5            36
  CLUS_2           0            26
  CLUS_3           3            27
  CLUS_4           7            22
  CLUS_5           3            36
  CLUS_6          20            49
  CLUS_7           6            14
  CLUS_8           6             8
  CLUS_9           4            18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF2 MUTATED       17     22     18      5
  NF2 WILD-TYPE     83     50     54    116
D24V7, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1          17            83
  CLUS_2          22            50
  CLUS_3          18            54
  CLUS_4           5           116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NF2 MUTATED       15     19     23      2      3
  NF2 WILD-TYPE     44     56     51    117     35
D24V8, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1          15            44
  CLUS_2          19            56
  CLUS_3          23            51
  CLUS_4           2           117
  CLUS_5           3            35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NF2 MUTATED       14     29     12      3      4
  NF2 WILD-TYPE     37     47     49     68     91
D24V9, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1          14            37
  CLUS_2          29            47
  CLUS_3          12            49
  CLUS_4           3            68
  CLUS_5           4            91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NF2 MUTATED       16     14      2      9     13      3      0      3      2
  NF2 WILD-TYPE     53     34     37      7     40     17     21     35     48
D24V10, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1          16            53
  CLUS_2          14            34
  CLUS_3           2            37
  CLUS_4           9             7
  CLUS_5          13            40
  CLUS_6           3            17
  CLUS_7           0            21
  CLUS_8           3            35
  CLUS_9           2            48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NF2 MUTATED        1      3      4      3      2      0
  NF2 WILD-TYPE     12     13     10      8      9      9
D24V11, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           1            12
  CLUS_2           3            13
  CLUS_3           4            10
  CLUS_4           3             8
  CLUS_5           2             9
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NF2 MUTATED        0      3      2      1      4      2      1      0      0
  NF2 WILD-TYPE     11      4      5      8      4      5     10      9      5
D24V12, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0            11
  CLUS_2           3             4
  CLUS_3           2             5
  CLUS_4           1             8
  CLUS_5           4             4
  CLUS_6           2             5
  CLUS_7           1            10
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(25) Variable = NF1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NF1 MUTATED        4      0      0      2      1
  NF1 WILD-TYPE     28     18     46     25     22
D25V1, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           4            28
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           2            25
  CLUS_5           1            22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        4      1      2
  NF1 WILD-TYPE     39     66     34
D25V2, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           4            39
  CLUS_2           1            66
  CLUS_3           2            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        8     38     43
  NF1 WILD-TYPE     34    135    104
D25V3, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           8            34
  CLUS_2          38           135
  CLUS_3          43           104
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED       27     23     33
  NF1 WILD-TYPE     35     50     42
D25V4, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          27            35
  CLUS_2          23            50
  CLUS_3          33            42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED       11     29     36
  NF1 WILD-TYPE     59     91     64
D25V5, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          11            59
  CLUS_2          29            91
  CLUS_3          36            64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NF1 MUTATED        9      1      4      9      6     28      7      6      6
  NF1 WILD-TYPE     32     25     26     20     33     41     13      8     16
D25V6, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           9            32
  CLUS_2           1            25
  CLUS_3           4            26
  CLUS_4           9            20
  CLUS_5           6            33
  CLUS_6          28            41
  CLUS_7           7            13
  CLUS_8           6             8
  CLUS_9           6            16
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF1 MUTATED       26     33     22      8
  NF1 WILD-TYPE     74     39     50    113
D25V7, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          26            74
  CLUS_2          33            39
  CLUS_3          22            50
  CLUS_4           8           113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NF1 MUTATED       18     28     35      4      4
  NF1 WILD-TYPE     41     47     39    115     34
D25V8, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          18            41
  CLUS_2          28            47
  CLUS_3          35            39
  CLUS_4           4           115
  CLUS_5           4            34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NF1 MUTATED       20     40     17      6      5
  NF1 WILD-TYPE     31     36     44     65     90
D25V9, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          20            31
  CLUS_2          40            36
  CLUS_3          17            44
  CLUS_4           6            65
  CLUS_5           5            90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NF1 MUTATED       26     16      4     10     17      9      2      3      1
  NF1 WILD-TYPE     43     32     35      6     36     11     19     35     49
D25V10, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          26            43
  CLUS_2          16            32
  CLUS_3           4            35
  CLUS_4          10             6
  CLUS_5          17            36
  CLUS_6           9            11
  CLUS_7           2            19
  CLUS_8           3            35
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NF1 MUTATED        4      6      6      4      4      3
  NF1 WILD-TYPE      9     10      8      7      7      6
D25V11, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           4             9
  CLUS_2           6            10
  CLUS_3           6             8
  CLUS_4           4             7
  CLUS_5           4             7
  CLUS_6           3             6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NF1 MUTATED        2      3      2      3      3      6      4      1      3
  NF1 WILD-TYPE      9      4      5      6      5      1      7      8      2
D25V12, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           2             9
  CLUS_2           3             4
  CLUS_3           2             5
  CLUS_4           3             6
  CLUS_5           3             5
  CLUS_6           6             1
  CLUS_7           4             7
  CLUS_8           1             8
  CLUS_9           3             2
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(26) Variable = OR4D10 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4D10 MUTATED        0      0      0      2      0
  OR4D10 WILD-TYPE     32     18     46     25     23
D26V1, multiclass
[1] "Remove cluster labels:" "OR4D10 MUTATED"        
clus
  OR4D10 MUTATED OR4D10 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4D10 MUTATED        2      0      0
  OR4D10 WILD-TYPE     41     67     36
D26V2, multiclass
[1] "Remove cluster labels:" "OR4D10 MUTATED"        
clus
  OR4D10 MUTATED OR4D10 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" "OR4D10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4D10 MUTATED        1      5      8
  OR4D10 WILD-TYPE     41    168    139
D26V3, multiclass
        clus
vv       OR4D10 MUTATED OR4D10 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4D10 MUTATED        7      2      3
  OR4D10 WILD-TYPE     55     71     72
D26V4, multiclass
        clus
vv       OR4D10 MUTATED OR4D10 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4D10 MUTATED        0      4      9
  OR4D10 WILD-TYPE     70    116     91
D26V5, multiclass
        clus
vv       OR4D10 MUTATED OR4D10 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4D10 MUTATED        2      1      1      0      1      7      0      1
  OR4D10 WILD-TYPE     39     25     29     29     38     62     20     13
                  vv
clus               CLUS_9
  OR4D10 MUTATED        0
  OR4D10 WILD-TYPE     22
D26V6, multiclass
        clus
vv       OR4D10 MUTATED OR4D10 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              7               62
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR4D10 MUTATED        2      2      7      3
  OR4D10 WILD-TYPE     98     70     65    118
D26V7, multiclass
        clus
vv       OR4D10 MUTATED OR4D10 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              7               65
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4D10 MUTATED        4      5      2      1      2
  OR4D10 WILD-TYPE     55     70     72    118     36
D26V8, multiclass
        clus
vv       OR4D10 MUTATED OR4D10 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              5               70
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4D10 MUTATED        6      3      2      0      2
  OR4D10 WILD-TYPE     45     73     59     71     93
D26V9, multiclass
        clus
vv       OR4D10 MUTATED OR4D10 WILD-TYPE
  CLUS_1              6               45
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4D10 MUTATED        3      5      1      0      1      1      0      1
  OR4D10 WILD-TYPE     66     43     38     16     52     19     21     37
                  vv
clus               CLUS_9
  OR4D10 MUTATED        1
  OR4D10 WILD-TYPE     49
D26V10, multiclass
        clus
vv       OR4D10 MUTATED OR4D10 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              5               43
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR4D10 MUTATED        1      1      0      0      2      1
  OR4D10 WILD-TYPE     12     15     14     11      9      8
D26V11, multiclass
        clus
vv       OR4D10 MUTATED OR4D10 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4D10 MUTATED        1      1      0      0      0      0      2      0
  OR4D10 WILD-TYPE     10      6      7      9      8      7      9      9
                  vv
clus               CLUS_9
  OR4D10 MUTATED        1
  OR4D10 WILD-TYPE      4
D26V12, multiclass
        clus
vv       OR4D10 MUTATED OR4D10 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(27) Variable = PRKDC MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKDC MUTATED        6      0      0      3      0
  PRKDC WILD-TYPE     26     18     46     24     23
D27V1, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKDC MUTATED        7      1      1
  PRKDC WILD-TYPE     36     66     35
D27V2, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1             7              36
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKDC MUTATED        3     20     40
  PRKDC WILD-TYPE     39    153    107
D27V3, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1             3              39
  CLUS_2            20             153
  CLUS_3            40             107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKDC MUTATED       19     16     19
  PRKDC WILD-TYPE     43     57     56
D27V4, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1            19              43
  CLUS_2            16              57
  CLUS_3            19              56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKDC MUTATED        6     23     24
  PRKDC WILD-TYPE     64     97     76
D27V5, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1             6              64
  CLUS_2            23              97
  CLUS_3            24              76
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKDC MUTATED        8      4      3      5      5     19      5      3
  PRKDC WILD-TYPE     33     22     27     24     34     50     15     11
                 vv
clus              CLUS_9
  PRKDC MUTATED        1
  PRKDC WILD-TYPE     21
D27V6, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1             8              33
  CLUS_2             4              22
  CLUS_3             3              27
  CLUS_4             5              24
  CLUS_5             5              34
  CLUS_6            19              50
  CLUS_7             5              15
  CLUS_8             3              11
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRKDC MUTATED       17     19     17     10
  PRKDC WILD-TYPE     83     53     55    111
D27V7, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1            17              83
  CLUS_2            19              53
  CLUS_3            17              55
  CLUS_4            10             111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKDC MUTATED       10     18     25      4      6
  PRKDC WILD-TYPE     49     57     49    115     32
D27V8, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1            10              49
  CLUS_2            18              57
  CLUS_3            25              49
  CLUS_4             4             115
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKDC MUTATED       10     29      8      7      8
  PRKDC WILD-TYPE     41     47     53     64     87
D27V9, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1            10              41
  CLUS_2            29              47
  CLUS_3             8              53
  CLUS_4             7              64
  CLUS_5             8              87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKDC MUTATED       18     12      4      7      9      4      2      4
  PRKDC WILD-TYPE     51     36     35      9     44     16     19     34
                 vv
clus              CLUS_9
  PRKDC MUTATED        2
  PRKDC WILD-TYPE     48
D27V10, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1            18              51
  CLUS_2            12              36
  CLUS_3             4              35
  CLUS_4             7               9
  CLUS_5             9              44
  CLUS_6             4              16
  CLUS_7             2              19
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRKDC MUTATED        1      2      5      2      6      1
  PRKDC WILD-TYPE     12     14      9      9      5      8
D27V11, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             5               9
  CLUS_4             2               9
  CLUS_5             6               5
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKDC MUTATED        1      1      1      3      4      2      4      1
  PRKDC WILD-TYPE     10      6      6      6      4      5      7      8
                 vv
clus              CLUS_9
  PRKDC MUTATED        0
  PRKDC WILD-TYPE      5
D27V12, multiclass
        clus
vv       PRKDC MUTATED PRKDC WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             3               6
  CLUS_5             4               4
  CLUS_6             2               5
  CLUS_7             4               7
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(28) Variable = MGA MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MGA MUTATED        4      1      0      3      0
  MGA WILD-TYPE     28     17     46     24     23
D28V1, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           4            28
  CLUS_2           1            17
  CLUS_3           0            46
  CLUS_4           3            24
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MGA MUTATED        4      2      2
  MGA WILD-TYPE     39     65     34
D28V2, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           4            39
  CLUS_2           2            65
  CLUS_3           2            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MGA MUTATED        2      5     30
  MGA WILD-TYPE     40    168    117
D28V3, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           2            40
  CLUS_2           5           168
  CLUS_3          30           117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MGA MUTATED       12      4     11
  MGA WILD-TYPE     50     69     64
D28V4, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1          12            50
  CLUS_2           4            69
  CLUS_3          11            64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MGA MUTATED        7     14     11
  MGA WILD-TYPE     63    106     89
D28V5, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           7            63
  CLUS_2          14           106
  CLUS_3          11            89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MGA MUTATED        2      3      3      4      4     10      2      2      2
  MGA WILD-TYPE     39     23     27     25     35     59     18     12     20
D28V6, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           2            39
  CLUS_2           3            23
  CLUS_3           3            27
  CLUS_4           4            25
  CLUS_5           4            35
  CLUS_6          10            59
  CLUS_7           2            18
  CLUS_8           2            12
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MGA MUTATED        5     13      9     10
  MGA WILD-TYPE     95     59     63    111
D28V7, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           5            95
  CLUS_2          13            59
  CLUS_3           9            63
  CLUS_4          10           111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MGA MUTATED        2      5     19      6      5
  MGA WILD-TYPE     57     70     55    113     33
D28V8, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           2            57
  CLUS_2           5            70
  CLUS_3          19            55
  CLUS_4           6           113
  CLUS_5           5            33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MGA MUTATED        5     13      6      4      8
  MGA WILD-TYPE     46     63     55     67     87
D28V9, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           5            46
  CLUS_2          13            63
  CLUS_3           6            55
  CLUS_4           4            67
  CLUS_5           8            87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MGA MUTATED        7      7      1      4      6      4      1      4      2
  MGA WILD-TYPE     62     41     38     12     47     16     20     34     48
D28V10, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           7            62
  CLUS_2           7            41
  CLUS_3           1            38
  CLUS_4           4            12
  CLUS_5           6            47
  CLUS_6           4            16
  CLUS_7           1            20
  CLUS_8           4            34
  CLUS_9           2            48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MGA MUTATED        1      1      1      0      1      0
  MGA WILD-TYPE     12     15     13     11     10      9
D28V11, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           1            12
  CLUS_2           1            15
  CLUS_3           1            13
  CLUS_4           0            11
  CLUS_5           1            10
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MGA MUTATED        1      0      0      1      1      1      0      0      0
  MGA WILD-TYPE     10      7      7      8      7      6     11      9      5
D28V12, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           1            10
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           1             7
  CLUS_6           1             6
  CLUS_7           0            11
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(29) Variable = P2RY13 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  P2RY13 MUTATED        2      0      0      0      0
  P2RY13 WILD-TYPE     30     18     46     27     23
D29V1, multiclass
[1] "Remove cluster labels:" "P2RY13 MUTATED"        
clus
  P2RY13 MUTATED P2RY13 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  P2RY13 MUTATED        1      0      1
  P2RY13 WILD-TYPE     42     67     35
D29V2, multiclass
[1] "Remove cluster labels:" "P2RY13 MUTATED"        
clus
  P2RY13 MUTATED P2RY13 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" "P2RY13 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  P2RY13 MUTATED        1      2     12
  P2RY13 WILD-TYPE     41    171    135
D29V3, multiclass
        clus
vv       P2RY13 MUTATED P2RY13 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  P2RY13 MUTATED        3      2      8
  P2RY13 WILD-TYPE     59     71     67
D29V4, multiclass
        clus
vv       P2RY13 MUTATED P2RY13 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              8               67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  P2RY13 MUTATED        1      4      5
  P2RY13 WILD-TYPE     69    116     95
D29V5, multiclass
        clus
vv       P2RY13 MUTATED P2RY13 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  P2RY13 MUTATED        1      2      0      1      1      4      0      0
  P2RY13 WILD-TYPE     40     24     30     28     38     65     20     14
                  vv
clus               CLUS_9
  P2RY13 MUTATED        1
  P2RY13 WILD-TYPE     21
D29V6, multiclass
        clus
vv       P2RY13 MUTATED P2RY13 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  P2RY13 MUTATED        4      6      3      2
  P2RY13 WILD-TYPE     96     66     69    119
D29V7, multiclass
        clus
vv       P2RY13 MUTATED P2RY13 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              6               66
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  P2RY13 MUTATED        2      5      6      1      1
  P2RY13 WILD-TYPE     57     70     68    118     37
D29V8, multiclass
        clus
vv       P2RY13 MUTATED P2RY13 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              5               70
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  P2RY13 MUTATED        3      7      2      2      1
  P2RY13 WILD-TYPE     48     69     59     69     94
D29V9, multiclass
        clus
vv       P2RY13 MUTATED P2RY13 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              7               69
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  P2RY13 MUTATED        3      2      1      3      5      0      0      1
  P2RY13 WILD-TYPE     66     46     38     13     48     20     21     37
                  vv
clus               CLUS_9
  P2RY13 MUTATED        0
  P2RY13 WILD-TYPE     50
D29V10, multiclass
        clus
vv       P2RY13 MUTATED P2RY13 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              5               48
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  P2RY13 MUTATED        0      1      0      1      1      0
  P2RY13 WILD-TYPE     13     15     14     10     10      9
D29V11, multiclass
        clus
vv       P2RY13 MUTATED P2RY13 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  P2RY13 MUTATED        1      0      0      1      0      0      1      0
  P2RY13 WILD-TYPE     10      7      7      8      8      7     10      9
                  vv
clus               CLUS_9
  P2RY13 MUTATED        0
  P2RY13 WILD-TYPE      5
D29V12, multiclass
        clus
vv       P2RY13 MUTATED P2RY13 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(30) Variable = MVK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MVK MUTATED        1      0      0      0      0
  MVK WILD-TYPE     31     18     46     27     23
D30V1, multiclass
[1] "Remove cluster labels:" "MVK MUTATED"           
clus
  MVK MUTATED MVK WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MVK MUTATED        1      0      0
  MVK WILD-TYPE     42     67     36
D30V2, multiclass
[1] "Remove cluster labels:" "MVK MUTATED"           
clus
  MVK MUTATED MVK WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" "MVK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MVK MUTATED        0      0     14
  MVK WILD-TYPE     42    173    133
D30V3, multiclass
        clus
vv       MVK MUTATED MVK WILD-TYPE
  CLUS_1           0            42
  CLUS_2           0           173
  CLUS_3          14           133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MVK MUTATED        4      0      8
  MVK WILD-TYPE     58     73     67
D30V4, multiclass
        clus
vv       MVK MUTATED MVK WILD-TYPE
  CLUS_1           4            58
  CLUS_2           0            73
  CLUS_3           8            67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MVK MUTATED        2      4      8
  MVK WILD-TYPE     68    116     92
D30V5, multiclass
        clus
vv       MVK MUTATED MVK WILD-TYPE
  CLUS_1           2            68
  CLUS_2           4           116
  CLUS_3           8            92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MVK MUTATED        2      2      1      2      0      6      1      0      0
  MVK WILD-TYPE     39     24     29     27     39     63     19     14     22
D30V6, multiclass
        clus
vv       MVK MUTATED MVK WILD-TYPE
  CLUS_1           2            39
  CLUS_2           2            24
  CLUS_3           1            29
  CLUS_4           2            27
  CLUS_5           0            39
  CLUS_6           6            63
  CLUS_7           1            19
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MVK MUTATED        0      6      6      2
  MVK WILD-TYPE    100     66     66    119
D30V7, multiclass
        clus
vv       MVK MUTATED MVK WILD-TYPE
  CLUS_1           0           100
  CLUS_2           6            66
  CLUS_3           6            66
  CLUS_4           2           119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MVK MUTATED        1      0     10      1      2
  MVK WILD-TYPE     58     75     64    118     36
D30V8, multiclass
        clus
vv       MVK MUTATED MVK WILD-TYPE
  CLUS_1           1            58
  CLUS_2           0            75
  CLUS_3          10            64
  CLUS_4           1           118
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MVK MUTATED        0     10      1      0      3
  MVK WILD-TYPE     51     66     60     71     92
D30V9, multiclass
        clus
vv       MVK MUTATED MVK WILD-TYPE
  CLUS_1           0            51
  CLUS_2          10            66
  CLUS_3           1            60
  CLUS_4           0            71
  CLUS_5           3            92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MVK MUTATED        2      5      0      4      0      0      0      3      0
  MVK WILD-TYPE     67     43     39     12     53     20     21     35     50
D30V10, multiclass
        clus
vv       MVK MUTATED MVK WILD-TYPE
  CLUS_1           2            67
  CLUS_2           5            43
  CLUS_3           0            39
  CLUS_4           4            12
  CLUS_5           0            53
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           3            35
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MVK MUTATED        0      1      1      0      3      0
  MVK WILD-TYPE     13     15     13     11      8      9
D30V11, multiclass
        clus
vv       MVK MUTATED MVK WILD-TYPE
  CLUS_1           0            13
  CLUS_2           1            15
  CLUS_3           1            13
  CLUS_4           0            11
  CLUS_5           3             8
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MVK MUTATED        0      0      0      1      0      2      2      0      0
  MVK WILD-TYPE     11      7      7      8      8      5      9      9      5
D30V12, multiclass
        clus
vv       MVK MUTATED MVK WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           2             5
  CLUS_7           2             9
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(31) Variable = ATXN3L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATXN3L MUTATED        1      0      0      2      0
  ATXN3L WILD-TYPE     31     18     46     25     23
D31V1, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATXN3L MUTATED        2      1      0
  ATXN3L WILD-TYPE     41     66     36
D31V2, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATXN3L MUTATED        2      7      8
  ATXN3L WILD-TYPE     40    166    139
D31V3, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              2               40
  CLUS_2              7              166
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATXN3L MUTATED        5      4      5
  ATXN3L WILD-TYPE     57     69     70
D31V4, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              5               57
  CLUS_2              4               69
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATXN3L MUTATED        7      5      5
  ATXN3L WILD-TYPE     63    115     95
D31V5, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              7               63
  CLUS_2              5              115
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATXN3L MUTATED        4      0      0      2      3      3      3      1
  ATXN3L WILD-TYPE     37     26     30     27     36     66     17     13
                  vv
clus               CLUS_9
  ATXN3L MUTATED        1
  ATXN3L WILD-TYPE     21
D31V6, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              4               37
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              3               36
  CLUS_6              3               66
  CLUS_7              3               17
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATXN3L MUTATED        4      4      5      4
  ATXN3L WILD-TYPE     96     68     67    117
D31V7, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              4               96
  CLUS_2              4               68
  CLUS_3              5               67
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATXN3L MUTATED        5      2      6      2      2
  ATXN3L WILD-TYPE     54     73     68    117     36
D31V8, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              5               54
  CLUS_2              2               73
  CLUS_3              6               68
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATXN3L MUTATED        4      5      6      0      1
  ATXN3L WILD-TYPE     47     71     55     71     94
D31V9, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              4               47
  CLUS_2              5               71
  CLUS_3              6               55
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATXN3L MUTATED        2      6      1      1      2      1      2      1
  ATXN3L WILD-TYPE     67     42     38     15     51     19     19     37
                  vv
clus               CLUS_9
  ATXN3L MUTATED        0
  ATXN3L WILD-TYPE     50
D31V10, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              2               67
  CLUS_2              6               42
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              2               19
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATXN3L MUTATED        0      2      0      1      1      0
  ATXN3L WILD-TYPE     13     14     14     10     10      9
D31V11, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATXN3L MUTATED        1      1      0      1      0      0      1      0
  ATXN3L WILD-TYPE     10      6      7      8      8      7     10      9
                  vv
clus               CLUS_9
  ATXN3L MUTATED        0
  ATXN3L WILD-TYPE      5
D31V12, multiclass
        clus
vv       ATXN3L MUTATED ATXN3L WILD-TYPE
  CLUS_1              1               10
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(32) Variable = FBXW7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXW7 MUTATED       13      2      4      4      3
  FBXW7 WILD-TYPE     19     16     42     23     20
D32V1, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            13              19
  CLUS_2             2              16
  CLUS_3             4              42
  CLUS_4             4              23
  CLUS_5             3              20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED       13      9      4
  FBXW7 WILD-TYPE     30     58     32
D32V2, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            13              30
  CLUS_2             9              58
  CLUS_3             4              32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        7     36     59
  FBXW7 WILD-TYPE     35    137     88
D32V3, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             7              35
  CLUS_2            36             137
  CLUS_3            59              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED       22     23     30
  FBXW7 WILD-TYPE     40     50     45
D32V4, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            22              40
  CLUS_2            23              50
  CLUS_3            30              45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED       12     30     42
  FBXW7 WILD-TYPE     58     90     58
D32V5, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            12              58
  CLUS_2            30              90
  CLUS_3            42              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXW7 MUTATED       11      6      4      9     12     27      5      5
  FBXW7 WILD-TYPE     30     20     26     20     27     42     15      9
                 vv
clus              CLUS_9
  FBXW7 MUTATED        5
  FBXW7 WILD-TYPE     17
D32V6, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            11              30
  CLUS_2             6              20
  CLUS_3             4              26
  CLUS_4             9              20
  CLUS_5            12              27
  CLUS_6            27              42
  CLUS_7             5              15
  CLUS_8             5               9
  CLUS_9             5              17
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED       23     28     25     27
  FBXW7 WILD-TYPE     77     44     47     94
D32V7, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            23              77
  CLUS_2            28              44
  CLUS_3            25              47
  CLUS_4            27              94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXW7 MUTATED       16     25     32     15     15
  FBXW7 WILD-TYPE     43     50     42    104     23
D32V8, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            16              43
  CLUS_2            25              50
  CLUS_3            32              42
  CLUS_4            15             104
  CLUS_5            15              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXW7 MUTATED       18     33     14     10     26
  FBXW7 WILD-TYPE     33     43     47     61     69
D32V9, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            18              33
  CLUS_2            33              43
  CLUS_3            14              47
  CLUS_4            10              61
  CLUS_5            26              69
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXW7 MUTATED       16     21      8     11     15      8      3     13
  FBXW7 WILD-TYPE     53     27     31      5     38     12     18     25
                 vv
clus              CLUS_9
  FBXW7 MUTATED        6
  FBXW7 WILD-TYPE     44
D32V10, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            16              53
  CLUS_2            21              27
  CLUS_3             8              31
  CLUS_4            11               5
  CLUS_5            15              38
  CLUS_6             8              12
  CLUS_7             3              18
  CLUS_8            13              25
  CLUS_9             6              44
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FBXW7 MUTATED        5      4      3      5      6      1
  FBXW7 WILD-TYPE      8     12     11      6      5      8
D32V11, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             5               8
  CLUS_2             4              12
  CLUS_3             3              11
  CLUS_4             5               6
  CLUS_5             6               5
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXW7 MUTATED        2      2      3      6      1      2      3      3
  FBXW7 WILD-TYPE      9      5      4      3      7      5      8      6
                 vv
clus              CLUS_9
  FBXW7 MUTATED        2
  FBXW7 WILD-TYPE      3
D32V12, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             2               5
  CLUS_3             3               4
  CLUS_4             6               3
  CLUS_5             1               7
  CLUS_6             2               5
  CLUS_7             3               8
  CLUS_8             3               6
  CLUS_9             2               3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(33) Variable = DIP2B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DIP2B MUTATED        4      1      1      2      1
  DIP2B WILD-TYPE     28     17     45     25     22
D33V1, multiclass
        clus
vv       DIP2B MUTATED DIP2B WILD-TYPE
  CLUS_1             4              28
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DIP2B MUTATED        5      2      2
  DIP2B WILD-TYPE     38     65     34
D33V2, multiclass
        clus
vv       DIP2B MUTATED DIP2B WILD-TYPE
  CLUS_1             5              38
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DIP2B MUTATED        2      9     16
  DIP2B WILD-TYPE     40    164    131
D33V3, multiclass
        clus
vv       DIP2B MUTATED DIP2B WILD-TYPE
  CLUS_1             2              40
  CLUS_2             9             164
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DIP2B MUTATED        1      7     10
  DIP2B WILD-TYPE     61     66     65
D33V4, multiclass
        clus
vv       DIP2B MUTATED DIP2B WILD-TYPE
  CLUS_1             1              61
  CLUS_2             7              66
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DIP2B MUTATED        3     10     10
  DIP2B WILD-TYPE     67    110     90
D33V5, multiclass
        clus
vv       DIP2B MUTATED DIP2B WILD-TYPE
  CLUS_1             3              67
  CLUS_2            10             110
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DIP2B MUTATED        2      0      2      3      2      8      2      3
  DIP2B WILD-TYPE     39     26     28     26     37     61     18     11
                 vv
clus              CLUS_9
  DIP2B MUTATED        1
  DIP2B WILD-TYPE     21
D33V6, multiclass
        clus
vv       DIP2B MUTATED DIP2B WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             3              26
  CLUS_5             2              37
  CLUS_6             8              61
  CLUS_7             2              18
  CLUS_8             3              11
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DIP2B MUTATED        7     10      3      7
  DIP2B WILD-TYPE     93     62     69    114
D33V7, multiclass
        clus
vv       DIP2B MUTATED DIP2B WILD-TYPE
  CLUS_1             7              93
  CLUS_2            10              62
  CLUS_3             3              69
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DIP2B MUTATED        1      9      8      6      3
  DIP2B WILD-TYPE     58     66     66    113     35
D33V8, multiclass
        clus
vv       DIP2B MUTATED DIP2B WILD-TYPE
  CLUS_1             1              58
  CLUS_2             9              66
  CLUS_3             8              66
  CLUS_4             6             113
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DIP2B MUTATED        5     10      2      2      7
  DIP2B WILD-TYPE     46     66     59     69     88
D33V9, multiclass
        clus
vv       DIP2B MUTATED DIP2B WILD-TYPE
  CLUS_1             5              46
  CLUS_2            10              66
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DIP2B MUTATED        3      1      1      4      7      4      3      2
  DIP2B WILD-TYPE     66     47     38     12     46     16     18     36
                 vv
clus              CLUS_9
  DIP2B MUTATED        1
  DIP2B WILD-TYPE     49
D33V10, multiclass
        clus
vv       DIP2B MUTATED DIP2B WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             7              46
  CLUS_6             4              16
  CLUS_7             3              18
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DIP2B MUTATED        1      0      0      0      1      0
  DIP2B WILD-TYPE     12     16     14     11     10      9
D33V11, multiclass
[1] "Remove cluster labels:" "DIP2B MUTATED"         
clus
  DIP2B MUTATED DIP2B WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DIP2B MUTATED        0      0      0      0      1      0      0      0
  DIP2B WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  DIP2B MUTATED        1
  DIP2B WILD-TYPE      4
D33V12, multiclass
[1] "Remove cluster labels:" "DIP2B MUTATED"         
clus
  DIP2B MUTATED DIP2B WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" "DIP2B WILD-TYPE" 

Clustering(34) Variable = RBMX MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBMX MUTATED        0      0      1      0      0
  RBMX WILD-TYPE     32     18     45     27     23
D34V1, multiclass
[1] "Remove cluster labels:" "RBMX MUTATED"          
clus
  RBMX MUTATED RBMX WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AY-4071 
"RBMX WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBMX MUTATED        0      1      0
  RBMX WILD-TYPE     43     66     36
D34V2, multiclass
[1] "Remove cluster labels:" "RBMX MUTATED"          
clus
  RBMX MUTATED RBMX WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AY-4071 
"RBMX WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBMX MUTATED        1      4     13
  RBMX WILD-TYPE     41    169    134
D34V3, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBMX MUTATED        7      3      7
  RBMX WILD-TYPE     55     70     68
D34V4, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            7             55
  CLUS_2            3             70
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBMX MUTATED        3      2      9
  RBMX WILD-TYPE     67    118     91
D34V5, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            3             67
  CLUS_2            2            118
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBMX MUTATED        3      1      0      1      0      7      0      0      2
  RBMX WILD-TYPE     38     25     30     28     39     62     20     14     20
D34V6, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            3             38
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            7             62
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBMX MUTATED        2      5     10      1
  RBMX WILD-TYPE     98     67     62    120
D34V7, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3           10             62
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBMX MUTATED        5      3      9      1      0
  RBMX WILD-TYPE     54     72     65    118     38
D34V8, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            5             54
  CLUS_2            3             72
  CLUS_3            9             65
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBMX MUTATED        1     10      6      0      1
  RBMX WILD-TYPE     50     66     55     71     94
D34V9, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            1             50
  CLUS_2           10             66
  CLUS_3            6             55
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBMX MUTATED        5      5      1      2      3      1      0      0      1
  RBMX WILD-TYPE     64     43     38     14     50     19     21     38     49
D34V10, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            5             64
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBMX MUTATED        0      1      1      1      1      0
  RBMX WILD-TYPE     13     15     13     10     10      9
D34V11, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBMX MUTATED        0      0      0      0      0      2      2      0      0
  RBMX WILD-TYPE     11      7      7      9      8      5      9      9      5
D34V12, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            2              5
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(35) Variable = SMAD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMAD2 MUTATED        1      2      0      5      1
  SMAD2 WILD-TYPE     31     16     46     22     22
D35V1, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             2              16
  CLUS_3             0              46
  CLUS_4             5              22
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED        5      4      0
  SMAD2 WILD-TYPE     38     63     36
D35V2, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             4              63
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED        3      3     10
  SMAD2 WILD-TYPE     39    170    137
D35V3, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             3             170
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED        3      0      3
  SMAD2 WILD-TYPE     59     73     72
D35V4, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED        1      6      5
  SMAD2 WILD-TYPE     69    114     95
D35V5, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMAD2 MUTATED        2      3      1      0      2      3      1      0
  SMAD2 WILD-TYPE     39     23     29     29     37     66     19     14
                 vv
clus              CLUS_9
  SMAD2 MUTATED        0
  SMAD2 WILD-TYPE     22
D35V6, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD2 MUTATED        1      4      2      9
  SMAD2 WILD-TYPE     99     68     70    112
D35V7, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMAD2 MUTATED        2      1      2      8      3
  SMAD2 WILD-TYPE     57     74     72    111     35
D35V8, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             8             111
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMAD2 MUTATED        1      3      1      1      9
  SMAD2 WILD-TYPE     50     73     60     70     86
D35V9, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMAD2 MUTATED        1      2      1      1      3      0      2      3
  SMAD2 WILD-TYPE     68     46     38     15     50     20     19     35
                 vv
clus              CLUS_9
  SMAD2 MUTATED        2
  SMAD2 WILD-TYPE     48
D35V10, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             2              19
  CLUS_8             3              35
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMAD2 MUTATED        0      1      0      0      0      0
  SMAD2 WILD-TYPE     13     15     14     11     11      9
D35V11, multiclass
[1] "Remove cluster labels:" "SMAD2 MUTATED"         
clus
  SMAD2 MUTATED SMAD2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-G4-6628 
"SMAD2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMAD2 MUTATED        1      0      0      0      0      0      0      0
  SMAD2 WILD-TYPE     10      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  SMAD2 MUTATED        0
  SMAD2 WILD-TYPE      5
D35V12, multiclass
[1] "Remove cluster labels:" "SMAD2 MUTATED"         
clus
  SMAD2 MUTATED SMAD2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-G4-6628 
"SMAD2 WILD-TYPE" 

Clustering(36) Variable = ASXL1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASXL1 MUTATED        3      0      1      4      0
  ASXL1 WILD-TYPE     29     18     45     23     23
D36V1, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             4              23
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASXL1 MUTATED        4      3      1
  ASXL1 WILD-TYPE     39     64     35
D36V2, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             3              64
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASXL1 MUTATED        2     13     25
  ASXL1 WILD-TYPE     40    160    122
D36V3, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2            13             160
  CLUS_3            25             122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASXL1 MUTATED       12      9     11
  ASXL1 WILD-TYPE     50     64     64
D36V4, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1            12              50
  CLUS_2             9              64
  CLUS_3            11              64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASXL1 MUTATED        4     17     14
  ASXL1 WILD-TYPE     66    103     86
D36V5, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2            17             103
  CLUS_3            14              86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ASXL1 MUTATED        3      3      4      2      2     11      4      3
  ASXL1 WILD-TYPE     38     23     26     27     37     58     16     11
                 vv
clus              CLUS_9
  ASXL1 MUTATED        3
  ASXL1 WILD-TYPE     19
D36V6, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             3              23
  CLUS_3             4              26
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6            11              58
  CLUS_7             4              16
  CLUS_8             3              11
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASXL1 MUTATED        8     11     13      8
  ASXL1 WILD-TYPE     92     61     59    113
D36V7, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1             8              92
  CLUS_2            11              61
  CLUS_3            13              59
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASXL1 MUTATED        9      8     14      6      3
  ASXL1 WILD-TYPE     50     67     60    113     35
D36V8, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1             9              50
  CLUS_2             8              67
  CLUS_3            14              60
  CLUS_4             6             113
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASXL1 MUTATED        9     12      5      4      9
  ASXL1 WILD-TYPE     42     64     56     67     86
D36V9, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1             9              42
  CLUS_2            12              64
  CLUS_3             5              56
  CLUS_4             4              67
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ASXL1 MUTATED        8      8      5      1      8      4      1      2
  ASXL1 WILD-TYPE     61     40     34     15     45     16     20     36
                 vv
clus              CLUS_9
  ASXL1 MUTATED        2
  ASXL1 WILD-TYPE     48
D36V10, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1             8              61
  CLUS_2             8              40
  CLUS_3             5              34
  CLUS_4             1              15
  CLUS_5             8              45
  CLUS_6             4              16
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ASXL1 MUTATED        2      4      3      0      3      2
  ASXL1 WILD-TYPE     11     12     11     11      8      7
D36V11, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             4              12
  CLUS_3             3              11
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ASXL1 MUTATED        2      2      1      1      2      0      5      1
  ASXL1 WILD-TYPE      9      5      6      8      6      7      6      8
                 vv
clus              CLUS_9
  ASXL1 MUTATED        0
  ASXL1 WILD-TYPE      5
D36V12, multiclass
        clus
vv       ASXL1 MUTATED ASXL1 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             2               5
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             5               6
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(37) Variable = ALG12 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALG12 MUTATED        1      0      1      0      0
  ALG12 WILD-TYPE     31     18     45     27     23
D37V1, multiclass
[1] "Remove cluster labels:" "ALG12 MUTATED"         
clus
  ALG12 MUTATED ALG12 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALG12 MUTATED        1      1      0
  ALG12 WILD-TYPE     42     66     36
D37V2, multiclass
[1] "Remove cluster labels:" "ALG12 MUTATED"         
clus
  ALG12 MUTATED ALG12 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALG12 MUTATED        1      1      5
  ALG12 WILD-TYPE     41    172    142
D37V3, multiclass
        clus
vv       ALG12 MUTATED ALG12 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALG12 MUTATED        0      0      5
  ALG12 WILD-TYPE     62     73     70
D37V4, multiclass
        clus
vv       ALG12 MUTATED ALG12 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALG12 MUTATED        2      4      1
  ALG12 WILD-TYPE     68    116     99
D37V5, multiclass
        clus
vv       ALG12 MUTATED ALG12 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALG12 MUTATED        1      1      1      2      1      1      0      0
  ALG12 WILD-TYPE     40     25     29     27     38     68     20     14
                 vv
clus              CLUS_9
  ALG12 MUTATED        0
  ALG12 WILD-TYPE     22
D37V6, multiclass
        clus
vv       ALG12 MUTATED ALG12 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALG12 MUTATED        0      5      0      2
  ALG12 WILD-TYPE    100     67     72    119
D37V7, multiclass
        clus
vv       ALG12 MUTATED ALG12 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALG12 MUTATED        0      0      4      2      1
  ALG12 WILD-TYPE     59     75     70    117     37
D37V8, multiclass
        clus
vv       ALG12 MUTATED ALG12 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALG12 MUTATED        0      4      0      0      3
  ALG12 WILD-TYPE     51     72     61     71     92
D37V9, multiclass
        clus
vv       ALG12 MUTATED ALG12 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALG12 MUTATED        1      1      1      2      0      0      0      2
  ALG12 WILD-TYPE     68     47     38     14     53     20     21     36
                 vv
clus              CLUS_9
  ALG12 MUTATED        0
  ALG12 WILD-TYPE     50
D37V10, multiclass
        clus
vv       ALG12 MUTATED ALG12 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ALG12 MUTATED        0      0      0      0      1      0
  ALG12 WILD-TYPE     13     16     14     11     10      9
D37V11, multiclass
[1] "Remove cluster labels:" "ALG12 MUTATED"         
clus
  ALG12 MUTATED ALG12 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-G4-6628 
"ALG12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALG12 MUTATED        0      0      0      1      0      0      0      0
  ALG12 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  ALG12 MUTATED        0
  ALG12 WILD-TYPE      5
D37V12, multiclass
[1] "Remove cluster labels:" "ALG12 MUTATED"         
clus
  ALG12 MUTATED ALG12 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" "ALG12 WILD-TYPE" 
     TCGA-G4-6628 
"ALG12 WILD-TYPE" 

Clustering(38) Variable = NR1H3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NR1H3 MUTATED        2      0      1      1      0
  NR1H3 WILD-TYPE     30     18     45     26     23
D38V1, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NR1H3 MUTATED        3      1      0
  NR1H3 WILD-TYPE     40     66     36
D38V2, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NR1H3 MUTATED        1      5      9
  NR1H3 WILD-TYPE     41    168    138
D38V3, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NR1H3 MUTATED        5      3      3
  NR1H3 WILD-TYPE     57     70     72
D38V4, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NR1H3 MUTATED        1      3      8
  NR1H3 WILD-TYPE     69    117     92
D38V5, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NR1H3 MUTATED        1      0      1      0      1      7      1      1
  NR1H3 WILD-TYPE     40     26     29     29     38     62     19     13
                 vv
clus              CLUS_9
  NR1H3 MUTATED        0
  NR1H3 WILD-TYPE     22
D38V6, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NR1H3 MUTATED        5      3      4      3
  NR1H3 WILD-TYPE     95     69     68    118
D38V7, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NR1H3 MUTATED        2      3      6      1      3
  NR1H3 WILD-TYPE     57     72     68    118     35
D38V8, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NR1H3 MUTATED        2      8      1      1      2
  NR1H3 WILD-TYPE     49     68     60     70     93
D38V9, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             8              68
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NR1H3 MUTATED        3      3      2      3      0      1      0      2
  NR1H3 WILD-TYPE     66     45     37     13     53     19     21     36
                 vv
clus              CLUS_9
  NR1H3 MUTATED        0
  NR1H3 WILD-TYPE     50
D38V10, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             2              37
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NR1H3 MUTATED        0      0      2      1      2      0
  NR1H3 WILD-TYPE     13     16     12     10      9      9
D38V11, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NR1H3 MUTATED        0      0      0      1      0      1      3      0
  NR1H3 WILD-TYPE     11      7      7      8      8      6      8      9
                 vv
clus              CLUS_9
  NR1H3 MUTATED        0
  NR1H3 WILD-TYPE      5
D38V12, multiclass
        clus
vv       NR1H3 MUTATED NR1H3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(39) Variable = ZBTB20 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB20 MUTATED        5      0      0      0      0
  ZBTB20 WILD-TYPE     27     18     46     27     23
D39V1, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB20 MUTATED        5      0      0
  ZBTB20 WILD-TYPE     38     67     36
D39V2, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB20 MUTATED        0      2     17
  ZBTB20 WILD-TYPE     42    171    130
D39V3, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3             17              130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB20 MUTATED        2      1     12
  ZBTB20 WILD-TYPE     60     72     63
D39V4, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3             12               63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB20 MUTATED        1      3     12
  ZBTB20 WILD-TYPE     69    117     88
D39V5, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3             12               88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB20 MUTATED        1      0      0      2      1      8      4      0
  ZBTB20 WILD-TYPE     40     26     30     27     38     61     16     14
                  vv
clus               CLUS_9
  ZBTB20 MUTATED        0
  ZBTB20 WILD-TYPE     22
D39V6, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              8               61
  CLUS_7              4               16
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZBTB20 MUTATED        1     10      4      5
  ZBTB20 WILD-TYPE     99     62     68    116
D39V7, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              1               99
  CLUS_2             10               62
  CLUS_3              4               68
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB20 MUTATED        1      2     12      1      4
  ZBTB20 WILD-TYPE     58     73     62    118     34
D39V8, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3             12               62
  CLUS_4              1              118
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB20 MUTATED        1     12      2      0      5
  ZBTB20 WILD-TYPE     50     64     59     71     90
D39V9, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              1               50
  CLUS_2             12               64
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB20 MUTATED        1      2      1      8      4      0      1      3
  ZBTB20 WILD-TYPE     68     46     38      8     49     20     20     35
                  vv
clus               CLUS_9
  ZBTB20 MUTATED        0
  ZBTB20 WILD-TYPE     50
D39V10, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              8                8
  CLUS_5              4               49
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZBTB20 MUTATED        0      0      1      1      3      0
  ZBTB20 WILD-TYPE     13     16     13     10      8      9
D39V11, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB20 MUTATED        0      0      1      1      2      0      1      0
  ZBTB20 WILD-TYPE     11      7      6      8      6      7     10      9
                  vv
clus               CLUS_9
  ZBTB20 MUTATED        0
  ZBTB20 WILD-TYPE      5
D39V12, multiclass
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(40) Variable = MPHOSPH10 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPHOSPH10 MUTATED        1      0      0      1      0
  MPHOSPH10 WILD-TYPE     31     18     46     26     23
D40V1, multiclass
[1] "Remove cluster labels:" "MPHOSPH10 MUTATED"     
clus
  MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE 
                  2                 144 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3986          TCGA-AA-3989          TCGA-AA-3994 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00D 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A00E          TCGA-AA-A00F          TCGA-AA-A00J 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A00L          TCGA-AA-A00N          TCGA-AA-A00O 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A00Q          TCGA-AA-A00R          TCGA-AA-A00U 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A00W          TCGA-AA-A00Z          TCGA-AA-A010 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A017          TCGA-AA-A01D          TCGA-AA-A01F 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A01G          TCGA-AA-A01I          TCGA-AA-A01K 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A01Q          TCGA-AA-A024          TCGA-AA-A029 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A02F          TCGA-AA-A02H          TCGA-AA-A02J 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AY-4070          TCGA-AY-4071 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  MPHOSPH10 MUTATED        0      1      1
  MPHOSPH10 WILD-TYPE     43     66     35
D40V2, multiclass
[1] "Remove cluster labels:" "MPHOSPH10 MUTATED"     
clus
  MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE 
                  2                 144 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-3986          TCGA-AA-3989          TCGA-AA-3994 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00D 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A00E          TCGA-AA-A00F          TCGA-AA-A00J 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A00L          TCGA-AA-A00N          TCGA-AA-A00O 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A00Q          TCGA-AA-A00R          TCGA-AA-A00U 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A00W          TCGA-AA-A00Z          TCGA-AA-A010 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A017          TCGA-AA-A01D          TCGA-AA-A01F 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A01G          TCGA-AA-A01I          TCGA-AA-A01K 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A01Q          TCGA-AA-A024          TCGA-AA-A029 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A02F          TCGA-AA-A02H          TCGA-AA-A02J 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AY-4070          TCGA-AY-4071 
"MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" "MPHOSPH10 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  MPHOSPH10 MUTATED        1      3     14
  MPHOSPH10 WILD-TYPE     41    170    133
D40V3, multiclass
        clus
vv       MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE
  CLUS_1                 1                  41
  CLUS_2                 3                 170
  CLUS_3                14                 133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  MPHOSPH10 MUTATED        9      1      6
  MPHOSPH10 WILD-TYPE     53     72     69
D40V4, multiclass
        clus
vv       MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE
  CLUS_1                 9                  53
  CLUS_2                 1                  72
  CLUS_3                 6                  69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  MPHOSPH10 MUTATED        1      3      9
  MPHOSPH10 WILD-TYPE     69    117     91
D40V5, multiclass
        clus
vv       MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE
  CLUS_1                 1                  69
  CLUS_2                 3                 117
  CLUS_3                 9                  91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MPHOSPH10 MUTATED        2      0      0      1      1      8      1      0
  MPHOSPH10 WILD-TYPE     39     26     30     28     38     61     19     14
                     vv
clus                  CLUS_9
  MPHOSPH10 MUTATED        0
  MPHOSPH10 WILD-TYPE     22
D40V6, multiclass
        clus
vv       MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE
  CLUS_1                 2                  39
  CLUS_2                 0                  26
  CLUS_3                 0                  30
  CLUS_4                 1                  28
  CLUS_5                 1                  38
  CLUS_6                 8                  61
  CLUS_7                 1                  19
  CLUS_8                 0                  14
  CLUS_9                 0                  22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MPHOSPH10 MUTATED        2      6      8      2
  MPHOSPH10 WILD-TYPE     98     66     64    119
D40V7, multiclass
        clus
vv       MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE
  CLUS_1                 2                  98
  CLUS_2                 6                  66
  CLUS_3                 8                  64
  CLUS_4                 2                 119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPHOSPH10 MUTATED        3      3     10      2      0
  MPHOSPH10 WILD-TYPE     56     72     64    117     38
D40V8, multiclass
        clus
vv       MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE
  CLUS_1                 3                  56
  CLUS_2                 3                  72
  CLUS_3                10                  64
  CLUS_4                 2                 117
  CLUS_5                 0                  38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPHOSPH10 MUTATED        0     10      5      1      1
  MPHOSPH10 WILD-TYPE     51     66     56     70     94
D40V9, multiclass
        clus
vv       MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE
  CLUS_1                 0                  51
  CLUS_2                10                  66
  CLUS_3                 5                  56
  CLUS_4                 1                  70
  CLUS_5                 1                  94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MPHOSPH10 MUTATED        3      5      1      2      5      0      0      0
  MPHOSPH10 WILD-TYPE     66     43     38     14     48     20     21     38
                     vv
clus                  CLUS_9
  MPHOSPH10 MUTATED        1
  MPHOSPH10 WILD-TYPE     49
D40V10, multiclass
        clus
vv       MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE
  CLUS_1                 3                  66
  CLUS_2                 5                  43
  CLUS_3                 1                  38
  CLUS_4                 2                  14
  CLUS_5                 5                  48
  CLUS_6                 0                  20
  CLUS_7                 0                  21
  CLUS_8                 0                  38
  CLUS_9                 1                  49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MPHOSPH10 MUTATED        0      1      1      0      3      2
  MPHOSPH10 WILD-TYPE     13     15     13     11      8      7
D40V11, multiclass
        clus
vv       MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE
  CLUS_1                 0                  13
  CLUS_2                 1                  15
  CLUS_3                 1                  13
  CLUS_4                 0                  11
  CLUS_5                 3                   8
  CLUS_6                 2                   7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MPHOSPH10 MUTATED        1      1      0      1      1      2      1      0
  MPHOSPH10 WILD-TYPE     10      6      7      8      7      5     10      9
                     vv
clus                  CLUS_9
  MPHOSPH10 MUTATED        0
  MPHOSPH10 WILD-TYPE      5
D40V12, multiclass
        clus
vv       MPHOSPH10 MUTATED MPHOSPH10 WILD-TYPE
  CLUS_1                 1                  10
  CLUS_2                 1                   6
  CLUS_3                 0                   7
  CLUS_4                 1                   8
  CLUS_5                 1                   7
  CLUS_6                 2                   5
  CLUS_7                 1                  10
  CLUS_8                 0                   9
  CLUS_9                 0                   5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(41) Variable = TPRKB MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPRKB MUTATED        0      0      0      0      0
  TPRKB WILD-TYPE     32     18     46     27     23
D41V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TPRKB MUTATED        0      0      0
  TPRKB WILD-TYPE     43     67     36
D41V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TPRKB MUTATED        1      2      7
  TPRKB WILD-TYPE     41    171    140
D41V3, multiclass
        clus
vv       TPRKB MUTATED TPRKB WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TPRKB MUTATED        4      1      5
  TPRKB WILD-TYPE     58     72     70
D41V4, multiclass
        clus
vv       TPRKB MUTATED TPRKB WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TPRKB MUTATED        1      3      4
  TPRKB WILD-TYPE     69    117     96
D41V5, multiclass
        clus
vv       TPRKB MUTATED TPRKB WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TPRKB MUTATED        1      0      0      3      1      3      0      0
  TPRKB WILD-TYPE     40     26     30     26     38     66     20     14
                 vv
clus              CLUS_9
  TPRKB MUTATED        0
  TPRKB WILD-TYPE     22
D41V6, multiclass
        clus
vv       TPRKB MUTATED TPRKB WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TPRKB MUTATED        2      3      5      0
  TPRKB WILD-TYPE     98     69     67    121
D41V7, multiclass
        clus
vv       TPRKB MUTATED TPRKB WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             5              67
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPRKB MUTATED        2      2      6      0      0
  TPRKB WILD-TYPE     57     73     68    119     38
D41V8, multiclass
        clus
vv       TPRKB MUTATED TPRKB WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPRKB MUTATED        1      4      4      1      0
  TPRKB WILD-TYPE     50     72     57     70     95
D41V9, multiclass
        clus
vv       TPRKB MUTATED TPRKB WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TPRKB MUTATED        1      6      1      1      1      0      0      0
  TPRKB WILD-TYPE     68     42     38     15     52     20     21     38
                 vv
clus              CLUS_9
  TPRKB MUTATED        0
  TPRKB WILD-TYPE     50
D41V10, multiclass
        clus
vv       TPRKB MUTATED TPRKB WILD-TYPE
  CLUS_1             1              68
  CLUS_2             6              42
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TPRKB MUTATED        0      0      0      0      1      0
  TPRKB WILD-TYPE     13     16     14     11     10      9
D41V11, multiclass
[1] "Remove cluster labels:" "TPRKB MUTATED"         
clus
  TPRKB MUTATED TPRKB WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-G4-6628 
"TPRKB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TPRKB MUTATED        0      0      0      0      0      0      1      0
  TPRKB WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  TPRKB MUTATED        0
  TPRKB WILD-TYPE      5
D41V12, multiclass
[1] "Remove cluster labels:" "TPRKB MUTATED"         
clus
  TPRKB MUTATED TPRKB WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" "TPRKB WILD-TYPE" 
     TCGA-G4-6628 
"TPRKB WILD-TYPE" 

Clustering(42) Variable = PLAGL2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLAGL2 MUTATED        0      0      0      0      0
  PLAGL2 WILD-TYPE     32     18     46     27     23
D42V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLAGL2 MUTATED        0      0      0
  PLAGL2 WILD-TYPE     43     67     36
D42V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLAGL2 MUTATED        1      0      5
  PLAGL2 WILD-TYPE     41    173    142
D42V3, multiclass
        clus
vv       PLAGL2 MUTATED PLAGL2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLAGL2 MUTATED        1      0      5
  PLAGL2 WILD-TYPE     61     73     70
D42V4, multiclass
        clus
vv       PLAGL2 MUTATED PLAGL2 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLAGL2 MUTATED        1      3      2
  PLAGL2 WILD-TYPE     69    117     98
D42V5, multiclass
        clus
vv       PLAGL2 MUTATED PLAGL2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLAGL2 MUTATED        0      0      0      2      1      2      1      0
  PLAGL2 WILD-TYPE     41     26     30     27     38     67     19     14
                  vv
clus               CLUS_9
  PLAGL2 MUTATED        0
  PLAGL2 WILD-TYPE     22
D42V6, multiclass
        clus
vv       PLAGL2 MUTATED PLAGL2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLAGL2 MUTATED        0      6      0      0
  PLAGL2 WILD-TYPE    100     66     72    121
D42V7, multiclass
        clus
vv       PLAGL2 MUTATED PLAGL2 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              6               66
  CLUS_3              0               72
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLAGL2 MUTATED        0      0      6      0      0
  PLAGL2 WILD-TYPE     59     75     68    119     38
D42V8, multiclass
        clus
vv       PLAGL2 MUTATED PLAGL2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              6               68
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLAGL2 MUTATED        0      6      0      0      0
  PLAGL2 WILD-TYPE     51     70     61     71     95
D42V9, multiclass
        clus
vv       PLAGL2 MUTATED PLAGL2 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              6               70
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLAGL2 MUTATED        3      0      0      2      1      0      0      0
  PLAGL2 WILD-TYPE     66     48     39     14     52     20     21     38
                  vv
clus               CLUS_9
  PLAGL2 MUTATED        0
  PLAGL2 WILD-TYPE     50
D42V10, multiclass
        clus
vv       PLAGL2 MUTATED PLAGL2 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLAGL2 MUTATED        0      0      0      0      1      0
  PLAGL2 WILD-TYPE     13     16     14     11     10      9
D42V11, multiclass
[1] "Remove cluster labels:" "PLAGL2 MUTATED"        
clus
  PLAGL2 MUTATED PLAGL2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-G4-6628 
"PLAGL2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLAGL2 MUTATED        0      0      0      1      0      0      0      0
  PLAGL2 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  PLAGL2 MUTATED        0
  PLAGL2 WILD-TYPE      5
D42V12, multiclass
[1] "Remove cluster labels:" "PLAGL2 MUTATED"        
clus
  PLAGL2 MUTATED PLAGL2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" "PLAGL2 WILD-TYPE" 
      TCGA-G4-6628 
"PLAGL2 WILD-TYPE" 

Clustering(43) Variable = IDH1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDH1 MUTATED        3      0      0      0      0
  IDH1 WILD-TYPE     29     18     46     27     23
D43V1, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH1 MUTATED        3      0      0
  IDH1 WILD-TYPE     40     67     36
D43V2, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH1 MUTATED        3      4     11
  IDH1 WILD-TYPE     39    169    136
D43V3, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            4            169
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH1 MUTATED        5      4      6
  IDH1 WILD-TYPE     57     69     69
D43V4, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            4             69
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH1 MUTATED        4      6      7
  IDH1 WILD-TYPE     66    114     93
D43V5, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            4             66
  CLUS_2            6            114
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDH1 MUTATED        5      3      0      1      1      3      0      2      2
  IDH1 WILD-TYPE     36     23     30     28     38     66     20     12     20
D43V6, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            5             36
  CLUS_2            3             23
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            2             12
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDH1 MUTATED        2      6      7      3
  IDH1 WILD-TYPE     98     66     65    118
D43V7, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            6             66
  CLUS_3            7             65
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDH1 MUTATED        5      4      6      0      3
  IDH1 WILD-TYPE     54     71     68    119     35
D43V8, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            5             54
  CLUS_2            4             71
  CLUS_3            6             68
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDH1 MUTATED        2      8      3      2      3
  IDH1 WILD-TYPE     49     68     58     69     92
D43V9, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            8             68
  CLUS_3            3             58
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDH1 MUTATED        5      4      2      3      1      0      1      2      0
  IDH1 WILD-TYPE     64     44     37     13     52     20     20     36     50
D43V10, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            4             44
  CLUS_3            2             37
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IDH1 MUTATED        1      2      1      3      2      0
  IDH1 WILD-TYPE     12     14     13      8      9      9
D43V11, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            3              8
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDH1 MUTATED        2      0      2      2      0      0      2      1      0
  IDH1 WILD-TYPE      9      7      5      7      8      7      9      8      5
D43V12, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            2              5
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(44) Variable = SETD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SETD2 MUTATED        6      0      0      2      1
  SETD2 WILD-TYPE     26     18     46     25     22
D44V1, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        6      2      1
  SETD2 WILD-TYPE     37     65     35
D44V2, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        0     10     31
  SETD2 WILD-TYPE     42    163    116
D44V3, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2            10             163
  CLUS_3            31             116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED       10      3     19
  SETD2 WILD-TYPE     52     70     56
D44V4, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            10              52
  CLUS_2             3              70
  CLUS_3            19              56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        6     14     13
  SETD2 WILD-TYPE     64    106     87
D44V5, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             6              64
  CLUS_2            14             106
  CLUS_3            13              87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SETD2 MUTATED        3      3      1      3      3     11      4      2
  SETD2 WILD-TYPE     38     23     29     26     36     58     16     12
                 vv
clus              CLUS_9
  SETD2 MUTATED        3
  SETD2 WILD-TYPE     19
D44V6, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6            11              58
  CLUS_7             4              16
  CLUS_8             2              12
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        6     20      9      6
  SETD2 WILD-TYPE     94     52     63    115
D44V7, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             6              94
  CLUS_2            20              52
  CLUS_3             9              63
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SETD2 MUTATED        9      6     17      3      6
  SETD2 WILD-TYPE     50     69     57    116     32
D44V8, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             9              50
  CLUS_2             6              69
  CLUS_3            17              57
  CLUS_4             3             116
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SETD2 MUTATED        6     18      6      3      6
  SETD2 WILD-TYPE     45     58     55     68     89
D44V9, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             6              45
  CLUS_2            18              58
  CLUS_3             6              55
  CLUS_4             3              68
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SETD2 MUTATED        9      7      2      8      7      0      0      4
  SETD2 WILD-TYPE     60     41     37      8     46     20     21     34
                 vv
clus              CLUS_9
  SETD2 MUTATED        2
  SETD2 WILD-TYPE     48
D44V10, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             9              60
  CLUS_2             7              41
  CLUS_3             2              37
  CLUS_4             8               8
  CLUS_5             7              46
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SETD2 MUTATED        1      2      2      0      3      1
  SETD2 WILD-TYPE     12     14     12     11      8      8
D44V11, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SETD2 MUTATED        1      2      1      2      2      0      1      0
  SETD2 WILD-TYPE     10      5      6      7      6      7     10      9
                 vv
clus              CLUS_9
  SETD2 MUTATED        0
  SETD2 WILD-TYPE      5
D44V12, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             2               5
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(45) Variable = GPATCH8 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPATCH8 MUTATED        3      0      0      0      0
  GPATCH8 WILD-TYPE     29     18     46     27     23
D45V1, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPATCH8 MUTATED        3      0      0
  GPATCH8 WILD-TYPE     40     67     36
D45V2, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPATCH8 MUTATED        2      1     11
  GPATCH8 WILD-TYPE     40    172    136
D45V3, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               1               172
  CLUS_3              11               136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPATCH8 MUTATED        4      0      7
  GPATCH8 WILD-TYPE     58     73     68
D45V4, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               0                73
  CLUS_3               7                68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPATCH8 MUTATED        2      2      9
  GPATCH8 WILD-TYPE     68    118     91
D45V5, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               2               118
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPATCH8 MUTATED        3      0      0      1      3      6      0      0
  GPATCH8 WILD-TYPE     38     26     30     28     36     63     20     14
                   vv
clus                CLUS_9
  GPATCH8 MUTATED        0
  GPATCH8 WILD-TYPE     22
D45V6, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               3                36
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPATCH8 MUTATED        0      6      5      3
  GPATCH8 WILD-TYPE    100     66     67    118
D45V7, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               6                66
  CLUS_3               5                67
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPATCH8 MUTATED        2      1      8      0      3
  GPATCH8 WILD-TYPE     57     74     66    119     35
D45V8, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               1                74
  CLUS_3               8                66
  CLUS_4               0               119
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPATCH8 MUTATED        1      8      1      1      3
  GPATCH8 WILD-TYPE     50     68     60     70     92
D45V9, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               8                68
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPATCH8 MUTATED        5      3      0      2      1      0      0      2
  GPATCH8 WILD-TYPE     64     45     39     14     52     20     21     36
                   vv
clus                CLUS_9
  GPATCH8 MUTATED        1
  GPATCH8 WILD-TYPE     49
D45V10, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               5                64
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPATCH8 MUTATED        0      1      0      0      3      1
  GPATCH8 WILD-TYPE     13     15     14     11      8      8
D45V11, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPATCH8 MUTATED        1      0      0      2      0      1      1      0
  GPATCH8 WILD-TYPE     10      7      7      7      8      6     10      9
                   vv
clus                CLUS_9
  GPATCH8 MUTATED        0
  GPATCH8 WILD-TYPE      5
D45V12, multiclass
        clus
vv       GPATCH8 MUTATED GPATCH8 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(46) Variable = ALPK2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALPK2 MUTATED        4      0      1      2      0
  ALPK2 WILD-TYPE     28     18     45     25     23
D46V1, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALPK2 MUTATED        4      2      1
  ALPK2 WILD-TYPE     39     65     35
D46V2, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALPK2 MUTATED        2     11     29
  ALPK2 WILD-TYPE     40    162    118
D46V3, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2            11             162
  CLUS_3            29             118
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALPK2 MUTATED       12      8     15
  ALPK2 WILD-TYPE     50     65     60
D46V4, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1            12              50
  CLUS_2             8              65
  CLUS_3            15              60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALPK2 MUTATED        4     15     17
  ALPK2 WILD-TYPE     66    105     83
D46V5, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             4              66
  CLUS_2            15             105
  CLUS_3            17              83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALPK2 MUTATED        2      1      1      4      3     13      6      4
  ALPK2 WILD-TYPE     39     25     29     25     36     56     14     10
                 vv
clus              CLUS_9
  ALPK2 MUTATED        2
  ALPK2 WILD-TYPE     20
D46V6, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             3              36
  CLUS_6            13              56
  CLUS_7             6              14
  CLUS_8             4              10
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALPK2 MUTATED        8     19      8      7
  ALPK2 WILD-TYPE     92     53     64    114
D46V7, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             8              92
  CLUS_2            19              53
  CLUS_3             8              64
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALPK2 MUTATED        5      8     21      4      4
  ALPK2 WILD-TYPE     54     67     53    115     34
D46V8, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             8              67
  CLUS_3            21              53
  CLUS_4             4             115
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALPK2 MUTATED        9     20      4      2      6
  ALPK2 WILD-TYPE     42     56     57     69     89
D46V9, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             9              42
  CLUS_2            20              56
  CLUS_3             4              57
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALPK2 MUTATED        6      8      2      9      6      4      0      5
  ALPK2 WILD-TYPE     63     40     37      7     47     16     21     33
                 vv
clus              CLUS_9
  ALPK2 MUTATED        1
  ALPK2 WILD-TYPE     49
D46V10, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             8              40
  CLUS_3             2              37
  CLUS_4             9               7
  CLUS_5             6              47
  CLUS_6             4              16
  CLUS_7             0              21
  CLUS_8             5              33
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ALPK2 MUTATED        1      2      1      0      4      0
  ALPK2 WILD-TYPE     12     14     13     11      7      9
D46V11, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALPK2 MUTATED        0      1      0      3      1      1      2      0
  ALPK2 WILD-TYPE     11      6      7      6      7      6      9      9
                 vv
clus              CLUS_9
  ALPK2 MUTATED        0
  ALPK2 WILD-TYPE      5
D46V12, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(47) Variable = C11ORF30 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C11ORF30 MUTATED        6      0      0      1      0
  C11ORF30 WILD-TYPE     26     18     46     26     23
D47V1, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                6                 26
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C11ORF30 MUTATED        6      0      1
  C11ORF30 WILD-TYPE     37     67     35
D47V2, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                6                 37
  CLUS_2                0                 67
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C11ORF30 MUTATED        1      2     18
  C11ORF30 WILD-TYPE     41    171    129
D47V3, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                2                171
  CLUS_3               18                129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C11ORF30 MUTATED        5      2      7
  C11ORF30 WILD-TYPE     57     71     68
D47V4, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                5                 57
  CLUS_2                2                 71
  CLUS_3                7                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C11ORF30 MUTATED        0      5     11
  C11ORF30 WILD-TYPE     70    115     89
D47V5, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                5                115
  CLUS_3               11                 89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C11ORF30 MUTATED        1      1      0      2      1      9      1      1
  C11ORF30 WILD-TYPE     40     25     30     27     38     60     19     13
                    vv
clus                 CLUS_9
  C11ORF30 MUTATED        0
  C11ORF30 WILD-TYPE     22
D47V6, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                2                 27
  CLUS_5                1                 38
  CLUS_6                9                 60
  CLUS_7                1                 19
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C11ORF30 MUTATED        2      7      5      7
  C11ORF30 WILD-TYPE     98     65     67    114
D47V7, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                7                 65
  CLUS_3                5                 67
  CLUS_4                7                114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C11ORF30 MUTATED        2      5      7      2      5
  C11ORF30 WILD-TYPE     57     70     67    117     33
D47V8, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                5                 70
  CLUS_3                7                 67
  CLUS_4                2                117
  CLUS_5                5                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C11ORF30 MUTATED        2      7      3      2      6
  C11ORF30 WILD-TYPE     49     69     58     69     89
D47V9, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                7                 69
  CLUS_3                3                 58
  CLUS_4                2                 69
  CLUS_5                6                 89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C11ORF30 MUTATED        3      3      2      1      4      1      2      3
  C11ORF30 WILD-TYPE     66     45     37     15     49     19     19     35
                    vv
clus                 CLUS_9
  C11ORF30 MUTATED        1
  C11ORF30 WILD-TYPE     49
D47V10, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                3                 45
  CLUS_3                2                 37
  CLUS_4                1                 15
  CLUS_5                4                 49
  CLUS_6                1                 19
  CLUS_7                2                 19
  CLUS_8                3                 35
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C11ORF30 MUTATED        0      1      1      0      1      0
  C11ORF30 WILD-TYPE     13     15     13     11     10      9
D47V11, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C11ORF30 MUTATED        0      1      0      1      0      0      0      0
  C11ORF30 WILD-TYPE     11      6      7      8      8      7     11      9
                    vv
clus                 CLUS_9
  C11ORF30 MUTATED        1
  C11ORF30 WILD-TYPE      4
D47V12, multiclass
        clus
vv       C11ORF30 MUTATED C11ORF30 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  6
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                0                 11
  CLUS_8                0                  9
  CLUS_9                1                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(48) Variable = RPTN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPTN MUTATED        0      0      0      0      0
  RPTN WILD-TYPE     32     18     46     27     23
D48V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPTN MUTATED        0      0      0
  RPTN WILD-TYPE     43     67     36
D48V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPTN MUTATED        2      4      7
  RPTN WILD-TYPE     40    169    140
D48V3, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            2             40
  CLUS_2            4            169
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPTN MUTATED        5      3      5
  RPTN WILD-TYPE     57     70     70
D48V4, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            5             57
  CLUS_2            3             70
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPTN MUTATED        3      3      6
  RPTN WILD-TYPE     67    117     94
D48V5, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            3             67
  CLUS_2            3            117
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RPTN MUTATED        3      0      1      1      2      3      0      2      0
  RPTN WILD-TYPE     38     26     29     28     37     66     20     12     22
D48V6, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            2             12
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPTN MUTATED        3      4      6      0
  RPTN WILD-TYPE     97     68     66    121
D48V7, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            3             97
  CLUS_2            4             68
  CLUS_3            6             66
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPTN MUTATED        4      2      7      0      0
  RPTN WILD-TYPE     55     73     67    119     38
D48V8, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            4             55
  CLUS_2            2             73
  CLUS_3            7             67
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPTN MUTATED        1      7      5      0      0
  RPTN WILD-TYPE     50     69     56     71     95
D48V9, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            1             50
  CLUS_2            7             69
  CLUS_3            5             56
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RPTN MUTATED        3      5      2      2      1      0      0      0      0
  RPTN WILD-TYPE     66     43     37     14     52     20     21     38     50
D48V10, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            3             66
  CLUS_2            5             43
  CLUS_3            2             37
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RPTN MUTATED        0      0      1      0      1      2
  RPTN WILD-TYPE     13     16     13     11     10      7
D48V11, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RPTN MUTATED        1      0      0      0      0      1      2      0      0
  RPTN WILD-TYPE     10      7      7      9      8      6      9      9      5
D48V12, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(49) Variable = ROS1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ROS1 MUTATED        6      0      1      3      0
  ROS1 WILD-TYPE     26     18     45     24     23
D49V1, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ROS1 MUTATED        7      2      1
  ROS1 WILD-TYPE     36     65     35
D49V2, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1            7             36
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ROS1 MUTATED        4     11     32
  ROS1 WILD-TYPE     38    162    115
D49V3, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1            4             38
  CLUS_2           11            162
  CLUS_3           32            115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ROS1 MUTATED       15      6     15
  ROS1 WILD-TYPE     47     67     60
D49V4, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1           15             47
  CLUS_2            6             67
  CLUS_3           15             60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ROS1 MUTATED        3     13     21
  ROS1 WILD-TYPE     67    107     79
D49V5, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1            3             67
  CLUS_2           13            107
  CLUS_3           21             79
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ROS1 MUTATED        3      2      4      2      2     19      1      1      3
  ROS1 WILD-TYPE     38     24     26     27     37     50     19     13     19
D49V6, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            2             24
  CLUS_3            4             26
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6           19             50
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ROS1 MUTATED        8     13     14     12
  ROS1 WILD-TYPE     92     59     58    109
D49V7, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1            8             92
  CLUS_2           13             59
  CLUS_3           14             58
  CLUS_4           12            109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ROS1 MUTATED        4     11     20      5      7
  ROS1 WILD-TYPE     55     64     54    114     31
D49V8, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1            4             55
  CLUS_2           11             64
  CLUS_3           20             54
  CLUS_4            5            114
  CLUS_5            7             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ROS1 MUTATED        7     21      6      2     10
  ROS1 WILD-TYPE     44     55     55     69     85
D49V9, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1            7             44
  CLUS_2           21             55
  CLUS_3            6             55
  CLUS_4            2             69
  CLUS_5           10             85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ROS1 MUTATED       10      9      3      7      5      3      1      6      2
  ROS1 WILD-TYPE     59     39     36      9     48     17     20     32     48
D49V10, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1           10             59
  CLUS_2            9             39
  CLUS_3            3             36
  CLUS_4            7              9
  CLUS_5            5             48
  CLUS_6            3             17
  CLUS_7            1             20
  CLUS_8            6             32
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ROS1 MUTATED        2      4      1      0      5      0
  ROS1 WILD-TYPE     11     12     13     11      6      9
D49V11, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            4             12
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            5              6
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ROS1 MUTATED        2      1      0      1      2      2      2      1      1
  ROS1 WILD-TYPE      9      6      7      8      6      5      9      8      4
D49V12, multiclass
        clus
vv       ROS1 MUTATED ROS1 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            2              6
  CLUS_6            2              5
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(50) Variable = EGR1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EGR1 MUTATED        1      0      0      1      0
  EGR1 WILD-TYPE     31     18     46     26     23
D50V1, multiclass
[1] "Remove cluster labels:" "EGR1 MUTATED"          
clus
  EGR1 MUTATED EGR1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3930     TCGA-AA-3939 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGR1 MUTATED        2      0      0
  EGR1 WILD-TYPE     41     67     36
D50V2, multiclass
[1] "Remove cluster labels:" "EGR1 MUTATED"          
clus
  EGR1 MUTATED EGR1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3930     TCGA-AA-3939 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGR1 MUTATED        1      0      8
  EGR1 WILD-TYPE     41    173    139
D50V3, multiclass
        clus
vv       EGR1 MUTATED EGR1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGR1 MUTATED        2      0      5
  EGR1 WILD-TYPE     60     73     70
D50V4, multiclass
        clus
vv       EGR1 MUTATED EGR1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGR1 MUTATED        0      2      4
  EGR1 WILD-TYPE     70    118     96
D50V5, multiclass
        clus
vv       EGR1 MUTATED EGR1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EGR1 MUTATED        0      0      0      2      0      4      0      0      0
  EGR1 WILD-TYPE     41     26     30     27     39     65     20     14     22
D50V6, multiclass
        clus
vv       EGR1 MUTATED EGR1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EGR1 MUTATED        0      6      1      2
  EGR1 WILD-TYPE    100     66     71    119
D50V7, multiclass
        clus
vv       EGR1 MUTATED EGR1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            6             66
  CLUS_3            1             71
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EGR1 MUTATED        0      1      6      0      2
  EGR1 WILD-TYPE     59     74     68    119     36
D50V8, multiclass
        clus
vv       EGR1 MUTATED EGR1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            6             68
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EGR1 MUTATED        0      7      1      0      1
  EGR1 WILD-TYPE     51     69     60     71     94
D50V9, multiclass
        clus
vv       EGR1 MUTATED EGR1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            7             69
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EGR1 MUTATED        2      0      0      4      1      0      2      0      0
  EGR1 WILD-TYPE     67     48     39     12     52     20     19     38     50
D50V10, multiclass
        clus
vv       EGR1 MUTATED EGR1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            2             19
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EGR1 MUTATED        0      0      1      0      1      0
  EGR1 WILD-TYPE     13     16     13     11     10      9
D50V11, multiclass
[1] "Remove cluster labels:" "EGR1 MUTATED"          
clus
  EGR1 MUTATED EGR1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EGR1 MUTATED        0      0      0      1      0      0      1      0      0
  EGR1 WILD-TYPE     11      7      7      8      8      7     10      9      5
D50V12, multiclass
[1] "Remove cluster labels:" "EGR1 MUTATED"          
clus
  EGR1 MUTATED EGR1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" "EGR1 WILD-TYPE" 

Clustering(51) Variable = PTEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTEN MUTATED        4      0      1      2      1
  PTEN WILD-TYPE     28     18     45     25     22
D51V1, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        5      2      1
  PTEN WILD-TYPE     38     65     35
D51V2, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            5             38
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED       16     66     70
  PTEN WILD-TYPE     26    107     77
D51V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           16             26
  CLUS_2           66            107
  CLUS_3           70             77
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED       38     54     54
  PTEN WILD-TYPE     24     19     21
D51V4, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           38             24
  CLUS_2           54             19
  CLUS_3           54             21
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED       21     55     58
  PTEN WILD-TYPE     49     65     42
D51V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           21             49
  CLUS_2           55             65
  CLUS_3           58             42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PTEN MUTATED       20     11      6     19      8     38     11      8     13
  PTEN WILD-TYPE     21     15     24     10     31     31      9      6      9
D51V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           20             21
  CLUS_2           11             15
  CLUS_3            6             24
  CLUS_4           19             10
  CLUS_5            8             31
  CLUS_6           38             31
  CLUS_7           11              9
  CLUS_8            8              6
  CLUS_9           13              9
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED       51     48     45      9
  PTEN WILD-TYPE     49     24     27    112
D51V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           51             49
  CLUS_2           48             24
  CLUS_3           45             27
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTEN MUTATED       40     50     53      5      5
  PTEN WILD-TYPE     19     25     21    114     33
D51V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           40             19
  CLUS_2           50             25
  CLUS_3           53             21
  CLUS_4            5            114
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTEN MUTATED       36     55     32     20     10
  PTEN WILD-TYPE     15     21     29     51     85
D51V9, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           36             15
  CLUS_2           55             21
  CLUS_3           32             29
  CLUS_4           20             51
  CLUS_5           10             85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PTEN MUTATED       43     36     15     15     18     15      1      6      4
  PTEN WILD-TYPE     26     12     24      1     35      5     20     32     46
D51V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           43             26
  CLUS_2           36             12
  CLUS_3           15             24
  CLUS_4           15              1
  CLUS_5           18             35
  CLUS_6           15              5
  CLUS_7            1             20
  CLUS_8            6             32
  CLUS_9            4             46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTEN MUTATED        9     10      7      8      8      3
  PTEN WILD-TYPE      4      6      7      3      3      6
D51V11, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            9              4
  CLUS_2           10              6
  CLUS_3            7              7
  CLUS_4            8              3
  CLUS_5            8              3
  CLUS_6            3              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PTEN MUTATED        6      6      4      7      3      2      8      6      3
  PTEN WILD-TYPE      5      1      3      2      5      5      3      3      2
D51V12, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            6              5
  CLUS_2            6              1
  CLUS_3            4              3
  CLUS_4            7              2
  CLUS_5            3              5
  CLUS_6            2              5
  CLUS_7            8              3
  CLUS_8            6              3
  CLUS_9            3              2
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(52) Variable = CTNNB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNB1 MUTATED        0      1      1      4      1
  CTNNB1 WILD-TYPE     32     17     45     23     22
D52V1, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              0               32
  CLUS_2              1               17
  CLUS_3              1               45
  CLUS_4              4               23
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        1      5      1
  CTNNB1 WILD-TYPE     42     62     35
D52V2, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              5               62
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        7     33     34
  CTNNB1 WILD-TYPE     35    140    113
D52V3, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              7               35
  CLUS_2             33              140
  CLUS_3             34              113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED       23     21     23
  CTNNB1 WILD-TYPE     39     52     52
D52V4, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1             23               39
  CLUS_2             21               52
  CLUS_3             23               52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        8     24     34
  CTNNB1 WILD-TYPE     62     96     66
D52V5, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              8               62
  CLUS_2             24               96
  CLUS_3             34               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTNNB1 MUTATED        7      2      4      8      5     25      5      2
  CTNNB1 WILD-TYPE     34     24     26     21     34     44     15     12
                  vv
clus               CLUS_9
  CTNNB1 MUTATED        8
  CTNNB1 WILD-TYPE     14
D52V6, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              7               34
  CLUS_2              2               24
  CLUS_3              4               26
  CLUS_4              8               21
  CLUS_5              5               34
  CLUS_6             25               44
  CLUS_7              5               15
  CLUS_8              2               12
  CLUS_9              8               14
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNB1 MUTATED       25     22     20      7
  CTNNB1 WILD-TYPE     75     50     52    114
D52V7, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1             25               75
  CLUS_2             22               50
  CLUS_3             20               52
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNB1 MUTATED       17     23     25      8      1
  CTNNB1 WILD-TYPE     42     52     49    111     37
D52V8, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1             17               42
  CLUS_2             23               52
  CLUS_3             25               49
  CLUS_4              8              111
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNB1 MUTATED       13     31     13      9      6
  CTNNB1 WILD-TYPE     38     45     48     62     89
D52V9, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1             13               38
  CLUS_2             31               45
  CLUS_3             13               48
  CLUS_4              9               62
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTNNB1 MUTATED       22     13     10      9     10      4      0      1
  CTNNB1 WILD-TYPE     47     35     29      7     43     16     21     37
                  vv
clus               CLUS_9
  CTNNB1 MUTATED        3
  CTNNB1 WILD-TYPE     47
D52V10, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1             22               47
  CLUS_2             13               35
  CLUS_3             10               29
  CLUS_4              9                7
  CLUS_5             10               43
  CLUS_6              4               16
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTNNB1 MUTATED        1      2      4      2      4      4
  CTNNB1 WILD-TYPE     12     14     10      9      7      5
D52V11, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              4               10
  CLUS_4              2                9
  CLUS_5              4                7
  CLUS_6              4                5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTNNB1 MUTATED        4      1      1      1      2      0      5      3
  CTNNB1 WILD-TYPE      7      6      6      8      6      7      6      6
                  vv
clus               CLUS_9
  CTNNB1 MUTATED        0
  CTNNB1 WILD-TYPE      5
D52V12, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              4                7
  CLUS_2              1                6
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              5                6
  CLUS_8              3                6
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(53) Variable = RBM44 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM44 MUTATED        3      0      0      2      0
  RBM44 WILD-TYPE     29     18     46     25     23
D53V1, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM44 MUTATED        3      1      1
  RBM44 WILD-TYPE     40     66     35
D53V2, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM44 MUTATED        1      0     12
  RBM44 WILD-TYPE     41    173    135
D53V3, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM44 MUTATED        5      0      3
  RBM44 WILD-TYPE     57     73     72
D53V4, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM44 MUTATED        1      4      7
  RBM44 WILD-TYPE     69    116     93
D53V5, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM44 MUTATED        1      2      1      0      1      6      0      1
  RBM44 WILD-TYPE     40     24     29     29     38     63     20     13
                 vv
clus              CLUS_9
  RBM44 MUTATED        0
  RBM44 WILD-TYPE     22
D53V6, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM44 MUTATED        0      4      3      6
  RBM44 WILD-TYPE    100     68     69    115
D53V7, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM44 MUTATED        1      0      5      5      2
  RBM44 WILD-TYPE     58     75     69    114     36
D53V8, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             5             114
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM44 MUTATED        0      3      3      2      4
  RBM44 WILD-TYPE     51     73     58     69     91
D53V9, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM44 MUTATED        2      2      0      2      2      1      1      1
  RBM44 WILD-TYPE     67     46     39     14     51     19     20     37
                 vv
clus              CLUS_9
  RBM44 MUTATED        1
  RBM44 WILD-TYPE     49
D53V10, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBM44 MUTATED        0      0      1      0      2      0
  RBM44 WILD-TYPE     13     16     13     11      9      9
D53V11, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM44 MUTATED        0      0      0      1      1      1      0      0
  RBM44 WILD-TYPE     11      7      7      8      7      6     11      9
                 vv
clus              CLUS_9
  RBM44 MUTATED        0
  RBM44 WILD-TYPE      5
D53V12, multiclass
        clus
vv       RBM44 MUTATED RBM44 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(54) Variable = ECT2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ECT2 MUTATED        4      0      0      1      0
  ECT2 WILD-TYPE     28     18     46     26     23
D54V1, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ECT2 MUTATED        4      1      0
  ECT2 WILD-TYPE     39     66     36
D54V2, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ECT2 MUTATED        0      6     12
  ECT2 WILD-TYPE     42    167    135
D54V3, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            6            167
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ECT2 MUTATED        5      4      4
  ECT2 WILD-TYPE     57     69     71
D54V4, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            4             69
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ECT2 MUTATED        1      5      9
  ECT2 WILD-TYPE     69    115     91
D54V5, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ECT2 MUTATED        2      0      1      2      2      5      2      1      0
  ECT2 WILD-TYPE     39     26     29     27     37     64     18     13     22
D54V6, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ECT2 MUTATED        3      6      4      5
  ECT2 WILD-TYPE     97     66     68    116
D54V7, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            6             66
  CLUS_3            4             68
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ECT2 MUTATED        4      1      8      1      4
  ECT2 WILD-TYPE     55     74     66    118     34
D54V8, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            1             74
  CLUS_3            8             66
  CLUS_4            1            118
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ECT2 MUTATED        1      8      3      1      4
  ECT2 WILD-TYPE     50     68     58     70     91
D54V9, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            8             68
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ECT2 MUTATED        6      4      0      2      1      1      0      3      0
  ECT2 WILD-TYPE     63     44     39     14     52     19     21     35     50
D54V10, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ECT2 MUTATED        0      1      1      1      2      0
  ECT2 WILD-TYPE     13     15     13     10      9      9
D54V11, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ECT2 MUTATED        1      0      1      1      0      1      1      0      0
  ECT2 WILD-TYPE     10      7      6      8      8      6     10      9      5
D54V12, multiclass
        clus
vv       ECT2 MUTATED ECT2 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(55) Variable = DDX26B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX26B MUTATED        1      0      0      0      0
  DDX26B WILD-TYPE     31     18     46     27     23
D55V1, multiclass
[1] "Remove cluster labels:" "DDX26B MUTATED"        
clus
  DDX26B MUTATED DDX26B WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AY-4071 
"DDX26B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DDX26B MUTATED        1      0      0
  DDX26B WILD-TYPE     42     67     36
D55V2, multiclass
[1] "Remove cluster labels:" "DDX26B MUTATED"        
clus
  DDX26B MUTATED DDX26B WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" "DDX26B WILD-TYPE" 
      TCGA-AY-4071 
"DDX26B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DDX26B MUTATED        0      1     14
  DDX26B WILD-TYPE     42    172    133
D55V3, multiclass
        clus
vv       DDX26B MUTATED DDX26B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DDX26B MUTATED        5      0      9
  DDX26B WILD-TYPE     57     73     66
D55V4, multiclass
        clus
vv       DDX26B MUTATED DDX26B WILD-TYPE
  CLUS_1              5               57
  CLUS_2              0               73
  CLUS_3              9               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DDX26B MUTATED        2      2     10
  DDX26B WILD-TYPE     68    118     90
D55V5, multiclass
        clus
vv       DDX26B MUTATED DDX26B WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX26B MUTATED        1      0      0      2      1      6      4      0
  DDX26B WILD-TYPE     40     26     30     27     38     63     16     14
                  vv
clus               CLUS_9
  DDX26B MUTATED        0
  DDX26B WILD-TYPE     22
D55V6, multiclass
        clus
vv       DDX26B MUTATED DDX26B WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              6               63
  CLUS_7              4               16
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDX26B MUTATED        0      7      7      1
  DDX26B WILD-TYPE    100     65     65    120
D55V7, multiclass
        clus
vv       DDX26B MUTATED DDX26B WILD-TYPE
  CLUS_1              0              100
  CLUS_2              7               65
  CLUS_3              7               65
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX26B MUTATED        2      1     11      0      1
  DDX26B WILD-TYPE     57     74     63    119     37
D55V8, multiclass
        clus
vv       DDX26B MUTATED DDX26B WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3             11               63
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX26B MUTATED        0     13      1      0      1
  DDX26B WILD-TYPE     51     63     60     71     94
D55V9, multiclass
        clus
vv       DDX26B MUTATED DDX26B WILD-TYPE
  CLUS_1              0               51
  CLUS_2             13               63
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX26B MUTATED        3      6      0      4      1      0      0      1
  DDX26B WILD-TYPE     66     42     39     12     52     20     21     37
                  vv
clus               CLUS_9
  DDX26B MUTATED        0
  DDX26B WILD-TYPE     50
D55V10, multiclass
        clus
vv       DDX26B MUTATED DDX26B WILD-TYPE
  CLUS_1              3               66
  CLUS_2              6               42
  CLUS_3              0               39
  CLUS_4              4               12
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDX26B MUTATED        0      0      1      1      2      0
  DDX26B WILD-TYPE     13     16     13     10      9      9
D55V11, multiclass
        clus
vv       DDX26B MUTATED DDX26B WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX26B MUTATED        0      0      0      0      1      1      2      0
  DDX26B WILD-TYPE     11      7      7      9      7      6      9      9
                  vv
clus               CLUS_9
  DDX26B MUTATED        0
  DDX26B WILD-TYPE      5
D55V12, multiclass
        clus
vv       DDX26B MUTATED DDX26B WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(56) Variable = UBQLN2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBQLN2 MUTATED        2      0      0      0      0
  UBQLN2 WILD-TYPE     30     18     46     27     23
D56V1, multiclass
[1] "Remove cluster labels:" "UBQLN2 MUTATED"        
clus
  UBQLN2 MUTATED UBQLN2 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UBQLN2 MUTATED        2      0      0
  UBQLN2 WILD-TYPE     41     67     36
D56V2, multiclass
[1] "Remove cluster labels:" "UBQLN2 MUTATED"        
clus
  UBQLN2 MUTATED UBQLN2 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UBQLN2 MUTATED        0      0     10
  UBQLN2 WILD-TYPE     42    173    137
D56V3, multiclass
        clus
vv       UBQLN2 MUTATED UBQLN2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UBQLN2 MUTATED        3      0      5
  UBQLN2 WILD-TYPE     59     73     70
D56V4, multiclass
        clus
vv       UBQLN2 MUTATED UBQLN2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UBQLN2 MUTATED        0      3      7
  UBQLN2 WILD-TYPE     70    117     93
D56V5, multiclass
        clus
vv       UBQLN2 MUTATED UBQLN2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UBQLN2 MUTATED        0      1      0      2      0      7      0      0
  UBQLN2 WILD-TYPE     41     25     30     27     39     62     20     14
                  vv
clus               CLUS_9
  UBQLN2 MUTATED        0
  UBQLN2 WILD-TYPE     22
D56V6, multiclass
        clus
vv       UBQLN2 MUTATED UBQLN2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              7               62
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UBQLN2 MUTATED        0      6      2      2
  UBQLN2 WILD-TYPE    100     66     70    119
D56V7, multiclass
        clus
vv       UBQLN2 MUTATED UBQLN2 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              6               66
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBQLN2 MUTATED        1      0      7      1      1
  UBQLN2 WILD-TYPE     58     75     67    118     37
D56V8, multiclass
        clus
vv       UBQLN2 MUTATED UBQLN2 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              7               67
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBQLN2 MUTATED        0      7      1      0      1
  UBQLN2 WILD-TYPE     51     69     60     71     94
D56V9, multiclass
        clus
vv       UBQLN2 MUTATED UBQLN2 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              7               69
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UBQLN2 MUTATED        3      2      0      3      0      0      1      0
  UBQLN2 WILD-TYPE     66     46     39     13     53     20     20     38
                  vv
clus               CLUS_9
  UBQLN2 MUTATED        0
  UBQLN2 WILD-TYPE     50
D56V10, multiclass
        clus
vv       UBQLN2 MUTATED UBQLN2 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UBQLN2 MUTATED        0      0      0      0      2      0
  UBQLN2 WILD-TYPE     13     16     14     11      9      9
D56V11, multiclass
[1] "Remove cluster labels:" "UBQLN2 MUTATED"        
clus
  UBQLN2 MUTATED UBQLN2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511       TCGA-AD-5900 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901       TCGA-AD-6963 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196       TCGA-AZ-4323 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UBQLN2 MUTATED        0      0      0      1      0      1      0      0
  UBQLN2 WILD-TYPE     11      7      7      8      8      6     11      9
                  vv
clus               CLUS_9
  UBQLN2 MUTATED        0
  UBQLN2 WILD-TYPE      5
D56V12, multiclass
[1] "Remove cluster labels:" "UBQLN2 MUTATED"        
clus
  UBQLN2 MUTATED UBQLN2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511       TCGA-AD-5900 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901       TCGA-AD-6963 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196       TCGA-AZ-4323 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" "UBQLN2 WILD-TYPE" 

Clustering(57) Variable = THOC7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THOC7 MUTATED        1      0      0      0      0
  THOC7 WILD-TYPE     31     18     46     27     23
D57V1, multiclass
[1] "Remove cluster labels:" "THOC7 MUTATED"         
clus
  THOC7 MUTATED THOC7 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A01K      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AY-4071 
"THOC7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC7 MUTATED        1      0      0
  THOC7 WILD-TYPE     42     67     36
D57V2, multiclass
[1] "Remove cluster labels:" "THOC7 MUTATED"         
clus
  THOC7 MUTATED THOC7 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A01K      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" "THOC7 WILD-TYPE" 
     TCGA-AY-4071 
"THOC7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC7 MUTATED        1      6      3
  THOC7 WILD-TYPE     41    167    144
D57V3, multiclass
        clus
vv       THOC7 MUTATED THOC7 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             6             167
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC7 MUTATED        4      3      2
  THOC7 WILD-TYPE     58     70     73
D57V4, multiclass
        clus
vv       THOC7 MUTATED THOC7 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC7 MUTATED        1      5      4
  THOC7 WILD-TYPE     69    115     96
D57V5, multiclass
        clus
vv       THOC7 MUTATED THOC7 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THOC7 MUTATED        1      2      1      2      0      3      0      0
  THOC7 WILD-TYPE     40     24     29     27     39     66     20     14
                 vv
clus              CLUS_9
  THOC7 MUTATED        1
  THOC7 WILD-TYPE     21
D57V6, multiclass
        clus
vv       THOC7 MUTATED THOC7 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  THOC7 MUTATED        3      2      4      1
  THOC7 WILD-TYPE     97     70     68    120
D57V7, multiclass
        clus
vv       THOC7 MUTATED THOC7 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             2              70
  CLUS_3             4              68
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THOC7 MUTATED        4      4      0      1      1
  THOC7 WILD-TYPE     55     71     74    118     37
D57V8, multiclass
        clus
vv       THOC7 MUTATED THOC7 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             4              71
  CLUS_3             0              74
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THOC7 MUTATED        4      0      4      0      1
  THOC7 WILD-TYPE     47     76     57     71     94
D57V9, multiclass
        clus
vv       THOC7 MUTATED THOC7 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             0              76
  CLUS_3             4              57
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THOC7 MUTATED        1      3      1      0      1      2      0      1
  THOC7 WILD-TYPE     68     45     38     16     52     18     21     37
                 vv
clus              CLUS_9
  THOC7 MUTATED        0
  THOC7 WILD-TYPE     50
D57V10, multiclass
        clus
vv       THOC7 MUTATED THOC7 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  THOC7 MUTATED        1      3      1      0      0      0
  THOC7 WILD-TYPE     12     13     13     11     11      9
D57V11, multiclass
        clus
vv       THOC7 MUTATED THOC7 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             3              13
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THOC7 MUTATED        1      2      0      0      0      1      0      0
  THOC7 WILD-TYPE     10      5      7      9      8      6     11      9
                 vv
clus              CLUS_9
  THOC7 MUTATED        1
  THOC7 WILD-TYPE      4
D57V12, multiclass
        clus
vv       THOC7 MUTATED THOC7 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             2               5
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(58) Variable = TOP2B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOP2B MUTATED        1      0      0      2      1
  TOP2B WILD-TYPE     31     18     46     25     22
D58V1, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TOP2B MUTATED        2      1      1
  TOP2B WILD-TYPE     41     66     35
D58V2, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TOP2B MUTATED        3      4     15
  TOP2B WILD-TYPE     39    169    132
D58V3, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             3              39
  CLUS_2             4             169
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TOP2B MUTATED        6      4      7
  TOP2B WILD-TYPE     56     69     68
D58V4, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             6              56
  CLUS_2             4              69
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TOP2B MUTATED        1     10      9
  TOP2B WILD-TYPE     69    110     91
D58V5, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             1              69
  CLUS_2            10             110
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TOP2B MUTATED        0      2      3      4      1      5      3      1
  TOP2B WILD-TYPE     41     24     27     25     38     64     17     13
                 vv
clus              CLUS_9
  TOP2B MUTATED        1
  TOP2B WILD-TYPE     21
D58V6, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             3              27
  CLUS_4             4              25
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TOP2B MUTATED        3     10      3      7
  TOP2B WILD-TYPE     97     62     69    114
D58V7, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             3              97
  CLUS_2            10              62
  CLUS_3             3              69
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOP2B MUTATED        2      4     10      3      4
  TOP2B WILD-TYPE     57     71     64    116     34
D58V8, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3            10              64
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOP2B MUTATED        2     11      1      2      7
  TOP2B WILD-TYPE     49     65     60     69     88
D58V9, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             2              49
  CLUS_2            11              65
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TOP2B MUTATED        4      3      2      4      0      3      0      4
  TOP2B WILD-TYPE     65     45     37     12     53     17     21     34
                 vv
clus              CLUS_9
  TOP2B MUTATED        3
  TOP2B WILD-TYPE     47
D58V10, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             2              37
  CLUS_4             4              12
  CLUS_5             0              53
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TOP2B MUTATED        0      0      2      1      2      0
  TOP2B WILD-TYPE     13     16     12     10      9      9
D58V11, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TOP2B MUTATED        0      0      0      2      0      0      2      0
  TOP2B WILD-TYPE     11      7      7      7      8      7      9      9
                 vv
clus              CLUS_9
  TOP2B MUTATED        1
  TOP2B WILD-TYPE      4
D58V12, multiclass
        clus
vv       TOP2B MUTATED TOP2B WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(59) Variable = RB1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RB1 MUTATED        2      0      1      1      0
  RB1 WILD-TYPE     30     18     45     26     23
D59V1, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           1            45
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        2      1      1
  RB1 WILD-TYPE     41     66     35
D59V2, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            41
  CLUS_2           1            66
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED       11     32     45
  RB1 WILD-TYPE     31    141    102
D59V3, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          11            31
  CLUS_2          32           141
  CLUS_3          45           102
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED       23     24     37
  RB1 WILD-TYPE     39     49     38
D59V4, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          23            39
  CLUS_2          24            49
  CLUS_3          37            38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED       13     30     35
  RB1 WILD-TYPE     57     90     65
D59V5, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          13            57
  CLUS_2          30            90
  CLUS_3          35            65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RB1 MUTATED       10      5      3      9      9     22      8      5      7
  RB1 WILD-TYPE     31     21     27     20     30     47     12      9     15
D59V6, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          10            31
  CLUS_2           5            21
  CLUS_3           3            27
  CLUS_4           9            20
  CLUS_5           9            30
  CLUS_6          22            47
  CLUS_7           8            12
  CLUS_8           5             9
  CLUS_9           7            15
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED       23     32     26      7
  RB1 WILD-TYPE     77     40     46    114
D59V7, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          23            77
  CLUS_2          32            40
  CLUS_3          26            46
  CLUS_4           7           114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RB1 MUTATED       21     24     36      5      2
  RB1 WILD-TYPE     38     51     38    114     36
D59V8, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          21            38
  CLUS_2          24            51
  CLUS_3          36            38
  CLUS_4           5           114
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RB1 MUTATED       18     37     17     12      4
  RB1 WILD-TYPE     33     39     44     59     91
D59V9, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          18            33
  CLUS_2          37            39
  CLUS_3          17            44
  CLUS_4          12            59
  CLUS_5           4            91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RB1 MUTATED       26     20      4     10     17      6      0      1      4
  RB1 WILD-TYPE     43     28     35      6     36     14     21     37     46
D59V10, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          26            43
  CLUS_2          20            28
  CLUS_3           4            35
  CLUS_4          10             6
  CLUS_5          17            36
  CLUS_6           6            14
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           4            46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RB1 MUTATED        4      3      6      3      4      2
  RB1 WILD-TYPE      9     13      8      8      7      7
D59V11, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           4             9
  CLUS_2           3            13
  CLUS_3           6             8
  CLUS_4           3             8
  CLUS_5           4             7
  CLUS_6           2             7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RB1 MUTATED        3      0      2      4      4      3      4      1      1
  RB1 WILD-TYPE      8      7      5      5      4      4      7      8      4
D59V12, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3             8
  CLUS_2           0             7
  CLUS_3           2             5
  CLUS_4           4             5
  CLUS_5           4             4
  CLUS_6           3             4
  CLUS_7           4             7
  CLUS_8           1             8
  CLUS_9           1             4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(60) Variable = ALDH1A3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALDH1A3 MUTATED        4      0      0      1      0
  ALDH1A3 WILD-TYPE     28     18     46     26     23
D60V1, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ALDH1A3 MUTATED        3      1      1
  ALDH1A3 WILD-TYPE     40     66     35
D60V2, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ALDH1A3 MUTATED        3      2     13
  ALDH1A3 WILD-TYPE     39    171    134
D60V3, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               3                39
  CLUS_2               2               171
  CLUS_3              13               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ALDH1A3 MUTATED        7      2      4
  ALDH1A3 WILD-TYPE     55     71     71
D60V4, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               7                55
  CLUS_2               2                71
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ALDH1A3 MUTATED        1      8      5
  ALDH1A3 WILD-TYPE     69    112     95
D60V5, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               8               112
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALDH1A3 MUTATED        1      2      0      3      1      4      1      1
  ALDH1A3 WILD-TYPE     40     24     30     26     38     65     19     13
                   vv
clus                CLUS_9
  ALDH1A3 MUTATED        1
  ALDH1A3 WILD-TYPE     21
D60V6, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               2                24
  CLUS_3               0                30
  CLUS_4               3                26
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALDH1A3 MUTATED        0      8      4      5
  ALDH1A3 WILD-TYPE    100     64     68    116
D60V7, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               8                64
  CLUS_3               4                68
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALDH1A3 MUTATED        1      1     10      2      3
  ALDH1A3 WILD-TYPE     58     74     64    117     35
D60V8, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3              10                64
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALDH1A3 MUTATED        0      8      3      2      5
  ALDH1A3 WILD-TYPE     51     68     58     69     90
D60V9, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               8                68
  CLUS_3               3                58
  CLUS_4               2                69
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALDH1A3 MUTATED        3      3      0      4      2      1      0      3
  ALDH1A3 WILD-TYPE     66     45     39     12     51     19     21     35
                   vv
clus                CLUS_9
  ALDH1A3 MUTATED        2
  ALDH1A3 WILD-TYPE     48
D60V10, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               4                12
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ALDH1A3 MUTATED        0      1      1      0      3      0
  ALDH1A3 WILD-TYPE     13     15     13     11      8      9
D60V11, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALDH1A3 MUTATED        0      1      0      2      1      0      1      0
  ALDH1A3 WILD-TYPE     11      6      7      7      7      7     10      9
                   vv
clus                CLUS_9
  ALDH1A3 MUTATED        0
  ALDH1A3 WILD-TYPE      5
D60V12, multiclass
        clus
vv       ALDH1A3 MUTATED ALDH1A3 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(61) Variable = GMPS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GMPS MUTATED        4      0      0      2      0
  GMPS WILD-TYPE     28     18     46     25     23
D61V1, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GMPS MUTATED        3      2      1
  GMPS WILD-TYPE     40     65     35
D61V2, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            3             40
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GMPS MUTATED        3      2     12
  GMPS WILD-TYPE     39    171    135
D61V3, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            3             39
  CLUS_2            2            171
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GMPS MUTATED        6      3      3
  GMPS WILD-TYPE     56     70     72
D61V4, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            6             56
  CLUS_2            3             70
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GMPS MUTATED        0      4     10
  GMPS WILD-TYPE     70    116     90
D61V5, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GMPS MUTATED        3      0      2      1      2      6      0      0      0
  GMPS WILD-TYPE     38     26     28     28     37     63     20     14     22
D61V6, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GMPS MUTATED        3      4      4      6
  GMPS WILD-TYPE     97     68     68    115
D61V7, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            3             97
  CLUS_2            4             68
  CLUS_3            4             68
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GMPS MUTATED        2      3      5      4      3
  GMPS WILD-TYPE     57     72     69    115     35
D61V8, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            5             69
  CLUS_4            4            115
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GMPS MUTATED        3      3      4      1      5
  GMPS WILD-TYPE     48     73     57     70     90
D61V9, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            3             48
  CLUS_2            3             73
  CLUS_3            4             57
  CLUS_4            1             70
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GMPS MUTATED        2      4      0      2      3      1      0      3      1
  GMPS WILD-TYPE     67     44     39     14     50     19     21     35     49
D61V10, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GMPS MUTATED        0      2      0      1      0      0
  GMPS WILD-TYPE     13     14     14     10     11      9
D61V11, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GMPS MUTATED        2      0      1      0      0      0      0      0      0
  GMPS WILD-TYPE      9      7      6      9      8      7     11      9      5
D61V12, multiclass
        clus
vv       GMPS MUTATED GMPS WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(62) Variable = KIAA1586 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1586 MUTATED        3      0      0      0      0
  KIAA1586 WILD-TYPE     29     18     46     27     23
D62V1, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                0                 27
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1586 MUTATED        2      0      1
  KIAA1586 WILD-TYPE     41     67     35
D62V2, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                0                 67
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1586 MUTATED        0      2      8
  KIAA1586 WILD-TYPE     42    171    139
D62V3, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                2                171
  CLUS_3                8                139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1586 MUTATED        4      2      2
  KIAA1586 WILD-TYPE     58     71     73
D62V4, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                2                 71
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1586 MUTATED        2      3      4
  KIAA1586 WILD-TYPE     68    117     96
D62V5, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                3                117
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1586 MUTATED        2      1      0      2      0      2      2      0
  KIAA1586 WILD-TYPE     39     25     30     27     39     67     18     14
                    vv
clus                 CLUS_9
  KIAA1586 MUTATED        0
  KIAA1586 WILD-TYPE     22
D62V6, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                2                 27
  CLUS_5                0                 39
  CLUS_6                2                 67
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1586 MUTATED        1      2      4      4
  KIAA1586 WILD-TYPE     99     70     68    117
D62V7, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                2                 70
  CLUS_3                4                 68
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1586 MUTATED        2      2      3      2      2
  KIAA1586 WILD-TYPE     57     73     71    117     36
D62V8, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                2                 73
  CLUS_3                3                 71
  CLUS_4                2                117
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1586 MUTATED        1      3      1      2      4
  KIAA1586 WILD-TYPE     50     73     60     69     91
D62V9, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                3                 73
  CLUS_3                1                 60
  CLUS_4                2                 69
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1586 MUTATED        1      3      0      2      1      0      0      2
  KIAA1586 WILD-TYPE     68     45     39     14     52     20     21     36
                    vv
clus                 CLUS_9
  KIAA1586 MUTATED        2
  KIAA1586 WILD-TYPE     48
D62V10, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA1586 MUTATED        0      0      0      1      2      1
  KIAA1586 WILD-TYPE     13     16     14     10      9      8
D62V11, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                0                 16
  CLUS_3                0                 14
  CLUS_4                1                 10
  CLUS_5                2                  9
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1586 MUTATED        0      0      1      0      1      0      1      1
  KIAA1586 WILD-TYPE     11      7      6      9      7      7     10      8
                    vv
clus                 CLUS_9
  KIAA1586 MUTATED        0
  KIAA1586 WILD-TYPE      5
D62V12, multiclass
        clus
vv       KIAA1586 MUTATED KIAA1586 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                1                  6
  CLUS_4                0                  9
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                1                  8
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(63) Variable = L1TD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  L1TD1 MUTATED        4      0      0      2      0
  L1TD1 WILD-TYPE     28     18     46     25     23
D63V1, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  L1TD1 MUTATED        4      1      1
  L1TD1 WILD-TYPE     39     66     35
D63V2, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  L1TD1 MUTATED        1      3     13
  L1TD1 WILD-TYPE     41    170    134
D63V3, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  L1TD1 MUTATED        6      1      5
  L1TD1 WILD-TYPE     56     72     70
D63V4, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  L1TD1 MUTATED        2      8      4
  L1TD1 WILD-TYPE     68    112     96
D63V5, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             8             112
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  L1TD1 MUTATED        3      2      1      1      2      3      1      1
  L1TD1 WILD-TYPE     38     24     29     28     37     66     19     13
                 vv
clus              CLUS_9
  L1TD1 MUTATED        0
  L1TD1 WILD-TYPE     22
D63V6, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  L1TD1 MUTATED        2      6      3      6
  L1TD1 WILD-TYPE     98     66     69    115
D63V7, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             3              69
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  L1TD1 MUTATED        2      2      6      3      4
  L1TD1 WILD-TYPE     57     73     68    116     34
D63V8, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  L1TD1 MUTATED        2      5      2      1      6
  L1TD1 WILD-TYPE     49     71     59     70     89
D63V9, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  L1TD1 MUTATED        2      2      2      3      1      1      0      4
  L1TD1 WILD-TYPE     67     46     37     13     52     19     21     34
                 vv
clus              CLUS_9
  L1TD1 MUTATED        1
  L1TD1 WILD-TYPE     49
D63V10, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  L1TD1 MUTATED        0      1      0      0      2      0
  L1TD1 WILD-TYPE     13     15     14     11      9      9
D63V11, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  L1TD1 MUTATED        0      1      0      1      0      1      0      0
  L1TD1 WILD-TYPE     11      6      7      8      8      6     11      9
                 vv
clus              CLUS_9
  L1TD1 MUTATED        0
  L1TD1 WILD-TYPE      5
D63V12, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(64) Variable = NLRC4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLRC4 MUTATED        3      0      0      1      0
  NLRC4 WILD-TYPE     29     18     46     26     23
D64V1, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRC4 MUTATED        3      1      0
  NLRC4 WILD-TYPE     40     66     36
D64V2, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRC4 MUTATED        1      8     15
  NLRC4 WILD-TYPE     41    165    132
D64V3, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             8             165
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRC4 MUTATED        9      4      7
  NLRC4 WILD-TYPE     53     69     68
D64V4, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             9              53
  CLUS_2             4              69
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRC4 MUTATED        4      6      9
  NLRC4 WILD-TYPE     66    114     91
D64V5, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             6             114
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NLRC4 MUTATED        1      1      1      1      4      7      3      1
  NLRC4 WILD-TYPE     40     25     29     28     35     62     17     13
                 vv
clus              CLUS_9
  NLRC4 MUTATED        0
  NLRC4 WILD-TYPE     22
D64V6, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             4              35
  CLUS_6             7              62
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NLRC4 MUTATED        4      6      9      5
  NLRC4 WILD-TYPE     96     66     63    116
D64V7, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             6              66
  CLUS_3             9              63
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLRC4 MUTATED        5      4     10      2      3
  NLRC4 WILD-TYPE     54     71     64    117     35
D64V8, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             4              71
  CLUS_3            10              64
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLRC4 MUTATED        4     11      5      0      4
  NLRC4 WILD-TYPE     47     65     56     71     91
D64V9, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             4              47
  CLUS_2            11              65
  CLUS_3             5              56
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NLRC4 MUTATED        9      7      0      2      1      2      0      3
  NLRC4 WILD-TYPE     60     41     39     14     52     18     21     35
                 vv
clus              CLUS_9
  NLRC4 MUTATED        0
  NLRC4 WILD-TYPE     50
D64V10, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             9              60
  CLUS_2             7              41
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NLRC4 MUTATED        1      1      1      1      2      1
  NLRC4 WILD-TYPE     12     15     13     10      9      8
D64V11, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NLRC4 MUTATED        2      0      0      1      1      1      2      0
  NLRC4 WILD-TYPE      9      7      7      8      7      6      9      9
                 vv
clus              CLUS_9
  NLRC4 MUTATED        0
  NLRC4 WILD-TYPE      5
D64V12, multiclass
        clus
vv       NLRC4 MUTATED NLRC4 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(65) Variable = ZDHHC7 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZDHHC7 MUTATED        4      0      0      0      0
  ZDHHC7 WILD-TYPE     28     18     46     27     23
D65V1, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZDHHC7 MUTATED        3      0      1
  ZDHHC7 WILD-TYPE     40     67     35
D65V2, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZDHHC7 MUTATED        1      2      9
  ZDHHC7 WILD-TYPE     41    171    138
D65V3, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZDHHC7 MUTATED        5      1      2
  ZDHHC7 WILD-TYPE     57     72     73
D65V4, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZDHHC7 MUTATED        0      2      7
  ZDHHC7 WILD-TYPE     70    118     93
D65V5, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZDHHC7 MUTATED        0      0      0      0      2      6      1      0
  ZDHHC7 WILD-TYPE     41     26     30     29     37     63     19     14
                  vv
clus               CLUS_9
  ZDHHC7 MUTATED        0
  ZDHHC7 WILD-TYPE     22
D65V6, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZDHHC7 MUTATED        2      3      3      4
  ZDHHC7 WILD-TYPE     98     69     69    117
D65V7, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZDHHC7 MUTATED        0      3      5      1      3
  ZDHHC7 WILD-TYPE     59     72     69    118     35
D65V8, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZDHHC7 MUTATED        1      4      1      3      3
  ZDHHC7 WILD-TYPE     50     72     60     68     92
D65V9, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZDHHC7 MUTATED        1      2      0      1      4      1      1      1
  ZDHHC7 WILD-TYPE     68     46     39     15     49     19     20     37
                  vv
clus               CLUS_9
  ZDHHC7 MUTATED        1
  ZDHHC7 WILD-TYPE     49
D65V10, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              4               49
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZDHHC7 MUTATED        1      0      1      0      1      0
  ZDHHC7 WILD-TYPE     12     16     13     11     10      9
D65V11, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZDHHC7 MUTATED        0      0      0      2      0      0      1      0
  ZDHHC7 WILD-TYPE     11      7      7      7      8      7     10      9
                  vv
clus               CLUS_9
  ZDHHC7 MUTATED        0
  ZDHHC7 WILD-TYPE      5
D65V12, multiclass
        clus
vv       ZDHHC7 MUTATED ZDHHC7 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(66) Variable = DCLK2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCLK2 MUTATED        4      0      0      0      0
  DCLK2 WILD-TYPE     28     18     46     27     23
D66V1, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCLK2 MUTATED        3      0      1
  DCLK2 WILD-TYPE     40     67     35
D66V2, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCLK2 MUTATED        1      4      8
  DCLK2 WILD-TYPE     41    169    139
D66V3, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCLK2 MUTATED        4      4      2
  DCLK2 WILD-TYPE     58     69     73
D66V4, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             4              69
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCLK2 MUTATED        1      1      9
  DCLK2 WILD-TYPE     69    119     91
D66V5, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCLK2 MUTATED        1      0      1      0      1      6      1      1
  DCLK2 WILD-TYPE     40     26     29     29     38     63     19     13
                 vv
clus              CLUS_9
  DCLK2 MUTATED        0
  DCLK2 WILD-TYPE     22
D66V6, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DCLK2 MUTATED        3      4      3      4
  DCLK2 WILD-TYPE     97     68     69    117
D66V7, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCLK2 MUTATED        2      3      5      1      3
  DCLK2 WILD-TYPE     57     72     69    118     35
D66V8, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCLK2 MUTATED        1      3      4      3      3
  DCLK2 WILD-TYPE     50     73     57     68     92
D66V9, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             4              57
  CLUS_4             3              68
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCLK2 MUTATED        3      3      1      1      1      1      0      3
  DCLK2 WILD-TYPE     66     45     38     15     52     19     21     35
                 vv
clus              CLUS_9
  DCLK2 MUTATED        1
  DCLK2 WILD-TYPE     49
D66V10, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DCLK2 MUTATED        2      0      0      0      0      1
  DCLK2 WILD-TYPE     11     16     14     11     11      8
D66V11, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCLK2 MUTATED        1      0      0      1      0      0      0      1
  DCLK2 WILD-TYPE     10      7      7      8      8      7     11      8
                 vv
clus              CLUS_9
  DCLK2 MUTATED        0
  DCLK2 WILD-TYPE      5
D66V12, multiclass
        clus
vv       DCLK2 MUTATED DCLK2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(67) Variable = C2ORF29 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C2ORF29 MUTATED        0      0      0      1      0
  C2ORF29 WILD-TYPE     32     18     46     26     23
D67V1, multiclass
[1] "Remove cluster labels:" "C2ORF29 MUTATED"       
clus
  C2ORF29 MUTATED C2ORF29 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AY-4071 
"C2ORF29 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF29 MUTATED        0      1      0
  C2ORF29 WILD-TYPE     43     66     36
D67V2, multiclass
[1] "Remove cluster labels:" "C2ORF29 MUTATED"       
clus
  C2ORF29 MUTATED C2ORF29 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" "C2ORF29 WILD-TYPE" 
       TCGA-AY-4071 
"C2ORF29 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF29 MUTATED        2      5     10
  C2ORF29 WILD-TYPE     40    168    137
D67V3, multiclass
        clus
vv       C2ORF29 MUTATED C2ORF29 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               5               168
  CLUS_3              10               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF29 MUTATED        8      0      8
  C2ORF29 WILD-TYPE     54     73     67
D67V4, multiclass
        clus
vv       C2ORF29 MUTATED C2ORF29 WILD-TYPE
  CLUS_1               8                54
  CLUS_2               0                73
  CLUS_3               8                67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF29 MUTATED        1      7      6
  C2ORF29 WILD-TYPE     69    113     94
D67V5, multiclass
        clus
vv       C2ORF29 MUTATED C2ORF29 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               7               113
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C2ORF29 MUTATED        1      0      1      1      2      5      2      2
  C2ORF29 WILD-TYPE     40     26     29     28     37     64     18     12
                   vv
clus                CLUS_9
  C2ORF29 MUTATED        0
  C2ORF29 WILD-TYPE     22
D67V6, multiclass
        clus
vv       C2ORF29 MUTATED C2ORF29 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               5                64
  CLUS_7               2                18
  CLUS_8               2                12
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C2ORF29 MUTATED        5      7      4      1
  C2ORF29 WILD-TYPE     95     65     68    120
D67V7, multiclass
        clus
vv       C2ORF29 MUTATED C2ORF29 WILD-TYPE
  CLUS_1               5                95
  CLUS_2               7                65
  CLUS_3               4                68
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C2ORF29 MUTATED        4      5      7      1      0
  C2ORF29 WILD-TYPE     55     70     67    118     38
D67V8, multiclass
        clus
vv       C2ORF29 MUTATED C2ORF29 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               5                70
  CLUS_3               7                67
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C2ORF29 MUTATED        4      7      4      1      1
  C2ORF29 WILD-TYPE     47     69     57     70     94
D67V9, multiclass
        clus
vv       C2ORF29 MUTATED C2ORF29 WILD-TYPE
  CLUS_1               4                47
  CLUS_2               7                69
  CLUS_3               4                57
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C2ORF29 MUTATED        5      1      2      4      3      2      0      0
  C2ORF29 WILD-TYPE     64     47     37     12     50     18     21     38
                   vv
clus                CLUS_9
  C2ORF29 MUTATED        0
  C2ORF29 WILD-TYPE     50
D67V10, multiclass
        clus
vv       C2ORF29 MUTATED C2ORF29 WILD-TYPE
  CLUS_1               5                64
  CLUS_2               1                47
  CLUS_3               2                37
  CLUS_4               4                12
  CLUS_5               3                50
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C2ORF29 MUTATED        0      0      1      1      2      0
  C2ORF29 WILD-TYPE     13     16     13     10      9      9
D67V11, multiclass
        clus
vv       C2ORF29 MUTATED C2ORF29 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C2ORF29 MUTATED        1      0      0      2      0      0      1      0
  C2ORF29 WILD-TYPE     10      7      7      7      8      7     10      9
                   vv
clus                CLUS_9
  C2ORF29 MUTATED        0
  C2ORF29 WILD-TYPE      5
D67V12, multiclass
        clus
vv       C2ORF29 MUTATED C2ORF29 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(68) Variable = PTCH1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTCH1 MUTATED        6      0      0      3      0
  PTCH1 WILD-TYPE     26     18     46     24     23
D68V1, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH1 MUTATED        7      2      0
  PTCH1 WILD-TYPE     36     65     36
D68V2, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH1 MUTATED        6     35     46
  PTCH1 WILD-TYPE     36    138    101
D68V3, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             6              36
  CLUS_2            35             138
  CLUS_3            46             101
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH1 MUTATED       26     23     29
  PTCH1 WILD-TYPE     36     50     46
D68V4, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1            26              36
  CLUS_2            23              50
  CLUS_3            29              46
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH1 MUTATED       10     34     31
  PTCH1 WILD-TYPE     60     86     69
D68V5, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1            10              60
  CLUS_2            34              86
  CLUS_3            31              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTCH1 MUTATED        4      4      3     10      7     27      9      6
  PTCH1 WILD-TYPE     37     22     27     19     32     42     11      8
                 vv
clus              CLUS_9
  PTCH1 MUTATED        5
  PTCH1 WILD-TYPE     17
D68V6, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             4              22
  CLUS_3             3              27
  CLUS_4            10              19
  CLUS_5             7              32
  CLUS_6            27              42
  CLUS_7             9              11
  CLUS_8             6               8
  CLUS_9             5              17
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTCH1 MUTATED       29     28     22     10
  PTCH1 WILD-TYPE     71     44     50    111
D68V7, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1            29              71
  CLUS_2            28              44
  CLUS_3            22              50
  CLUS_4            10             111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTCH1 MUTATED       14     31     33      3      8
  PTCH1 WILD-TYPE     45     44     41    116     30
D68V8, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1            14              45
  CLUS_2            31              44
  CLUS_3            33              41
  CLUS_4             3             116
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTCH1 MUTATED       20     37     13      6     12
  PTCH1 WILD-TYPE     31     39     48     65     83
D68V9, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1            20              31
  CLUS_2            37              39
  CLUS_3            13              48
  CLUS_4             6              65
  CLUS_5            12              83
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTCH1 MUTATED       22     15      8      9     13     12      1      7
  PTCH1 WILD-TYPE     47     33     31      7     40      8     20     31
                 vv
clus              CLUS_9
  PTCH1 MUTATED        1
  PTCH1 WILD-TYPE     49
D68V10, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1            22              47
  CLUS_2            15              33
  CLUS_3             8              31
  CLUS_4             9               7
  CLUS_5            13              40
  CLUS_6            12               8
  CLUS_7             1              20
  CLUS_8             7              31
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTCH1 MUTATED        5      4      2      4      5      3
  PTCH1 WILD-TYPE      8     12     12      7      6      6
D68V11, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             5               8
  CLUS_2             4              12
  CLUS_3             2              12
  CLUS_4             4               7
  CLUS_5             5               6
  CLUS_6             3               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTCH1 MUTATED        3      1      0      4      2      3      4      4
  PTCH1 WILD-TYPE      8      6      7      5      6      4      7      5
                 vv
clus              CLUS_9
  PTCH1 MUTATED        2
  PTCH1 WILD-TYPE      3
D68V12, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             3               8
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             4               5
  CLUS_5             2               6
  CLUS_6             3               4
  CLUS_7             4               7
  CLUS_8             4               5
  CLUS_9             2               3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(69) Variable = LINGO4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LINGO4 MUTATED        2      0      0      2      0
  LINGO4 WILD-TYPE     30     18     46     25     23
D69V1, multiclass
        clus
vv       LINGO4 MUTATED LINGO4 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LINGO4 MUTATED        4      0      0
  LINGO4 WILD-TYPE     39     67     36
D69V2, multiclass
        clus
vv       LINGO4 MUTATED LINGO4 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LINGO4 MUTATED        1      1      8
  LINGO4 WILD-TYPE     41    172    139
D69V3, multiclass
        clus
vv       LINGO4 MUTATED LINGO4 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LINGO4 MUTATED        1      2      2
  LINGO4 WILD-TYPE     61     71     73
D69V4, multiclass
        clus
vv       LINGO4 MUTATED LINGO4 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LINGO4 MUTATED        2      3      5
  LINGO4 WILD-TYPE     68    117     95
D69V5, multiclass
        clus
vv       LINGO4 MUTATED LINGO4 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LINGO4 MUTATED        1      0      1      1      1      6      0      0
  LINGO4 WILD-TYPE     40     26     29     28     38     63     20     14
                  vv
clus               CLUS_9
  LINGO4 MUTATED        0
  LINGO4 WILD-TYPE     22
D69V6, multiclass
        clus
vv       LINGO4 MUTATED LINGO4 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              6               63
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LINGO4 MUTATED        1      2      1      6
  LINGO4 WILD-TYPE     99     70     71    115
D69V7, multiclass
        clus
vv       LINGO4 MUTATED LINGO4 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LINGO4 MUTATED        0      1      3      2      4
  LINGO4 WILD-TYPE     59     74     71    117     34
D69V8, multiclass
        clus
vv       LINGO4 MUTATED LINGO4 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              2              117
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LINGO4 MUTATED        1      3      1      0      4
  LINGO4 WILD-TYPE     50     73     60     71     91
D69V9, multiclass
        clus
vv       LINGO4 MUTATED LINGO4 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LINGO4 MUTATED        1      1      0      2      0      0      2      3
  LINGO4 WILD-TYPE     68     47     39     14     53     20     19     35
                  vv
clus               CLUS_9
  LINGO4 MUTATED        0
  LINGO4 WILD-TYPE     50
D69V10, multiclass
        clus
vv       LINGO4 MUTATED LINGO4 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              2               19
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LINGO4 MUTATED        0      0      0      0      1      0
  LINGO4 WILD-TYPE     13     16     14     11     10      9
D69V11, multiclass
[1] "Remove cluster labels:" "LINGO4 MUTATED"        
clus
  LINGO4 MUTATED LINGO4 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-G4-6628 
"LINGO4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LINGO4 MUTATED        0      0      0      1      0      0      0      0
  LINGO4 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  LINGO4 MUTATED        0
  LINGO4 WILD-TYPE      5
D69V12, multiclass
[1] "Remove cluster labels:" "LINGO4 MUTATED"        
clus
  LINGO4 MUTATED LINGO4 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" "LINGO4 WILD-TYPE" 
      TCGA-G4-6628 
"LINGO4 WILD-TYPE" 

Clustering(70) Variable = PIK3R1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3R1 MUTATED        2      0      0      2      1
  PIK3R1 WILD-TYPE     30     18     46     25     22
D70V1, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        1      2      2
  PIK3R1 WILD-TYPE     42     65     34
D70V2, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              2               65
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        3     19     21
  PIK3R1 WILD-TYPE     39    154    126
D70V3, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              3               39
  CLUS_2             19              154
  CLUS_3             21              126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED       12     16     10
  PIK3R1 WILD-TYPE     50     57     65
D70V4, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1             12               50
  CLUS_2             16               57
  CLUS_3             10               65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        2     17     18
  PIK3R1 WILD-TYPE     68    103     82
D70V5, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2             17              103
  CLUS_3             18               82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3R1 MUTATED        3      0      4      4      3     16      1      3
  PIK3R1 WILD-TYPE     38     26     26     25     36     53     19     11
                  vv
clus               CLUS_9
  PIK3R1 MUTATED        3
  PIK3R1 WILD-TYPE     19
D70V6, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              4               26
  CLUS_4              4               25
  CLUS_5              3               36
  CLUS_6             16               53
  CLUS_7              1               19
  CLUS_8              3               11
  CLUS_9              3               19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R1 MUTATED       17     10     10      6
  PIK3R1 WILD-TYPE     83     62     62    115
D70V7, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1             17               83
  CLUS_2             10               62
  CLUS_3             10               62
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3R1 MUTATED        8     16     13      4      2
  PIK3R1 WILD-TYPE     51     59     61    115     36
D70V8, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              8               51
  CLUS_2             16               59
  CLUS_3             13               61
  CLUS_4              4              115
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3R1 MUTATED       10     17      6      6      4
  PIK3R1 WILD-TYPE     41     59     55     65     91
D70V9, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1             10               41
  CLUS_2             17               59
  CLUS_3              6               55
  CLUS_4              6               65
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3R1 MUTATED       11      8      5      3      8      4      1      1
  PIK3R1 WILD-TYPE     58     40     34     13     45     16     20     37
                  vv
clus               CLUS_9
  PIK3R1 MUTATED        2
  PIK3R1 WILD-TYPE     48
D70V10, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1             11               58
  CLUS_2              8               40
  CLUS_3              5               34
  CLUS_4              3               13
  CLUS_5              8               45
  CLUS_6              4               16
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3R1 MUTATED        1      1      2      2      3      1
  PIK3R1 WILD-TYPE     12     15     12      9      8      8
D70V11, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              2                9
  CLUS_5              3                8
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3R1 MUTATED        0      1      1      1      0      2      2      2
  PIK3R1 WILD-TYPE     11      6      6      8      8      5      9      7
                  vv
clus               CLUS_9
  PIK3R1 MUTATED        1
  PIK3R1 WILD-TYPE      4
D70V12, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              2                5
  CLUS_7              2                9
  CLUS_8              2                7
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(71) Variable = C14ORF43 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF43 MUTATED        3      0      0      1      0
  C14ORF43 WILD-TYPE     29     18     46     26     23
D71V1, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF43 MUTATED        4      0      0
  C14ORF43 WILD-TYPE     39     67     36
D71V2, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                0                 67
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF43 MUTATED        1      2     15
  C14ORF43 WILD-TYPE     41    171    132
D71V3, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                2                171
  CLUS_3               15                132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF43 MUTATED        5      1      9
  C14ORF43 WILD-TYPE     57     72     66
D71V4, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                5                 57
  CLUS_2                1                 72
  CLUS_3                9                 66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF43 MUTATED        3      5      8
  C14ORF43 WILD-TYPE     67    115     92
D71V5, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                5                115
  CLUS_3                8                 92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF43 MUTATED        3      1      0      1      4      5      1      1
  C14ORF43 WILD-TYPE     38     25     30     28     35     64     19     13
                    vv
clus                 CLUS_9
  C14ORF43 MUTATED        0
  C14ORF43 WILD-TYPE     22
D71V6, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                4                 35
  CLUS_6                5                 64
  CLUS_7                1                 19
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF43 MUTATED        1      7      6      4
  C14ORF43 WILD-TYPE     99     65     66    117
D71V7, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                7                 65
  CLUS_3                6                 66
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF43 MUTATED        3      0     11      0      4
  C14ORF43 WILD-TYPE     56     75     63    119     34
D71V8, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                0                 75
  CLUS_3               11                 63
  CLUS_4                0                119
  CLUS_5                4                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF43 MUTATED        1     10      2      1      4
  C14ORF43 WILD-TYPE     50     66     59     70     91
D71V9, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2               10                 66
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF43 MUTATED        3      5      0      6      0      1      0      3
  C14ORF43 WILD-TYPE     66     43     39     10     53     19     21     35
                    vv
clus                 CLUS_9
  C14ORF43 MUTATED        0
  C14ORF43 WILD-TYPE     50
D71V10, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                5                 43
  CLUS_3                0                 39
  CLUS_4                6                 10
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                3                 35
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C14ORF43 MUTATED        0      1      1      0      5      0
  C14ORF43 WILD-TYPE     13     15     13     11      6      9
D71V11, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                5                  6
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF43 MUTATED        0      0      0      3      1      0      3      0
  C14ORF43 WILD-TYPE     11      7      7      6      7      7      8      9
                    vv
clus                 CLUS_9
  C14ORF43 MUTATED        0
  C14ORF43 WILD-TYPE      5
D71V12, multiclass
        clus
vv       C14ORF43 MUTATED C14ORF43 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                3                  6
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                3                  8
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(72) Variable = C14ORF184 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF184 MUTATED        0      0      0      0      0
  C14ORF184 WILD-TYPE     32     18     46     27     23
D72V1, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF184 MUTATED        0      0      0
  C14ORF184 WILD-TYPE     43     67     36
D72V2, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF184 MUTATED        2      2      2
  C14ORF184 WILD-TYPE     40    171    145
D72V3, multiclass
        clus
vv       C14ORF184 MUTATED C14ORF184 WILD-TYPE
  CLUS_1                 2                  40
  CLUS_2                 2                 171
  CLUS_3                 2                 145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF184 MUTATED        2      2      2
  C14ORF184 WILD-TYPE     60     71     73
D72V4, multiclass
        clus
vv       C14ORF184 MUTATED C14ORF184 WILD-TYPE
  CLUS_1                 2                  60
  CLUS_2                 2                  71
  CLUS_3                 2                  73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF184 MUTATED        1      1      4
  C14ORF184 WILD-TYPE     69    119     96
D72V5, multiclass
        clus
vv       C14ORF184 MUTATED C14ORF184 WILD-TYPE
  CLUS_1                 1                  69
  CLUS_2                 1                 119
  CLUS_3                 4                  96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF184 MUTATED        1      0      0      1      1      2      1      0
  C14ORF184 WILD-TYPE     40     26     30     28     38     67     19     14
                     vv
clus                  CLUS_9
  C14ORF184 MUTATED        0
  C14ORF184 WILD-TYPE     22
D72V6, multiclass
        clus
vv       C14ORF184 MUTATED C14ORF184 WILD-TYPE
  CLUS_1                 1                  40
  CLUS_2                 0                  26
  CLUS_3                 0                  30
  CLUS_4                 1                  28
  CLUS_5                 1                  38
  CLUS_6                 2                  67
  CLUS_7                 1                  19
  CLUS_8                 0                  14
  CLUS_9                 0                  22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF184 MUTATED        1      4      1      0
  C14ORF184 WILD-TYPE     99     68     71    121
D72V7, multiclass
        clus
vv       C14ORF184 MUTATED C14ORF184 WILD-TYPE
  CLUS_1                 1                  99
  CLUS_2                 4                  68
  CLUS_3                 1                  71
  CLUS_4                 0                 121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF184 MUTATED        1      2      3      0      0
  C14ORF184 WILD-TYPE     58     73     71    119     38
D72V8, multiclass
        clus
vv       C14ORF184 MUTATED C14ORF184 WILD-TYPE
  CLUS_1                 1                  58
  CLUS_2                 2                  73
  CLUS_3                 3                  71
  CLUS_4                 0                 119
  CLUS_5                 0                  38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF184 MUTATED        0      6      0      0      0
  C14ORF184 WILD-TYPE     51     70     61     71     95
D72V9, multiclass
        clus
vv       C14ORF184 MUTATED C14ORF184 WILD-TYPE
  CLUS_1                 0                  51
  CLUS_2                 6                  70
  CLUS_3                 0                  61
  CLUS_4                 0                  71
  CLUS_5                 0                  95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF184 MUTATED        2      1      0      2      1      0      0      0
  C14ORF184 WILD-TYPE     67     47     39     14     52     20     21     38
                     vv
clus                  CLUS_9
  C14ORF184 MUTATED        0
  C14ORF184 WILD-TYPE     50
D72V10, multiclass
        clus
vv       C14ORF184 MUTATED C14ORF184 WILD-TYPE
  CLUS_1                 2                  67
  CLUS_2                 1                  47
  CLUS_3                 0                  39
  CLUS_4                 2                  14
  CLUS_5                 1                  52
  CLUS_6                 0                  20
  CLUS_7                 0                  21
  CLUS_8                 0                  38
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C14ORF184 MUTATED        1      1      0      0      0      0
  C14ORF184 WILD-TYPE     12     15     14     11     11      9
D72V11, multiclass
[1] "Remove cluster labels:" "C14ORF184 MUTATED"     
clus
  C14ORF184 MUTATED C14ORF184 WILD-TYPE 
                  2                  72 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6963 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AD-6964          TCGA-AD-6965          TCGA-AY-6196 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-5403 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AZ-6598          TCGA-AZ-6601          TCGA-AZ-6603 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AZ-6605          TCGA-AZ-6607          TCGA-CA-6718 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-CA-6719          TCGA-CK-5916          TCGA-CK-6748 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-CM-5860          TCGA-CM-6167          TCGA-CM-6674 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-CM-6676          TCGA-CM-6677          TCGA-CM-6678 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-CM-6679          TCGA-CM-6680          TCGA-D5-5537 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-D5-6533          TCGA-D5-6534          TCGA-D5-6536 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-D5-6922          TCGA-D5-6924          TCGA-DM-A0XD 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-DM-A0XF          TCGA-DM-A1D0          TCGA-DM-A1D7 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-DM-A1D8          TCGA-DM-A1D9          TCGA-DM-A1HA 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-DM-A282          TCGA-DM-A285          TCGA-DM-A28F 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-F4-6459          TCGA-F4-6460          TCGA-F4-6569 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-F4-6570          TCGA-F4-6704          TCGA-F4-6805 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-F4-6807          TCGA-F4-6808          TCGA-F4-6809 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-G4-6299          TCGA-G4-6303          TCGA-G4-6306 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-G4-6309          TCGA-G4-6625          TCGA-G4-6628 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF184 MUTATED        1      0      0      1      0      0      0      0
  C14ORF184 WILD-TYPE     10      7      7      8      8      7     11      9
                     vv
clus                  CLUS_9
  C14ORF184 MUTATED        0
  C14ORF184 WILD-TYPE      5
D72V12, multiclass
[1] "Remove cluster labels:" "C14ORF184 MUTATED"     
clus
  C14ORF184 MUTATED C14ORF184 WILD-TYPE 
                  2                  72 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6963 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AD-6964          TCGA-AD-6965          TCGA-AY-6196 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-5403 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AZ-6598          TCGA-AZ-6601          TCGA-AZ-6603 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-AZ-6605          TCGA-AZ-6607          TCGA-CA-6718 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-CA-6719          TCGA-CK-5916          TCGA-CK-6748 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-CM-5860          TCGA-CM-6167          TCGA-CM-6674 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-CM-6676          TCGA-CM-6677          TCGA-CM-6678 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-CM-6679          TCGA-CM-6680          TCGA-D5-5537 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-D5-6533          TCGA-D5-6534          TCGA-D5-6536 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-D5-6922          TCGA-D5-6924          TCGA-DM-A0XD 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-DM-A0XF          TCGA-DM-A1D0          TCGA-DM-A1D7 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-DM-A1D8          TCGA-DM-A1D9          TCGA-DM-A1HA 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-DM-A282          TCGA-DM-A285          TCGA-DM-A28F 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-F4-6459          TCGA-F4-6460          TCGA-F4-6569 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-F4-6570          TCGA-F4-6704          TCGA-F4-6805 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-F4-6807          TCGA-F4-6808          TCGA-F4-6809 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-G4-6299          TCGA-G4-6303          TCGA-G4-6306 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 
         TCGA-G4-6309          TCGA-G4-6625          TCGA-G4-6628 
"C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" "C14ORF184 WILD-TYPE" 

Clustering(73) Variable = ATP6V1B1 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP6V1B1 MUTATED        5      0      0      1      0
  ATP6V1B1 WILD-TYPE     27     18     46     26     23
D73V1, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                5                 27
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ATP6V1B1 MUTATED        4      1      1
  ATP6V1B1 WILD-TYPE     39     66     35
D73V2, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ATP6V1B1 MUTATED        1      0     13
  ATP6V1B1 WILD-TYPE     41    173    134
D73V3, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                173
  CLUS_3               13                134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ATP6V1B1 MUTATED        2      0      7
  ATP6V1B1 WILD-TYPE     60     73     68
D73V4, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                0                 73
  CLUS_3                7                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ATP6V1B1 MUTATED        2      5      4
  ATP6V1B1 WILD-TYPE     68    115     96
D73V5, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                5                115
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP6V1B1 MUTATED        1      0      0      1      3      4      0      2
  ATP6V1B1 WILD-TYPE     40     26     30     28     36     65     20     12
                    vv
clus                 CLUS_9
  ATP6V1B1 MUTATED        0
  ATP6V1B1 WILD-TYPE     22
D73V6, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                3                 36
  CLUS_6                4                 65
  CLUS_7                0                 20
  CLUS_8                2                 12
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP6V1B1 MUTATED        1      3      4      6
  ATP6V1B1 WILD-TYPE     99     69     68    115
D73V7, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                3                 69
  CLUS_3                4                 68
  CLUS_4                6                115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP6V1B1 MUTATED        0      2      6      1      5
  ATP6V1B1 WILD-TYPE     59     73     68    118     33
D73V8, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                2                 73
  CLUS_3                6                 68
  CLUS_4                1                118
  CLUS_5                5                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP6V1B1 MUTATED        0      7      1      1      5
  ATP6V1B1 WILD-TYPE     51     69     60     70     90
D73V9, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                7                 69
  CLUS_3                1                 60
  CLUS_4                1                 70
  CLUS_5                5                 90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP6V1B1 MUTATED        2      3      1      1      2      0      1      4
  ATP6V1B1 WILD-TYPE     67     45     38     15     51     20     20     34
                    vv
clus                 CLUS_9
  ATP6V1B1 MUTATED        0
  ATP6V1B1 WILD-TYPE     50
D73V10, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                3                 45
  CLUS_3                1                 38
  CLUS_4                1                 15
  CLUS_5                2                 51
  CLUS_6                0                 20
  CLUS_7                1                 20
  CLUS_8                4                 34
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP6V1B1 MUTATED        0      1      0      0      4      0
  ATP6V1B1 WILD-TYPE     13     15     14     11      7      9
D73V11, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                4                  7
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP6V1B1 MUTATED        0      0      1      1      0      1      2      0
  ATP6V1B1 WILD-TYPE     11      7      6      8      8      6      9      9
                    vv
clus                 CLUS_9
  ATP6V1B1 MUTATED        0
  ATP6V1B1 WILD-TYPE      5
D73V12, multiclass
        clus
vv       ATP6V1B1 MUTATED ATP6V1B1 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                1                  6
  CLUS_4                1                  8
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(74) Variable = BCL9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL9 MUTATED        6      0      0      2      0
  BCL9 WILD-TYPE     26     18     46     25     23
D74V1, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCL9 MUTATED        7      1      0
  BCL9 WILD-TYPE     36     66     36
D74V2, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            7             36
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCL9 MUTATED        1      2     18
  BCL9 WILD-TYPE     41    171    129
D74V3, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3           18            129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCL9 MUTATED        4      3      6
  BCL9 WILD-TYPE     58     70     69
D74V4, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCL9 MUTATED        1      6     11
  BCL9 WILD-TYPE     69    114     89
D74V5, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            6            114
  CLUS_3           11             89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BCL9 MUTATED        1      1      2      1      2      7      3      0      1
  BCL9 WILD-TYPE     40     25     28     28     37     62     17     14     21
D74V6, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            7             62
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCL9 MUTATED        4      4      5      9
  BCL9 WILD-TYPE     96     68     67    112
D74V7, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            4             68
  CLUS_3            5             67
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL9 MUTATED        2      3      8      1      8
  BCL9 WILD-TYPE     57     72     66    118     30
D74V8, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            8             66
  CLUS_4            1            118
  CLUS_5            8             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL9 MUTATED        1      7      3      2      8
  BCL9 WILD-TYPE     50     69     58     69     87
D74V9, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            7             69
  CLUS_3            3             58
  CLUS_4            2             69
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BCL9 MUTATED        3      3      1      3      2      2      0      7      0
  BCL9 WILD-TYPE     66     45     38     13     51     18     21     31     50
D74V10, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            3             13
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            7             31
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BCL9 MUTATED        1      0      1      1      4      1
  BCL9 WILD-TYPE     12     16     13     10      7      8
D74V11, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            4              7
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BCL9 MUTATED        0      0      0      0      2      2      3      1      0
  BCL9 WILD-TYPE     11      7      7      9      6      5      8      8      5
D74V12, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            2              6
  CLUS_6            2              5
  CLUS_7            3              8
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(75) Variable = NAA25 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAA25 MUTATED        6      0      0      3      0
  NAA25 WILD-TYPE     26     18     46     24     23
D75V1, multiclass
        clus
vv       NAA25 MUTATED NAA25 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NAA25 MUTATED        7      1      1
  NAA25 WILD-TYPE     36     66     35
D75V2, multiclass
        clus
vv       NAA25 MUTATED NAA25 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NAA25 MUTATED        0      1     13
  NAA25 WILD-TYPE     42    172    134
D75V3, multiclass
        clus
vv       NAA25 MUTATED NAA25 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NAA25 MUTATED        1      2      3
  NAA25 WILD-TYPE     61     71     72
D75V4, multiclass
        clus
vv       NAA25 MUTATED NAA25 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NAA25 MUTATED        0      6      7
  NAA25 WILD-TYPE     70    114     93
D75V5, multiclass
        clus
vv       NAA25 MUTATED NAA25 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             6             114
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NAA25 MUTATED        0      1      1      0      4      5      1      0
  NAA25 WILD-TYPE     41     25     29     29     35     64     19     14
                 vv
clus              CLUS_9
  NAA25 MUTATED        1
  NAA25 WILD-TYPE     21
D75V6, multiclass
        clus
vv       NAA25 MUTATED NAA25 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             4              35
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NAA25 MUTATED        2      2      1      9
  NAA25 WILD-TYPE     98     70     71    112
D75V7, multiclass
        clus
vv       NAA25 MUTATED NAA25 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAA25 MUTATED        2      2      1      2      7
  NAA25 WILD-TYPE     57     73     73    117     31
D75V8, multiclass
        clus
vv       NAA25 MUTATED NAA25 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             1              73
  CLUS_4             2             117
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAA25 MUTATED        1      2      1      2      7
  NAA25 WILD-TYPE     50     74     60     69     88
D75V9, multiclass
        clus
vv       NAA25 MUTATED NAA25 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NAA25 MUTATED        1      0      1      1      2      2      0      6
  NAA25 WILD-TYPE     68     48     38     15     51     18     21     32
                 vv
clus              CLUS_9
  NAA25 MUTATED        0
  NAA25 WILD-TYPE     50
D75V10, multiclass
        clus
vv       NAA25 MUTATED NAA25 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             6              32
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NAA25 MUTATED        1      0      0      1      0      0
  NAA25 WILD-TYPE     12     16     14     10     11      9
D75V11, multiclass
[1] "Remove cluster labels:" "NAA25 MUTATED"         
clus
  NAA25 MUTATED NAA25 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6679 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NAA25 MUTATED        0      0      0      0      0      0      1      0
  NAA25 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  NAA25 MUTATED        1
  NAA25 WILD-TYPE      4
D75V12, multiclass
[1] "Remove cluster labels:" "NAA25 MUTATED"         
clus
  NAA25 MUTATED NAA25 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6679 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" "NAA25 WILD-TYPE" 

Clustering(76) Variable = SLC26A8 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC26A8 MUTATED        2      1      0      1      0
  SLC26A8 WILD-TYPE     30     17     46     26     23
D76V1, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               1                17
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A8 MUTATED        2      1      1
  SLC26A8 WILD-TYPE     41     66     35
D76V2, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A8 MUTATED        0      2     14
  SLC26A8 WILD-TYPE     42    171    133
D76V3, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3              14               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A8 MUTATED        5      3      4
  SLC26A8 WILD-TYPE     57     70     71
D76V4, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               3                70
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A8 MUTATED        2      6      7
  SLC26A8 WILD-TYPE     68    114     93
D76V5, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               6               114
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC26A8 MUTATED        1      2      2      1      1      7      0      0
  SLC26A8 WILD-TYPE     40     24     28     28     38     62     20     14
                   vv
clus                CLUS_9
  SLC26A8 MUTATED        1
  SLC26A8 WILD-TYPE     21
D76V6, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               2                24
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               7                62
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC26A8 MUTATED        2      5      4      5
  SLC26A8 WILD-TYPE     98     67     68    116
D76V7, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               5                67
  CLUS_3               4                68
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC26A8 MUTATED        2      2      7      4      1
  SLC26A8 WILD-TYPE     57     73     67    115     37
D76V8, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               7                67
  CLUS_4               4               115
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC26A8 MUTATED        1      7      1      2      4
  SLC26A8 WILD-TYPE     50     69     60     69     91
D76V9, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               7                69
  CLUS_3               1                60
  CLUS_4               2                69
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC26A8 MUTATED        4      1      1      3      2      1      0      2
  SLC26A8 WILD-TYPE     65     47     38     13     51     19     21     36
                   vv
clus                CLUS_9
  SLC26A8 MUTATED        1
  SLC26A8 WILD-TYPE     49
D76V10, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               3                13
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC26A8 MUTATED        1      0      1      1      1      0
  SLC26A8 WILD-TYPE     12     16     13     10     10      9
D76V11, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC26A8 MUTATED        0      0      0      1      0      1      1      1
  SLC26A8 WILD-TYPE     11      7      7      8      8      6     10      8
                   vv
clus                CLUS_9
  SLC26A8 MUTATED        0
  SLC26A8 WILD-TYPE      5
D76V12, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(77) Variable = IQCD MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IQCD MUTATED        1      1      0      0      0
  IQCD WILD-TYPE     31     17     46     27     23
D77V1, multiclass
[1] "Remove cluster labels:" "IQCD MUTATED"          
clus
  IQCD MUTATED IQCD WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3542 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679     TCGA-AA-3680 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685     TCGA-AA-3688 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696     TCGA-AA-3710 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3867 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IQCD MUTATED        1      0      1
  IQCD WILD-TYPE     42     67     35
D77V2, multiclass
[1] "Remove cluster labels:" "IQCD MUTATED"          
clus
  IQCD MUTATED IQCD WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3542 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679     TCGA-AA-3680 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685     TCGA-AA-3688 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696     TCGA-AA-3710 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3867 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" "IQCD WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IQCD MUTATED        1      3      6
  IQCD WILD-TYPE     41    170    141
D77V3, multiclass
        clus
vv       IQCD MUTATED IQCD WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IQCD MUTATED        3      1      4
  IQCD WILD-TYPE     59     72     71
D77V4, multiclass
        clus
vv       IQCD MUTATED IQCD WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IQCD MUTATED        2      3      4
  IQCD WILD-TYPE     68    117     96
D77V5, multiclass
        clus
vv       IQCD MUTATED IQCD WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IQCD MUTATED        0      1      0      1      0      5      1      1      0
  IQCD WILD-TYPE     41     25     30     28     39     64     19     13     22
D77V6, multiclass
        clus
vv       IQCD MUTATED IQCD WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IQCD MUTATED        2      5      2      1
  IQCD WILD-TYPE     98     67     70    120
D77V7, multiclass
        clus
vv       IQCD MUTATED IQCD WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IQCD MUTATED        1      1      6      2      0
  IQCD WILD-TYPE     58     74     68    117     38
D77V8, multiclass
        clus
vv       IQCD MUTATED IQCD WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            6             68
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IQCD MUTATED        2      3      2      0      3
  IQCD WILD-TYPE     49     73     59     71     92
D77V9, multiclass
        clus
vv       IQCD MUTATED IQCD WILD-TYPE
  CLUS_1            2             49
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IQCD MUTATED        3      2      0      1      2      0      1      1      0
  IQCD WILD-TYPE     66     46     39     15     51     20     20     37     50
D77V10, multiclass
        clus
vv       IQCD MUTATED IQCD WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IQCD MUTATED        0      2      1      0      0      0
  IQCD WILD-TYPE     13     14     13     11     11      9
D77V11, multiclass
        clus
vv       IQCD MUTATED IQCD WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IQCD MUTATED        1      1      0      0      1      0      0      0      0
  IQCD WILD-TYPE     10      6      7      9      7      7     11      9      5
D77V12, multiclass
        clus
vv       IQCD MUTATED IQCD WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(78) Variable = CHD3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD3 MUTATED        6      0      0      3      0
  CHD3 WILD-TYPE     26     18     46     24     23
D78V1, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD3 MUTATED        8      1      0
  CHD3 WILD-TYPE     35     66     36
D78V2, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            8             35
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD3 MUTATED        0      1     23
  CHD3 WILD-TYPE     42    172    124
D78V3, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3           23            124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD3 MUTATED        5      1      9
  CHD3 WILD-TYPE     57     72     66
D78V4, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            9             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD3 MUTATED        3      7     13
  CHD3 WILD-TYPE     67    113     87
D78V5, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            7            113
  CLUS_3           13             87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD3 MUTATED        2      0      1      2      6      9      2      1      0
  CHD3 WILD-TYPE     39     26     29     27     33     60     18     13     22
D78V6, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            6             33
  CLUS_6            9             60
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD3 MUTATED        1     10      4      9
  CHD3 WILD-TYPE     99     62     68    112
D78V7, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            1             99
  CLUS_2           10             62
  CLUS_3            4             68
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD3 MUTATED        1      1     13      1      8
  CHD3 WILD-TYPE     58     74     61    118     30
D78V8, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3           13             61
  CLUS_4            1            118
  CLUS_5            8             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD3 MUTATED        0     11      2      0      9
  CHD3 WILD-TYPE     51     65     59     71     86
D78V9, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2           11             65
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            9             86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD3 MUTATED        2      4      0      6      2      1      0      6      1
  CHD3 WILD-TYPE     67     44     39     10     51     19     21     32     49
D78V10, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            6             10
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            6             32
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHD3 MUTATED        0      0      0      0      4      0
  CHD3 WILD-TYPE     13     16     14     11      7      9
D78V11, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD3 MUTATED        0      0      0      2      0      1      1      0      0
  CHD3 WILD-TYPE     11      7      7      7      8      6     10      9      5
D78V12, multiclass
        clus
vv       CHD3 MUTATED CHD3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(79) Variable = PLEKHF2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHF2 MUTATED        1      0      0      0      0
  PLEKHF2 WILD-TYPE     31     18     46     27     23
D79V1, multiclass
[1] "Remove cluster labels:" "PLEKHF2 MUTATED"       
clus
  PLEKHF2 MUTATED PLEKHF2 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AY-4071 
"PLEKHF2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHF2 MUTATED        1      0      0
  PLEKHF2 WILD-TYPE     42     67     36
D79V2, multiclass
[1] "Remove cluster labels:" "PLEKHF2 MUTATED"       
clus
  PLEKHF2 MUTATED PLEKHF2 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" "PLEKHF2 WILD-TYPE" 
       TCGA-AY-4071 
"PLEKHF2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHF2 MUTATED        2      2      6
  PLEKHF2 WILD-TYPE     40    171    141
D79V3, multiclass
        clus
vv       PLEKHF2 MUTATED PLEKHF2 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               2               171
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHF2 MUTATED        2      4      3
  PLEKHF2 WILD-TYPE     60     69     72
D79V4, multiclass
        clus
vv       PLEKHF2 MUTATED PLEKHF2 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               4                69
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHF2 MUTATED        2      2      4
  PLEKHF2 WILD-TYPE     68    118     96
D79V5, multiclass
        clus
vv       PLEKHF2 MUTATED PLEKHF2 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               2               118
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHF2 MUTATED        1      0      0      1      1      3      0      2
  PLEKHF2 WILD-TYPE     40     26     30     28     38     66     20     12
                   vv
clus                CLUS_9
  PLEKHF2 MUTATED        0
  PLEKHF2 WILD-TYPE     22
D79V6, multiclass
        clus
vv       PLEKHF2 MUTATED PLEKHF2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               2                12
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLEKHF2 MUTATED        3      4      2      1
  PLEKHF2 WILD-TYPE     97     68     70    120
D79V7, multiclass
        clus
vv       PLEKHF2 MUTATED PLEKHF2 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               4                68
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHF2 MUTATED        1      4      4      0      1
  PLEKHF2 WILD-TYPE     58     71     70    119     37
D79V8, multiclass
        clus
vv       PLEKHF2 MUTATED PLEKHF2 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               4                71
  CLUS_3               4                70
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHF2 MUTATED        1      6      1      1      1
  PLEKHF2 WILD-TYPE     50     70     60     70     94
D79V9, multiclass
        clus
vv       PLEKHF2 MUTATED PLEKHF2 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               6                70
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHF2 MUTATED        4      1      2      1      1      0      0      1
  PLEKHF2 WILD-TYPE     65     47     37     15     52     20     21     37
                   vv
clus                CLUS_9
  PLEKHF2 MUTATED        0
  PLEKHF2 WILD-TYPE     50
D79V10, multiclass
        clus
vv       PLEKHF2 MUTATED PLEKHF2 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               1                47
  CLUS_3               2                37
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLEKHF2 MUTATED        1      0      0      1      1      0
  PLEKHF2 WILD-TYPE     12     16     14     10     10      9
D79V11, multiclass
        clus
vv       PLEKHF2 MUTATED PLEKHF2 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHF2 MUTATED        0      0      1      1      0      0      0      1
  PLEKHF2 WILD-TYPE     11      7      6      8      8      7     11      8
                   vv
clus                CLUS_9
  PLEKHF2 MUTATED        0
  PLEKHF2 WILD-TYPE      5
D79V12, multiclass
        clus
vv       PLEKHF2 MUTATED PLEKHF2 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(80) Variable = FKBP9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FKBP9 MUTATED        2      0      0      2      0
  FKBP9 WILD-TYPE     30     18     46     25     23
D80V1, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FKBP9 MUTATED        3      1      0
  FKBP9 WILD-TYPE     40     66     36
D80V2, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FKBP9 MUTATED        1      1     15
  FKBP9 WILD-TYPE     41    172    132
D80V3, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FKBP9 MUTATED        5      2      6
  FKBP9 WILD-TYPE     57     71     69
D80V4, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             2              71
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FKBP9 MUTATED        1      4      9
  FKBP9 WILD-TYPE     69    116     91
D80V5, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FKBP9 MUTATED        0      1      1      1      2      9      0      0
  FKBP9 WILD-TYPE     41     25     29     28     37     60     20     14
                 vv
clus              CLUS_9
  FKBP9 MUTATED        0
  FKBP9 WILD-TYPE     22
D80V6, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             9              60
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FKBP9 MUTATED        3      6      4      4
  FKBP9 WILD-TYPE     97     66     68    117
D80V7, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             6              66
  CLUS_3             4              68
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FKBP9 MUTATED        2      4      7      1      3
  FKBP9 WILD-TYPE     57     71     67    118     35
D80V8, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             7              67
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FKBP9 MUTATED        0      9      2      1      3
  FKBP9 WILD-TYPE     51     67     59     70     92
D80V9, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             9              67
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FKBP9 MUTATED        3      3      0      3      3      1      0      1
  FKBP9 WILD-TYPE     66     45     39     13     50     19     21     37
                 vv
clus              CLUS_9
  FKBP9 MUTATED        1
  FKBP9 WILD-TYPE     49
D80V10, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FKBP9 MUTATED        0      0      1      1      2      0
  FKBP9 WILD-TYPE     13     16     13     10      9      9
D80V11, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FKBP9 MUTATED        0      0      0      1      0      0      3      0
  FKBP9 WILD-TYPE     11      7      7      8      8      7      8      9
                 vv
clus              CLUS_9
  FKBP9 MUTATED        0
  FKBP9 WILD-TYPE      5
D80V12, multiclass
        clus
vv       FKBP9 MUTATED FKBP9 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(81) Variable = HPS3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HPS3 MUTATED        3      0      0      1      0
  HPS3 WILD-TYPE     29     18     46     26     23
D81V1, multiclass
        clus
vv       HPS3 MUTATED HPS3 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HPS3 MUTATED        4      0      0
  HPS3 WILD-TYPE     39     67     36
D81V2, multiclass
        clus
vv       HPS3 MUTATED HPS3 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HPS3 MUTATED        2      6     12
  HPS3 WILD-TYPE     40    167    135
D81V3, multiclass
        clus
vv       HPS3 MUTATED HPS3 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            6            167
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HPS3 MUTATED        3      5      8
  HPS3 WILD-TYPE     59     68     67
D81V4, multiclass
        clus
vv       HPS3 MUTATED HPS3 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            5             68
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HPS3 MUTATED        2      5      9
  HPS3 WILD-TYPE     68    115     91
D81V5, multiclass
        clus
vv       HPS3 MUTATED HPS3 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HPS3 MUTATED        2      2      0      1      1      8      1      1      0
  HPS3 WILD-TYPE     39     24     30     28     38     61     19     13     22
D81V6, multiclass
        clus
vv       HPS3 MUTATED HPS3 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            2             24
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            8             61
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HPS3 MUTATED        6      7      2      5
  HPS3 WILD-TYPE     94     65     70    116
D81V7, multiclass
        clus
vv       HPS3 MUTATED HPS3 WILD-TYPE
  CLUS_1            6             94
  CLUS_2            7             65
  CLUS_3            2             70
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HPS3 MUTATED        2      7      6      1      4
  HPS3 WILD-TYPE     57     68     68    118     34
D81V8, multiclass
        clus
vv       HPS3 MUTATED HPS3 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            7             68
  CLUS_3            6             68
  CLUS_4            1            118
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HPS3 MUTATED        5      7      1      1      4
  HPS3 WILD-TYPE     46     69     60     70     91
D81V9, multiclass
        clus
vv       HPS3 MUTATED HPS3 WILD-TYPE
  CLUS_1            5             46
  CLUS_2            7             69
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HPS3 MUTATED        3      2      0      2      4      2      0      2      3
  HPS3 WILD-TYPE     66     46     39     14     49     18     21     36     47
D81V10, multiclass
        clus
vv       HPS3 MUTATED HPS3 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            4             49
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HPS3 MUTATED        0      0      0      0      2      0
  HPS3 WILD-TYPE     13     16     14     11      9      9
D81V11, multiclass
[1] "Remove cluster labels:" "HPS3 MUTATED"          
clus
  HPS3 MUTATED HPS3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6889     TCGA-AD-6901 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HPS3 MUTATED        0      0      1      1      0      0      0      0      0
  HPS3 WILD-TYPE     11      7      6      8      8      7     11      9      5
D81V12, multiclass
[1] "Remove cluster labels:" "HPS3 MUTATED"          
clus
  HPS3 MUTATED HPS3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6889     TCGA-AD-6901 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" "HPS3 WILD-TYPE" 

Clustering(82) Variable = ATM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATM MUTATED        9      0      5      5      1
  ATM WILD-TYPE     23     18     41     22     22
D82V1, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           9            23
  CLUS_2           0            18
  CLUS_3           5            41
  CLUS_4           5            22
  CLUS_5           1            22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        9      6      5
  ATM WILD-TYPE     34     61     31
D82V2, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           9            34
  CLUS_2           6            61
  CLUS_3           5            31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        6     53     72
  ATM WILD-TYPE     36    120     75
D82V3, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           6            36
  CLUS_2          53           120
  CLUS_3          72            75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED       30     35     44
  ATM WILD-TYPE     32     38     31
D82V4, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          30            32
  CLUS_2          35            38
  CLUS_3          44            31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED       16     43     48
  ATM WILD-TYPE     54     77     52
D82V5, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          16            54
  CLUS_2          43            77
  CLUS_3          48            52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATM MUTATED        8      8      8     13     10     37     10      4      9
  ATM WILD-TYPE     33     18     22     16     29     32     10     10     13
D82V6, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           8            33
  CLUS_2           8            18
  CLUS_3           8            22
  CLUS_4          13            16
  CLUS_5          10            29
  CLUS_6          37            32
  CLUS_7          10            10
  CLUS_8           4            10
  CLUS_9           9            13
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATM MUTATED       39     42     30     21
  ATM WILD-TYPE     61     30     42    100
D82V7, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          39            61
  CLUS_2          42            30
  CLUS_3          30            42
  CLUS_4          21           100
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATM MUTATED       21     45     42     12     12
  ATM WILD-TYPE     38     30     32    107     26
D82V8, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          21            38
  CLUS_2          45            30
  CLUS_3          42            32
  CLUS_4          12           107
  CLUS_5          12            26
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATM MUTATED       27     55     14     15     20
  ATM WILD-TYPE     24     21     47     56     75
D82V9, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          27            24
  CLUS_2          55            21
  CLUS_3          14            47
  CLUS_4          15            56
  CLUS_5          20            75
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATM MUTATED       36     18     14     15     18     12      1     11      6
  ATM WILD-TYPE     33     30     25      1     35      8     20     27     44
D82V10, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          36            33
  CLUS_2          18            30
  CLUS_3          14            25
  CLUS_4          15             1
  CLUS_5          18            35
  CLUS_6          12             8
  CLUS_7           1            20
  CLUS_8          11            27
  CLUS_9           6            44
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATM MUTATED        5      4      5      3      9      4
  ATM WILD-TYPE      8     12      9      8      2      5
D82V11, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           5             8
  CLUS_2           4            12
  CLUS_3           5             9
  CLUS_4           3             8
  CLUS_5           9             2
  CLUS_6           4             5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATM MUTATED        6      1      4      6      3      1      5      3      1
  ATM WILD-TYPE      5      6      3      3      5      6      6      6      4
D82V12, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           6             5
  CLUS_2           1             6
  CLUS_3           4             3
  CLUS_4           6             3
  CLUS_5           3             5
  CLUS_6           1             6
  CLUS_7           5             6
  CLUS_8           3             6
  CLUS_9           1             4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(83) Variable = RLIM MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RLIM MUTATED        1      0      1      0      0
  RLIM WILD-TYPE     31     18     45     27     23
D83V1, multiclass
[1] "Remove cluster labels:" "RLIM MUTATED"          
clus
  RLIM MUTATED RLIM WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3679 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RLIM MUTATED        1      0      1
  RLIM WILD-TYPE     42     67     35
D83V2, multiclass
[1] "Remove cluster labels:" "RLIM MUTATED"          
clus
  RLIM MUTATED RLIM WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3679 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RLIM MUTATED        1      5      8
  RLIM WILD-TYPE     41    168    139
D83V3, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            1             41
  CLUS_2            5            168
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RLIM MUTATED        3      3      6
  RLIM WILD-TYPE     59     70     69
D83V4, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            3             59
  CLUS_2            3             70
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RLIM MUTATED        4      3      6
  RLIM WILD-TYPE     66    117     94
D83V5, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            4             66
  CLUS_2            3            117
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RLIM MUTATED        3      0      0      0      2      3      2      1      2
  RLIM WILD-TYPE     38     26     30     29     37     66     18     13     20
D83V6, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RLIM MUTATED        1      5      5      3
  RLIM WILD-TYPE     99     67     67    118
D83V7, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            5             67
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RLIM MUTATED        5      1      5      2      1
  RLIM WILD-TYPE     54     74     69    117     37
D83V8, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            5             54
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RLIM MUTATED        4      4      3      2      1
  RLIM WILD-TYPE     47     72     58     69     94
D83V9, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            4             47
  CLUS_2            4             72
  CLUS_3            3             58
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RLIM MUTATED        4      1      3      2      1      2      0      1      0
  RLIM WILD-TYPE     65     47     36     14     52     18     21     37     50
D83V10, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            4             65
  CLUS_2            1             47
  CLUS_3            3             36
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RLIM MUTATED        0      1      1      1      1      0
  RLIM WILD-TYPE     13     15     13     10     10      9
D83V11, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RLIM MUTATED        0      1      1      0      2      0      0      0      0
  RLIM WILD-TYPE     11      6      6      9      6      7     11      9      5
D83V12, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            2              6
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(84) Variable = CYLD MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYLD MUTATED        2      1      0      1      0
  CYLD WILD-TYPE     30     17     46     26     23
D84V1, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            2             30
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CYLD MUTATED        2      2      0
  CYLD WILD-TYPE     41     65     36
D84V2, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            2             41
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CYLD MUTATED        4      7     10
  CYLD WILD-TYPE     38    166    137
D84V3, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            4             38
  CLUS_2            7            166
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CYLD MUTATED        6      5      7
  CYLD WILD-TYPE     56     68     68
D84V4, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            6             56
  CLUS_2            5             68
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CYLD MUTATED        1      7     12
  CYLD WILD-TYPE     69    113     88
D84V5, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            1             69
  CLUS_2            7            113
  CLUS_3           12             88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CYLD MUTATED        4      2      1      0      2      7      1      2      1
  CYLD WILD-TYPE     37     24     29     29     37     62     19     12     21
D84V6, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            4             37
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            7             62
  CLUS_7            1             19
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYLD MUTATED        4      7      7      4
  CYLD WILD-TYPE     96     65     65    117
D84V7, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            4             96
  CLUS_2            7             65
  CLUS_3            7             65
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYLD MUTATED        5      6      6      3      2
  CYLD WILD-TYPE     54     69     68    116     36
D84V8, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            5             54
  CLUS_2            6             69
  CLUS_3            6             68
  CLUS_4            3            116
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYLD MUTATED        5      4      6      2      5
  CYLD WILD-TYPE     46     72     55     69     90
D84V9, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            5             46
  CLUS_2            4             72
  CLUS_3            6             55
  CLUS_4            2             69
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CYLD MUTATED        4      4      0      3      2      4      1      2      2
  CYLD WILD-TYPE     65     44     39     13     51     16     20     36     48
D84V10, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            4             65
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            2             51
  CLUS_6            4             16
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CYLD MUTATED        1      1      1      1      1      1
  CYLD WILD-TYPE     12     15     13     10     10      8
D84V11, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CYLD MUTATED        2      1      1      1      0      0      0      0      1
  CYLD WILD-TYPE      9      6      6      8      8      7     11      9      4
D84V12, multiclass
        clus
vv       CYLD MUTATED CYLD WILD-TYPE
  CLUS_1            2              9
  CLUS_2            1              6
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(85) Variable = GGT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGT1 MUTATED        0      0      0      0      0
  GGT1 WILD-TYPE     32     18     46     27     23
D85V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT1 MUTATED        0      0      0
  GGT1 WILD-TYPE     43     67     36
D85V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT1 MUTATED        0      7      1
  GGT1 WILD-TYPE     42    166    146
D85V3, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            7            166
  CLUS_3            1            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT1 MUTATED        0      7      1
  GGT1 WILD-TYPE     62     66     74
D85V4, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            0             62
  CLUS_2            7             66
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT1 MUTATED        1      3      4
  GGT1 WILD-TYPE     69    117     96
D85V5, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GGT1 MUTATED        1      0      0      1      0      3      1      1      1
  GGT1 WILD-TYPE     40     26     30     28     39     66     19     13     21
D85V6, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGT1 MUTATED        7      0      1      0
  GGT1 WILD-TYPE     93     72     71    121
D85V7, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            7             93
  CLUS_2            0             72
  CLUS_3            1             71
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGT1 MUTATED        4      4      0      0      0
  GGT1 WILD-TYPE     55     71     74    119     38
D85V8, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            4             71
  CLUS_3            0             74
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGT1 MUTATED        5      1      1      1      0
  GGT1 WILD-TYPE     46     75     60     70     95
D85V9, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            5             46
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GGT1 MUTATED        3      2      1      0      2      0      0      0      0
  GGT1 WILD-TYPE     66     46     38     16     51     20     21     38     50
D85V10, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GGT1 MUTATED        2      0      0      1      0      0
  GGT1 WILD-TYPE     11     16     14     10     11      9
D85V11, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GGT1 MUTATED        0      0      1      1      0      0      0      0      1
  GGT1 WILD-TYPE     11      7      6      8      8      7     11      9      4
D85V12, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(86) Variable = CYSLTR2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYSLTR2 MUTATED        2      0      1      0      0
  CYSLTR2 WILD-TYPE     30     18     45     27     23
D86V1, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYSLTR2 MUTATED        2      1      0
  CYSLTR2 WILD-TYPE     41     66     36
D86V2, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYSLTR2 MUTATED        0      6      9
  CYSLTR2 WILD-TYPE     42    167    138
D86V3, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               6               167
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYSLTR2 MUTATED        4      4      4
  CYSLTR2 WILD-TYPE     58     69     71
D86V4, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               4                69
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYSLTR2 MUTATED        3      4      6
  CYSLTR2 WILD-TYPE     67    116     94
D86V5, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               4               116
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYSLTR2 MUTATED        4      1      0      0      0      5      1      1
  CYSLTR2 WILD-TYPE     37     25     30     29     39     64     19     13
                   vv
clus                CLUS_9
  CYSLTR2 MUTATED        1
  CYSLTR2 WILD-TYPE     21
D86V6, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               4                37
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               5                64
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYSLTR2 MUTATED        3      4      5      3
  CYSLTR2 WILD-TYPE     97     68     67    118
D86V7, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               4                68
  CLUS_3               5                67
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYSLTR2 MUTATED        3      2      5      3      2
  CYSLTR2 WILD-TYPE     56     73     69    116     36
D86V8, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               2                73
  CLUS_3               5                69
  CLUS_4               3               116
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYSLTR2 MUTATED        3      5      4      1      2
  CYSLTR2 WILD-TYPE     48     71     57     70     93
D86V9, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               3                48
  CLUS_2               5                71
  CLUS_3               4                57
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYSLTR2 MUTATED        3      4      0      0      3      1      2      2
  CYSLTR2 WILD-TYPE     66     44     39     16     50     19     19     36
                   vv
clus                CLUS_9
  CYSLTR2 MUTATED        0
  CYSLTR2 WILD-TYPE     50
D86V10, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               3                50
  CLUS_6               1                19
  CLUS_7               2                19
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CYSLTR2 MUTATED        0      0      1      1      3      0
  CYSLTR2 WILD-TYPE     13     16     13     10      8      9
D86V11, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYSLTR2 MUTATED        0      0      1      0      0      1      2      1
  CYSLTR2 WILD-TYPE     11      7      6      9      8      6      9      8
                   vv
clus                CLUS_9
  CYSLTR2 MUTATED        0
  CYSLTR2 WILD-TYPE      5
D86V12, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               2                 9
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(87) Variable = ATG5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATG5 MUTATED        1      0      1      0      0
  ATG5 WILD-TYPE     31     18     45     27     23
D87V1, multiclass
[1] "Remove cluster labels:" "ATG5 MUTATED"          
clus
  ATG5 MUTATED ATG5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A01D     TCGA-AA-A01F 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATG5 MUTATED        1      1      0
  ATG5 WILD-TYPE     42     66     36
D87V2, multiclass
[1] "Remove cluster labels:" "ATG5 MUTATED"          
clus
  ATG5 MUTATED ATG5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A01D     TCGA-AA-A01F 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" "ATG5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATG5 MUTATED        1      3      4
  ATG5 WILD-TYPE     41    170    143
D87V3, multiclass
        clus
vv       ATG5 MUTATED ATG5 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATG5 MUTATED        1      1      4
  ATG5 WILD-TYPE     61     72     71
D87V4, multiclass
        clus
vv       ATG5 MUTATED ATG5 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATG5 MUTATED        1      3      2
  ATG5 WILD-TYPE     69    117     98
D87V5, multiclass
        clus
vv       ATG5 MUTATED ATG5 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATG5 MUTATED        0      1      0      2      0      2      1      0      0
  ATG5 WILD-TYPE     41     25     30     27     39     67     19     14     22
D87V6, multiclass
        clus
vv       ATG5 MUTATED ATG5 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATG5 MUTATED        2      4      0      2
  ATG5 WILD-TYPE     98     68     72    119
D87V7, multiclass
        clus
vv       ATG5 MUTATED ATG5 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            0             72
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATG5 MUTATED        0      2      4      1      1
  ATG5 WILD-TYPE     59     73     70    118     37
D87V8, multiclass
        clus
vv       ATG5 MUTATED ATG5 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATG5 MUTATED        2      3      0      0      2
  ATG5 WILD-TYPE     49     73     61     71     93
D87V9, multiclass
        clus
vv       ATG5 MUTATED ATG5 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATG5 MUTATED        1      0      1      2      1      0      0      2      0
  ATG5 WILD-TYPE     68     48     38     14     52     20     21     36     50
D87V10, multiclass
        clus
vv       ATG5 MUTATED ATG5 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATG5 MUTATED        0      0      0      0      0      0
  ATG5 WILD-TYPE     13     16     14     11     11      9
D87V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATG5 MUTATED        0      0      0      0      0      0      0      0      0
  ATG5 WILD-TYPE     11      7      7      9      8      7     11      9      5
D87V12, multiclass

Clustering(88) Variable = MAP4K3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP4K3 MUTATED        1      0      0      2      0
  MAP4K3 WILD-TYPE     31     18     46     25     23
D88V1, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP4K3 MUTATED        2      1      0
  MAP4K3 WILD-TYPE     41     66     36
D88V2, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP4K3 MUTATED        1      3     13
  MAP4K3 WILD-TYPE     41    170    134
D88V3, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP4K3 MUTATED        5      1      8
  MAP4K3 WILD-TYPE     57     72     67
D88V4, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              1               72
  CLUS_3              8               67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP4K3 MUTATED        1      4     10
  MAP4K3 WILD-TYPE     69    116     90
D88V5, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP4K3 MUTATED        2      2      2      1      2      5      1      0
  MAP4K3 WILD-TYPE     39     24     28     28     37     64     19     14
                  vv
clus               CLUS_9
  MAP4K3 MUTATED        0
  MAP4K3 WILD-TYPE     22
D88V6, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP4K3 MUTATED        2      5      7      3
  MAP4K3 WILD-TYPE     98     67     65    118
D88V7, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              5               67
  CLUS_3              7               65
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP4K3 MUTATED        5      2      7      1      2
  MAP4K3 WILD-TYPE     54     73     67    118     36
D88V8, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              5               54
  CLUS_2              2               73
  CLUS_3              7               67
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP4K3 MUTATED        2      7      5      0      2
  MAP4K3 WILD-TYPE     49     69     56     71     93
D88V9, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              7               69
  CLUS_3              5               56
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP4K3 MUTATED        4      3      1      5      1      1      0      1
  MAP4K3 WILD-TYPE     65     45     38     11     52     19     21     37
                  vv
clus               CLUS_9
  MAP4K3 MUTATED        0
  MAP4K3 WILD-TYPE     50
D88V10, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              5               11
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAP4K3 MUTATED        0      2      2      0      1      1
  MAP4K3 WILD-TYPE     13     14     12     11     10      8
D88V11, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP4K3 MUTATED        4      0      0      1      0      0      1      0
  MAP4K3 WILD-TYPE      7      7      7      8      8      7     10      9
                  vv
clus               CLUS_9
  MAP4K3 MUTATED        0
  MAP4K3 WILD-TYPE      5
D88V12, multiclass
        clus
vv       MAP4K3 MUTATED MAP4K3 WILD-TYPE
  CLUS_1              4                7
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(89) Variable = PRPS1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRPS1 MUTATED        0      0      0      0      0
  PRPS1 WILD-TYPE     32     18     46     27     23
D89V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRPS1 MUTATED        0      0      0
  PRPS1 WILD-TYPE     43     67     36
D89V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRPS1 MUTATED        3      2      3
  PRPS1 WILD-TYPE     39    171    144
D89V3, multiclass
        clus
vv       PRPS1 MUTATED PRPS1 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             2             171
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRPS1 MUTATED        4      1      3
  PRPS1 WILD-TYPE     58     72     72
D89V4, multiclass
        clus
vv       PRPS1 MUTATED PRPS1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRPS1 MUTATED        2      1      5
  PRPS1 WILD-TYPE     68    119     95
D89V5, multiclass
        clus
vv       PRPS1 MUTATED PRPS1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRPS1 MUTATED        0      0      0      1      2      5      0      0
  PRPS1 WILD-TYPE     41     26     30     28     37     64     20     14
                 vv
clus              CLUS_9
  PRPS1 MUTATED        0
  PRPS1 WILD-TYPE     22
D89V6, multiclass
        clus
vv       PRPS1 MUTATED PRPS1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRPS1 MUTATED        1      4      2      1
  PRPS1 WILD-TYPE     99     68     70    120
D89V7, multiclass
        clus
vv       PRPS1 MUTATED PRPS1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRPS1 MUTATED        1      1      5      1      0
  PRPS1 WILD-TYPE     58     74     69    118     38
D89V8, multiclass
        clus
vv       PRPS1 MUTATED PRPS1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRPS1 MUTATED        2      5      1      0      0
  PRPS1 WILD-TYPE     49     71     60     71     95
D89V9, multiclass
        clus
vv       PRPS1 MUTATED PRPS1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRPS1 MUTATED        3      0      1      2      2      0      0      0
  PRPS1 WILD-TYPE     66     48     38     14     51     20     21     38
                 vv
clus              CLUS_9
  PRPS1 MUTATED        0
  PRPS1 WILD-TYPE     50
D89V10, multiclass
        clus
vv       PRPS1 MUTATED PRPS1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRPS1 MUTATED        0      0      0      0      2      0
  PRPS1 WILD-TYPE     13     16     14     11      9      9
D89V11, multiclass
[1] "Remove cluster labels:" "PRPS1 MUTATED"         
clus
  PRPS1 MUTATED PRPS1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRPS1 MUTATED        0      0      0      1      0      1      0      0
  PRPS1 WILD-TYPE     11      7      7      8      8      6     11      9
                 vv
clus              CLUS_9
  PRPS1 MUTATED        0
  PRPS1 WILD-TYPE      5
D89V12, multiclass
[1] "Remove cluster labels:" "PRPS1 MUTATED"         
clus
  PRPS1 MUTATED PRPS1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" "PRPS1 WILD-TYPE" 

Clustering(90) Variable = KCTD3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCTD3 MUTATED        0      0      0      2      0
  KCTD3 WILD-TYPE     32     18     46     25     23
D90V1, multiclass
[1] "Remove cluster labels:" "KCTD3 MUTATED"         
clus
  KCTD3 MUTATED KCTD3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD3 MUTATED        1      1      0
  KCTD3 WILD-TYPE     42     66     36
D90V2, multiclass
[1] "Remove cluster labels:" "KCTD3 MUTATED"         
clus
  KCTD3 MUTATED KCTD3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD3 MUTATED        0      1     16
  KCTD3 WILD-TYPE     42    172    131
D90V3, multiclass
        clus
vv       KCTD3 MUTATED KCTD3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD3 MUTATED        7      1      6
  KCTD3 WILD-TYPE     55     72     69
D90V4, multiclass
        clus
vv       KCTD3 MUTATED KCTD3 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD3 MUTATED        5      3      8
  KCTD3 WILD-TYPE     65    117     92
D90V5, multiclass
        clus
vv       KCTD3 MUTATED KCTD3 WILD-TYPE
  CLUS_1             5              65
  CLUS_2             3             117
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCTD3 MUTATED        2      2      2      0      0      8      1      1
  KCTD3 WILD-TYPE     39     24     28     29     39     61     19     13
                 vv
clus              CLUS_9
  KCTD3 MUTATED        0
  KCTD3 WILD-TYPE     22
D90V6, multiclass
        clus
vv       KCTD3 MUTATED KCTD3 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             8              61
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCTD3 MUTATED        1      7      6      3
  KCTD3 WILD-TYPE     99     65     66    118
D90V7, multiclass
        clus
vv       KCTD3 MUTATED KCTD3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             7              65
  CLUS_3             6              66
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCTD3 MUTATED        1      1     12      1      2
  KCTD3 WILD-TYPE     58     74     62    118     36
D90V8, multiclass
        clus
vv       KCTD3 MUTATED KCTD3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3            12              62
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCTD3 MUTATED        0     10      3      1      2
  KCTD3 WILD-TYPE     51     66     58     70     93
D90V9, multiclass
        clus
vv       KCTD3 MUTATED KCTD3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2            10              66
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCTD3 MUTATED        2      3      1      6      1      1      0      1
  KCTD3 WILD-TYPE     67     45     38     10     52     19     21     37
                 vv
clus              CLUS_9
  KCTD3 MUTATED        1
  KCTD3 WILD-TYPE     49
D90V10, multiclass
        clus
vv       KCTD3 MUTATED KCTD3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             6              10
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KCTD3 MUTATED        0      1      2      1      4      0
  KCTD3 WILD-TYPE     13     15     12     10      7      9
D90V11, multiclass
        clus
vv       KCTD3 MUTATED KCTD3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCTD3 MUTATED        0      0      0      2      2      0      4      0
  KCTD3 WILD-TYPE     11      7      7      7      6      7      7      9
                 vv
clus              CLUS_9
  KCTD3 MUTATED        0
  KCTD3 WILD-TYPE      5
D90V12, multiclass
        clus
vv       KCTD3 MUTATED KCTD3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             4               7
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(91) Variable = PTGDR MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTGDR MUTATED        0      0      0      0      0
  PTGDR WILD-TYPE     32     18     46     27     23
D91V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTGDR MUTATED        0      0      0
  PTGDR WILD-TYPE     43     67     36
D91V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTGDR MUTATED        0      4      3
  PTGDR WILD-TYPE     42    169    144
D91V3, multiclass
        clus
vv       PTGDR MUTATED PTGDR WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTGDR MUTATED        3      1      3
  PTGDR WILD-TYPE     59     72     72
D91V4, multiclass
        clus
vv       PTGDR MUTATED PTGDR WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTGDR MUTATED        0      5      2
  PTGDR WILD-TYPE     70    115     98
D91V5, multiclass
        clus
vv       PTGDR MUTATED PTGDR WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTGDR MUTATED        0      2      1      1      0      2      1      0
  PTGDR WILD-TYPE     41     24     29     28     39     67     19     14
                 vv
clus              CLUS_9
  PTGDR MUTATED        0
  PTGDR WILD-TYPE     22
D91V6, multiclass
        clus
vv       PTGDR MUTATED PTGDR WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTGDR MUTATED        2      2      1      2
  PTGDR WILD-TYPE     98     70     71    119
D91V7, multiclass
        clus
vv       PTGDR MUTATED PTGDR WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTGDR MUTATED        0      3      2      2      0
  PTGDR WILD-TYPE     59     72     72    117     38
D91V8, multiclass
        clus
vv       PTGDR MUTATED PTGDR WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTGDR MUTATED        2      3      1      0      1
  PTGDR WILD-TYPE     49     73     60     71     94
D91V9, multiclass
        clus
vv       PTGDR MUTATED PTGDR WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTGDR MUTATED        1      1      1      0      2      1      0      0
  PTGDR WILD-TYPE     68     47     38     16     51     19     21     38
                 vv
clus              CLUS_9
  PTGDR MUTATED        1
  PTGDR WILD-TYPE     49
D91V10, multiclass
        clus
vv       PTGDR MUTATED PTGDR WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTGDR MUTATED        0      0      0      0      0      0
  PTGDR WILD-TYPE     13     16     14     11     11      9
D91V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTGDR MUTATED        0      0      0      0      0      0      0      0
  PTGDR WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  PTGDR MUTATED        0
  PTGDR WILD-TYPE      5
D91V12, multiclass

Clustering(92) Variable = BCORL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCORL1 MUTATED        2      0      0      2      0
  BCORL1 WILD-TYPE     30     18     46     25     23
D92V1, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BCORL1 MUTATED        2      2      0
  BCORL1 WILD-TYPE     41     65     36
D92V2, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BCORL1 MUTATED        2      4     18
  BCORL1 WILD-TYPE     40    169    129
D92V3, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              4              169
  CLUS_3             18              129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BCORL1 MUTATED        6      3     12
  BCORL1 WILD-TYPE     56     70     63
D92V4, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              3               70
  CLUS_3             12               63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BCORL1 MUTATED        1     13      8
  BCORL1 WILD-TYPE     69    107     92
D92V5, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2             13              107
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCORL1 MUTATED        0      2      2      6      2      7      3      0
  BCORL1 WILD-TYPE     41     24     28     23     37     62     17     14
                  vv
clus               CLUS_9
  BCORL1 MUTATED        0
  BCORL1 WILD-TYPE     22
D92V6, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              2               24
  CLUS_3              2               28
  CLUS_4              6               23
  CLUS_5              2               37
  CLUS_6              7               62
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCORL1 MUTATED        4      9      7      5
  BCORL1 WILD-TYPE     96     63     65    116
D92V7, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              9               63
  CLUS_3              7               65
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCORL1 MUTATED        1      4     14      4      2
  BCORL1 WILD-TYPE     58     71     60    115     36
D92V8, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3             14               60
  CLUS_4              4              115
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCORL1 MUTATED        1     15      2      2      5
  BCORL1 WILD-TYPE     50     61     59     69     90
D92V9, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2             15               61
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCORL1 MUTATED        4      6      2      4      4      2      0      1
  BCORL1 WILD-TYPE     65     42     37     12     49     18     21     37
                  vv
clus               CLUS_9
  BCORL1 MUTATED        2
  BCORL1 WILD-TYPE     48
D92V10, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              6               42
  CLUS_3              2               37
  CLUS_4              4               12
  CLUS_5              4               49
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BCORL1 MUTATED        2      0      2      0      3      0
  BCORL1 WILD-TYPE     11     16     12     11      8      9
D92V11, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCORL1 MUTATED        0      0      0      2      0      2      2      1
  BCORL1 WILD-TYPE     11      7      7      7      8      5      9      8
                  vv
clus               CLUS_9
  BCORL1 MUTATED        0
  BCORL1 WILD-TYPE      5
D92V12, multiclass
        clus
vv       BCORL1 MUTATED BCORL1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              2                5
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(93) Variable = IDH2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDH2 MUTATED        3      0      1      2      0
  IDH2 WILD-TYPE     29     18     45     25     23
D93V1, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH2 MUTATED        5      0      1
  IDH2 WILD-TYPE     38     67     35
D93V2, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH2 MUTATED        1      7      9
  IDH2 WILD-TYPE     41    166    138
D93V3, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            7            166
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH2 MUTATED        3      2      4
  IDH2 WILD-TYPE     59     71     71
D93V4, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            2             71
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH2 MUTATED        2      5      6
  IDH2 WILD-TYPE     68    115     94
D93V5, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDH2 MUTATED        0      1      2      1      2      4      2      0      1
  IDH2 WILD-TYPE     41     25     28     28     37     65     18     14     21
D93V6, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            4             65
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDH2 MUTATED        5      6      1      5
  IDH2 WILD-TYPE     95     66     71    116
D93V7, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            5             95
  CLUS_2            6             66
  CLUS_3            1             71
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDH2 MUTATED        2      4      4      2      5
  IDH2 WILD-TYPE     57     71     70    117     33
D93V8, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            4             71
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDH2 MUTATED        2      8      1      1      5
  IDH2 WILD-TYPE     49     68     60     70     90
D93V9, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            8             68
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDH2 MUTATED        4      0      0      3      4      0      3      3      0
  IDH2 WILD-TYPE     65     48     39     13     49     20     18     35     50
D93V10, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            4             49
  CLUS_6            0             20
  CLUS_7            3             18
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IDH2 MUTATED        0      1      0      0      1      0
  IDH2 WILD-TYPE     13     15     14     11     10      9
D93V11, multiclass
[1] "Remove cluster labels:" "IDH2 MUTATED"          
clus
  IDH2 MUTATED IDH2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AZ-4323 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDH2 MUTATED        1      0      0      1      0      0      0      0      0
  IDH2 WILD-TYPE     10      7      7      8      8      7     11      9      5
D93V12, multiclass
[1] "Remove cluster labels:" "IDH2 MUTATED"          
clus
  IDH2 MUTATED IDH2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AZ-4323 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 

Clustering(94) Variable = TMEM126A MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM126A MUTATED        0      0      0      0      0
  TMEM126A WILD-TYPE     32     18     46     27     23
D94V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMEM126A MUTATED        0      0      0
  TMEM126A WILD-TYPE     43     67     36
D94V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMEM126A MUTATED        0      4      3
  TMEM126A WILD-TYPE     42    169    144
D94V3, multiclass
        clus
vv       TMEM126A MUTATED TMEM126A WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                4                169
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMEM126A MUTATED        0      2      5
  TMEM126A WILD-TYPE     62     71     70
D94V4, multiclass
        clus
vv       TMEM126A MUTATED TMEM126A WILD-TYPE
  CLUS_1                0                 62
  CLUS_2                2                 71
  CLUS_3                5                 70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMEM126A MUTATED        0      4      0
  TMEM126A WILD-TYPE     70    116    100
D94V5, multiclass
        clus
vv       TMEM126A MUTATED TMEM126A WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                4                116
  CLUS_3                0                100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM126A MUTATED        0      1      2      1      0      0      0      0
  TMEM126A WILD-TYPE     41     25     28     28     39     69     20     14
                    vv
clus                 CLUS_9
  TMEM126A MUTATED        0
  TMEM126A WILD-TYPE     22
D94V6, multiclass
        clus
vv       TMEM126A MUTATED TMEM126A WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                2                 28
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                0                 69
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM126A MUTATED        5      1      1      0
  TMEM126A WILD-TYPE     95     71     71    121
D94V7, multiclass
        clus
vv       TMEM126A MUTATED TMEM126A WILD-TYPE
  CLUS_1                5                 95
  CLUS_2                1                 71
  CLUS_3                1                 71
  CLUS_4                0                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM126A MUTATED        1      3      3      0      0
  TMEM126A WILD-TYPE     58     72     71    119     38
D94V8, multiclass
        clus
vv       TMEM126A MUTATED TMEM126A WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                3                 72
  CLUS_3                3                 71
  CLUS_4                0                119
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM126A MUTATED        3      1      2      1      0
  TMEM126A WILD-TYPE     48     75     59     70     95
D94V9, multiclass
        clus
vv       TMEM126A MUTATED TMEM126A WILD-TYPE
  CLUS_1                3                 48
  CLUS_2                1                 75
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                0                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM126A MUTATED        1      2      1      0      2      1      0      0
  TMEM126A WILD-TYPE     68     46     38     16     51     19     21     38
                    vv
clus                 CLUS_9
  TMEM126A MUTATED        0
  TMEM126A WILD-TYPE     50
D94V10, multiclass
        clus
vv       TMEM126A MUTATED TMEM126A WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                2                 46
  CLUS_3                1                 38
  CLUS_4                0                 16
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM126A MUTATED        1      0      0      0      1      0
  TMEM126A WILD-TYPE     12     16     14     11     10      9
D94V11, multiclass
[1] "Remove cluster labels:" "TMEM126A MUTATED"      
clus
  TMEM126A MUTATED TMEM126A WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM126A MUTATED        0      0      1      1      0      0      0      0
  TMEM126A WILD-TYPE     11      7      6      8      8      7     11      9
                    vv
clus                 CLUS_9
  TMEM126A MUTATED        0
  TMEM126A WILD-TYPE      5
D94V12, multiclass
[1] "Remove cluster labels:" "TMEM126A MUTATED"      
clus
  TMEM126A MUTATED TMEM126A WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" "TMEM126A WILD-TYPE" 

Clustering(95) Variable = GRB2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRB2 MUTATED        1      0      0      1      0
  GRB2 WILD-TYPE     31     18     46     26     23
D95V1, multiclass
[1] "Remove cluster labels:" "GRB2 MUTATED"          
clus
  GRB2 MUTATED GRB2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRB2 MUTATED        2      0      0
  GRB2 WILD-TYPE     41     67     36
D95V2, multiclass
[1] "Remove cluster labels:" "GRB2 MUTATED"          
clus
  GRB2 MUTATED GRB2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" "GRB2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRB2 MUTATED        1      3      5
  GRB2 WILD-TYPE     41    170    142
D95V3, multiclass
        clus
vv       GRB2 MUTATED GRB2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRB2 MUTATED        2      1      4
  GRB2 WILD-TYPE     60     72     71
D95V4, multiclass
        clus
vv       GRB2 MUTATED GRB2 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRB2 MUTATED        1      4      2
  GRB2 WILD-TYPE     69    116     98
D95V5, multiclass
        clus
vv       GRB2 MUTATED GRB2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRB2 MUTATED        1      1      0      2      0      1      2      0      0
  GRB2 WILD-TYPE     40     25     30     27     39     68     18     14     22
D95V6, multiclass
        clus
vv       GRB2 MUTATED GRB2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRB2 MUTATED        2      3      2      2
  GRB2 WILD-TYPE     98     69     70    119
D95V7, multiclass
        clus
vv       GRB2 MUTATED GRB2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRB2 MUTATED        1      2      4      0      2
  GRB2 WILD-TYPE     58     73     70    119     36
D95V8, multiclass
        clus
vv       GRB2 MUTATED GRB2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRB2 MUTATED        1      4      1      1      1
  GRB2 WILD-TYPE     50     72     60     70     94
D95V9, multiclass
        clus
vv       GRB2 MUTATED GRB2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRB2 MUTATED        1      0      1      2      2      1      0      1      0
  GRB2 WILD-TYPE     68     48     38     14     51     19     21     37     50
D95V10, multiclass
        clus
vv       GRB2 MUTATED GRB2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GRB2 MUTATED        1      0      2      0      0      0
  GRB2 WILD-TYPE     12     16     12     11     11      9
D95V11, multiclass
        clus
vv       GRB2 MUTATED GRB2 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRB2 MUTATED        0      0      0      1      2      0      0      0      0
  GRB2 WILD-TYPE     11      7      7      8      6      7     11      9      5
D95V12, multiclass
        clus
vv       GRB2 MUTATED GRB2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            2              6
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(96) Variable = PLXNA3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLXNA3 MUTATED        1      0      0      0      0
  PLXNA3 WILD-TYPE     31     18     46     27     23
D96V1, multiclass
[1] "Remove cluster labels:" "PLXNA3 MUTATED"        
clus
  PLXNA3 MUTATED PLXNA3 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AY-4071 
"PLXNA3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLXNA3 MUTATED        1      0      0
  PLXNA3 WILD-TYPE     42     67     36
D96V2, multiclass
[1] "Remove cluster labels:" "PLXNA3 MUTATED"        
clus
  PLXNA3 MUTATED PLXNA3 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" "PLXNA3 WILD-TYPE" 
      TCGA-AY-4071 
"PLXNA3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLXNA3 MUTATED        1      1     15
  PLXNA3 WILD-TYPE     41    172    132
D96V3, multiclass
        clus
vv       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3             15              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLXNA3 MUTATED        5      0     11
  PLXNA3 WILD-TYPE     57     73     64
D96V4, multiclass
        clus
vv       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              0               73
  CLUS_3             11               64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLXNA3 MUTATED        3      6      7
  PLXNA3 WILD-TYPE     67    114     93
D96V5, multiclass
        clus
vv       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              6              114
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLXNA3 MUTATED        2      1      0      2      2      4      2      3
  PLXNA3 WILD-TYPE     39     25     30     27     37     65     18     11
                  vv
clus               CLUS_9
  PLXNA3 MUTATED        0
  PLXNA3 WILD-TYPE     22
D96V6, multiclass
        clus
vv       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              3               11
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLXNA3 MUTATED        2     10      4      1
  PLXNA3 WILD-TYPE     98     62     68    120
D96V7, multiclass
        clus
vv       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  CLUS_1              2               98
  CLUS_2             10               62
  CLUS_3              4               68
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLXNA3 MUTATED        2      1     12      1      1
  PLXNA3 WILD-TYPE     57     74     62    118     37
D96V8, multiclass
        clus
vv       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3             12               62
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLXNA3 MUTATED        1     13      1      0      2
  PLXNA3 WILD-TYPE     50     63     60     71     93
D96V9, multiclass
        clus
vv       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  CLUS_1              1               50
  CLUS_2             13               63
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLXNA3 MUTATED        4      4      1      4      2      0      0      2
  PLXNA3 WILD-TYPE     65     44     38     12     51     20     21     36
                  vv
clus               CLUS_9
  PLXNA3 MUTATED        0
  PLXNA3 WILD-TYPE     50
D96V10, multiclass
        clus
vv       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              4               12
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLXNA3 MUTATED        0      1      1      1      2      0
  PLXNA3 WILD-TYPE     13     15     13     10      9      9
D96V11, multiclass
        clus
vv       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLXNA3 MUTATED        0      0      0      1      0      0      4      0
  PLXNA3 WILD-TYPE     11      7      7      8      8      7      7      9
                  vv
clus               CLUS_9
  PLXNA3 MUTATED        0
  PLXNA3 WILD-TYPE      5
D96V12, multiclass
        clus
vv       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              4                7
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(97) Variable = C15ORF52 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C15ORF52 MUTATED        3      0      0      0      0
  C15ORF52 WILD-TYPE     29     18     46     27     23
D97V1, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                0                 27
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C15ORF52 MUTATED        3      0      0
  C15ORF52 WILD-TYPE     40     67     36
D97V2, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                0                 67
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C15ORF52 MUTATED        0      0     12
  C15ORF52 WILD-TYPE     42    173    135
D97V3, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3               12                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C15ORF52 MUTATED        2      0      7
  C15ORF52 WILD-TYPE     60     73     68
D97V4, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                0                 73
  CLUS_3                7                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C15ORF52 MUTATED        2      3      4
  C15ORF52 WILD-TYPE     68    117     96
D97V5, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                3                117
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C15ORF52 MUTATED        0      2      0      1      2      3      0      1
  C15ORF52 WILD-TYPE     41     24     30     28     37     66     20     13
                    vv
clus                 CLUS_9
  C15ORF52 MUTATED        0
  C15ORF52 WILD-TYPE     22
D97V6, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                2                 24
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                2                 37
  CLUS_6                3                 66
  CLUS_7                0                 20
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C15ORF52 MUTATED        1      7      1      3
  C15ORF52 WILD-TYPE     99     65     71    118
D97V7, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                7                 65
  CLUS_3                1                 71
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C15ORF52 MUTATED        0      1      8      1      2
  C15ORF52 WILD-TYPE     59     74     66    118     36
D97V8, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                8                 66
  CLUS_4                1                118
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C15ORF52 MUTATED        1      5      2      0      4
  C15ORF52 WILD-TYPE     50     71     59     71     91
D97V9, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                5                 71
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C15ORF52 MUTATED        2      0      1      4      2      0      1      2
  C15ORF52 WILD-TYPE     67     48     38     12     51     20     20     36
                    vv
clus                 CLUS_9
  C15ORF52 MUTATED        0
  C15ORF52 WILD-TYPE     50
D97V10, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                0                 48
  CLUS_3                1                 38
  CLUS_4                4                 12
  CLUS_5                2                 51
  CLUS_6                0                 20
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C15ORF52 MUTATED        0      0      2      0      2      0
  C15ORF52 WILD-TYPE     13     16     12     11      9      9
D97V11, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                0                 16
  CLUS_3                2                 12
  CLUS_4                0                 11
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C15ORF52 MUTATED        0      0      0      2      2      0      0      0
  C15ORF52 WILD-TYPE     11      7      7      7      6      7     11      9
                    vv
clus                 CLUS_9
  C15ORF52 MUTATED        0
  C15ORF52 WILD-TYPE      5
D97V12, multiclass
        clus
vv       C15ORF52 MUTATED C15ORF52 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                2                  7
  CLUS_5                2                  6
  CLUS_6                0                  7
  CLUS_7                0                 11
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(98) Variable = PCBP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCBP1 MUTATED        0      1      1      2      0
  PCBP1 WILD-TYPE     32     17     45     25     23
D98V1, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              32
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        0      3      1
  PCBP1 WILD-TYPE     43     64     35
D98V2, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              43
  CLUS_2             3              64
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        1      3      6
  PCBP1 WILD-TYPE     41    170    141
D98V3, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        2      0      4
  PCBP1 WILD-TYPE     60     73     71
D98V4, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        0      3      3
  PCBP1 WILD-TYPE     70    117     97
D98V5, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCBP1 MUTATED        0      1      2      0      0      3      0      0
  PCBP1 WILD-TYPE     41     25     28     29     39     66     20     14
                 vv
clus              CLUS_9
  PCBP1 MUTATED        0
  PCBP1 WILD-TYPE     22
D98V6, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        1      4      2      3
  PCBP1 WILD-TYPE     99     68     70    118
D98V7, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCBP1 MUTATED        0      2      4      4      0
  PCBP1 WILD-TYPE     59     73     70    115     38
D98V8, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             4             115
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCBP1 MUTATED        0      6      0      3      0
  PCBP1 WILD-TYPE     51     70     61     68     95
D98V9, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             3              68
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCBP1 MUTATED        5      1      0      0      0      0      1      0
  PCBP1 WILD-TYPE     64     47     39     16     53     20     20     38
                 vv
clus              CLUS_9
  PCBP1 MUTATED        2
  PCBP1 WILD-TYPE     48
D98V10, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCBP1 MUTATED        0      0      1      0      1      0
  PCBP1 WILD-TYPE     13     16     13     11     10      9
D98V11, multiclass
[1] "Remove cluster labels:" "PCBP1 MUTATED"         
clus
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCBP1 MUTATED        0      0      0      0      0      0      2      0
  PCBP1 WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  PCBP1 MUTATED        0
  PCBP1 WILD-TYPE      5
D98V12, multiclass
[1] "Remove cluster labels:" "PCBP1 MUTATED"         
clus
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 

Clustering(99) Variable = SLK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLK MUTATED        2      0      0      2      0
  SLK WILD-TYPE     30     18     46     25     23
D99V1, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SLK MUTATED        2      2      0
  SLK WILD-TYPE     41     65     36
D99V2, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           2            41
  CLUS_2           2            65
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SLK MUTATED        2      7     14
  SLK WILD-TYPE     40    166    133
D99V3, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           2            40
  CLUS_2           7           166
  CLUS_3          14           133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SLK MUTATED        5      8      5
  SLK WILD-TYPE     57     65     70
D99V4, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           5            57
  CLUS_2           8            65
  CLUS_3           5            70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SLK MUTATED        2      8      9
  SLK WILD-TYPE     68    112     91
D99V5, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           2            68
  CLUS_2           8           112
  CLUS_3           9            91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SLK MUTATED        3      2      4      2      1      4      0      1      2
  SLK WILD-TYPE     38     24     26     27     38     65     20     13     20
D99V6, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           3            38
  CLUS_2           2            24
  CLUS_3           4            26
  CLUS_4           2            27
  CLUS_5           1            38
  CLUS_6           4            65
  CLUS_7           0            20
  CLUS_8           1            13
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLK MUTATED        5      6      7      5
  SLK WILD-TYPE     95     66     65    116
D99V7, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           5            95
  CLUS_2           6            66
  CLUS_3           7            65
  CLUS_4           5           116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLK MUTATED        6      5      6      3      3
  SLK WILD-TYPE     53     70     68    116     35
D99V8, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           6            53
  CLUS_2           5            70
  CLUS_3           6            68
  CLUS_4           3           116
  CLUS_5           3            35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLK MUTATED        4      7      5      0      6
  SLK WILD-TYPE     47     69     56     71     89
D99V9, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           4            47
  CLUS_2           7            69
  CLUS_3           5            56
  CLUS_4           0            71
  CLUS_5           6            89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SLK MUTATED        3      5      4      2      1      2      1      2      2
  SLK WILD-TYPE     66     43     35     14     52     18     20     36     48
D99V10, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           3            66
  CLUS_2           5            43
  CLUS_3           4            35
  CLUS_4           2            14
  CLUS_5           1            52
  CLUS_6           2            18
  CLUS_7           1            20
  CLUS_8           2            36
  CLUS_9           2            48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLK MUTATED        2      1      0      2      1      1
  SLK WILD-TYPE     11     15     14      9     10      8
D99V11, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           2            11
  CLUS_2           1            15
  CLUS_3           0            14
  CLUS_4           2             9
  CLUS_5           1            10
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SLK MUTATED        1      1      2      1      0      0      0      2      0
  SLK WILD-TYPE     10      6      5      8      8      7     11      7      5
D99V12, multiclass
        clus
vv       SLK MUTATED SLK WILD-TYPE
  CLUS_1           1            10
  CLUS_2           1             6
  CLUS_3           2             5
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           0            11
  CLUS_8           2             7
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(100) Variable = SMAD4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMAD4 MUTATED        8      3      3      6      1
  SMAD4 WILD-TYPE     24     15     43     21     22
D100V1, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             8              24
  CLUS_2             3              15
  CLUS_3             3              43
  CLUS_4             6              21
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED        9     10      2
  SMAD4 WILD-TYPE     34     57     34
D100V2, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             9              34
  CLUS_2            10              57
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED       16     54     48
  SMAD4 WILD-TYPE     26    119     99
D100V3, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1            16              26
  CLUS_2            54             119
  CLUS_3            48              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED       36     30     32
  SMAD4 WILD-TYPE     26     43     43
D100V4, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1            36              26
  CLUS_2            30              43
  CLUS_3            32              43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED       19     43     40
  SMAD4 WILD-TYPE     51     77     60
D100V5, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1            19              51
  CLUS_2            43              77
  CLUS_3            40              60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMAD4 MUTATED       16      7      4      9     10     24     12      9
  SMAD4 WILD-TYPE     25     19     26     20     29     45      8      5
                 vv
clus              CLUS_9
  SMAD4 MUTATED       11
  SMAD4 WILD-TYPE     11
D100V6, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1            16              25
  CLUS_2             7              19
  CLUS_3             4              26
  CLUS_4             9              20
  CLUS_5            10              29
  CLUS_6            24              45
  CLUS_7            12               8
  CLUS_8             9               5
  CLUS_9            11              11
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD4 MUTATED       38     22     39     19
  SMAD4 WILD-TYPE     62     50     33    102
D100V7, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1            38              62
  CLUS_2            22              50
  CLUS_3            39              33
  CLUS_4            19             102
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMAD4 MUTATED       31     32     32     15      8
  SMAD4 WILD-TYPE     28     43     42    104     30
D100V8, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1            31              28
  CLUS_2            32              43
  CLUS_3            32              42
  CLUS_4            15             104
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMAD4 MUTATED       25     34     30     12     17
  SMAD4 WILD-TYPE     26     42     31     59     78
D100V9, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1            25              26
  CLUS_2            34              42
  CLUS_3            30              31
  CLUS_4            12              59
  CLUS_5            17              78
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMAD4 MUTATED       31     28     15      5     18      7      1      9
  SMAD4 WILD-TYPE     38     20     24     11     35     13     20     29
                 vv
clus              CLUS_9
  SMAD4 MUTATED        4
  SMAD4 WILD-TYPE     46
D100V10, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1            31              38
  CLUS_2            28              20
  CLUS_3            15              24
  CLUS_4             5              11
  CLUS_5            18              35
  CLUS_6             7              13
  CLUS_7             1              20
  CLUS_8             9              29
  CLUS_9             4              46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMAD4 MUTATED        5     11      9      4      5      3
  SMAD4 WILD-TYPE      8      5      5      7      6      6
D100V11, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             5               8
  CLUS_2            11               5
  CLUS_3             9               5
  CLUS_4             4               7
  CLUS_5             5               6
  CLUS_6             3               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMAD4 MUTATED        6      4      3      3      7      3      6      5
  SMAD4 WILD-TYPE      5      3      4      6      1      4      5      4
                 vv
clus              CLUS_9
  SMAD4 MUTATED        0
  SMAD4 WILD-TYPE      5
D100V12, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             6               5
  CLUS_2             4               3
  CLUS_3             3               4
  CLUS_4             3               6
  CLUS_5             7               1
  CLUS_6             3               4
  CLUS_7             6               5
  CLUS_8             5               4
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(101) Variable = XYLT2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XYLT2 MUTATED        1      0      0      0      0
  XYLT2 WILD-TYPE     31     18     46     27     23
D101V1, multiclass
[1] "Remove cluster labels:" "XYLT2 MUTATED"         
clus
  XYLT2 MUTATED XYLT2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AY-4071 
"XYLT2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XYLT2 MUTATED        1      0      0
  XYLT2 WILD-TYPE     42     67     36
D101V2, multiclass
[1] "Remove cluster labels:" "XYLT2 MUTATED"         
clus
  XYLT2 MUTATED XYLT2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" "XYLT2 WILD-TYPE" 
     TCGA-AY-4071 
"XYLT2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XYLT2 MUTATED        1      1     12
  XYLT2 WILD-TYPE     41    172    135
D101V3, multiclass
        clus
vv       XYLT2 MUTATED XYLT2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XYLT2 MUTATED        2      1     10
  XYLT2 WILD-TYPE     60     72     65
D101V4, multiclass
        clus
vv       XYLT2 MUTATED XYLT2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XYLT2 MUTATED        2      5      6
  XYLT2 WILD-TYPE     68    115     94
D101V5, multiclass
        clus
vv       XYLT2 MUTATED XYLT2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XYLT2 MUTATED        1      1      0      3      0      5      2      0
  XYLT2 WILD-TYPE     40     25     30     26     39     64     18     14
                 vv
clus              CLUS_9
  XYLT2 MUTATED        1
  XYLT2 WILD-TYPE     21
D101V6, multiclass
        clus
vv       XYLT2 MUTATED XYLT2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XYLT2 MUTATED        0      9      4      1
  XYLT2 WILD-TYPE    100     63     68    120
D101V7, multiclass
        clus
vv       XYLT2 MUTATED XYLT2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             9              63
  CLUS_3             4              68
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XYLT2 MUTATED        1      1     10      2      0
  XYLT2 WILD-TYPE     58     74     64    117     38
D101V8, multiclass
        clus
vv       XYLT2 MUTATED XYLT2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3            10              64
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XYLT2 MUTATED        1     10      0      0      3
  XYLT2 WILD-TYPE     50     66     61     71     92
D101V9, multiclass
        clus
vv       XYLT2 MUTATED XYLT2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2            10              66
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XYLT2 MUTATED        4      2      0      5      0      0      1      1
  XYLT2 WILD-TYPE     65     46     39     11     53     20     20     37
                 vv
clus              CLUS_9
  XYLT2 MUTATED        1
  XYLT2 WILD-TYPE     49
D101V10, multiclass
        clus
vv       XYLT2 MUTATED XYLT2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             5              11
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XYLT2 MUTATED        0      1      0      0      3      0
  XYLT2 WILD-TYPE     13     15     14     11      8      9
D101V11, multiclass
        clus
vv       XYLT2 MUTATED XYLT2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XYLT2 MUTATED        0      0      0      1      1      1      1      0
  XYLT2 WILD-TYPE     11      7      7      8      7      6     10      9
                 vv
clus              CLUS_9
  XYLT2 MUTATED        0
  XYLT2 WILD-TYPE      5
D101V12, multiclass
        clus
vv       XYLT2 MUTATED XYLT2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(102) Variable = FAHD2B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAHD2B MUTATED        0      0      0      0      0
  FAHD2B WILD-TYPE     32     18     46     27     23
D102V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAHD2B MUTATED        0      0      0
  FAHD2B WILD-TYPE     43     67     36
D102V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAHD2B MUTATED        0      0      6
  FAHD2B WILD-TYPE     42    173    141
D102V3, multiclass
        clus
vv       FAHD2B MUTATED FAHD2B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAHD2B MUTATED        1      0      5
  FAHD2B WILD-TYPE     61     73     70
D102V4, multiclass
        clus
vv       FAHD2B MUTATED FAHD2B WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAHD2B MUTATED        1      3      2
  FAHD2B WILD-TYPE     69    117     98
D102V5, multiclass
        clus
vv       FAHD2B MUTATED FAHD2B WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAHD2B MUTATED        1      0      0      3      0      2      0      0
  FAHD2B WILD-TYPE     40     26     30     26     39     67     20     14
                  vv
clus               CLUS_9
  FAHD2B MUTATED        0
  FAHD2B WILD-TYPE     22
D102V6, multiclass
        clus
vv       FAHD2B MUTATED FAHD2B WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              3               26
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAHD2B MUTATED        0      4      2      0
  FAHD2B WILD-TYPE    100     68     70    121
D102V7, multiclass
        clus
vv       FAHD2B MUTATED FAHD2B WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAHD2B MUTATED        0      1      5      0      0
  FAHD2B WILD-TYPE     59     74     69    119     38
D102V8, multiclass
        clus
vv       FAHD2B MUTATED FAHD2B WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              5               69
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAHD2B MUTATED        0      6      0      0      0
  FAHD2B WILD-TYPE     51     70     61     71     95
D102V9, multiclass
        clus
vv       FAHD2B MUTATED FAHD2B WILD-TYPE
  CLUS_1              0               51
  CLUS_2              6               70
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAHD2B MUTATED        1      3      0      1      1      0      0      0
  FAHD2B WILD-TYPE     68     45     39     15     52     20     21     38
                  vv
clus               CLUS_9
  FAHD2B MUTATED        0
  FAHD2B WILD-TYPE     50
D102V10, multiclass
        clus
vv       FAHD2B MUTATED FAHD2B WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAHD2B MUTATED        0      1      0      0      0      0
  FAHD2B WILD-TYPE     13     15     14     11     11      9
D102V11, multiclass
[1] "Remove cluster labels:" "FAHD2B MUTATED"        
clus
  FAHD2B MUTATED FAHD2B WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-G4-6628 
"FAHD2B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAHD2B MUTATED        0      0      0      0      0      0      1      0
  FAHD2B WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  FAHD2B MUTATED        0
  FAHD2B WILD-TYPE      5
D102V12, multiclass
[1] "Remove cluster labels:" "FAHD2B MUTATED"        
clus
  FAHD2B MUTATED FAHD2B WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" "FAHD2B WILD-TYPE" 
      TCGA-G4-6628 
"FAHD2B WILD-TYPE" 

Clustering(103) Variable = RSPH3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RSPH3 MUTATED        0      0      0      1      0
  RSPH3 WILD-TYPE     32     18     46     26     23
D103V1, multiclass
[1] "Remove cluster labels:" "RSPH3 MUTATED"         
clus
  RSPH3 MUTATED RSPH3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AY-4071 
"RSPH3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RSPH3 MUTATED        0      1      0
  RSPH3 WILD-TYPE     43     66     36
D103V2, multiclass
[1] "Remove cluster labels:" "RSPH3 MUTATED"         
clus
  RSPH3 MUTATED RSPH3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" "RSPH3 WILD-TYPE" 
     TCGA-AY-4071 
"RSPH3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RSPH3 MUTATED        1      2      7
  RSPH3 WILD-TYPE     41    171    140
D103V3, multiclass
        clus
vv       RSPH3 MUTATED RSPH3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RSPH3 MUTATED        2      1      6
  RSPH3 WILD-TYPE     60     72     69
D103V4, multiclass
        clus
vv       RSPH3 MUTATED RSPH3 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RSPH3 MUTATED        0      6      2
  RSPH3 WILD-TYPE     70    114     98
D103V5, multiclass
        clus
vv       RSPH3 MUTATED RSPH3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             6             114
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RSPH3 MUTATED        0      0      2      1      0      2      1      1
  RSPH3 WILD-TYPE     41     26     28     28     39     67     19     13
                 vv
clus              CLUS_9
  RSPH3 MUTATED        1
  RSPH3 WILD-TYPE     21
D103V6, multiclass
        clus
vv       RSPH3 MUTATED RSPH3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RSPH3 MUTATED        3      4      2      1
  RSPH3 WILD-TYPE     97     68     70    120
D103V7, multiclass
        clus
vv       RSPH3 MUTATED RSPH3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RSPH3 MUTATED        0      3      6      1      0
  RSPH3 WILD-TYPE     59     72     68    118     38
D103V8, multiclass
        clus
vv       RSPH3 MUTATED RSPH3 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RSPH3 MUTATED        2      5      2      0      1
  RSPH3 WILD-TYPE     49     71     59     71     94
D103V9, multiclass
        clus
vv       RSPH3 MUTATED RSPH3 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RSPH3 MUTATED        1      2      0      3      3      1      0      0
  RSPH3 WILD-TYPE     68     46     39     13     50     19     21     38
                 vv
clus              CLUS_9
  RSPH3 MUTATED        0
  RSPH3 WILD-TYPE     50
D103V10, multiclass
        clus
vv       RSPH3 MUTATED RSPH3 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RSPH3 MUTATED        2      0      0      0      3      0
  RSPH3 WILD-TYPE     11     16     14     11      8      9
D103V11, multiclass
        clus
vv       RSPH3 MUTATED RSPH3 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RSPH3 MUTATED        0      0      0      3      0      0      1      0
  RSPH3 WILD-TYPE     11      7      7      6      8      7     10      9
                 vv
clus              CLUS_9
  RSPH3 MUTATED        1
  RSPH3 WILD-TYPE      4
D103V12, multiclass
        clus
vv       RSPH3 MUTATED RSPH3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(104) Variable = PKD2L1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PKD2L1 MUTATED        3      0      1      1      1
  PKD2L1 WILD-TYPE     29     18     45     26     22
D104V1, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD2L1 MUTATED        2      2      2
  PKD2L1 WILD-TYPE     41     65     34
D104V2, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              2               65
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD2L1 MUTATED        3      3     17
  PKD2L1 WILD-TYPE     39    170    130
D104V3, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              3              170
  CLUS_3             17              130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD2L1 MUTATED        4      0     12
  PKD2L1 WILD-TYPE     58     73     63
D104V4, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3             12               63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD2L1 MUTATED        5     11      5
  PKD2L1 WILD-TYPE     65    109     95
D104V5, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              5               65
  CLUS_2             11              109
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PKD2L1 MUTATED        2      1      4      1      2      5      3      2
  PKD2L1 WILD-TYPE     39     25     26     28     37     64     17     12
                  vv
clus               CLUS_9
  PKD2L1 MUTATED        1
  PKD2L1 WILD-TYPE     21
D104V6, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              4               26
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              3               17
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PKD2L1 MUTATED        2     12      2      7
  PKD2L1 WILD-TYPE     98     60     70    114
D104V7, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2             12               60
  CLUS_3              2               70
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PKD2L1 MUTATED        1      4     11      4      3
  PKD2L1 WILD-TYPE     58     71     63    115     35
D104V8, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3             11               63
  CLUS_4              4              115
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PKD2L1 MUTATED        2     11      2      1      7
  PKD2L1 WILD-TYPE     49     65     59     70     88
D104V9, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2             11               65
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PKD2L1 MUTATED        4      2      1      6      2      2      0      4
  PKD2L1 WILD-TYPE     65     46     38     10     51     18     21     34
                  vv
clus               CLUS_9
  PKD2L1 MUTATED        2
  PKD2L1 WILD-TYPE     48
D104V10, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              6               10
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              4               34
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PKD2L1 MUTATED        0      1      1      0      3      0
  PKD2L1 WILD-TYPE     13     15     13     11      8      9
D104V11, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PKD2L1 MUTATED        0      0      0      2      1      1      1      0
  PKD2L1 WILD-TYPE     11      7      7      7      7      6     10      9
                  vv
clus               CLUS_9
  PKD2L1 MUTATED        0
  PKD2L1 WILD-TYPE      5
D104V12, multiclass
        clus
vv       PKD2L1 MUTATED PKD2L1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(105) Variable = CDK12 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK12 MUTATED        3      0      2      2      0
  CDK12 WILD-TYPE     29     18     44     25     23
D105V1, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        3      2      2
  CDK12 WILD-TYPE     40     65     34
D105V2, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        0      8     20
  CDK12 WILD-TYPE     42    165    127
D105V3, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             8             165
  CLUS_3            20             127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        5      4     12
  CDK12 WILD-TYPE     57     69     63
D105V4, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             4              69
  CLUS_3            12              63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        6      9      8
  CDK12 WILD-TYPE     64    111     92
D105V5, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             6              64
  CLUS_2             9             111
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK12 MUTATED        2      2      3      2      4      7      2      1
  CDK12 WILD-TYPE     39     24     27     27     35     62     18     13
                 vv
clus              CLUS_9
  CDK12 MUTATED        0
  CDK12 WILD-TYPE     22
D105V6, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             3              27
  CLUS_4             2              27
  CLUS_5             4              35
  CLUS_6             7              62
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDK12 MUTATED        6     13      4      6
  CDK12 WILD-TYPE     94     59     68    115
D105V7, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             6              94
  CLUS_2            13              59
  CLUS_3             4              68
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK12 MUTATED        2      6     13      5      3
  CDK12 WILD-TYPE     57     69     61    114     35
D105V8, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             6              69
  CLUS_3            13              61
  CLUS_4             5             114
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK12 MUTATED        4     13      2      1      8
  CDK12 WILD-TYPE     47     63     59     70     87
D105V9, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             4              47
  CLUS_2            13              63
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             8              87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK12 MUTATED        6      4      1      4      3      3      2      4
  CDK12 WILD-TYPE     63     44     38     12     50     17     19     34
                 vv
clus              CLUS_9
  CDK12 MUTATED        1
  CDK12 WILD-TYPE     49
D105V10, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             3              50
  CLUS_6             3              17
  CLUS_7             2              19
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDK12 MUTATED        0      0      1      1      2      0
  CDK12 WILD-TYPE     13     16     13     10      9      9
D105V11, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK12 MUTATED        0      0      1      1      1      0      1      0
  CDK12 WILD-TYPE     11      7      6      8      7      7     10      9
                 vv
clus              CLUS_9
  CDK12 MUTATED        0
  CDK12 WILD-TYPE      5
D105V12, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(106) Variable = CASP8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP8 MUTATED        8      0      0      1      0
  CASP8 WILD-TYPE     24     18     46     26     23
D106V1, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             8              24
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        9      0      0
  CASP8 WILD-TYPE     34     67     36
D106V2, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             9              34
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        1      1     15
  CASP8 WILD-TYPE     41    172    132
D106V3, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        2      1      4
  CASP8 WILD-TYPE     60     72     71
D106V4, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        3      5      6
  CASP8 WILD-TYPE     67    115     94
D106V5, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             5             115
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP8 MUTATED        2      1      1      0      6      3      1      0
  CASP8 WILD-TYPE     39     25     29     29     33     66     19     14
                 vv
clus              CLUS_9
  CASP8 MUTATED        0
  CASP8 WILD-TYPE     22
D106V6, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             6              33
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP8 MUTATED        1      3      3     10
  CASP8 WILD-TYPE     99     69     69    111
D106V7, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4            10             111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP8 MUTATED        2      1      3      2      9
  CASP8 WILD-TYPE     57     74     71    117     29
D106V8, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             9              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP8 MUTATED        0      1      3      1     10
  CASP8 WILD-TYPE     51     75     58     70     85
D106V9, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5            10              85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP8 MUTATED        1      2      0      0      2      1      0      9
  CASP8 WILD-TYPE     68     46     39     16     51     19     21     29
                 vv
clus              CLUS_9
  CASP8 MUTATED        0
  CASP8 WILD-TYPE     50
D106V10, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             9              29
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CASP8 MUTATED        1      1      0      0      0      0
  CASP8 WILD-TYPE     12     15     14     11     11      9
D106V11, multiclass
[1] "Remove cluster labels:" "CASP8 MUTATED"         
clus
  CASP8 MUTATED CASP8 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3511 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-DM-A285      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP8 MUTATED        1      0      0      1      0      0      0      0
  CASP8 WILD-TYPE     10      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  CASP8 MUTATED        0
  CASP8 WILD-TYPE      5
D106V12, multiclass
[1] "Remove cluster labels:" "CASP8 MUTATED"         
clus
  CASP8 MUTATED CASP8 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3511 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-DM-A285      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" "CASP8 WILD-TYPE" 

Clustering(107) Variable = KCNK1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNK1 MUTATED        1      0      0      0      0
  KCNK1 WILD-TYPE     31     18     46     27     23
D107V1, multiclass
[1] "Remove cluster labels:" "KCNK1 MUTATED"         
clus
  KCNK1 MUTATED KCNK1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AY-4071 
"KCNK1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNK1 MUTATED        1      0      0
  KCNK1 WILD-TYPE     42     67     36
D107V2, multiclass
[1] "Remove cluster labels:" "KCNK1 MUTATED"         
clus
  KCNK1 MUTATED KCNK1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AY-4071 
"KCNK1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNK1 MUTATED        2      4      4
  KCNK1 WILD-TYPE     40    169    143
D107V3, multiclass
        clus
vv       KCNK1 MUTATED KCNK1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4             169
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNK1 MUTATED        3      3      3
  KCNK1 WILD-TYPE     59     70     72
D107V4, multiclass
        clus
vv       KCNK1 MUTATED KCNK1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNK1 MUTATED        2      3      4
  KCNK1 WILD-TYPE     68    117     96
D107V5, multiclass
        clus
vv       KCNK1 MUTATED KCNK1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNK1 MUTATED        0      0      1      2      2      2      1      0
  KCNK1 WILD-TYPE     41     26     29     27     37     67     19     14
                 vv
clus              CLUS_9
  KCNK1 MUTATED        1
  KCNK1 WILD-TYPE     21
D107V6, multiclass
        clus
vv       KCNK1 MUTATED KCNK1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCNK1 MUTATED        5      2      2      1
  KCNK1 WILD-TYPE     95     70     70    120
D107V7, multiclass
        clus
vv       KCNK1 MUTATED KCNK1 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNK1 MUTATED        4      2      3      0      1
  KCNK1 WILD-TYPE     55     73     71    119     37
D107V8, multiclass
        clus
vv       KCNK1 MUTATED KCNK1 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNK1 MUTATED        1      4      4      0      1
  KCNK1 WILD-TYPE     50     72     57     71     94
D107V9, multiclass
        clus
vv       KCNK1 MUTATED KCNK1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             4              57
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNK1 MUTATED        2      1      1      2      3      0      0      0
  KCNK1 WILD-TYPE     67     47     38     14     50     20     21     38
                 vv
clus              CLUS_9
  KCNK1 MUTATED        1
  KCNK1 WILD-TYPE     49
D107V10, multiclass
        clus
vv       KCNK1 MUTATED KCNK1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KCNK1 MUTATED        0      0      1      0      0      1
  KCNK1 WILD-TYPE     13     16     13     11     11      8
D107V11, multiclass
[1] "Remove cluster labels:" "KCNK1 MUTATED"         
clus
  KCNK1 MUTATED KCNK1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6680 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNK1 MUTATED        1      0      0      0      1      0      0      0
  KCNK1 WILD-TYPE     10      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  KCNK1 MUTATED        0
  KCNK1 WILD-TYPE      5
D107V12, multiclass
[1] "Remove cluster labels:" "KCNK1 MUTATED"         
clus
  KCNK1 MUTATED KCNK1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6680 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" "KCNK1 WILD-TYPE" 

Clustering(108) Variable = PTK2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTK2 MUTATED        2      0      0      2      0
  PTK2 WILD-TYPE     30     18     46     25     23
D108V1, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTK2 MUTATED        3      1      0
  PTK2 WILD-TYPE     40     66     36
D108V2, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTK2 MUTATED        0      4     17
  PTK2 WILD-TYPE     42    169    130
D108V3, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            4            169
  CLUS_3           17            130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTK2 MUTATED        5      2     10
  PTK2 WILD-TYPE     57     71     65
D108V4, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            2             71
  CLUS_3           10             65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTK2 MUTATED        1     10      7
  PTK2 WILD-TYPE     69    110     93
D108V5, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2           10            110
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PTK2 MUTATED        1      3      2      4      0      4      1      1      2
  PTK2 WILD-TYPE     40     23     28     25     39     65     19     13     20
D108V6, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            3             23
  CLUS_3            2             28
  CLUS_4            4             25
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTK2 MUTATED        2     10      5      4
  PTK2 WILD-TYPE     98     62     67    117
D108V7, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2           10             62
  CLUS_3            5             67
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTK2 MUTATED        1      6     10      2      2
  PTK2 WILD-TYPE     58     69     64    117     36
D108V8, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            6             69
  CLUS_3           10             64
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTK2 MUTATED        5      8      1      3      4
  PTK2 WILD-TYPE     46     68     60     68     91
D108V9, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            5             46
  CLUS_2            8             68
  CLUS_3            1             60
  CLUS_4            3             68
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PTK2 MUTATED        3      4      1      1      5      3      1      2      1
  PTK2 WILD-TYPE     66     44     38     15     48     17     20     36     49
D108V10, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            4             44
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            5             48
  CLUS_6            3             17
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTK2 MUTATED        0      0      1      1      2      1
  PTK2 WILD-TYPE     13     16     13     10      9      8
D108V11, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PTK2 MUTATED        0      0      1      0      1      0      2      1      0
  PTK2 WILD-TYPE     11      7      6      9      7      7      9      8      5
D108V12, multiclass
        clus
vv       PTK2 MUTATED PTK2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(109) Variable = FYN MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FYN MUTATED        2      0      0      2      0
  FYN WILD-TYPE     30     18     46     25     23
D109V1, multiclass
        clus
vv       FYN MUTATED FYN WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FYN MUTATED        2      1      1
  FYN WILD-TYPE     41     66     35
D109V2, multiclass
        clus
vv       FYN MUTATED FYN WILD-TYPE
  CLUS_1           2            41
  CLUS_2           1            66
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FYN MUTATED        1      2     11
  FYN WILD-TYPE     41    171    136
D109V3, multiclass
        clus
vv       FYN MUTATED FYN WILD-TYPE
  CLUS_1           1            41
  CLUS_2           2           171
  CLUS_3          11           136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FYN MUTATED        3      3      4
  FYN WILD-TYPE     59     70     71
D109V4, multiclass
        clus
vv       FYN MUTATED FYN WILD-TYPE
  CLUS_1           3            59
  CLUS_2           3            70
  CLUS_3           4            71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FYN MUTATED        6      3      4
  FYN WILD-TYPE     64    117     96
D109V5, multiclass
        clus
vv       FYN MUTATED FYN WILD-TYPE
  CLUS_1           6            64
  CLUS_2           3           117
  CLUS_3           4            96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FYN MUTATED        1      1      1      1      2      2      3      2      0
  FYN WILD-TYPE     40     25     29     28     37     67     17     12     22
D109V6, multiclass
        clus
vv       FYN MUTATED FYN WILD-TYPE
  CLUS_1           1            40
  CLUS_2           1            25
  CLUS_3           1            29
  CLUS_4           1            28
  CLUS_5           2            37
  CLUS_6           2            67
  CLUS_7           3            17
  CLUS_8           2            12
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FYN MUTATED        1      6      2      6
  FYN WILD-TYPE     99     66     70    115
D109V7, multiclass
        clus
vv       FYN MUTATED FYN WILD-TYPE
  CLUS_1           1            99
  CLUS_2           6            66
  CLUS_3           2            70
  CLUS_4           6           115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FYN MUTATED        0      3      6      4      2
  FYN WILD-TYPE     59     72     68    115     36
D109V8, multiclass
        clus
vv       FYN MUTATED FYN WILD-TYPE
  CLUS_1           0            59
  CLUS_2           3            72
  CLUS_3           6            68
  CLUS_4           4           115
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FYN MUTATED        3      4      2      2      4
  FYN WILD-TYPE     48     72     59     69     91
D109V9, multiclass
        clus
vv       FYN MUTATED FYN WILD-TYPE
  CLUS_1           3            48
  CLUS_2           4            72
  CLUS_3           2            59
  CLUS_4           2            69
  CLUS_5           4            91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FYN MUTATED        2      1      0      1      3      2      3      1      2
  FYN WILD-TYPE     67     47     39     15     50     18     18     37     48
D109V10, multiclass
        clus
vv       FYN MUTATED FYN WILD-TYPE
  CLUS_1           2            67
  CLUS_2           1            47
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           3            50
  CLUS_6           2            18
  CLUS_7           3            18
  CLUS_8           1            37
  CLUS_9           2            48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FYN MUTATED        0      0      1      0      1      0
  FYN WILD-TYPE     13     16     13     11     10      9
D109V11, multiclass
[1] "Remove cluster labels:" "FYN MUTATED"           
clus
  FYN MUTATED FYN WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6142    TCGA-A6-6649 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-A6-6651    TCGA-A6-6654    TCGA-A6-6781    TCGA-A6-6782    TCGA-AA-3489 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548    TCGA-AD-6889    TCGA-AD-6901 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196    TCGA-AZ-4323 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600    TCGA-AZ-6601 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718    TCGA-CA-6719 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167    TCGA-CM-6674 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679    TCGA-CM-6680 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536    TCGA-D5-6922 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0    TCGA-DM-A1D7 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA    TCGA-DM-A282 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460    TCGA-F4-6569 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"FYN WILD-TYPE" "FYN WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FYN MUTATED        0      0      0      1      1      0      0      0      0
  FYN WILD-TYPE     11      7      7      8      7      7     11      9      5
D109V12, multiclass
[1] "Remove cluster labels:" "FYN MUTATED"           
clus
  FYN MUTATED FYN WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6142    TCGA-A6-6649 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-A6-6651    TCGA-A6-6654    TCGA-A6-6781    TCGA-A6-6782    TCGA-AA-3489 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548    TCGA-AD-6889    TCGA-AD-6901 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196    TCGA-AZ-4323 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600    TCGA-AZ-6601 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718    TCGA-CA-6719 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167    TCGA-CM-6674 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679    TCGA-CM-6680 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536    TCGA-D5-6922 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0    TCGA-DM-A1D7 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA    TCGA-DM-A282 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460    TCGA-F4-6569 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" "FYN WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"FYN WILD-TYPE" "FYN WILD-TYPE" 

Clustering(110) Variable = CDX2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDX2 MUTATED        1      0      0      0      0
  CDX2 WILD-TYPE     31     18     46     27     23
D110V1, multiclass
[1] "Remove cluster labels:" "CDX2 MUTATED"          
clus
  CDX2 MUTATED CDX2 WILD-TYPE 
             1            145 
    TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AY-4071 
"CDX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDX2 MUTATED        1      0      0
  CDX2 WILD-TYPE     42     67     36
D110V2, multiclass
[1] "Remove cluster labels:" "CDX2 MUTATED"          
clus
  CDX2 MUTATED CDX2 WILD-TYPE 
             1            145 
    TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AY-4071 
"CDX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDX2 MUTATED        1      0      5
  CDX2 WILD-TYPE     41    173    142
D110V3, multiclass
        clus
vv       CDX2 MUTATED CDX2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDX2 MUTATED        1      0      4
  CDX2 WILD-TYPE     61     73     71
D110V4, multiclass
        clus
vv       CDX2 MUTATED CDX2 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDX2 MUTATED        1      3      2
  CDX2 WILD-TYPE     69    117     98
D110V5, multiclass
        clus
vv       CDX2 MUTATED CDX2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDX2 MUTATED        0      1      0      1      2      2      0      0      0
  CDX2 WILD-TYPE     41     25     30     28     37     67     20     14     22
D110V6, multiclass
        clus
vv       CDX2 MUTATED CDX2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDX2 MUTATED        0      4      1      1
  CDX2 WILD-TYPE    100     68     71    120
D110V7, multiclass
        clus
vv       CDX2 MUTATED CDX2 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDX2 MUTATED        0      0      5      0      1
  CDX2 WILD-TYPE     59     75     69    119     37
D110V8, multiclass
        clus
vv       CDX2 MUTATED CDX2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            5             69
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDX2 MUTATED        0      5      0      0      1
  CDX2 WILD-TYPE     51     71     61     71     94
D110V9, multiclass
        clus
vv       CDX2 MUTATED CDX2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            5             71
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDX2 MUTATED        2      1      0      2      0      0      0      1      0
  CDX2 WILD-TYPE     67     47     39     14     53     20     21     37     50
D110V10, multiclass
        clus
vv       CDX2 MUTATED CDX2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDX2 MUTATED        0      0      0      0      2      0
  CDX2 WILD-TYPE     13     16     14     11      9      9
D110V11, multiclass
[1] "Remove cluster labels:" "CDX2 MUTATED"          
clus
  CDX2 MUTATED CDX2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDX2 MUTATED        0      0      0      2      0      0      0      0      0
  CDX2 WILD-TYPE     11      7      7      7      8      7     11      9      5
D110V12, multiclass
[1] "Remove cluster labels:" "CDX2 MUTATED"          
clus
  CDX2 MUTATED CDX2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" "CDX2 WILD-TYPE" 

Clustering(111) Variable = KLK10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLK10 MUTATED        1      0      0      0      0
  KLK10 WILD-TYPE     31     18     46     27     23
D111V1, multiclass
[1] "Remove cluster labels:" "KLK10 MUTATED"         
clus
  KLK10 MUTATED KLK10 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AY-4071 
"KLK10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLK10 MUTATED        1      0      0
  KLK10 WILD-TYPE     42     67     36
D111V2, multiclass
[1] "Remove cluster labels:" "KLK10 MUTATED"         
clus
  KLK10 MUTATED KLK10 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" "KLK10 WILD-TYPE" 
     TCGA-AY-4071 
"KLK10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLK10 MUTATED        2      0      4
  KLK10 WILD-TYPE     40    173    143
D111V3, multiclass
        clus
vv       KLK10 MUTATED KLK10 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0             173
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLK10 MUTATED        2      1      3
  KLK10 WILD-TYPE     60     72     72
D111V4, multiclass
        clus
vv       KLK10 MUTATED KLK10 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLK10 MUTATED        0      1      5
  KLK10 WILD-TYPE     70    119     95
D111V5, multiclass
        clus
vv       KLK10 MUTATED KLK10 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLK10 MUTATED        1      0      0      1      0      3      1      0
  KLK10 WILD-TYPE     40     26     30     28     39     66     19     14
                 vv
clus              CLUS_9
  KLK10 MUTATED        0
  KLK10 WILD-TYPE     22
D111V6, multiclass
        clus
vv       KLK10 MUTATED KLK10 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLK10 MUTATED        1      3      2      1
  KLK10 WILD-TYPE     99     69     70    120
D111V7, multiclass
        clus
vv       KLK10 MUTATED KLK10 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLK10 MUTATED        1      1      4      0      1
  KLK10 WILD-TYPE     58     74     70    119     37
D111V8, multiclass
        clus
vv       KLK10 MUTATED KLK10 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLK10 MUTATED        1      4      1      0      1
  KLK10 WILD-TYPE     50     72     60     71     94
D111V9, multiclass
        clus
vv       KLK10 MUTATED KLK10 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLK10 MUTATED        0      1      2      3      0      0      0      1
  KLK10 WILD-TYPE     69     47     37     13     53     20     21     37
                 vv
clus              CLUS_9
  KLK10 MUTATED        0
  KLK10 WILD-TYPE     50
D111V10, multiclass
        clus
vv       KLK10 MUTATED KLK10 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             2              37
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLK10 MUTATED        1      1      0      0      1      0
  KLK10 WILD-TYPE     12     15     14     11     10      9
D111V11, multiclass
        clus
vv       KLK10 MUTATED KLK10 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLK10 MUTATED        0      1      0      1      0      0      1      0
  KLK10 WILD-TYPE     11      6      7      8      8      7     10      9
                 vv
clus              CLUS_9
  KLK10 MUTATED        0
  KLK10 WILD-TYPE      5
D111V12, multiclass
        clus
vv       KLK10 MUTATED KLK10 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(112) Variable = TPM4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPM4 MUTATED        2      0      0      1      0
  TPM4 WILD-TYPE     30     18     46     26     23
D112V1, multiclass
        clus
vv       TPM4 MUTATED TPM4 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TPM4 MUTATED        3      0      0
  TPM4 WILD-TYPE     40     67     36
D112V2, multiclass
        clus
vv       TPM4 MUTATED TPM4 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TPM4 MUTATED        0      1      7
  TPM4 WILD-TYPE     42    172    140
D112V3, multiclass
        clus
vv       TPM4 MUTATED TPM4 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TPM4 MUTATED        2      1      2
  TPM4 WILD-TYPE     60     72     73
D112V4, multiclass
        clus
vv       TPM4 MUTATED TPM4 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TPM4 MUTATED        0      3      2
  TPM4 WILD-TYPE     70    117     98
D112V5, multiclass
        clus
vv       TPM4 MUTATED TPM4 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TPM4 MUTATED        0      1      0      1      1      2      0      0      0
  TPM4 WILD-TYPE     41     25     30     28     38     67     20     14     22
D112V6, multiclass
        clus
vv       TPM4 MUTATED TPM4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TPM4 MUTATED        1      2      1      4
  TPM4 WILD-TYPE     99     70     71    117
D112V7, multiclass
        clus
vv       TPM4 MUTATED TPM4 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPM4 MUTATED        0      1      3      1      3
  TPM4 WILD-TYPE     59     74     71    118     35
D112V8, multiclass
        clus
vv       TPM4 MUTATED TPM4 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPM4 MUTATED        0      4      0      1      3
  TPM4 WILD-TYPE     51     72     61     70     92
D112V9, multiclass
        clus
vv       TPM4 MUTATED TPM4 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TPM4 MUTATED        0      1      1      2      0      0      0      3      1
  TPM4 WILD-TYPE     69     47     38     14     53     20     21     35     49
D112V10, multiclass
        clus
vv       TPM4 MUTATED TPM4 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TPM4 MUTATED        0      0      0      0      1      0
  TPM4 WILD-TYPE     13     16     14     11     10      9
D112V11, multiclass
[1] "Remove cluster labels:" "TPM4 MUTATED"          
clus
  TPM4 MUTATED TPM4 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-G4-6628 
"TPM4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TPM4 MUTATED        0      0      0      1      0      0      0      0      0
  TPM4 WILD-TYPE     11      7      7      8      8      7     11      9      5
D112V12, multiclass
[1] "Remove cluster labels:" "TPM4 MUTATED"          
clus
  TPM4 MUTATED TPM4 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" "TPM4 WILD-TYPE" 
    TCGA-G4-6628 
"TPM4 WILD-TYPE" 

Clustering(113) Variable = UQCRC2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UQCRC2 MUTATED        0      0      0      1      0
  UQCRC2 WILD-TYPE     32     18     46     26     23
D113V1, multiclass
[1] "Remove cluster labels:" "UQCRC2 MUTATED"        
clus
  UQCRC2 MUTATED UQCRC2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AY-4071 
"UQCRC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UQCRC2 MUTATED        0      1      0
  UQCRC2 WILD-TYPE     43     66     36
D113V2, multiclass
[1] "Remove cluster labels:" "UQCRC2 MUTATED"        
clus
  UQCRC2 MUTATED UQCRC2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AY-4071 
"UQCRC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UQCRC2 MUTATED        0      4      4
  UQCRC2 WILD-TYPE     42    169    143
D113V3, multiclass
        clus
vv       UQCRC2 MUTATED UQCRC2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UQCRC2 MUTATED        0      3      4
  UQCRC2 WILD-TYPE     62     70     71
D113V4, multiclass
        clus
vv       UQCRC2 MUTATED UQCRC2 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              3               70
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UQCRC2 MUTATED        1      2      3
  UQCRC2 WILD-TYPE     69    118     97
D113V5, multiclass
        clus
vv       UQCRC2 MUTATED UQCRC2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UQCRC2 MUTATED        2      0      2      0      0      2      0      0
  UQCRC2 WILD-TYPE     39     26     28     29     39     67     20     14
                  vv
clus               CLUS_9
  UQCRC2 MUTATED        0
  UQCRC2 WILD-TYPE     22
D113V6, multiclass
        clus
vv       UQCRC2 MUTATED UQCRC2 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UQCRC2 MUTATED        1      4      1      2
  UQCRC2 WILD-TYPE     99     68     71    119
D113V7, multiclass
        clus
vv       UQCRC2 MUTATED UQCRC2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UQCRC2 MUTATED        2      2      2      2      0
  UQCRC2 WILD-TYPE     57     73     72    117     38
D113V8, multiclass
        clus
vv       UQCRC2 MUTATED UQCRC2 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              2              117
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UQCRC2 MUTATED        2      4      1      0      1
  UQCRC2 WILD-TYPE     49     72     60     71     94
D113V9, multiclass
        clus
vv       UQCRC2 MUTATED UQCRC2 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UQCRC2 MUTATED        2      1      0      1      1      2      1      0
  UQCRC2 WILD-TYPE     67     47     39     15     52     18     20     38
                  vv
clus               CLUS_9
  UQCRC2 MUTATED        0
  UQCRC2 WILD-TYPE     50
D113V10, multiclass
        clus
vv       UQCRC2 MUTATED UQCRC2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UQCRC2 MUTATED        0      0      0      1      1      0
  UQCRC2 WILD-TYPE     13     16     14     10     10      9
D113V11, multiclass
[1] "Remove cluster labels:" "UQCRC2 MUTATED"        
clus
  UQCRC2 MUTATED UQCRC2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UQCRC2 MUTATED        0      0      1      1      0      0      0      0
  UQCRC2 WILD-TYPE     11      7      6      8      8      7     11      9
                  vv
clus               CLUS_9
  UQCRC2 MUTATED        0
  UQCRC2 WILD-TYPE      5
D113V12, multiclass
[1] "Remove cluster labels:" "UQCRC2 MUTATED"        
clus
  UQCRC2 MUTATED UQCRC2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" "UQCRC2 WILD-TYPE" 

Clustering(114) Variable = PIK3IP1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3IP1 MUTATED        0      1      0      0      0
  PIK3IP1 WILD-TYPE     32     17     46     27     23
D114V1, multiclass
[1] "Remove cluster labels:" "PIK3IP1 MUTATED"       
clus
  PIK3IP1 MUTATED PIK3IP1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3808        TCGA-A6-3809 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AY-4071 
"PIK3IP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3IP1 MUTATED        0      1      0
  PIK3IP1 WILD-TYPE     43     66     36
D114V2, multiclass
[1] "Remove cluster labels:" "PIK3IP1 MUTATED"       
clus
  PIK3IP1 MUTATED PIK3IP1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3808        TCGA-A6-3809 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AY-4071 
"PIK3IP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3IP1 MUTATED        0      3      5
  PIK3IP1 WILD-TYPE     42    170    142
D114V3, multiclass
        clus
vv       PIK3IP1 MUTATED PIK3IP1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3IP1 MUTATED        2      1      4
  PIK3IP1 WILD-TYPE     60     72     71
D114V4, multiclass
        clus
vv       PIK3IP1 MUTATED PIK3IP1 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3IP1 MUTATED        1      2      4
  PIK3IP1 WILD-TYPE     69    118     96
D114V5, multiclass
        clus
vv       PIK3IP1 MUTATED PIK3IP1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3IP1 MUTATED        1      0      0      0      0      4      2      0
  PIK3IP1 WILD-TYPE     40     26     30     29     39     65     18     14
                   vv
clus                CLUS_9
  PIK3IP1 MUTATED        0
  PIK3IP1 WILD-TYPE     22
D114V6, multiclass
        clus
vv       PIK3IP1 MUTATED PIK3IP1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3IP1 MUTATED        0      5      2      1
  PIK3IP1 WILD-TYPE    100     67     70    120
D114V7, multiclass
        clus
vv       PIK3IP1 MUTATED PIK3IP1 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               5                67
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3IP1 MUTATED        1      1      5      1      0
  PIK3IP1 WILD-TYPE     58     74     69    118     38
D114V8, multiclass
        clus
vv       PIK3IP1 MUTATED PIK3IP1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               5                69
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3IP1 MUTATED        1      5      0      1      1
  PIK3IP1 WILD-TYPE     50     71     61     70     94
D114V9, multiclass
        clus
vv       PIK3IP1 MUTATED PIK3IP1 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               5                71
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3IP1 MUTATED        2      1      0      3      0      1      0      0
  PIK3IP1 WILD-TYPE     67     47     39     13     53     19     21     38
                   vv
clus                CLUS_9
  PIK3IP1 MUTATED        1
  PIK3IP1 WILD-TYPE     49
D114V10, multiclass
        clus
vv       PIK3IP1 MUTATED PIK3IP1 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3IP1 MUTATED        0      1      0      1      0      0
  PIK3IP1 WILD-TYPE     13     15     14     10     11      9
D114V11, multiclass
[1] "Remove cluster labels:" "PIK3IP1 MUTATED"       
clus
  PIK3IP1 MUTATED PIK3IP1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3IP1 MUTATED        1      0      0      0      0      0      1      0
  PIK3IP1 WILD-TYPE     10      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  PIK3IP1 MUTATED        0
  PIK3IP1 WILD-TYPE      5
D114V12, multiclass
[1] "Remove cluster labels:" "PIK3IP1 MUTATED"       
clus
  PIK3IP1 MUTATED PIK3IP1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" "PIK3IP1 WILD-TYPE" 

Clustering(115) Variable = USP24 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP24 MUTATED        2      1      0      2      0
  USP24 WILD-TYPE     30     17     46     25     23
D115V1, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP24 MUTATED        4      1      0
  USP24 WILD-TYPE     39     66     36
D115V2, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP24 MUTATED        4      7     18
  USP24 WILD-TYPE     38    166    129
D115V3, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             4              38
  CLUS_2             7             166
  CLUS_3            18             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP24 MUTATED        6      4     15
  USP24 WILD-TYPE     56     69     60
D115V4, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             4              69
  CLUS_3            15              60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP24 MUTATED        2     14     10
  USP24 WILD-TYPE     68    106     90
D115V5, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             2              68
  CLUS_2            14             106
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP24 MUTATED        3      3      2      4      1      7      3      2
  USP24 WILD-TYPE     38     23     28     25     38     62     17     12
                 vv
clus              CLUS_9
  USP24 MUTATED        1
  USP24 WILD-TYPE     21
D115V6, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             3              23
  CLUS_3             2              28
  CLUS_4             4              25
  CLUS_5             1              38
  CLUS_6             7              62
  CLUS_7             3              17
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP24 MUTATED        6     15      3      6
  USP24 WILD-TYPE     94     57     69    115
D115V7, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             6              94
  CLUS_2            15              57
  CLUS_3             3              69
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP24 MUTATED        4      4     16      3      3
  USP24 WILD-TYPE     55     71     58    116     35
D115V8, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             4              71
  CLUS_3            16              58
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP24 MUTATED        5     13      2      5      4
  USP24 WILD-TYPE     46     63     59     66     91
D115V9, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             5              46
  CLUS_2            13              63
  CLUS_3             2              59
  CLUS_4             5              66
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP24 MUTATED        9      1      3      6      4      3      1      1
  USP24 WILD-TYPE     60     47     36     10     49     17     20     37
                 vv
clus              CLUS_9
  USP24 MUTATED        1
  USP24 WILD-TYPE     49
D115V10, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             9              60
  CLUS_2             1              47
  CLUS_3             3              36
  CLUS_4             6              10
  CLUS_5             4              49
  CLUS_6             3              17
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USP24 MUTATED        2      1      2      0      3      1
  USP24 WILD-TYPE     11     15     12     11      8      8
D115V11, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP24 MUTATED        0      1      0      2      1      1      1      3
  USP24 WILD-TYPE     11      6      7      7      7      6     10      6
                 vv
clus              CLUS_9
  USP24 MUTATED        0
  USP24 WILD-TYPE      5
D115V12, multiclass
        clus
vv       USP24 MUTATED USP24 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             3               6
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(116) Variable = OR5V1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5V1 MUTATED        1      1      0      0      0
  OR5V1 WILD-TYPE     31     17     46     27     23
D116V1, multiclass
[1] "Remove cluster labels:" "OR5V1 MUTATED"         
clus
  OR5V1 MUTATED OR5V1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5V1 MUTATED        1      0      1
  OR5V1 WILD-TYPE     42     67     35
D116V2, multiclass
[1] "Remove cluster labels:" "OR5V1 MUTATED"         
clus
  OR5V1 MUTATED OR5V1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5V1 MUTATED        0      7      7
  OR5V1 WILD-TYPE     42    166    140
D116V3, multiclass
        clus
vv       OR5V1 MUTATED OR5V1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             7             166
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5V1 MUTATED        3      3      6
  OR5V1 WILD-TYPE     59     70     69
D116V4, multiclass
        clus
vv       OR5V1 MUTATED OR5V1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5V1 MUTATED        0      3      6
  OR5V1 WILD-TYPE     70    117     94
D116V5, multiclass
        clus
vv       OR5V1 MUTATED OR5V1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5V1 MUTATED        3      0      1      0      0      3      0      1
  OR5V1 WILD-TYPE     38     26     29     29     39     66     20     13
                 vv
clus              CLUS_9
  OR5V1 MUTATED        1
  OR5V1 WILD-TYPE     21
D116V6, multiclass
        clus
vv       OR5V1 MUTATED OR5V1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR5V1 MUTATED        4      5      3      2
  OR5V1 WILD-TYPE     96     67     69    119
D116V7, multiclass
        clus
vv       OR5V1 MUTATED OR5V1 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5V1 MUTATED        4      3      5      1      1
  OR5V1 WILD-TYPE     55     72     69    118     37
D116V8, multiclass
        clus
vv       OR5V1 MUTATED OR5V1 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5V1 MUTATED        3      6      3      1      1
  OR5V1 WILD-TYPE     48     70     58     70     94
D116V9, multiclass
        clus
vv       OR5V1 MUTATED OR5V1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             6              70
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5V1 MUTATED        5      3      0      2      1      1      1      1
  OR5V1 WILD-TYPE     64     45     39     14     52     19     20     37
                 vv
clus              CLUS_9
  OR5V1 MUTATED        0
  OR5V1 WILD-TYPE     50
D116V10, multiclass
        clus
vv       OR5V1 MUTATED OR5V1 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR5V1 MUTATED        0      1      0      1      0      0
  OR5V1 WILD-TYPE     13     15     14     10     11      9
D116V11, multiclass
[1] "Remove cluster labels:" "OR5V1 MUTATED"         
clus
  OR5V1 MUTATED OR5V1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CK-5916 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5V1 MUTATED        0      0      1      0      0      0      0      1
  OR5V1 WILD-TYPE     11      7      6      9      8      7     11      8
                 vv
clus              CLUS_9
  OR5V1 MUTATED        0
  OR5V1 WILD-TYPE      5
D116V12, multiclass
[1] "Remove cluster labels:" "OR5V1 MUTATED"         
clus
  OR5V1 MUTATED OR5V1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CK-5916 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" "OR5V1 WILD-TYPE" 

Clustering(117) Variable = GGTLC2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGTLC2 MUTATED        0      0      0      0      0
  GGTLC2 WILD-TYPE     32     18     46     27     23
D117V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGTLC2 MUTATED        0      0      0
  GGTLC2 WILD-TYPE     43     67     36
D117V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGTLC2 MUTATED        0      3      4
  GGTLC2 WILD-TYPE     42    170    143
D117V3, multiclass
        clus
vv       GGTLC2 MUTATED GGTLC2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGTLC2 MUTATED        0      2      5
  GGTLC2 WILD-TYPE     62     71     70
D117V4, multiclass
        clus
vv       GGTLC2 MUTATED GGTLC2 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGTLC2 MUTATED        0      2      4
  GGTLC2 WILD-TYPE     70    118     96
D117V5, multiclass
        clus
vv       GGTLC2 MUTATED GGTLC2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GGTLC2 MUTATED        0      0      1      1      0      4      0      0
  GGTLC2 WILD-TYPE     41     26     29     28     39     65     20     14
                  vv
clus               CLUS_9
  GGTLC2 MUTATED        0
  GGTLC2 WILD-TYPE     22
D117V6, multiclass
        clus
vv       GGTLC2 MUTATED GGTLC2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGTLC2 MUTATED        2      5      0      0
  GGTLC2 WILD-TYPE     98     67     72    121
D117V7, multiclass
        clus
vv       GGTLC2 MUTATED GGTLC2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              5               67
  CLUS_3              0               72
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGTLC2 MUTATED        0      3      4      0      0
  GGTLC2 WILD-TYPE     59     72     70    119     38
D117V8, multiclass
        clus
vv       GGTLC2 MUTATED GGTLC2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGTLC2 MUTATED        1      5      0      1      0
  GGTLC2 WILD-TYPE     50     71     61     70     95
D117V9, multiclass
        clus
vv       GGTLC2 MUTATED GGTLC2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GGTLC2 MUTATED        5      0      0      2      0      0      0      0
  GGTLC2 WILD-TYPE     64     48     39     14     53     20     21     38
                  vv
clus               CLUS_9
  GGTLC2 MUTATED        0
  GGTLC2 WILD-TYPE     50
D117V10, multiclass
        clus
vv       GGTLC2 MUTATED GGTLC2 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GGTLC2 MUTATED        1      0      0      0      0      0
  GGTLC2 WILD-TYPE     12     16     14     11     11      9
D117V11, multiclass
[1] "Remove cluster labels:" "GGTLC2 MUTATED"        
clus
  GGTLC2 MUTATED GGTLC2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6309       TCGA-G4-6625 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-G4-6628 
"GGTLC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GGTLC2 MUTATED        0      0      0      1      0      0      0      0
  GGTLC2 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  GGTLC2 MUTATED        0
  GGTLC2 WILD-TYPE      5
D117V12, multiclass
[1] "Remove cluster labels:" "GGTLC2 MUTATED"        
clus
  GGTLC2 MUTATED GGTLC2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6309       TCGA-G4-6625 
"GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" "GGTLC2 WILD-TYPE" 
      TCGA-G4-6628 
"GGTLC2 WILD-TYPE" 

Clustering(118) Variable = ZFYVE26 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFYVE26 MUTATED        5      0      0      2      0
  ZFYVE26 WILD-TYPE     27     18     46     25     23
D118V1, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               5                27
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFYVE26 MUTATED        6      0      1
  ZFYVE26 WILD-TYPE     37     67     35
D118V2, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               6                37
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFYVE26 MUTATED        2      5     21
  ZFYVE26 WILD-TYPE     40    168    126
D118V3, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               5               168
  CLUS_3              21               126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFYVE26 MUTATED        6      3     13
  ZFYVE26 WILD-TYPE     56     70     62
D118V4, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               6                56
  CLUS_2               3                70
  CLUS_3              13                62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFYVE26 MUTATED        2     10     11
  ZFYVE26 WILD-TYPE     68    110     89
D118V5, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               2                68
  CLUS_2              10               110
  CLUS_3              11                89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFYVE26 MUTATED        2      1      1      3      3      8      2      2
  ZFYVE26 WILD-TYPE     39     25     29     26     36     61     18     12
                   vv
clus                CLUS_9
  ZFYVE26 MUTATED        1
  ZFYVE26 WILD-TYPE     21
D118V6, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               3                26
  CLUS_5               3                36
  CLUS_6               8                61
  CLUS_7               2                18
  CLUS_8               2                12
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFYVE26 MUTATED        5     11      5      7
  ZFYVE26 WILD-TYPE     95     61     67    114
D118V7, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               5                95
  CLUS_2              11                61
  CLUS_3               5                67
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFYVE26 MUTATED        2      7     12      1      6
  ZFYVE26 WILD-TYPE     57     68     62    118     32
D118V8, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               7                68
  CLUS_3              12                62
  CLUS_4               1               118
  CLUS_5               6                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFYVE26 MUTATED        3     13      3      2      6
  ZFYVE26 WILD-TYPE     48     63     58     69     89
D118V9, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               3                48
  CLUS_2              13                63
  CLUS_3               3                58
  CLUS_4               2                69
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFYVE26 MUTATED        6      2      2      7      3      1      0      5
  ZFYVE26 WILD-TYPE     63     46     37      9     50     19     21     33
                   vv
clus                CLUS_9
  ZFYVE26 MUTATED        1
  ZFYVE26 WILD-TYPE     49
D118V10, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               6                63
  CLUS_2               2                46
  CLUS_3               2                37
  CLUS_4               7                 9
  CLUS_5               3                50
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               5                33
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZFYVE26 MUTATED        1      2      2      0      4      0
  ZFYVE26 WILD-TYPE     12     14     12     11      7      9
D118V11, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               2                14
  CLUS_3               2                12
  CLUS_4               0                11
  CLUS_5               4                 7
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFYVE26 MUTATED        2      1      0      4      1      0      1      0
  ZFYVE26 WILD-TYPE      9      6      7      5      7      7     10      9
                   vv
clus                CLUS_9
  ZFYVE26 MUTATED        0
  ZFYVE26 WILD-TYPE      5
D118V12, multiclass
        clus
vv       ZFYVE26 MUTATED ZFYVE26 WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               4                 5
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(119) Variable = MLLT6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLLT6 MUTATED        2      1      0      0      0
  MLLT6 WILD-TYPE     30     17     46     27     23
D119V1, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MLLT6 MUTATED        2      1      0
  MLLT6 WILD-TYPE     41     66     36
D119V2, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MLLT6 MUTATED        0      4     12
  MLLT6 WILD-TYPE     42    169    135
D119V3, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MLLT6 MUTATED        5      3      5
  MLLT6 WILD-TYPE     57     70     70
D119V4, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             3              70
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MLLT6 MUTATED        1      5      9
  MLLT6 WILD-TYPE     69    115     91
D119V5, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MLLT6 MUTATED        0      0      1      1      2      6      3      0
  MLLT6 WILD-TYPE     41     26     29     28     37     63     17     14
                 vv
clus              CLUS_9
  MLLT6 MUTATED        2
  MLLT6 WILD-TYPE     20
D119V6, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLLT6 MUTATED        4      4      5      3
  MLLT6 WILD-TYPE     96     68     67    118
D119V7, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             4              68
  CLUS_3             5              67
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLLT6 MUTATED        2      2      9      2      1
  MLLT6 WILD-TYPE     57     73     65    117     37
D119V8, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             9              65
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLLT6 MUTATED        2      8      2      0      3
  MLLT6 WILD-TYPE     49     68     59     71     92
D119V9, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             8              68
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MLLT6 MUTATED        4      5      0      1      2      0      1      2
  MLLT6 WILD-TYPE     65     43     39     15     51     20     20     36
                 vv
clus              CLUS_9
  MLLT6 MUTATED        0
  MLLT6 WILD-TYPE     50
D119V10, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MLLT6 MUTATED        1      0      1      0      2      0
  MLLT6 WILD-TYPE     12     16     13     11      9      9
D119V11, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MLLT6 MUTATED        0      0      1      0      0      2      1      0
  MLLT6 WILD-TYPE     11      7      6      9      8      5     10      9
                 vv
clus              CLUS_9
  MLLT6 MUTATED        0
  MLLT6 WILD-TYPE      5
D119V12, multiclass
        clus
vv       MLLT6 MUTATED MLLT6 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             2               5
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(120) Variable = RNF128 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF128 MUTATED        0      0      0      0      0
  RNF128 WILD-TYPE     32     18     46     27     23
D120V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF128 MUTATED        0      0      0
  RNF128 WILD-TYPE     43     67     36
D120V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF128 MUTATED        1      1     12
  RNF128 WILD-TYPE     41    172    135
D120V3, multiclass
        clus
vv       RNF128 MUTATED RNF128 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF128 MUTATED        4      1      9
  RNF128 WILD-TYPE     58     72     66
D120V4, multiclass
        clus
vv       RNF128 MUTATED RNF128 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              9               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF128 MUTATED        1      5      6
  RNF128 WILD-TYPE     69    115     94
D120V5, multiclass
        clus
vv       RNF128 MUTATED RNF128 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF128 MUTATED        0      1      0      3      2      6      0      0
  RNF128 WILD-TYPE     41     25     30     26     37     63     20     14
                  vv
clus               CLUS_9
  RNF128 MUTATED        0
  RNF128 WILD-TYPE     22
D120V6, multiclass
        clus
vv       RNF128 MUTATED RNF128 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF128 MUTATED        1      8      5      0
  RNF128 WILD-TYPE     99     64     67    121
D120V7, multiclass
        clus
vv       RNF128 MUTATED RNF128 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              8               64
  CLUS_3              5               67
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF128 MUTATED        0      4      9      1      0
  RNF128 WILD-TYPE     59     71     65    118     38
D120V8, multiclass
        clus
vv       RNF128 MUTATED RNF128 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              4               71
  CLUS_3              9               65
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF128 MUTATED        1      7      3      0      3
  RNF128 WILD-TYPE     50     69     58     71     92
D120V9, multiclass
        clus
vv       RNF128 MUTATED RNF128 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              7               69
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF128 MUTATED        4      2      0      2      2      1      0      2
  RNF128 WILD-TYPE     65     46     39     14     51     19     21     36
                  vv
clus               CLUS_9
  RNF128 MUTATED        1
  RNF128 WILD-TYPE     49
D120V10, multiclass
        clus
vv       RNF128 MUTATED RNF128 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF128 MUTATED        0      0      2      0      1      0
  RNF128 WILD-TYPE     13     16     12     11     10      9
D120V11, multiclass
        clus
vv       RNF128 MUTATED RNF128 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF128 MUTATED        0      0      1      0      1      0      1      0
  RNF128 WILD-TYPE     11      7      6      9      7      7     10      9
                  vv
clus               CLUS_9
  RNF128 MUTATED        0
  RNF128 WILD-TYPE      5
D120V12, multiclass
        clus
vv       RNF128 MUTATED RNF128 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(121) Variable = TNMD MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNMD MUTATED        2      0      1      1      0
  TNMD WILD-TYPE     30     18     45     26     23
D121V1, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TNMD MUTATED        3      0      1
  TNMD WILD-TYPE     40     67     35
D121V2, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TNMD MUTATED        1      1      8
  TNMD WILD-TYPE     41    172    139
D121V3, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TNMD MUTATED        2      0      5
  TNMD WILD-TYPE     60     73     70
D121V4, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TNMD MUTATED        2      3      4
  TNMD WILD-TYPE     68    117     96
D121V5, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TNMD MUTATED        1      0      0      2      1      3      1      1      0
  TNMD WILD-TYPE     40     26     30     27     38     66     19     13     22
D121V6, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNMD MUTATED        0      5      2      4
  TNMD WILD-TYPE    100     67     70    117
D121V7, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            0            100
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNMD MUTATED        0      0      7      1      3
  TNMD WILD-TYPE     59     75     67    118     35
D121V8, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            7             67
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNMD MUTATED        0      4      2      0      5
  TNMD WILD-TYPE     51     72     59     71     90
D121V9, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TNMD MUTATED        3      2      0      1      1      1      0      3      0
  TNMD WILD-TYPE     66     46     39     15     52     19     21     35     50
D121V10, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TNMD MUTATED        0      0      1      0      2      0
  TNMD WILD-TYPE     13     16     13     11      9      9
D121V11, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TNMD MUTATED        0      0      0      1      1      0      1      0      0
  TNMD WILD-TYPE     11      7      7      8      7      7     10      9      5
D121V12, multiclass
        clus
vv       TNMD MUTATED TNMD WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(122) Variable = GPR174 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR174 MUTATED        1      0      1      0      0
  GPR174 WILD-TYPE     31     18     45     27     23
D122V1, multiclass
[1] "Remove cluster labels:" "GPR174 MUTATED"        
clus
  GPR174 MUTATED GPR174 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR174 MUTATED        1      0      1
  GPR174 WILD-TYPE     42     67     35
D122V2, multiclass
[1] "Remove cluster labels:" "GPR174 MUTATED"        
clus
  GPR174 MUTATED GPR174 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" "GPR174 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR174 MUTATED        1      5      2
  GPR174 WILD-TYPE     41    168    145
D122V3, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR174 MUTATED        3      1      2
  GPR174 WILD-TYPE     59     72     73
D122V4, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR174 MUTATED        5      0      2
  GPR174 WILD-TYPE     65    120     98
D122V5, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              5               65
  CLUS_2              0              120
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR174 MUTATED        2      0      1      0      1      2      0      0
  GPR174 WILD-TYPE     39     26     29     29     38     67     20     14
                  vv
clus               CLUS_9
  GPR174 MUTATED        1
  GPR174 WILD-TYPE     21
D122V6, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR174 MUTATED        2      1      4      1
  GPR174 WILD-TYPE     98     71     68    120
D122V7, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              4               68
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR174 MUTATED        3      1      2      1      1
  GPR174 WILD-TYPE     56     74     72    118     37
D122V8, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR174 MUTATED        2      2      1      2      1
  GPR174 WILD-TYPE     49     74     60     69     94
D122V9, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR174 MUTATED        3      2      0      0      1      0      0      1
  GPR174 WILD-TYPE     66     46     39     16     52     20     21     37
                  vv
clus               CLUS_9
  GPR174 MUTATED        1
  GPR174 WILD-TYPE     49
D122V10, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR174 MUTATED        0      0      1      0      1      1
  GPR174 WILD-TYPE     13     16     13     11     10      8
D122V11, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR174 MUTATED        1      0      0      0      1      0      1      0
  GPR174 WILD-TYPE     10      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  GPR174 MUTATED        0
  GPR174 WILD-TYPE      5
D122V12, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(123) Variable = CD58 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD58 MUTATED        0      0      0      1      0
  CD58 WILD-TYPE     32     18     46     26     23
D123V1, multiclass
[1] "Remove cluster labels:" "CD58 MUTATED"          
clus
  CD58 MUTATED CD58 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AY-4071 
"CD58 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD58 MUTATED        0      1      0
  CD58 WILD-TYPE     43     66     36
D123V2, multiclass
[1] "Remove cluster labels:" "CD58 MUTATED"          
clus
  CD58 MUTATED CD58 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" "CD58 WILD-TYPE" 
    TCGA-AY-4071 
"CD58 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD58 MUTATED        1      1     12
  CD58 WILD-TYPE     41    172    135
D123V3, multiclass
        clus
vv       CD58 MUTATED CD58 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD58 MUTATED        4      0      9
  CD58 WILD-TYPE     58     73     66
D123V4, multiclass
        clus
vv       CD58 MUTATED CD58 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            9             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD58 MUTATED        3      5      4
  CD58 WILD-TYPE     67    115     96
D123V5, multiclass
        clus
vv       CD58 MUTATED CD58 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            5            115
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD58 MUTATED        3      1      1      3      0      3      1      0      0
  CD58 WILD-TYPE     38     25     29     26     39     66     19     14     22
D123V6, multiclass
        clus
vv       CD58 MUTATED CD58 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD58 MUTATED        0      6      7      1
  CD58 WILD-TYPE    100     66     65    120
D123V7, multiclass
        clus
vv       CD58 MUTATED CD58 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            6             66
  CLUS_3            7             65
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD58 MUTATED        2      1     10      1      0
  CD58 WILD-TYPE     57     74     64    118     38
D123V8, multiclass
        clus
vv       CD58 MUTATED CD58 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3           10             64
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD58 MUTATED        0      9      2      1      2
  CD58 WILD-TYPE     51     67     59     70     93
D123V9, multiclass
        clus
vv       CD58 MUTATED CD58 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            9             67
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD58 MUTATED        3      5      0      4      0      1      0      0      1
  CD58 WILD-TYPE     66     43     39     12     53     19     21     38     49
D123V10, multiclass
        clus
vv       CD58 MUTATED CD58 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            5             43
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CD58 MUTATED        0      1      2      0      4      0
  CD58 WILD-TYPE     13     15     12     11      7      9
D123V11, multiclass
        clus
vv       CD58 MUTATED CD58 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD58 MUTATED        0      0      0      2      2      0      3      0      0
  CD58 WILD-TYPE     11      7      7      7      6      7      8      9      5
D123V12, multiclass
        clus
vv       CD58 MUTATED CD58 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            2              6
  CLUS_6            0              7
  CLUS_7            3              8
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(124) Variable = HTR2A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HTR2A MUTATED        0      0      0      2      0
  HTR2A WILD-TYPE     32     18     46     25     23
D124V1, multiclass
[1] "Remove cluster labels:" "HTR2A MUTATED"         
clus
  HTR2A MUTATED HTR2A WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTR2A MUTATED        1      1      0
  HTR2A WILD-TYPE     42     66     36
D124V2, multiclass
[1] "Remove cluster labels:" "HTR2A MUTATED"         
clus
  HTR2A MUTATED HTR2A WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" "HTR2A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTR2A MUTATED        2      8      9
  HTR2A WILD-TYPE     40    165    138
D124V3, multiclass
        clus
vv       HTR2A MUTATED HTR2A WILD-TYPE
  CLUS_1             2              40
  CLUS_2             8             165
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTR2A MUTATED        4      6      7
  HTR2A WILD-TYPE     58     67     68
D124V4, multiclass
        clus
vv       HTR2A MUTATED HTR2A WILD-TYPE
  CLUS_1             4              58
  CLUS_2             6              67
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTR2A MUTATED        0      9      9
  HTR2A WILD-TYPE     70    111     91
D124V5, multiclass
        clus
vv       HTR2A MUTATED HTR2A WILD-TYPE
  CLUS_1             0              70
  CLUS_2             9             111
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HTR2A MUTATED        3      0      2      5      1      6      0      1
  HTR2A WILD-TYPE     38     26     28     24     38     63     20     13
                 vv
clus              CLUS_9
  HTR2A MUTATED        0
  HTR2A WILD-TYPE     22
D124V6, multiclass
        clus
vv       HTR2A MUTATED HTR2A WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             5              24
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HTR2A MUTATED        7      6      4      2
  HTR2A WILD-TYPE     93     66     68    119
D124V7, multiclass
        clus
vv       HTR2A MUTATED HTR2A WILD-TYPE
  CLUS_1             7              93
  CLUS_2             6              66
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HTR2A MUTATED        4      6      7      1      1
  HTR2A WILD-TYPE     55     69     67    118     37
D124V8, multiclass
        clus
vv       HTR2A MUTATED HTR2A WILD-TYPE
  CLUS_1             4              55
  CLUS_2             6              69
  CLUS_3             7              67
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HTR2A MUTATED        5      5      3      4      1
  HTR2A WILD-TYPE     46     71     58     67     94
D124V9, multiclass
        clus
vv       HTR2A MUTATED HTR2A WILD-TYPE
  CLUS_1             5              46
  CLUS_2             5              71
  CLUS_3             3              58
  CLUS_4             4              67
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HTR2A MUTATED        7      2      3      1      4      1      0      0
  HTR2A WILD-TYPE     62     46     36     15     49     19     21     38
                 vv
clus              CLUS_9
  HTR2A MUTATED        0
  HTR2A WILD-TYPE     50
D124V10, multiclass
        clus
vv       HTR2A MUTATED HTR2A WILD-TYPE
  CLUS_1             7              62
  CLUS_2             2              46
  CLUS_3             3              36
  CLUS_4             1              15
  CLUS_5             4              49
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HTR2A MUTATED        1      1      1      0      1      2
  HTR2A WILD-TYPE     12     15     13     11     10      7
D124V11, multiclass
        clus
vv       HTR2A MUTATED HTR2A WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HTR2A MUTATED        1      1      0      2      1      0      0      1
  HTR2A WILD-TYPE     10      6      7      7      7      7     11      8
                 vv
clus              CLUS_9
  HTR2A MUTATED        0
  HTR2A WILD-TYPE      5
D124V12, multiclass
        clus
vv       HTR2A MUTATED HTR2A WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(125) Variable = EHBP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EHBP1 MUTATED        3      0      0      1      0
  EHBP1 WILD-TYPE     29     18     46     26     23
D125V1, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EHBP1 MUTATED        3      0      1
  EHBP1 WILD-TYPE     40     67     35
D125V2, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EHBP1 MUTATED        0      9     13
  EHBP1 WILD-TYPE     42    164    134
D125V3, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             9             164
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EHBP1 MUTATED        2      7      9
  EHBP1 WILD-TYPE     60     66     66
D125V4, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             7              66
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EHBP1 MUTATED        5      8      5
  EHBP1 WILD-TYPE     65    112     95
D125V5, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             5              65
  CLUS_2             8             112
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EHBP1 MUTATED        3      1      1      4      2      4      1      0
  EHBP1 WILD-TYPE     38     25     29     25     37     65     19     14
                 vv
clus              CLUS_9
  EHBP1 MUTATED        2
  EHBP1 WILD-TYPE     20
D125V6, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             2              37
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EHBP1 MUTATED        7      6      5      4
  EHBP1 WILD-TYPE     93     66     67    117
D125V7, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             7              93
  CLUS_2             6              66
  CLUS_3             5              67
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EHBP1 MUTATED        2      9      7      1      3
  EHBP1 WILD-TYPE     57     66     67    118     35
D125V8, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             9              66
  CLUS_3             7              67
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EHBP1 MUTATED        4     10      2      2      4
  EHBP1 WILD-TYPE     47     66     59     69     91
D125V9, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             4              47
  CLUS_2            10              66
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EHBP1 MUTATED        3      3      1      5      7      1      0      2
  EHBP1 WILD-TYPE     66     45     38     11     46     19     21     36
                 vv
clus              CLUS_9
  EHBP1 MUTATED        0
  EHBP1 WILD-TYPE     50
D125V10, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             5              11
  CLUS_5             7              46
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EHBP1 MUTATED        0      1      0      0      2      1
  EHBP1 WILD-TYPE     13     15     14     11      9      8
D125V11, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EHBP1 MUTATED        0      1      0      1      1      0      0      1
  EHBP1 WILD-TYPE     11      6      7      8      7      7     11      8
                 vv
clus              CLUS_9
  EHBP1 MUTATED        0
  EHBP1 WILD-TYPE      5
D125V12, multiclass
        clus
vv       EHBP1 MUTATED EHBP1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(126) Variable = ZNF583 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF583 MUTATED        1      0      1      1      1
  ZNF583 WILD-TYPE     31     18     45     26     22
D126V1, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF583 MUTATED        1      3      0
  ZNF583 WILD-TYPE     42     64     36
D126V2, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              3               64
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF583 MUTATED        1      3     11
  ZNF583 WILD-TYPE     41    170    136
D126V3, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF583 MUTATED        3      2      6
  ZNF583 WILD-TYPE     59     71     69
D126V4, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF583 MUTATED        1      2      5
  ZNF583 WILD-TYPE     69    118     95
D126V5, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF583 MUTATED        4      0      1      0      0      3      0      0
  ZNF583 WILD-TYPE     37     26     29     29     39     66     20     14
                  vv
clus               CLUS_9
  ZNF583 MUTATED        0
  ZNF583 WILD-TYPE     22
D126V6, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              4               37
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF583 MUTATED        3      4      5      3
  ZNF583 WILD-TYPE     97     68     67    118
D126V7, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              4               68
  CLUS_3              5               67
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF583 MUTATED        4      1      6      3      1
  ZNF583 WILD-TYPE     55     74     68    116     37
D126V8, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              1               74
  CLUS_3              6               68
  CLUS_4              3              116
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF583 MUTATED        1      4      6      1      3
  ZNF583 WILD-TYPE     50     72     55     70     92
D126V9, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              6               55
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF583 MUTATED        1      4      0      3      2      1      1      1
  ZNF583 WILD-TYPE     68     44     39     13     51     19     20     37
                  vv
clus               CLUS_9
  ZNF583 MUTATED        2
  ZNF583 WILD-TYPE     48
D126V10, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF583 MUTATED        0      1      2      0      0      0
  ZNF583 WILD-TYPE     13     15     12     11     11      9
D126V11, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF583 MUTATED        0      0      0      0      2      0      1      0
  ZNF583 WILD-TYPE     11      7      7      9      6      7     10      9
                  vv
clus               CLUS_9
  ZNF583 MUTATED        0
  ZNF583 WILD-TYPE      5
D126V12, multiclass
        clus
vv       ZNF583 MUTATED ZNF583 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(127) Variable = ATP11B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP11B MUTATED        3      0      0      0      0
  ATP11B WILD-TYPE     29     18     46     27     23
D127V1, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP11B MUTATED        2      0      1
  ATP11B WILD-TYPE     41     67     35
D127V2, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP11B MUTATED        0      4     13
  ATP11B WILD-TYPE     42    169    134
D127V3, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP11B MUTATED        6      4      4
  ATP11B WILD-TYPE     56     69     71
D127V4, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              6               56
  CLUS_2              4               69
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP11B MUTATED        1      3     10
  ATP11B WILD-TYPE     69    117     90
D127V5, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP11B MUTATED        1      1      0      2      1      7      2      0
  ATP11B WILD-TYPE     40     25     30     27     38     62     18     14
                  vv
clus               CLUS_9
  ATP11B MUTATED        0
  ATP11B WILD-TYPE     22
D127V6, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              7               62
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP11B MUTATED        4      7      3      3
  ATP11B WILD-TYPE     96     65     69    118
D127V7, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              4               96
  CLUS_2              7               65
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP11B MUTATED        2      4      7      3      1
  ATP11B WILD-TYPE     57     71     67    116     37
D127V8, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              7               67
  CLUS_4              3              116
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP11B MUTATED        2      7      2      2      4
  ATP11B WILD-TYPE     49     69     59     69     91
D127V9, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              2               49
  CLUS_2              7               69
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP11B MUTATED        2      4      2      1      1      3      1      2
  ATP11B WILD-TYPE     67     44     37     15     52     17     20     36
                  vv
clus               CLUS_9
  ATP11B MUTATED        1
  ATP11B WILD-TYPE     49
D127V10, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               44
  CLUS_3              2               37
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              3               17
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP11B MUTATED        2      1      1      0      1      0
  ATP11B WILD-TYPE     11     15     13     11     10      9
D127V11, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              2               11
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP11B MUTATED        1      0      0      0      0      0      1      1
  ATP11B WILD-TYPE     10      7      7      9      8      7     10      8
                  vv
clus               CLUS_9
  ATP11B MUTATED        2
  ATP11B WILD-TYPE      3
D127V12, multiclass
        clus
vv       ATP11B MUTATED ATP11B WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              2                3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(128) Variable = NCAPD2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCAPD2 MUTATED        3      0      0      2      0
  NCAPD2 WILD-TYPE     29     18     46     25     23
D128V1, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NCAPD2 MUTATED        2      2      1
  NCAPD2 WILD-TYPE     41     65     35
D128V2, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NCAPD2 MUTATED        0      1     19
  NCAPD2 WILD-TYPE     42    172    128
D128V3, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3             19              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NCAPD2 MUTATED        9      1      5
  NCAPD2 WILD-TYPE     53     72     70
D128V4, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              9               53
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NCAPD2 MUTATED        1      4     12
  NCAPD2 WILD-TYPE     69    116     88
D128V5, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3             12               88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCAPD2 MUTATED        1      1      1      1      0     10      3      0
  NCAPD2 WILD-TYPE     40     25     29     28     39     59     17     14
                  vv
clus               CLUS_9
  NCAPD2 MUTATED        0
  NCAPD2 WILD-TYPE     22
D128V6, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6             10               59
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NCAPD2 MUTATED        1      8      5      6
  NCAPD2 WILD-TYPE     99     64     67    115
D128V7, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              8               64
  CLUS_3              5               67
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCAPD2 MUTATED        0      3     11      4      2
  NCAPD2 WILD-TYPE     59     72     63    115     36
D128V8, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3             11               63
  CLUS_4              4              115
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCAPD2 MUTATED        1     10      1      2      4
  NCAPD2 WILD-TYPE     50     66     60     69     91
D128V9, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2             10               66
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCAPD2 MUTATED        3      3      0      4      1      4      0      1
  NCAPD2 WILD-TYPE     66     45     39     12     52     16     21     37
                  vv
clus               CLUS_9
  NCAPD2 MUTATED        2
  NCAPD2 WILD-TYPE     48
D128V10, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              4               12
  CLUS_5              1               52
  CLUS_6              4               16
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NCAPD2 MUTATED        1      0      1      0      3      0
  NCAPD2 WILD-TYPE     12     16     13     11      8      9
D128V11, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCAPD2 MUTATED        0      0      0      2      0      1      2      0
  NCAPD2 WILD-TYPE     11      7      7      7      8      6      9      9
                  vv
clus               CLUS_9
  NCAPD2 MUTATED        0
  NCAPD2 WILD-TYPE      5
D128V12, multiclass
        clus
vv       NCAPD2 MUTATED NCAPD2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(129) Variable = FNDC7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FNDC7 MUTATED        1      0      0      0      0
  FNDC7 WILD-TYPE     31     18     46     27     23
D129V1, multiclass
[1] "Remove cluster labels:" "FNDC7 MUTATED"         
clus
  FNDC7 MUTATED FNDC7 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AY-4071 
"FNDC7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FNDC7 MUTATED        1      0      0
  FNDC7 WILD-TYPE     42     67     36
D129V2, multiclass
[1] "Remove cluster labels:" "FNDC7 MUTATED"         
clus
  FNDC7 MUTATED FNDC7 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-AY-4071 
"FNDC7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FNDC7 MUTATED        0      2      7
  FNDC7 WILD-TYPE     42    171    140
D129V3, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FNDC7 MUTATED        3      1      4
  FNDC7 WILD-TYPE     59     72     71
D129V4, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FNDC7 MUTATED        0      2      5
  FNDC7 WILD-TYPE     70    118     95
D129V5, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FNDC7 MUTATED        0      0      0      1      1      2      2      0
  FNDC7 WILD-TYPE     41     26     30     28     38     67     18     14
                 vv
clus              CLUS_9
  FNDC7 MUTATED        1
  FNDC7 WILD-TYPE     21
D129V6, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FNDC7 MUTATED        2      4      2      1
  FNDC7 WILD-TYPE     98     68     70    120
D129V7, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FNDC7 MUTATED        1      2      5      0      1
  FNDC7 WILD-TYPE     58     73     69    119     37
D129V8, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FNDC7 MUTATED        2      4      1      0      2
  FNDC7 WILD-TYPE     49     72     60     71     93
D129V9, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FNDC7 MUTATED        1      2      1      1      2      0      0      1
  FNDC7 WILD-TYPE     68     46     38     15     51     20     21     37
                 vv
clus              CLUS_9
  FNDC7 MUTATED        1
  FNDC7 WILD-TYPE     49
D129V10, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FNDC7 MUTATED        0      0      0      0      0      0
  FNDC7 WILD-TYPE     13     16     14     11     11      9
D129V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FNDC7 MUTATED        0      0      0      0      0      0      0      0
  FNDC7 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  FNDC7 MUTATED        0
  FNDC7 WILD-TYPE      5
D129V12, multiclass

Clustering(130) Variable = SVIL MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SVIL MUTATED        4      0      0      2      0
  SVIL WILD-TYPE     28     18     46     25     23
D130V1, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SVIL MUTATED        4      1      1
  SVIL WILD-TYPE     39     66     35
D130V2, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SVIL MUTATED        2      2     28
  SVIL WILD-TYPE     40    171    119
D130V3, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2            171
  CLUS_3           28            119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SVIL MUTATED        7      3     16
  SVIL WILD-TYPE     55     70     59
D130V4, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            7             55
  CLUS_2            3             70
  CLUS_3           16             59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SVIL MUTATED        5      9     15
  SVIL WILD-TYPE     65    111     85
D130V5, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            5             65
  CLUS_2            9            111
  CLUS_3           15             85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SVIL MUTATED        2      1      1      3      5     14      3      0      0
  SVIL WILD-TYPE     39     25     29     26     34     55     17     14     22
D130V6, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            5             34
  CLUS_6           14             55
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SVIL MUTATED        4     13      9      6
  SVIL WILD-TYPE     96     59     63    115
D130V7, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            4             96
  CLUS_2           13             59
  CLUS_3            9             63
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SVIL MUTATED        1      5     19      2      5
  SVIL WILD-TYPE     58     70     55    117     33
D130V8, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            1             58
  CLUS_2            5             70
  CLUS_3           19             55
  CLUS_4            2            117
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SVIL MUTATED        0     22      2      1      7
  SVIL WILD-TYPE     51     54     59     70     88
D130V9, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            0             51
  CLUS_2           22             54
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SVIL MUTATED        6      6      0      8      7      1      0      3      1
  SVIL WILD-TYPE     63     42     39      8     46     19     21     35     49
D130V10, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            6             63
  CLUS_2            6             42
  CLUS_3            0             39
  CLUS_4            8              8
  CLUS_5            7             46
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SVIL MUTATED        0      1      2      1      7      0
  SVIL WILD-TYPE     13     15     12     10      4      9
D130V11, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            7              4
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SVIL MUTATED        0      0      1      3      2      1      4      0      0
  SVIL WILD-TYPE     11      7      6      6      6      6      7      9      5
D130V12, multiclass
        clus
vv       SVIL MUTATED SVIL WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            3              6
  CLUS_5            2              6
  CLUS_6            1              6
  CLUS_7            4              7
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(131) Variable = LARP4B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LARP4B MUTATED        9      0      0      0      0
  LARP4B WILD-TYPE     23     18     46     27     23
D131V1, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              9               23
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LARP4B MUTATED        8      0      1
  LARP4B WILD-TYPE     35     67     35
D131V2, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              8               35
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LARP4B MUTATED        2      3     23
  LARP4B WILD-TYPE     40    170    124
D131V3, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3              170
  CLUS_3             23              124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LARP4B MUTATED        8      2      9
  LARP4B WILD-TYPE     54     71     66
D131V4, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              8               54
  CLUS_2              2               71
  CLUS_3              9               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LARP4B MUTATED        1      6     15
  LARP4B WILD-TYPE     69    114     85
D131V5, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              1               69
  CLUS_2              6              114
  CLUS_3             15               85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LARP4B MUTATED        1      0      2      3      2     11      2      1
  LARP4B WILD-TYPE     40     26     28     26     37     58     18     13
                  vv
clus               CLUS_9
  LARP4B MUTATED        0
  LARP4B WILD-TYPE     22
D131V6, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6             11               58
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LARP4B MUTATED        1     13      4     11
  LARP4B WILD-TYPE     99     59     68    110
D131V7, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              1               99
  CLUS_2             13               59
  CLUS_3              4               68
  CLUS_4             11              110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LARP4B MUTATED        1      2     15      4      7
  LARP4B WILD-TYPE     58     73     59    115     31
D131V8, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3             15               59
  CLUS_4              4              115
  CLUS_5              7               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LARP4B MUTATED        3     14      2      2      7
  LARP4B WILD-TYPE     48     62     59     69     88
D131V9, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              3               48
  CLUS_2             14               62
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LARP4B MUTATED        4      5      0      7      4      1      3      3
  LARP4B WILD-TYPE     65     43     39      9     49     19     18     35
                  vv
clus               CLUS_9
  LARP4B MUTATED        1
  LARP4B WILD-TYPE     49
D131V10, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              4               65
  CLUS_2              5               43
  CLUS_3              0               39
  CLUS_4              7                9
  CLUS_5              4               49
  CLUS_6              1               19
  CLUS_7              3               18
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LARP4B MUTATED        0      0      0      0      3      0
  LARP4B WILD-TYPE     13     16     14     11      8      9
D131V11, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LARP4B MUTATED        0      0      0      2      0      0      1      0
  LARP4B WILD-TYPE     11      7      7      7      8      7     10      9
                  vv
clus               CLUS_9
  LARP4B MUTATED        0
  LARP4B WILD-TYPE      5
D131V12, multiclass
        clus
vv       LARP4B MUTATED LARP4B WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(132) Variable = THOC5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THOC5 MUTATED        1      0      0      2      0
  THOC5 WILD-TYPE     31     18     46     25     23
D132V1, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC5 MUTATED        2      1      0
  THOC5 WILD-TYPE     41     66     36
D132V2, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC5 MUTATED        1      2     11
  THOC5 WILD-TYPE     41    171    136
D132V3, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC5 MUTATED        3      1      7
  THOC5 WILD-TYPE     59     72     68
D132V4, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC5 MUTATED        1      4      4
  THOC5 WILD-TYPE     69    116     96
D132V5, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THOC5 MUTATED        1      1      1      0      1      3      1      1
  THOC5 WILD-TYPE     40     25     29     29     38     66     19     13
                 vv
clus              CLUS_9
  THOC5 MUTATED        0
  THOC5 WILD-TYPE     22
D132V6, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  THOC5 MUTATED        1      8      1      4
  THOC5 WILD-TYPE     99     64     71    117
D132V7, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             8              64
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THOC5 MUTATED        0      2      8      2      2
  THOC5 WILD-TYPE     59     73     66    117     36
D132V8, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             8              66
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THOC5 MUTATED        1      7      1      0      4
  THOC5 WILD-TYPE     50     69     60     71     91
D132V9, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THOC5 MUTATED        3      1      0      3      2      2      0      1
  THOC5 WILD-TYPE     66     47     39     13     51     18     21     37
                 vv
clus              CLUS_9
  THOC5 MUTATED        1
  THOC5 WILD-TYPE     49
D132V10, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  THOC5 MUTATED        0      1      0      0      2      1
  THOC5 WILD-TYPE     13     15     14     11      9      8
D132V11, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THOC5 MUTATED        1      0      0      1      0      1      1      0
  THOC5 WILD-TYPE     10      7      7      8      8      6     10      9
                 vv
clus              CLUS_9
  THOC5 MUTATED        0
  THOC5 WILD-TYPE      5
D132V12, multiclass
        clus
vv       THOC5 MUTATED THOC5 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(133) Variable = GIGYF2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GIGYF2 MUTATED        5      0      0      1      0
  GIGYF2 WILD-TYPE     27     18     46     26     23
D133V1, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GIGYF2 MUTATED        4      1      1
  GIGYF2 WILD-TYPE     39     66     35
D133V2, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GIGYF2 MUTATED        1      5     20
  GIGYF2 WILD-TYPE     41    168    127
D133V3, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3             20              127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GIGYF2 MUTATED       12      1      7
  GIGYF2 WILD-TYPE     50     72     68
D133V4, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1             12               50
  CLUS_2              1               72
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GIGYF2 MUTATED        4      6      9
  GIGYF2 WILD-TYPE     66    114     91
D133V5, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              6              114
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GIGYF2 MUTATED        1      1      1      2      1      8      3      1
  GIGYF2 WILD-TYPE     40     25     29     27     38     61     17     13
                  vv
clus               CLUS_9
  GIGYF2 MUTATED        1
  GIGYF2 WILD-TYPE     21
D133V6, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              8               61
  CLUS_7              3               17
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GIGYF2 MUTATED        4     10      6      6
  GIGYF2 WILD-TYPE     96     62     66    115
D133V7, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1              4               96
  CLUS_2             10               62
  CLUS_3              6               66
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GIGYF2 MUTATED        3      3     14      3      3
  GIGYF2 WILD-TYPE     56     72     60    116     35
D133V8, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3             14               60
  CLUS_4              3              116
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GIGYF2 MUTATED        2     13      4      1      6
  GIGYF2 WILD-TYPE     49     63     57     70     89
D133V9, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1              2               49
  CLUS_2             13               63
  CLUS_3              4               57
  CLUS_4              1               70
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GIGYF2 MUTATED        7      5      1      3      3      2      3      2
  GIGYF2 WILD-TYPE     62     43     38     13     50     18     18     36
                  vv
clus               CLUS_9
  GIGYF2 MUTATED        0
  GIGYF2 WILD-TYPE     50
D133V10, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1              7               62
  CLUS_2              5               43
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              3               18
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GIGYF2 MUTATED        0      2      1      1      2      0
  GIGYF2 WILD-TYPE     13     14     13     10      9      9
D133V11, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GIGYF2 MUTATED        2      0      0      1      0      0      3      0
  GIGYF2 WILD-TYPE      9      7      7      8      8      7      8      9
                  vv
clus               CLUS_9
  GIGYF2 MUTATED        0
  GIGYF2 WILD-TYPE      5
D133V12, multiclass
        clus
vv       GIGYF2 MUTATED GIGYF2 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              3                8
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(134) Variable = DNAH12 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH12 MUTATED        5      0      0      1      0
  DNAH12 WILD-TYPE     27     18     46     26     23
D134V1, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAH12 MUTATED        5      1      0
  DNAH12 WILD-TYPE     38     66     36
D134V2, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAH12 MUTATED        3      1     18
  DNAH12 WILD-TYPE     39    172    129
D134V3, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              1              172
  CLUS_3             18              129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAH12 MUTATED        7      2      9
  DNAH12 WILD-TYPE     55     71     66
D134V4, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              2               71
  CLUS_3              9               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAH12 MUTATED        5      7      9
  DNAH12 WILD-TYPE     65    113     91
D134V5, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              5               65
  CLUS_2              7              113
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH12 MUTATED        2      1      1      1      5      6      3      1
  DNAH12 WILD-TYPE     39     25     29     28     34     63     17     13
                  vv
clus               CLUS_9
  DNAH12 MUTATED        1
  DNAH12 WILD-TYPE     21
D134V6, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              5               34
  CLUS_6              6               63
  CLUS_7              3               17
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNAH12 MUTATED        0      8      7      8
  DNAH12 WILD-TYPE    100     64     65    113
D134V7, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              8               64
  CLUS_3              7               65
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH12 MUTATED        3      2     10      3      5
  DNAH12 WILD-TYPE     56     73     64    116     33
D134V8, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              2               73
  CLUS_3             10               64
  CLUS_4              3              116
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH12 MUTATED        1      8      4      2      8
  DNAH12 WILD-TYPE     50     68     57     69     87
D134V9, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              8               68
  CLUS_3              4               57
  CLUS_4              2               69
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH12 MUTATED        5      4      0      2      3      2      1      3
  DNAH12 WILD-TYPE     64     44     39     14     50     18     20     35
                  vv
clus               CLUS_9
  DNAH12 MUTATED        3
  DNAH12 WILD-TYPE     47
D134V10, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNAH12 MUTATED        0      1      1      0      2      0
  DNAH12 WILD-TYPE     13     15     13     11      9      9
D134V11, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH12 MUTATED        1      0      0      0      2      0      1      0
  DNAH12 WILD-TYPE     10      7      7      9      6      7     10      9
                  vv
clus               CLUS_9
  DNAH12 MUTATED        0
  DNAH12 WILD-TYPE      5
D134V12, multiclass
        clus
vv       DNAH12 MUTATED DNAH12 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(135) Variable = ARFGEF1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARFGEF1 MUTATED        3      0      0      5      0
  ARFGEF1 WILD-TYPE     29     18     46     22     23
D135V1, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               5                22
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARFGEF1 MUTATED        6      1      1
  ARFGEF1 WILD-TYPE     37     66     35
D135V2, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1               6                37
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARFGEF1 MUTATED        4      9     21
  ARFGEF1 WILD-TYPE     38    164    126
D135V3, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1               4                38
  CLUS_2               9               164
  CLUS_3              21               126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARFGEF1 MUTATED        9      7     10
  ARFGEF1 WILD-TYPE     53     66     65
D135V4, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1               9                53
  CLUS_2               7                66
  CLUS_3              10                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARFGEF1 MUTATED        3     13      9
  ARFGEF1 WILD-TYPE     67    107     91
D135V5, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1               3                67
  CLUS_2              13               107
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARFGEF1 MUTATED        3      3      1      4      6      6      0      1
  ARFGEF1 WILD-TYPE     38     23     29     25     33     63     20     13
                   vv
clus                CLUS_9
  ARFGEF1 MUTATED        1
  ARFGEF1 WILD-TYPE     21
D135V6, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               3                23
  CLUS_3               1                29
  CLUS_4               4                25
  CLUS_5               6                33
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARFGEF1 MUTATED       12     10      4      8
  ARFGEF1 WILD-TYPE     88     62     68    113
D135V7, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1              12                88
  CLUS_2              10                62
  CLUS_3               4                68
  CLUS_4               8               113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARFGEF1 MUTATED        5     10     11      3      5
  ARFGEF1 WILD-TYPE     54     65     63    116     33
D135V8, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1               5                54
  CLUS_2              10                65
  CLUS_3              11                63
  CLUS_4               3               116
  CLUS_5               5                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARFGEF1 MUTATED        6     11      5      3      8
  ARFGEF1 WILD-TYPE     45     65     56     68     87
D135V9, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1               6                45
  CLUS_2              11                65
  CLUS_3               5                56
  CLUS_4               3                68
  CLUS_5               8                87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARFGEF1 MUTATED        6      6      2      3      4      6      0      5
  ARFGEF1 WILD-TYPE     63     42     37     13     49     14     21     33
                   vv
clus                CLUS_9
  ARFGEF1 MUTATED        1
  ARFGEF1 WILD-TYPE     49
D135V10, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1               6                63
  CLUS_2               6                42
  CLUS_3               2                37
  CLUS_4               3                13
  CLUS_5               4                49
  CLUS_6               6                14
  CLUS_7               0                21
  CLUS_8               5                33
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARFGEF1 MUTATED        1      1      0      1      2      1
  ARFGEF1 WILD-TYPE     12     15     14     10      9      8
D135V11, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               2                 9
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARFGEF1 MUTATED        1      0      0      1      0      1      2      1
  ARFGEF1 WILD-TYPE     10      7      7      8      8      6      9      8
                   vv
clus                CLUS_9
  ARFGEF1 MUTATED        0
  ARFGEF1 WILD-TYPE      5
D135V12, multiclass
        clus
vv       ARFGEF1 MUTATED ARFGEF1 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               2                 9
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(136) Variable = NOTCH2NL MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOTCH2NL MUTATED        0      1      0      1      0
  NOTCH2NL WILD-TYPE     32     17     46     26     23
D136V1, multiclass
[1] "Remove cluster labels:" "NOTCH2NL MUTATED"      
clus
  NOTCH2NL MUTATED NOTCH2NL WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00O 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NOTCH2NL MUTATED        1      1      0
  NOTCH2NL WILD-TYPE     42     66     36
D136V2, multiclass
[1] "Remove cluster labels:" "NOTCH2NL MUTATED"      
clus
  NOTCH2NL MUTATED NOTCH2NL WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00O 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NOTCH2NL MUTATED        0      2      4
  NOTCH2NL WILD-TYPE     42    171    143
D136V3, multiclass
        clus
vv       NOTCH2NL MUTATED NOTCH2NL WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                2                171
  CLUS_3                4                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NOTCH2NL MUTATED        2      1      1
  NOTCH2NL WILD-TYPE     60     72     74
D136V4, multiclass
        clus
vv       NOTCH2NL MUTATED NOTCH2NL WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                1                 72
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NOTCH2NL MUTATED        2      1      3
  NOTCH2NL WILD-TYPE     68    119     97
D136V5, multiclass
        clus
vv       NOTCH2NL MUTATED NOTCH2NL WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                1                119
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NOTCH2NL MUTATED        1      0      0      0      0      3      1      0
  NOTCH2NL WILD-TYPE     40     26     30     29     39     66     19     14
                    vv
clus                 CLUS_9
  NOTCH2NL MUTATED        1
  NOTCH2NL WILD-TYPE     21
D136V6, multiclass
        clus
vv       NOTCH2NL MUTATED NOTCH2NL WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                3                 66
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOTCH2NL MUTATED        0      3      1      2
  NOTCH2NL WILD-TYPE    100     69     71    119
D136V7, multiclass
        clus
vv       NOTCH2NL MUTATED NOTCH2NL WILD-TYPE
  CLUS_1                0                100
  CLUS_2                3                 69
  CLUS_3                1                 71
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOTCH2NL MUTATED        1      1      2      1      1
  NOTCH2NL WILD-TYPE     58     74     72    118     37
D136V8, multiclass
        clus
vv       NOTCH2NL MUTATED NOTCH2NL WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                1                 74
  CLUS_3                2                 72
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOTCH2NL MUTATED        1      1      1      0      2
  NOTCH2NL WILD-TYPE     50     75     60     71     93
D136V9, multiclass
        clus
vv       NOTCH2NL MUTATED NOTCH2NL WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                1                 75
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NOTCH2NL MUTATED        1      1      1      1      0      0      0      0
  NOTCH2NL WILD-TYPE     68     47     38     15     53     20     21     38
                    vv
clus                 CLUS_9
  NOTCH2NL MUTATED        1
  NOTCH2NL WILD-TYPE     49
D136V10, multiclass
        clus
vv       NOTCH2NL MUTATED NOTCH2NL WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                1                 47
  CLUS_3                1                 38
  CLUS_4                1                 15
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NOTCH2NL MUTATED        0      0      0      1      0      0
  NOTCH2NL WILD-TYPE     13     16     14     10     11      9
D136V11, multiclass
[1] "Remove cluster labels:" "NOTCH2NL MUTATED"      
clus
  NOTCH2NL MUTATED NOTCH2NL WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6651 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6781 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-G4-6628 
"NOTCH2NL WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NOTCH2NL MUTATED        0      0      0      0      0      0      1      0
  NOTCH2NL WILD-TYPE     11      7      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  NOTCH2NL MUTATED        0
  NOTCH2NL WILD-TYPE      5
D136V12, multiclass
[1] "Remove cluster labels:" "NOTCH2NL MUTATED"      
clus
  NOTCH2NL MUTATED NOTCH2NL WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6651 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6781 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" "NOTCH2NL WILD-TYPE" 
        TCGA-G4-6628 
"NOTCH2NL WILD-TYPE" 

Clustering(137) Variable = SENP6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SENP6 MUTATED        0      0      0      1      0
  SENP6 WILD-TYPE     32     18     46     26     23
D137V1, multiclass
[1] "Remove cluster labels:" "SENP6 MUTATED"         
clus
  SENP6 MUTATED SENP6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AY-4071 
"SENP6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SENP6 MUTATED        1      0      0
  SENP6 WILD-TYPE     42     67     36
D137V2, multiclass
[1] "Remove cluster labels:" "SENP6 MUTATED"         
clus
  SENP6 MUTATED SENP6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AY-4071 
"SENP6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SENP6 MUTATED        2      3     10
  SENP6 WILD-TYPE     40    170    137
D137V3, multiclass
        clus
vv       SENP6 MUTATED SENP6 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SENP6 MUTATED        4      2      8
  SENP6 WILD-TYPE     58     71     67
D137V4, multiclass
        clus
vv       SENP6 MUTATED SENP6 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SENP6 MUTATED        1      5      7
  SENP6 WILD-TYPE     69    115     93
D137V5, multiclass
        clus
vv       SENP6 MUTATED SENP6 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SENP6 MUTATED        1      0      0      3      1      6      1      0
  SENP6 WILD-TYPE     40     26     30     26     38     63     19     14
                 vv
clus              CLUS_9
  SENP6 MUTATED        1
  SENP6 WILD-TYPE     21
D137V6, multiclass
        clus
vv       SENP6 MUTATED SENP6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SENP6 MUTATED        2      8      4      1
  SENP6 WILD-TYPE     98     64     68    120
D137V7, multiclass
        clus
vv       SENP6 MUTATED SENP6 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             8              64
  CLUS_3             4              68
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SENP6 MUTATED        3      1     10      0      1
  SENP6 WILD-TYPE     56     74     64    119     37
D137V8, multiclass
        clus
vv       SENP6 MUTATED SENP6 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3            10              64
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SENP6 MUTATED        2      9      3      0      0
  SENP6 WILD-TYPE     49     67     58     71     95
D137V9, multiclass
        clus
vv       SENP6 MUTATED SENP6 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             9              67
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SENP6 MUTATED        2      3      1      5      2      1      0      0
  SENP6 WILD-TYPE     67     45     38     11     51     19     21     38
                 vv
clus              CLUS_9
  SENP6 MUTATED        0
  SENP6 WILD-TYPE     50
D137V10, multiclass
        clus
vv       SENP6 MUTATED SENP6 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             5              11
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SENP6 MUTATED        0      0      0      0      2      0
  SENP6 WILD-TYPE     13     16     14     11      9      9
D137V11, multiclass
[1] "Remove cluster labels:" "SENP6 MUTATED"         
clus
  SENP6 MUTATED SENP6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SENP6 MUTATED        0      0      0      1      0      1      0      0
  SENP6 WILD-TYPE     11      7      7      8      8      6     11      9
                 vv
clus              CLUS_9
  SENP6 MUTATED        0
  SENP6 WILD-TYPE      5
D137V12, multiclass
[1] "Remove cluster labels:" "SENP6 MUTATED"         
clus
  SENP6 MUTATED SENP6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" "SENP6 WILD-TYPE" 

Clustering(138) Variable = WDR78 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR78 MUTATED        2      0      0      1      0
  WDR78 WILD-TYPE     30     18     46     26     23
D138V1, multiclass
        clus
vv       WDR78 MUTATED WDR78 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR78 MUTATED        2      1      0
  WDR78 WILD-TYPE     41     66     36
D138V2, multiclass
        clus
vv       WDR78 MUTATED WDR78 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR78 MUTATED        0      3      9
  WDR78 WILD-TYPE     42    170    138
D138V3, multiclass
        clus
vv       WDR78 MUTATED WDR78 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR78 MUTATED        5      3      1
  WDR78 WILD-TYPE     57     70     74
D138V4, multiclass
        clus
vv       WDR78 MUTATED WDR78 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             3              70
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR78 MUTATED        1      2      7
  WDR78 WILD-TYPE     69    118     93
D138V5, multiclass
        clus
vv       WDR78 MUTATED WDR78 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR78 MUTATED        1      0      0      0      1      5      1      0
  WDR78 WILD-TYPE     40     26     30     29     38     64     19     14
                 vv
clus              CLUS_9
  WDR78 MUTATED        2
  WDR78 WILD-TYPE     20
D138V6, multiclass
        clus
vv       WDR78 MUTATED WDR78 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WDR78 MUTATED        2      4      4      2
  WDR78 WILD-TYPE     98     68     68    119
D138V7, multiclass
        clus
vv       WDR78 MUTATED WDR78 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR78 MUTATED        3      3      3      2      1
  WDR78 WILD-TYPE     56     72     71    117     37
D138V8, multiclass
        clus
vv       WDR78 MUTATED WDR78 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR78 MUTATED        2      5      1      0      4
  WDR78 WILD-TYPE     49     71     60     71     91
D138V9, multiclass
        clus
vv       WDR78 MUTATED WDR78 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR78 MUTATED        3      2      1      0      2      1      1      1
  WDR78 WILD-TYPE     66     46     38     16     51     19     20     37
                 vv
clus              CLUS_9
  WDR78 MUTATED        1
  WDR78 WILD-TYPE     49
D138V10, multiclass
        clus
vv       WDR78 MUTATED WDR78 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WDR78 MUTATED        0      0      0      0      1      0
  WDR78 WILD-TYPE     13     16     14     11     10      9
D138V11, multiclass
[1] "Remove cluster labels:" "WDR78 MUTATED"         
clus
  WDR78 MUTATED WDR78 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-G4-6628 
"WDR78 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR78 MUTATED        0      0      0      0      0      0      1      0
  WDR78 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  WDR78 MUTATED        0
  WDR78 WILD-TYPE      5
D138V12, multiclass
[1] "Remove cluster labels:" "WDR78 MUTATED"         
clus
  WDR78 MUTATED WDR78 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" "WDR78 WILD-TYPE" 
     TCGA-G4-6628 
"WDR78 WILD-TYPE" 

Clustering(139) Variable = CAB39L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAB39L MUTATED        0      0      0      1      0
  CAB39L WILD-TYPE     32     18     46     26     23
D139V1, multiclass
[1] "Remove cluster labels:" "CAB39L MUTATED"        
clus
  CAB39L MUTATED CAB39L WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AY-4071 
"CAB39L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAB39L MUTATED        0      1      0
  CAB39L WILD-TYPE     43     66     36
D139V2, multiclass
[1] "Remove cluster labels:" "CAB39L MUTATED"        
clus
  CAB39L MUTATED CAB39L WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AY-4071 
"CAB39L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAB39L MUTATED        0      0      9
  CAB39L WILD-TYPE     42    173    138
D139V3, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAB39L MUTATED        1      0      7
  CAB39L WILD-TYPE     61     73     68
D139V4, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAB39L MUTATED        1      2      6
  CAB39L WILD-TYPE     69    118     94
D139V5, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAB39L MUTATED        1      0      1      0      0      5      2      0
  CAB39L WILD-TYPE     40     26     29     29     39     64     18     14
                  vv
clus               CLUS_9
  CAB39L MUTATED        0
  CAB39L WILD-TYPE     22
D139V6, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CAB39L MUTATED        0      6      2      1
  CAB39L WILD-TYPE    100     66     70    120
D139V7, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              0              100
  CLUS_2              6               66
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAB39L MUTATED        0      1      7      1      0
  CAB39L WILD-TYPE     59     74     67    118     38
D139V8, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              7               67
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAB39L MUTATED        0      8      0      0      1
  CAB39L WILD-TYPE     51     68     61     71     94
D139V9, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              0               51
  CLUS_2              8               68
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAB39L MUTATED        1      2      0      3      2      1      0      0
  CAB39L WILD-TYPE     68     46     39     13     51     19     21     38
                  vv
clus               CLUS_9
  CAB39L MUTATED        0
  CAB39L WILD-TYPE     50
D139V10, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CAB39L MUTATED        0      1      0      0      2      0
  CAB39L WILD-TYPE     13     15     14     11      9      9
D139V11, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAB39L MUTATED        0      0      0      1      0      0      2      0
  CAB39L WILD-TYPE     11      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  CAB39L MUTATED        0
  CAB39L WILD-TYPE      5
D139V12, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(140) Variable = WEE1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WEE1 MUTATED        1      0      0      0      0
  WEE1 WILD-TYPE     31     18     46     27     23
D140V1, multiclass
[1] "Remove cluster labels:" "WEE1 MUTATED"          
clus
  WEE1 MUTATED WEE1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AY-4071 
"WEE1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WEE1 MUTATED        1      0      0
  WEE1 WILD-TYPE     42     67     36
D140V2, multiclass
[1] "Remove cluster labels:" "WEE1 MUTATED"          
clus
  WEE1 MUTATED WEE1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AY-4071 
"WEE1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WEE1 MUTATED        3      0      9
  WEE1 WILD-TYPE     39    173    138
D140V3, multiclass
        clus
vv       WEE1 MUTATED WEE1 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            0            173
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WEE1 MUTATED        4      1      5
  WEE1 WILD-TYPE     58     72     70
D140V4, multiclass
        clus
vv       WEE1 MUTATED WEE1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WEE1 MUTATED        2      7      2
  WEE1 WILD-TYPE     68    113     98
D140V5, multiclass
        clus
vv       WEE1 MUTATED WEE1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            7            113
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WEE1 MUTATED        0      1      1      4      1      2      2      0      0
  WEE1 WILD-TYPE     41     25     29     25     38     67     18     14     22
D140V6, multiclass
        clus
vv       WEE1 MUTATED WEE1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            4             25
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WEE1 MUTATED        1      6      2      3
  WEE1 WILD-TYPE     99     66     70    118
D140V7, multiclass
        clus
vv       WEE1 MUTATED WEE1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            6             66
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WEE1 MUTATED        1      3      5      1      2
  WEE1 WILD-TYPE     58     72     69    118     36
D140V8, multiclass
        clus
vv       WEE1 MUTATED WEE1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WEE1 MUTATED        2      4      1      2      3
  WEE1 WILD-TYPE     49     72     60     69     92
D140V9, multiclass
        clus
vv       WEE1 MUTATED WEE1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WEE1 MUTATED        2      2      0      1      2      1      0      2      2
  WEE1 WILD-TYPE     67     46     39     15     51     19     21     36     48
D140V10, multiclass
        clus
vv       WEE1 MUTATED WEE1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WEE1 MUTATED        0      0      0      0      1      0
  WEE1 WILD-TYPE     13     16     14     11     10      9
D140V11, multiclass
[1] "Remove cluster labels:" "WEE1 MUTATED"          
clus
  WEE1 MUTATED WEE1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-G4-6628 
"WEE1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WEE1 MUTATED        0      0      0      1      0      0      0      0      0
  WEE1 WILD-TYPE     11      7      7      8      8      7     11      9      5
D140V12, multiclass
[1] "Remove cluster labels:" "WEE1 MUTATED"          
clus
  WEE1 MUTATED WEE1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" "WEE1 WILD-TYPE" 
    TCGA-G4-6628 
"WEE1 WILD-TYPE" 

Clustering(141) Variable = ZFX MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFX MUTATED        4      0      0      1      0
  ZFX WILD-TYPE     28     18     46     26     23
D141V1, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           4            28
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZFX MUTATED        4      1      0
  ZFX WILD-TYPE     39     66     36
D141V2, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           4            39
  CLUS_2           1            66
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZFX MUTATED        0      3     10
  ZFX WILD-TYPE     42    170    137
D141V3, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           0            42
  CLUS_2           3           170
  CLUS_3          10           137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZFX MUTATED        1      2      5
  ZFX WILD-TYPE     61     71     70
D141V4, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           1            61
  CLUS_2           2            71
  CLUS_3           5            70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZFX MUTATED        3      5      2
  ZFX WILD-TYPE     67    115     98
D141V5, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           3            67
  CLUS_2           5           115
  CLUS_3           2            98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZFX MUTATED        2      1      1      1      1      2      1      1      0
  ZFX WILD-TYPE     39     25     29     28     38     67     19     13     22
D141V6, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           2            39
  CLUS_2           1            25
  CLUS_3           1            29
  CLUS_4           1            28
  CLUS_5           1            38
  CLUS_6           2            67
  CLUS_7           1            19
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFX MUTATED        2      4      2      5
  ZFX WILD-TYPE     98     68     70    116
D141V7, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           2            98
  CLUS_2           4            68
  CLUS_3           2            70
  CLUS_4           5           116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFX MUTATED        2      1      5      1      4
  ZFX WILD-TYPE     57     74     69    118     34
D141V8, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           2            57
  CLUS_2           1            74
  CLUS_3           5            69
  CLUS_4           1           118
  CLUS_5           4            34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFX MUTATED        3      3      1      0      6
  ZFX WILD-TYPE     48     73     60     71     89
D141V9, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           3            48
  CLUS_2           3            73
  CLUS_3           1            60
  CLUS_4           0            71
  CLUS_5           6            89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZFX MUTATED        3      1      0      2      1      1      1      4      0
  ZFX WILD-TYPE     66     47     39     14     52     19     20     34     50
D141V10, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           3            66
  CLUS_2           1            47
  CLUS_3           0            39
  CLUS_4           2            14
  CLUS_5           1            52
  CLUS_6           1            19
  CLUS_7           1            20
  CLUS_8           4            34
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZFX MUTATED        0      1      0      0      1      1
  ZFX WILD-TYPE     13     15     14     11     10      8
D141V11, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           0            13
  CLUS_2           1            15
  CLUS_3           0            14
  CLUS_4           0            11
  CLUS_5           1            10
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZFX MUTATED        2      0      0      1      0      0      0      0      0
  ZFX WILD-TYPE      9      7      7      8      8      7     11      9      5
D141V12, multiclass
        clus
vv       ZFX MUTATED ZFX WILD-TYPE
  CLUS_1           2             9
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           0            11
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(142) Variable = ASNSD1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASNSD1 MUTATED        3      0      0      1      0
  ASNSD1 WILD-TYPE     29     18     46     26     23
D142V1, multiclass
        clus
vv       ASNSD1 MUTATED ASNSD1 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ASNSD1 MUTATED        3      0      1
  ASNSD1 WILD-TYPE     40     67     35
D142V2, multiclass
        clus
vv       ASNSD1 MUTATED ASNSD1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ASNSD1 MUTATED        0      0      9
  ASNSD1 WILD-TYPE     42    173    138
D142V3, multiclass
        clus
vv       ASNSD1 MUTATED ASNSD1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ASNSD1 MUTATED        4      0      1
  ASNSD1 WILD-TYPE     58     73     74
D142V4, multiclass
        clus
vv       ASNSD1 MUTATED ASNSD1 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ASNSD1 MUTATED        1      3      3
  ASNSD1 WILD-TYPE     69    117     97
D142V5, multiclass
        clus
vv       ASNSD1 MUTATED ASNSD1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ASNSD1 MUTATED        1      1      0      0      3      2      0      0
  ASNSD1 WILD-TYPE     40     25     30     29     36     67     20     14
                  vv
clus               CLUS_9
  ASNSD1 MUTATED        0
  ASNSD1 WILD-TYPE     22
D142V6, multiclass
        clus
vv       ASNSD1 MUTATED ASNSD1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              3               36
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASNSD1 MUTATED        0      1      3      5
  ASNSD1 WILD-TYPE    100     71     69    116
D142V7, multiclass
        clus
vv       ASNSD1 MUTATED ASNSD1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASNSD1 MUTATED        1      1      2      2      3
  ASNSD1 WILD-TYPE     58     74     72    117     35
D142V8, multiclass
        clus
vv       ASNSD1 MUTATED ASNSD1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASNSD1 MUTATED        0      2      2      1      4
  ASNSD1 WILD-TYPE     51     74     59     70     91
D142V9, multiclass
        clus
vv       ASNSD1 MUTATED ASNSD1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ASNSD1 MUTATED        1      1      0      0      3      0      0      3
  ASNSD1 WILD-TYPE     68     47     39     16     50     20     21     35
                  vv
clus               CLUS_9
  ASNSD1 MUTATED        1
  ASNSD1 WILD-TYPE     49
D142V10, multiclass
        clus
vv       ASNSD1 MUTATED ASNSD1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ASNSD1 MUTATED        0      1      1      0      0      0
  ASNSD1 WILD-TYPE     13     15     13     11     11      9
D142V11, multiclass
[1] "Remove cluster labels:" "ASNSD1 MUTATED"        
clus
  ASNSD1 MUTATED ASNSD1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AZ-4323 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ASNSD1 MUTATED        1      0      0      0      1      0      0      0
  ASNSD1 WILD-TYPE     10      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  ASNSD1 MUTATED        0
  ASNSD1 WILD-TYPE      5
D142V12, multiclass
[1] "Remove cluster labels:" "ASNSD1 MUTATED"        
clus
  ASNSD1 MUTATED ASNSD1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AZ-4323 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" "ASNSD1 WILD-TYPE" 

Clustering(143) Variable = KLC4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLC4 MUTATED        3      0      1      1      0
  KLC4 WILD-TYPE     29     18     45     26     23
D143V1, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLC4 MUTATED        4      0      1
  KLC4 WILD-TYPE     39     67     35
D143V2, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLC4 MUTATED        3      4      9
  KLC4 WILD-TYPE     39    169    138
D143V3, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            4            169
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLC4 MUTATED        3      2      5
  KLC4 WILD-TYPE     59     71     70
D143V4, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLC4 MUTATED        2      5      5
  KLC4 WILD-TYPE     68    115     95
D143V5, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLC4 MUTATED        2      1      0      1      4      3      0      1      0
  KLC4 WILD-TYPE     39     25     30     28     35     66     20     13     22
D143V6, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            4             35
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLC4 MUTATED        3      5      2      5
  KLC4 WILD-TYPE     97     67     70    116
D143V7, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLC4 MUTATED        1      3      5      2      4
  KLC4 WILD-TYPE     58     72     69    117     34
D143V8, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            5             69
  CLUS_4            2            117
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLC4 MUTATED        2      4      2      3      5
  KLC4 WILD-TYPE     49     72     59     68     90
D143V9, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            3             68
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLC4 MUTATED        2      2      4      2      1      1      0      3      1
  KLC4 WILD-TYPE     67     46     35     14     52     19     21     35     49
D143V10, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            4             35
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLC4 MUTATED        0      0      1      1      1      0
  KLC4 WILD-TYPE     13     16     13     10     10      9
D143V11, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLC4 MUTATED        1      0      0      0      0      0      2      0      0
  KLC4 WILD-TYPE     10      7      7      9      8      7      9      9      5
D143V12, multiclass
        clus
vv       KLC4 MUTATED KLC4 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(144) Variable = GLI1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLI1 MUTATED        1      0      0      2      0
  GLI1 WILD-TYPE     31     18     46     25     23
D144V1, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLI1 MUTATED        2      1      0
  GLI1 WILD-TYPE     41     66     36
D144V2, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLI1 MUTATED        3      2     13
  GLI1 WILD-TYPE     39    171    134
D144V3, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            2            171
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLI1 MUTATED        6      2      7
  GLI1 WILD-TYPE     56     71     68
D144V4, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            2             71
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLI1 MUTATED        1      4     10
  GLI1 WILD-TYPE     69    116     90
D144V5, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GLI1 MUTATED        2      0      1      0      1      8      1      1      1
  GLI1 WILD-TYPE     39     26     29     29     38     61     19     13     21
D144V6, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            8             61
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GLI1 MUTATED        2      7      5      4
  GLI1 WILD-TYPE     98     65     67    117
D144V7, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            7             65
  CLUS_3            5             67
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLI1 MUTATED        1      4      9      2      2
  GLI1 WILD-TYPE     58     71     65    117     36
D144V8, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            4             71
  CLUS_3            9             65
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLI1 MUTATED        3     10      0      1      3
  GLI1 WILD-TYPE     48     66     61     70     92
D144V9, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            3             48
  CLUS_2           10             66
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GLI1 MUTATED        5      3      1      3      0      2      0      1      2
  GLI1 WILD-TYPE     64     45     38     13     53     18     21     37     48
D144V10, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            3             13
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GLI1 MUTATED        0      1      1      0      2      1
  GLI1 WILD-TYPE     13     15     13     11      9      8
D144V11, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GLI1 MUTATED        2      0      0      0      0      0      3      0      0
  GLI1 WILD-TYPE      9      7      7      9      8      7      8      9      5
D144V12, multiclass
        clus
vv       GLI1 MUTATED GLI1 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            3              8
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(145) Variable = CRY1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRY1 MUTATED        1      0      0      0      0
  CRY1 WILD-TYPE     31     18     46     27     23
D145V1, multiclass
[1] "Remove cluster labels:" "CRY1 MUTATED"          
clus
  CRY1 MUTATED CRY1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AY-4071 
"CRY1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CRY1 MUTATED        1      0      0
  CRY1 WILD-TYPE     42     67     36
D145V2, multiclass
[1] "Remove cluster labels:" "CRY1 MUTATED"          
clus
  CRY1 MUTATED CRY1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" "CRY1 WILD-TYPE" 
    TCGA-AY-4071 
"CRY1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CRY1 MUTATED        1      3      9
  CRY1 WILD-TYPE     41    170    138
D145V3, multiclass
        clus
vv       CRY1 MUTATED CRY1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CRY1 MUTATED        3      3      6
  CRY1 WILD-TYPE     59     70     69
D145V4, multiclass
        clus
vv       CRY1 MUTATED CRY1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            3             70
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CRY1 MUTATED        3      1      7
  CRY1 WILD-TYPE     67    119     93
D145V5, multiclass
        clus
vv       CRY1 MUTATED CRY1 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            1            119
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CRY1 MUTATED        2      0      0      0      2      6      1      0      0
  CRY1 WILD-TYPE     39     26     30     29     37     63     19     14     22
D145V6, multiclass
        clus
vv       CRY1 MUTATED CRY1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            6             63
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRY1 MUTATED        4      3      5      1
  CRY1 WILD-TYPE     96     69     67    120
D145V7, multiclass
        clus
vv       CRY1 MUTATED CRY1 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            3             69
  CLUS_3            5             67
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRY1 MUTATED        4      3      5      1      0
  CRY1 WILD-TYPE     55     72     69    118     38
D145V8, multiclass
        clus
vv       CRY1 MUTATED CRY1 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            3             72
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRY1 MUTATED        2      3      4      2      2
  CRY1 WILD-TYPE     49     73     57     69     93
D145V9, multiclass
        clus
vv       CRY1 MUTATED CRY1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            3             73
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CRY1 MUTATED        5      3      1      2      0      0      1      1      0
  CRY1 WILD-TYPE     64     45     38     14     53     20     20     37     50
D145V10, multiclass
        clus
vv       CRY1 MUTATED CRY1 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CRY1 MUTATED        1      1      0      0      1      1
  CRY1 WILD-TYPE     12     15     14     11     10      8
D145V11, multiclass
        clus
vv       CRY1 MUTATED CRY1 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CRY1 MUTATED        0      1      0      0      1      0      0      1      1
  CRY1 WILD-TYPE     11      6      7      9      7      7     11      8      4
D145V12, multiclass
        clus
vv       CRY1 MUTATED CRY1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(146) Variable = FGFR3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGFR3 MUTATED        0      0      0      0      1
  FGFR3 WILD-TYPE     32     18     46     27     22
D146V1, multiclass
[1] "Remove cluster labels:" "FGFR3 MUTATED"         
clus
  FGFR3 MUTATED FGFR3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AY-4071 
"FGFR3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR3 MUTATED        0      1      0
  FGFR3 WILD-TYPE     43     66     36
D146V2, multiclass
[1] "Remove cluster labels:" "FGFR3 MUTATED"         
clus
  FGFR3 MUTATED FGFR3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" "FGFR3 WILD-TYPE" 
     TCGA-AY-4071 
"FGFR3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR3 MUTATED        2      5     15
  FGFR3 WILD-TYPE     40    168    132
D146V3, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR3 MUTATED        9      2      9
  FGFR3 WILD-TYPE     53     71     66
D146V4, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             9              53
  CLUS_2             2              71
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR3 MUTATED        2      8      8
  FGFR3 WILD-TYPE     68    112     92
D146V5, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             8             112
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FGFR3 MUTATED        5      1      1      3      0      5      3      0
  FGFR3 WILD-TYPE     36     25     29     26     39     64     17     14
                 vv
clus              CLUS_9
  FGFR3 MUTATED        0
  FGFR3 WILD-TYPE     22
D146V6, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             5              36
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FGFR3 MUTATED        3      8      9      2
  FGFR3 WILD-TYPE     97     64     63    119
D146V7, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             8              64
  CLUS_3             9              63
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGFR3 MUTATED        5      5     10      1      1
  FGFR3 WILD-TYPE     54     70     64    118     37
D146V8, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             5              70
  CLUS_3            10              64
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGFR3 MUTATED        4      8      6      2      2
  FGFR3 WILD-TYPE     47     68     55     69     93
D146V9, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             8              68
  CLUS_3             6              55
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FGFR3 MUTATED        6      7      0      3      2      1      0      1
  FGFR3 WILD-TYPE     63     41     39     13     51     19     21     37
                 vv
clus              CLUS_9
  FGFR3 MUTATED        2
  FGFR3 WILD-TYPE     48
D146V10, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             7              41
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FGFR3 MUTATED        0      3      2      0      2      2
  FGFR3 WILD-TYPE     13     13     12     11      9      7
D146V11, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             3              13
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FGFR3 MUTATED        1      1      1      2      2      1      0      1
  FGFR3 WILD-TYPE     10      6      6      7      6      6     11      8
                 vv
clus              CLUS_9
  FGFR3 MUTATED        0
  FGFR3 WILD-TYPE      5
D146V12, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             2               6
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(147) Variable = PDGFRA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDGFRA MUTATED        3      1      1      3      0
  PDGFRA WILD-TYPE     29     17     45     24     23
D147V1, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1              3               29
  CLUS_2              1               17
  CLUS_3              1               45
  CLUS_4              3               24
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PDGFRA MUTATED        4      3      1
  PDGFRA WILD-TYPE     39     64     35
D147V2, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1              4               39
  CLUS_2              3               64
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PDGFRA MUTATED        3     20     26
  PDGFRA WILD-TYPE     39    153    121
D147V3, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1              3               39
  CLUS_2             20              153
  CLUS_3             26              121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PDGFRA MUTATED       11     12     17
  PDGFRA WILD-TYPE     51     61     58
D147V4, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1             11               51
  CLUS_2             12               61
  CLUS_3             17               58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PDGFRA MUTATED        6     20     15
  PDGFRA WILD-TYPE     64    100     85
D147V5, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1              6               64
  CLUS_2             20              100
  CLUS_3             15               85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PDGFRA MUTATED        6      2      3      7      3     10      3      5
  PDGFRA WILD-TYPE     35     24     27     22     36     59     17      9
                  vv
clus               CLUS_9
  PDGFRA MUTATED        2
  PDGFRA WILD-TYPE     20
D147V6, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1              6               35
  CLUS_2              2               24
  CLUS_3              3               27
  CLUS_4              7               22
  CLUS_5              3               36
  CLUS_6             10               59
  CLUS_7              3               17
  CLUS_8              5                9
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PDGFRA MUTATED       17     12     10     10
  PDGFRA WILD-TYPE     83     60     62    111
D147V7, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1             17               83
  CLUS_2             12               60
  CLUS_3             10               62
  CLUS_4             10              111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDGFRA MUTATED       11     14     14      6      4
  PDGFRA WILD-TYPE     48     61     60    113     34
D147V8, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1             11               48
  CLUS_2             14               61
  CLUS_3             14               60
  CLUS_4              6              113
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDGFRA MUTATED        8     15     10      7      8
  PDGFRA WILD-TYPE     43     61     51     64     87
D147V9, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1              8               43
  CLUS_2             15               61
  CLUS_3             10               51
  CLUS_4              7               64
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PDGFRA MUTATED       11     11      6      3      5      4      1      4
  PDGFRA WILD-TYPE     58     37     33     13     48     16     20     34
                  vv
clus               CLUS_9
  PDGFRA MUTATED        3
  PDGFRA WILD-TYPE     47
D147V10, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1             11               58
  CLUS_2             11               37
  CLUS_3              6               33
  CLUS_4              3               13
  CLUS_5              5               48
  CLUS_6              4               16
  CLUS_7              1               20
  CLUS_8              4               34
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PDGFRA MUTATED        3      1      1      3      1      2
  PDGFRA WILD-TYPE     10     15     13      8     10      7
D147V11, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1              3               10
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              3                8
  CLUS_5              1               10
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PDGFRA MUTATED        1      0      2      1      1      0      2      4
  PDGFRA WILD-TYPE     10      7      5      8      7      7      9      5
                  vv
clus               CLUS_9
  PDGFRA MUTATED        0
  PDGFRA WILD-TYPE      5
D147V12, multiclass
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              2                5
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              4                5
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(148) Variable = HLA-A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HLA-A MUTATED        2      0      0      1      0
  HLA-A WILD-TYPE     30     18     46     26     23
D148V1, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-A MUTATED        2      1      0
  HLA-A WILD-TYPE     41     66     36
D148V2, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-A MUTATED        0      1     14
  HLA-A WILD-TYPE     42    172    133
D148V3, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-A MUTATED        6      0      8
  HLA-A WILD-TYPE     56     73     67
D148V4, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             6              56
  CLUS_2             0              73
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-A MUTATED        2      4      8
  HLA-A WILD-TYPE     68    116     92
D148V5, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HLA-A MUTATED        0      1      0      2      2      6      3      0
  HLA-A WILD-TYPE     41     25     30     27     37     63     17     14
                 vv
clus              CLUS_9
  HLA-A MUTATED        0
  HLA-A WILD-TYPE     22
D148V6, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HLA-A MUTATED        1     11      3      2
  HLA-A WILD-TYPE     99     61     69    119
D148V7, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             1              99
  CLUS_2            11              61
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HLA-A MUTATED        0      3     11      1      2
  HLA-A WILD-TYPE     59     72     63    118     36
D148V8, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3            11              63
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HLA-A MUTATED        1     11      0      0      5
  HLA-A WILD-TYPE     50     65     61     71     90
D148V9, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             1              50
  CLUS_2            11              65
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HLA-A MUTATED        5      1      0      3      2      2      0      3
  HLA-A WILD-TYPE     64     47     39     13     51     18     21     35
                 vv
clus              CLUS_9
  HLA-A MUTATED        1
  HLA-A WILD-TYPE     49
D148V10, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             5              64
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HLA-A MUTATED        0      0      0      0      3      0
  HLA-A WILD-TYPE     13     16     14     11      8      9
D148V11, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HLA-A MUTATED        0      0      0      1      0      1      1      0
  HLA-A WILD-TYPE     11      7      7      8      8      6     10      9
                 vv
clus              CLUS_9
  HLA-A MUTATED        0
  HLA-A WILD-TYPE      5
D148V12, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(149) Variable = SCAI MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCAI MUTATED        2      0      0      0      0
  SCAI WILD-TYPE     30     18     46     27     23
D149V1, multiclass
[1] "Remove cluster labels:" "SCAI MUTATED"          
clus
  SCAI MUTATED SCAI WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCAI MUTATED        1      0      1
  SCAI WILD-TYPE     42     67     35
D149V2, multiclass
[1] "Remove cluster labels:" "SCAI MUTATED"          
clus
  SCAI MUTATED SCAI WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCAI MUTATED        0      3     11
  SCAI WILD-TYPE     42    170    136
D149V3, multiclass
        clus
vv       SCAI MUTATED SCAI WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCAI MUTATED        4      1      6
  SCAI WILD-TYPE     58     72     69
D149V4, multiclass
        clus
vv       SCAI MUTATED SCAI WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCAI MUTATED        0      1      5
  SCAI WILD-TYPE     70    119     95
D149V5, multiclass
        clus
vv       SCAI MUTATED SCAI WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SCAI MUTATED        1      0      1      0      0      4      0      0      0
  SCAI WILD-TYPE     40     26     29     29     39     65     20     14     22
D149V6, multiclass
        clus
vv       SCAI MUTATED SCAI WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SCAI MUTATED        4      3      4      3
  SCAI WILD-TYPE     96     69     68    118
D149V7, multiclass
        clus
vv       SCAI MUTATED SCAI WILD-TYPE
  CLUS_1            4             96
  CLUS_2            3             69
  CLUS_3            4             68
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCAI MUTATED        2      4      5      1      2
  SCAI WILD-TYPE     57     71     69    118     36
D149V8, multiclass
        clus
vv       SCAI MUTATED SCAI WILD-TYPE
  CLUS_1            2             57
  CLUS_2            4             71
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCAI MUTATED        0      6      4      2      2
  SCAI WILD-TYPE     51     70     57     69     93
D149V9, multiclass
        clus
vv       SCAI MUTATED SCAI WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SCAI MUTATED        2      4      0      2      3      1      0      2      0
  SCAI WILD-TYPE     67     44     39     14     50     19     21     36     50
D149V10, multiclass
        clus
vv       SCAI MUTATED SCAI WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SCAI MUTATED        0      1      0      0      0      1
  SCAI WILD-TYPE     13     15     14     11     11      8
D149V11, multiclass
[1] "Remove cluster labels:" "SCAI MUTATED"          
clus
  SCAI MUTATED SCAI WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6598 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SCAI MUTATED        1      0      0      0      0      1      0      0      0
  SCAI WILD-TYPE     10      7      7      9      8      6     11      9      5
D149V12, multiclass
[1] "Remove cluster labels:" "SCAI MUTATED"          
clus
  SCAI MUTATED SCAI WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6598 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" "SCAI WILD-TYPE" 

Clustering(150) Variable = MEN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MEN1 MUTATED        1      0      0      0      0
  MEN1 WILD-TYPE     31     18     46     27     23
D150V1, multiclass
[1] "Remove cluster labels:" "MEN1 MUTATED"          
clus
  MEN1 MUTATED MEN1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2677     TCGA-A6-2678 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AY-4071 
"MEN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEN1 MUTATED        1      0      0
  MEN1 WILD-TYPE     42     67     36
D150V2, multiclass
[1] "Remove cluster labels:" "MEN1 MUTATED"          
clus
  MEN1 MUTATED MEN1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2677     TCGA-A6-2678 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-AY-4071 
"MEN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEN1 MUTATED        1     11     12
  MEN1 WILD-TYPE     41    162    135
D150V3, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2           11            162
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEN1 MUTATED        5      6     12
  MEN1 WILD-TYPE     57     67     63
D150V4, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            6             67
  CLUS_3           12             63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEN1 MUTATED        1      8      9
  MEN1 WILD-TYPE     69    112     91
D150V5, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            8            112
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MEN1 MUTATED        2      1      1      2      1      8      1      2      0
  MEN1 WILD-TYPE     39     25     29     27     38     61     19     12     22
D150V6, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            8             61
  CLUS_7            1             19
  CLUS_8            2             12
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MEN1 MUTATED        8     12      3      1
  MEN1 WILD-TYPE     92     60     69    120
D150V7, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            8             92
  CLUS_2           12             60
  CLUS_3            3             69
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MEN1 MUTATED        3      9     11      0      1
  MEN1 WILD-TYPE     56     66     63    119     37
D150V8, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            9             66
  CLUS_3           11             63
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MEN1 MUTATED        5     13      3      1      2
  MEN1 WILD-TYPE     46     63     58     70     93
D150V9, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            5             46
  CLUS_2           13             63
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MEN1 MUTATED        7      3      2      4      2      4      0      2      0
  MEN1 WILD-TYPE     62     45     37     12     51     16     21     36     50
D150V10, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            7             62
  CLUS_2            3             45
  CLUS_3            2             37
  CLUS_4            4             12
  CLUS_5            2             51
  CLUS_6            4             16
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MEN1 MUTATED        3      0      0      2      2      0
  MEN1 WILD-TYPE     10     16     14      9      9      9
D150V11, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            3             10
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            2              9
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MEN1 MUTATED        0      0      1      2      0      0      2      1      1
  MEN1 WILD-TYPE     11      7      6      7      8      7      9      8      4
D150V12, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(151) Variable = FAM179A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM179A MUTATED        4      0      0      0      0
  FAM179A WILD-TYPE     28     18     46     27     23
D151V1, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM179A MUTATED        4      0      0
  FAM179A WILD-TYPE     39     67     36
D151V2, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               4                39
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM179A MUTATED        4      3     20
  FAM179A WILD-TYPE     38    170    127
D151V3, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               4                38
  CLUS_2               3               170
  CLUS_3              20               127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM179A MUTATED        9      2     12
  FAM179A WILD-TYPE     53     71     63
D151V4, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               9                53
  CLUS_2               2                71
  CLUS_3              12                63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM179A MUTATED        2     11     11
  FAM179A WILD-TYPE     68    109     89
D151V5, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               2                68
  CLUS_2              11               109
  CLUS_3              11                89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM179A MUTATED        3      3      1      3      1      8      3      1
  FAM179A WILD-TYPE     38     23     29     26     38     61     17     13
                   vv
clus                CLUS_9
  FAM179A MUTATED        1
  FAM179A WILD-TYPE     21
D151V6, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               3                38
  CLUS_2               3                23
  CLUS_3               1                29
  CLUS_4               3                26
  CLUS_5               1                38
  CLUS_6               8                61
  CLUS_7               3                17
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM179A MUTATED        3     10      8      6
  FAM179A WILD-TYPE     97     62     64    115
D151V7, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               3                97
  CLUS_2              10                62
  CLUS_3               8                64
  CLUS_4               6               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM179A MUTATED        2      5     14      1      5
  FAM179A WILD-TYPE     57     70     60    118     33
D151V8, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               2                57
  CLUS_2               5                70
  CLUS_3              14                60
  CLUS_4               1               118
  CLUS_5               5                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM179A MUTATED        3     14      3      0      7
  FAM179A WILD-TYPE     48     62     58     71     88
D151V9, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               3                48
  CLUS_2              14                62
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               7                88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM179A MUTATED        3      4      1      7      3      2      1      4
  FAM179A WILD-TYPE     66     44     38      9     50     18     20     34
                   vv
clus                CLUS_9
  FAM179A MUTATED        2
  FAM179A WILD-TYPE     48
D151V10, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               3                66
  CLUS_2               4                44
  CLUS_3               1                38
  CLUS_4               7                 9
  CLUS_5               3                50
  CLUS_6               2                18
  CLUS_7               1                20
  CLUS_8               4                34
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM179A MUTATED        3      3      0      0      5      0
  FAM179A WILD-TYPE     10     13     14     11      6      9
D151V11, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               3                10
  CLUS_2               3                13
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               5                 6
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM179A MUTATED        0      1      0      4      1      2      2      0
  FAM179A WILD-TYPE     11      6      7      5      7      5      9      9
                   vv
clus                CLUS_9
  FAM179A MUTATED        1
  FAM179A WILD-TYPE      4
D151V12, multiclass
        clus
vv       FAM179A MUTATED FAM179A WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               4                 5
  CLUS_5               1                 7
  CLUS_6               2                 5
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(152) Variable = MLL2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL2 MUTATED        5      1      0      3      0
  MLL2 WILD-TYPE     27     17     46     24     23
D152V1, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL2 MUTATED        7      2      0
  MLL2 WILD-TYPE     36     65     36
D152V2, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            7             36
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL2 MUTATED        4     13     34
  MLL2 WILD-TYPE     38    160    113
D152V3, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            4             38
  CLUS_2           13            160
  CLUS_3           34            113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL2 MUTATED       15      8     19
  MLL2 WILD-TYPE     47     65     56
D152V4, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           15             47
  CLUS_2            8             65
  CLUS_3           19             56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL2 MUTATED        6     17     26
  MLL2 WILD-TYPE     64    103     74
D152V5, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            6             64
  CLUS_2           17            103
  CLUS_3           26             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL2 MUTATED        7      1      3      7      4     22      3      0      2
  MLL2 WILD-TYPE     34     25     27     22     35     47     17     14     20
D152V6, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            7             34
  CLUS_2            1             25
  CLUS_3            3             27
  CLUS_4            7             22
  CLUS_5            4             35
  CLUS_6           22             47
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLL2 MUTATED       10     18     13     11
  MLL2 WILD-TYPE     90     54     59    110
D152V7, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           10             90
  CLUS_2           18             54
  CLUS_3           13             59
  CLUS_4           11            110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL2 MUTATED        4     12     24      4      8
  MLL2 WILD-TYPE     55     63     50    115     30
D152V8, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            4             55
  CLUS_2           12             63
  CLUS_3           24             50
  CLUS_4            4            115
  CLUS_5            8             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL2 MUTATED        3     27     11      2      8
  MLL2 WILD-TYPE     48     49     50     69     87
D152V9, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            3             48
  CLUS_2           27             49
  CLUS_3           11             50
  CLUS_4            2             69
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL2 MUTATED       12      9      4      9      6      1      3      4      3
  MLL2 WILD-TYPE     57     39     35      7     47     19     18     34     47
D152V10, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           12             57
  CLUS_2            9             39
  CLUS_3            4             35
  CLUS_4            9              7
  CLUS_5            6             47
  CLUS_6            1             19
  CLUS_7            3             18
  CLUS_8            4             34
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MLL2 MUTATED        1      3      2      1      7      1
  MLL2 WILD-TYPE     12     13     12     10      4      8
D152V11, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            3             13
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            7              4
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL2 MUTATED        1      1      0      2      2      2      6      1      0
  MLL2 WILD-TYPE     10      6      7      7      6      5      5      8      5
D152V12, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            2              6
  CLUS_6            2              5
  CLUS_7            6              5
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(153) Variable = FGFR2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGFR2 MUTATED        1      0      0      0      0
  FGFR2 WILD-TYPE     31     18     46     27     23
D153V1, multiclass
[1] "Remove cluster labels:" "FGFR2 MUTATED"         
clus
  FGFR2 MUTATED FGFR2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AY-4071 
"FGFR2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR2 MUTATED        1      0      0
  FGFR2 WILD-TYPE     42     67     36
D153V2, multiclass
[1] "Remove cluster labels:" "FGFR2 MUTATED"         
clus
  FGFR2 MUTATED FGFR2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" "FGFR2 WILD-TYPE" 
     TCGA-AY-4071 
"FGFR2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR2 MUTATED        5     17     23
  FGFR2 WILD-TYPE     37    156    124
D153V3, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             5              37
  CLUS_2            17             156
  CLUS_3            23             124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR2 MUTATED       17     12     15
  FGFR2 WILD-TYPE     45     61     60
D153V4, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1            17              45
  CLUS_2            12              61
  CLUS_3            15              60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR2 MUTATED        7     13     20
  FGFR2 WILD-TYPE     63    107     80
D153V5, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             7              63
  CLUS_2            13             107
  CLUS_3            20              80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FGFR2 MUTATED        5      3      1      2      4     16      3      3
  FGFR2 WILD-TYPE     36     23     29     27     35     53     17     11
                 vv
clus              CLUS_9
  FGFR2 MUTATED        3
  FGFR2 WILD-TYPE     19
D153V6, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             5              36
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             4              35
  CLUS_6            16              53
  CLUS_7             3              17
  CLUS_8             3              11
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FGFR2 MUTATED       11     17     14      3
  FGFR2 WILD-TYPE     89     55     58    118
D153V7, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1            11              89
  CLUS_2            17              55
  CLUS_3            14              58
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGFR2 MUTATED       11     12     19      2      1
  FGFR2 WILD-TYPE     48     63     55    117     37
D153V8, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1            11              48
  CLUS_2            12              63
  CLUS_3            19              55
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGFR2 MUTATED        9     21      9      4      2
  FGFR2 WILD-TYPE     42     55     52     67     93
D153V9, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             9              42
  CLUS_2            21              55
  CLUS_3             9              52
  CLUS_4             4              67
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FGFR2 MUTATED       16      5      3      8      8      3      0      1
  FGFR2 WILD-TYPE     53     43     36      8     45     17     21     37
                 vv
clus              CLUS_9
  FGFR2 MUTATED        1
  FGFR2 WILD-TYPE     49
D153V10, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1            16              53
  CLUS_2             5              43
  CLUS_3             3              36
  CLUS_4             8               8
  CLUS_5             8              45
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FGFR2 MUTATED        1      3      3      1      4      2
  FGFR2 WILD-TYPE     12     13     11     10      7      7
D153V11, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             3              13
  CLUS_3             3              11
  CLUS_4             1              10
  CLUS_5             4               7
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FGFR2 MUTATED        4      0      0      3      3      1      2      1
  FGFR2 WILD-TYPE      7      7      7      6      5      6      9      8
                 vv
clus              CLUS_9
  FGFR2 MUTATED        0
  FGFR2 WILD-TYPE      5
D153V12, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             4               7
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             3               5
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(154) Variable = SLC4A10 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC4A10 MUTATED        1      0      0      1      0
  SLC4A10 WILD-TYPE     31     18     46     26     23
D154V1, multiclass
[1] "Remove cluster labels:" "SLC4A10 MUTATED"       
clus
  SLC4A10 MUTATED SLC4A10 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC4A10 MUTATED        1      1      0
  SLC4A10 WILD-TYPE     42     66     36
D154V2, multiclass
[1] "Remove cluster labels:" "SLC4A10 MUTATED"       
clus
  SLC4A10 MUTATED SLC4A10 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" "SLC4A10 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC4A10 MUTATED        2     11     14
  SLC4A10 WILD-TYPE     40    162    133
D154V3, multiclass
        clus
vv       SLC4A10 MUTATED SLC4A10 WILD-TYPE
  CLUS_1               2                40
  CLUS_2              11               162
  CLUS_3              14               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC4A10 MUTATED        6      7     11
  SLC4A10 WILD-TYPE     56     66     64
D154V4, multiclass
        clus
vv       SLC4A10 MUTATED SLC4A10 WILD-TYPE
  CLUS_1               6                56
  CLUS_2               7                66
  CLUS_3              11                64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC4A10 MUTATED        5     10      8
  SLC4A10 WILD-TYPE     65    110     92
D154V5, multiclass
        clus
vv       SLC4A10 MUTATED SLC4A10 WILD-TYPE
  CLUS_1               5                65
  CLUS_2              10               110
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC4A10 MUTATED        4      2      2      2      2      3      4      2
  SLC4A10 WILD-TYPE     37     24     28     27     37     66     16     12
                   vv
clus                CLUS_9
  SLC4A10 MUTATED        2
  SLC4A10 WILD-TYPE     20
D154V6, multiclass
        clus
vv       SLC4A10 MUTATED SLC4A10 WILD-TYPE
  CLUS_1               4                37
  CLUS_2               2                24
  CLUS_3               2                28
  CLUS_4               2                27
  CLUS_5               2                37
  CLUS_6               3                66
  CLUS_7               4                16
  CLUS_8               2                12
  CLUS_9               2                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC4A10 MUTATED        4      9      9      4
  SLC4A10 WILD-TYPE     96     63     63    117
D154V7, multiclass
        clus
vv       SLC4A10 MUTATED SLC4A10 WILD-TYPE
  CLUS_1               4                96
  CLUS_2               9                63
  CLUS_3               9                63
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC4A10 MUTATED        7      7      8      2      2
  SLC4A10 WILD-TYPE     52     68     66    117     36
D154V8, multiclass
        clus
vv       SLC4A10 MUTATED SLC4A10 WILD-TYPE
  CLUS_1               7                52
  CLUS_2               7                68
  CLUS_3               8                66
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC4A10 MUTATED        9      6      5      2      5
  SLC4A10 WILD-TYPE     42     70     56     69     90
D154V9, multiclass
        clus
vv       SLC4A10 MUTATED SLC4A10 WILD-TYPE
  CLUS_1               9                42
  CLUS_2               6                70
  CLUS_3               5                56
  CLUS_4               2                69
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC4A10 MUTATED        8      5      3      1      2      4      0      2
  SLC4A10 WILD-TYPE     61     43     36     15     51     16     21     36
                   vv
clus                CLUS_9
  SLC4A10 MUTATED        2
  SLC4A10 WILD-TYPE     48
D154V10, multiclass
        clus
vv       SLC4A10 MUTATED SLC4A10 WILD-TYPE
  CLUS_1               8                61
  CLUS_2               5                43
  CLUS_3               3                36
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               4                16
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC4A10 MUTATED        0      0      1      3      1      3
  SLC4A10 WILD-TYPE     13     16     13      8     10      6
D154V11, multiclass
        clus
vv       SLC4A10 MUTATED SLC4A10 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               3                 8
  CLUS_5               1                10
  CLUS_6               3                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC4A10 MUTATED        2      0      1      0      2      1      1      1
  SLC4A10 WILD-TYPE      9      7      6      9      6      6     10      8
                   vv
clus                CLUS_9
  SLC4A10 MUTATED        0
  SLC4A10 WILD-TYPE      5
D154V12, multiclass
        clus
vv       SLC4A10 MUTATED SLC4A10 WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               0                 9
  CLUS_5               2                 6
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(155) Variable = RAF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAF1 MUTATED        1      0      0      1      1
  RAF1 WILD-TYPE     31     18     46     26     22
D155V1, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAF1 MUTATED        2      0      1
  RAF1 WILD-TYPE     41     67     35
D155V2, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAF1 MUTATED        0      2     11
  RAF1 WILD-TYPE     42    171    136
D155V3, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAF1 MUTATED        5      1      3
  RAF1 WILD-TYPE     57     72     72
D155V4, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAF1 MUTATED        1      4      6
  RAF1 WILD-TYPE     69    116     94
D155V5, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RAF1 MUTATED        1      3      0      0      0      4      1      1      1
  RAF1 WILD-TYPE     40     23     30     29     39     65     19     13     21
D155V6, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            3             23
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAF1 MUTATED        2      4      2      5
  RAF1 WILD-TYPE     98     68     70    116
D155V7, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            2             70
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAF1 MUTATED        1      3      3      4      2
  RAF1 WILD-TYPE     58     72     71    115     36
D155V8, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            3             71
  CLUS_4            4            115
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAF1 MUTATED        1      3      1      1      6
  RAF1 WILD-TYPE     50     73     60     70     89
D155V9, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RAF1 MUTATED        2      2      0      0      3      1      0      2      2
  RAF1 WILD-TYPE     67     46     39     16     50     19     21     36     48
D155V10, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAF1 MUTATED        1      0      0      0      0      0
  RAF1 WILD-TYPE     12     16     14     11     11      9
D155V11, multiclass
[1] "Remove cluster labels:" "RAF1 MUTATED"          
clus
  RAF1 MUTATED RAF1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-G4-6628 
"RAF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RAF1 MUTATED        0      0      0      1      0      0      0      0      0
  RAF1 WILD-TYPE     11      7      7      8      8      7     11      9      5
D155V12, multiclass
[1] "Remove cluster labels:" "RAF1 MUTATED"          
clus
  RAF1 MUTATED RAF1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-G4-6628 
"RAF1 WILD-TYPE" 

Clustering(156) Variable = KIAA1012 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1012 MUTATED        4      0      1      1      0
  KIAA1012 WILD-TYPE     28     18     45     26     23
D156V1, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                1                 45
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1012 MUTATED        4      2      0
  KIAA1012 WILD-TYPE     39     65     36
D156V2, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                2                 65
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1012 MUTATED        3      7     12
  KIAA1012 WILD-TYPE     39    166    135
D156V3, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                7                166
  CLUS_3               12                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1012 MUTATED        7      4      6
  KIAA1012 WILD-TYPE     55     69     69
D156V4, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                7                 55
  CLUS_2                4                 69
  CLUS_3                6                 69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1012 MUTATED        2      6     11
  KIAA1012 WILD-TYPE     68    114     89
D156V5, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                6                114
  CLUS_3               11                 89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1012 MUTATED        2      1      2      1      3      7      3      0
  KIAA1012 WILD-TYPE     39     25     28     28     36     62     17     14
                    vv
clus                 CLUS_9
  KIAA1012 MUTATED        0
  KIAA1012 WILD-TYPE     22
D156V6, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                2                 28
  CLUS_4                1                 28
  CLUS_5                3                 36
  CLUS_6                7                 62
  CLUS_7                3                 17
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1012 MUTATED        5      6      6      6
  KIAA1012 WILD-TYPE     95     66     66    115
D156V7, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                5                 95
  CLUS_2                6                 66
  CLUS_3                6                 66
  CLUS_4                6                115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1012 MUTATED        4      5      8      3      3
  KIAA1012 WILD-TYPE     55     70     66    116     35
D156V8, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                4                 55
  CLUS_2                5                 70
  CLUS_3                8                 66
  CLUS_4                3                116
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1012 MUTATED        3      9      2      3      6
  KIAA1012 WILD-TYPE     48     67     59     68     89
D156V9, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                3                 48
  CLUS_2                9                 67
  CLUS_3                2                 59
  CLUS_4                3                 68
  CLUS_5                6                 89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1012 MUTATED        5      6      2      3      1      1      1      2
  KIAA1012 WILD-TYPE     64     42     37     13     52     19     20     36
                    vv
clus                 CLUS_9
  KIAA1012 MUTATED        2
  KIAA1012 WILD-TYPE     48
D156V10, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                5                 64
  CLUS_2                6                 42
  CLUS_3                2                 37
  CLUS_4                3                 13
  CLUS_5                1                 52
  CLUS_6                1                 19
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA1012 MUTATED        0      1      0      1      1      1
  KIAA1012 WILD-TYPE     13     15     14     10     10      8
D156V11, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                0                 14
  CLUS_4                1                 10
  CLUS_5                1                 10
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1012 MUTATED        2      0      0      0      0      1      1      0
  KIAA1012 WILD-TYPE      9      7      7      9      8      6     10      9
                    vv
clus                 CLUS_9
  KIAA1012 MUTATED        0
  KIAA1012 WILD-TYPE      5
D156V12, multiclass
        clus
vv       KIAA1012 MUTATED KIAA1012 WILD-TYPE
  CLUS_1                2                  9
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(157) Variable = FAM9A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM9A MUTATED        2      0      0      0      0
  FAM9A WILD-TYPE     30     18     46     27     23
D157V1, multiclass
[1] "Remove cluster labels:" "FAM9A MUTATED"         
clus
  FAM9A MUTATED FAM9A WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAM9A MUTATED        1      0      1
  FAM9A WILD-TYPE     42     67     35
D157V2, multiclass
[1] "Remove cluster labels:" "FAM9A MUTATED"         
clus
  FAM9A MUTATED FAM9A WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAM9A MUTATED        1      1      8
  FAM9A WILD-TYPE     41    172    139
D157V3, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAM9A MUTATED        3      1      5
  FAM9A WILD-TYPE     59     72     70
D157V4, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAM9A MUTATED        1      2      5
  FAM9A WILD-TYPE     69    118     95
D157V5, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM9A MUTATED        0      0      1      1      0      4      2      0
  FAM9A WILD-TYPE     41     26     29     28     39     65     18     14
                 vv
clus              CLUS_9
  FAM9A MUTATED        0
  FAM9A WILD-TYPE     22
D157V6, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM9A MUTATED        1      4      4      2
  FAM9A WILD-TYPE     99     68     68    119
D157V7, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM9A MUTATED        1      1      7      1      1
  FAM9A WILD-TYPE     58     74     67    118     37
D157V8, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             7              67
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM9A MUTATED        0      7      2      1      1
  FAM9A WILD-TYPE     51     69     59     70     94
D157V9, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM9A MUTATED        1      2      0      4      3      0      0      1
  FAM9A WILD-TYPE     68     46     39     12     50     20     21     37
                 vv
clus              CLUS_9
  FAM9A MUTATED        0
  FAM9A WILD-TYPE     50
D157V10, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM9A MUTATED        1      0      1      0      4      0
  FAM9A WILD-TYPE     12     16     13     11      7      9
D157V11, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM9A MUTATED        0      0      1      1      2      1      1      0
  FAM9A WILD-TYPE     11      7      6      8      6      6     10      9
                 vv
clus              CLUS_9
  FAM9A MUTATED        0
  FAM9A WILD-TYPE      5
D157V12, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             2               6
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(158) Variable = F8 MUTATION ANALYSIS
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F8 MUTATED        6      1      0      2      0
  F8 WILD-TYPE     26     17     46     25     23
D158V1, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1          6           26
  CLUS_2          1           17
  CLUS_3          0           46
  CLUS_4          2           25
  CLUS_5          0           23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  F8 MUTATED        6      2      1
  F8 WILD-TYPE     37     65     35
D158V2, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1          6           37
  CLUS_2          2           65
  CLUS_3          1           35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  F8 MUTATED        2      7     26
  F8 WILD-TYPE     40    166    121
D158V3, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1          2           40
  CLUS_2          7          166
  CLUS_3         26          121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  F8 MUTATED       11      5     10
  F8 WILD-TYPE     51     68     65
D158V4, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1         11           51
  CLUS_2          5           68
  CLUS_3         10           65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  F8 MUTATED        4     12     14
  F8 WILD-TYPE     66    108     86
D158V5, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1          4           66
  CLUS_2         12          108
  CLUS_3         14           86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  F8 MUTATED        5      3      1      3      4     10      1      2      1
  F8 WILD-TYPE     36     23     29     26     35     59     19     12     21
D158V6, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1          5           36
  CLUS_2          3           23
  CLUS_3          1           29
  CLUS_4          3           26
  CLUS_5          4           35
  CLUS_6         10           59
  CLUS_7          1           19
  CLUS_8          2           12
  CLUS_9          1           21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4
  F8 MUTATED        5     13      7     10
  F8 WILD-TYPE     95     59     65    111
D158V7, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1          5           95
  CLUS_2         13           59
  CLUS_3          7           65
  CLUS_4         10          111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F8 MUTATED        4      4     17      4      6
  F8 WILD-TYPE     55     71     57    115     32
D158V8, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1          4           55
  CLUS_2          4           71
  CLUS_3         17           57
  CLUS_4          4          115
  CLUS_5          6           32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F8 MUTATED        4     13      5      3      9
  F8 WILD-TYPE     47     63     56     68     86
D158V9, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1          4           47
  CLUS_2         13           63
  CLUS_3          5           56
  CLUS_4          3           68
  CLUS_5          9           86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  F8 MUTATED        5      5      2      6      5      3      0      6      2
  F8 WILD-TYPE     64     43     37     10     48     17     21     32     48
D158V10, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1          5           64
  CLUS_2          5           43
  CLUS_3          2           37
  CLUS_4          6           10
  CLUS_5          5           48
  CLUS_6          3           17
  CLUS_7          0           21
  CLUS_8          6           32
  CLUS_9          2           48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  F8 MUTATED        0      0      1      1      5      0
  F8 WILD-TYPE     13     16     13     10      6      9
D158V11, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1          0           13
  CLUS_2          0           16
  CLUS_3          1           13
  CLUS_4          1           10
  CLUS_5          5            6
  CLUS_6          0            9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  F8 MUTATED        0      0      0      3      1      2      1      0      0
  F8 WILD-TYPE     11      7      7      6      7      5     10      9      5
D158V12, multiclass
        clus
vv       F8 MUTATED F8 WILD-TYPE
  CLUS_1          0           11
  CLUS_2          0            7
  CLUS_3          0            7
  CLUS_4          3            6
  CLUS_5          1            7
  CLUS_6          2            5
  CLUS_7          1           10
  CLUS_8          0            9
  CLUS_9          0            5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(159) Variable = TUBE1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUBE1 MUTATED        1      0      1      1      0
  TUBE1 WILD-TYPE     31     18     45     26     23
D159V1, multiclass
        clus
vv       TUBE1 MUTATED TUBE1 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBE1 MUTATED        1      2      0
  TUBE1 WILD-TYPE     42     65     36
D159V2, multiclass
        clus
vv       TUBE1 MUTATED TUBE1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBE1 MUTATED        0      1     10
  TUBE1 WILD-TYPE     42    172    137
D159V3, multiclass
        clus
vv       TUBE1 MUTATED TUBE1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBE1 MUTATED        2      1      6
  TUBE1 WILD-TYPE     60     72     69
D159V4, multiclass
        clus
vv       TUBE1 MUTATED TUBE1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBE1 MUTATED        1      2      5
  TUBE1 WILD-TYPE     69    118     95
D159V5, multiclass
        clus
vv       TUBE1 MUTATED TUBE1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TUBE1 MUTATED        2      1      1      0      0      2      2      0
  TUBE1 WILD-TYPE     39     25     29     29     39     67     18     14
                 vv
clus              CLUS_9
  TUBE1 MUTATED        0
  TUBE1 WILD-TYPE     22
D159V6, multiclass
        clus
vv       TUBE1 MUTATED TUBE1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TUBE1 MUTATED        2      5      2      2
  TUBE1 WILD-TYPE     98     67     70    119
D159V7, multiclass
        clus
vv       TUBE1 MUTATED TUBE1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUBE1 MUTATED        1      1      6      2      1
  TUBE1 WILD-TYPE     58     74     68    117     37
D159V8, multiclass
        clus
vv       TUBE1 MUTATED TUBE1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUBE1 MUTATED        1      6      1      0      3
  TUBE1 WILD-TYPE     50     70     60     71     92
D159V9, multiclass
        clus
vv       TUBE1 MUTATED TUBE1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TUBE1 MUTATED        1      2      2      4      0      1      0      1
  TUBE1 WILD-TYPE     68     46     37     12     53     19     21     37
                 vv
clus              CLUS_9
  TUBE1 MUTATED        0
  TUBE1 WILD-TYPE     50
D159V10, multiclass
        clus
vv       TUBE1 MUTATED TUBE1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             4              12
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TUBE1 MUTATED        0      0      0      0      0      0
  TUBE1 WILD-TYPE     13     16     14     11     11      9
D159V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TUBE1 MUTATED        0      0      0      0      0      0      0      0
  TUBE1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  TUBE1 MUTATED        0
  TUBE1 WILD-TYPE      5
D159V12, multiclass

Clustering(160) Variable = OXSM MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OXSM MUTATED        3      0      0      1      0
  OXSM WILD-TYPE     29     18     46     26     23
D160V1, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OXSM MUTATED        4      0      0
  OXSM WILD-TYPE     39     67     36
D160V2, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OXSM MUTATED        1      2      7
  OXSM WILD-TYPE     41    171    140
D160V3, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OXSM MUTATED        1      1      4
  OXSM WILD-TYPE     61     72     71
D160V4, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OXSM MUTATED        1      4      4
  OXSM WILD-TYPE     69    116     96
D160V5, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OXSM MUTATED        1      1      2      0      1      2      1      0      1
  OXSM WILD-TYPE     40     25     28     29     38     67     19     14     21
D160V6, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OXSM MUTATED        1      3      2      4
  OXSM WILD-TYPE     99     69     70    117
D160V7, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OXSM MUTATED        1      1      3      1      4
  OXSM WILD-TYPE     58     74     71    118     34
D160V8, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OXSM MUTATED        1      2      0      1      4
  OXSM WILD-TYPE     50     74     61     70     91
D160V9, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OXSM MUTATED        2      1      0      0      0      1      0      4      0
  OXSM WILD-TYPE     67     47     39     16     53     19     21     34     50
D160V10, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            4             34
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OXSM MUTATED        1      1      0      0      0      0
  OXSM WILD-TYPE     12     15     14     11     11      9
D160V11, multiclass
[1] "Remove cluster labels:" "OXSM MUTATED"          
clus
  OXSM MUTATED OXSM WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OXSM MUTATED        0      0      0      0      0      0      1      1      0
  OXSM WILD-TYPE     11      7      7      9      8      7     10      8      5
D160V12, multiclass
[1] "Remove cluster labels:" "OXSM MUTATED"          
clus
  OXSM MUTATED OXSM WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 

Clustering(161) Variable = FHOD3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FHOD3 MUTATED        7      0      0      2      0
  FHOD3 WILD-TYPE     25     18     46     25     23
D161V1, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             7              25
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FHOD3 MUTATED        7      1      1
  FHOD3 WILD-TYPE     36     66     35
D161V2, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FHOD3 MUTATED        2      2     23
  FHOD3 WILD-TYPE     40    171    124
D161V3, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3            23             124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FHOD3 MUTATED        9      2      7
  FHOD3 WILD-TYPE     53     71     68
D161V4, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             9              53
  CLUS_2             2              71
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FHOD3 MUTATED        3      7     14
  FHOD3 WILD-TYPE     67    113     86
D161V5, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             7             113
  CLUS_3            14              86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FHOD3 MUTATED        2      0      1      3      2      9      6      1
  FHOD3 WILD-TYPE     39     26     29     26     37     60     14     13
                 vv
clus              CLUS_9
  FHOD3 MUTATED        0
  FHOD3 WILD-TYPE     22
D161V6, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             2              37
  CLUS_6             9              60
  CLUS_7             6              14
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FHOD3 MUTATED        2      9      8      8
  FHOD3 WILD-TYPE     98     63     64    113
D161V7, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             9              63
  CLUS_3             8              64
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FHOD3 MUTATED        2      2     14      4      5
  FHOD3 WILD-TYPE     57     73     60    115     33
D161V8, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3            14              60
  CLUS_4             4             115
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FHOD3 MUTATED        1     13      1      3      6
  FHOD3 WILD-TYPE     50     63     60     68     89
D161V9, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2            13              63
  CLUS_3             1              60
  CLUS_4             3              68
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FHOD3 MUTATED        3      5      1      6      2      2      0      5
  FHOD3 WILD-TYPE     66     43     38     10     51     18     21     33
                 vv
clus              CLUS_9
  FHOD3 MUTATED        0
  FHOD3 WILD-TYPE     50
D161V10, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             6              10
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             5              33
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FHOD3 MUTATED        0      0      1      1      5      0
  FHOD3 WILD-TYPE     13     16     13     10      6      9
D161V11, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             5               6
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FHOD3 MUTATED        0      0      0      2      1      1      3      0
  FHOD3 WILD-TYPE     11      7      7      7      7      6      8      9
                 vv
clus              CLUS_9
  FHOD3 MUTATED        0
  FHOD3 WILD-TYPE      5
D161V12, multiclass
        clus
vv       FHOD3 MUTATED FHOD3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(162) Variable = MMP8 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMP8 MUTATED        0      0      0      1      0
  MMP8 WILD-TYPE     32     18     46     26     23
D162V1, multiclass
[1] "Remove cluster labels:" "MMP8 MUTATED"          
clus
  MMP8 MUTATED MMP8 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AY-4071 
"MMP8 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMP8 MUTATED        0      1      0
  MMP8 WILD-TYPE     43     66     36
D162V2, multiclass
[1] "Remove cluster labels:" "MMP8 MUTATED"          
clus
  MMP8 MUTATED MMP8 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" "MMP8 WILD-TYPE" 
    TCGA-AY-4071 
"MMP8 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMP8 MUTATED        2      2      8
  MMP8 WILD-TYPE     40    171    139
D162V3, multiclass
        clus
vv       MMP8 MUTATED MMP8 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2            171
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMP8 MUTATED        4      1      6
  MMP8 WILD-TYPE     58     72     69
D162V4, multiclass
        clus
vv       MMP8 MUTATED MMP8 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMP8 MUTATED        1      7      2
  MMP8 WILD-TYPE     69    113     98
D162V5, multiclass
        clus
vv       MMP8 MUTATED MMP8 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            7            113
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MMP8 MUTATED        0      3      1      3      0      2      1      0      0
  MMP8 WILD-TYPE     41     23     29     26     39     67     19     14     22
D162V6, multiclass
        clus
vv       MMP8 MUTATED MMP8 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            3             23
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MMP8 MUTATED        2      5      3      2
  MMP8 WILD-TYPE     98     67     69    119
D162V7, multiclass
        clus
vv       MMP8 MUTATED MMP8 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            3             69
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMP8 MUTATED        3      2      4      3      0
  MMP8 WILD-TYPE     56     73     70    116     38
D162V8, multiclass
        clus
vv       MMP8 MUTATED MMP8 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            3            116
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMP8 MUTATED        0      6      3      0      3
  MMP8 WILD-TYPE     51     70     58     71     92
D162V9, multiclass
        clus
vv       MMP8 MUTATED MMP8 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MMP8 MUTATED        1      2      2      3      1      1      0      1      1
  MMP8 WILD-TYPE     68     46     37     13     52     19     21     37     49
D162V10, multiclass
        clus
vv       MMP8 MUTATED MMP8 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            2             37
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MMP8 MUTATED        0      1      0      0      2      0
  MMP8 WILD-TYPE     13     15     14     11      9      9
D162V11, multiclass
        clus
vv       MMP8 MUTATED MMP8 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MMP8 MUTATED        1      0      0      1      1      0      0      0      0
  MMP8 WILD-TYPE     10      7      7      8      7      7     11      9      5
D162V12, multiclass
        clus
vv       MMP8 MUTATED MMP8 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(163) Variable = SGK269 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGK269 MUTATED        0      0      0      1      0
  SGK269 WILD-TYPE     32     18     46     26     23
D163V1, multiclass
[1] "Remove cluster labels:" "SGK269 MUTATED"        
clus
  SGK269 MUTATED SGK269 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AY-4071 
"SGK269 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SGK269 MUTATED        1      0      0
  SGK269 WILD-TYPE     42     67     36
D163V2, multiclass
[1] "Remove cluster labels:" "SGK269 MUTATED"        
clus
  SGK269 MUTATED SGK269 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" "SGK269 WILD-TYPE" 
      TCGA-AY-4071 
"SGK269 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SGK269 MUTATED        1      3     16
  SGK269 WILD-TYPE     41    170    131
D163V3, multiclass
        clus
vv       SGK269 MUTATED SGK269 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3             16              131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SGK269 MUTATED        6      2     11
  SGK269 WILD-TYPE     56     71     64
D163V4, multiclass
        clus
vv       SGK269 MUTATED SGK269 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              2               71
  CLUS_3             11               64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SGK269 MUTATED        3      4     11
  SGK269 WILD-TYPE     67    116     89
D163V5, multiclass
        clus
vv       SGK269 MUTATED SGK269 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              4              116
  CLUS_3             11               89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SGK269 MUTATED        2      1      0      1      1      8      2      3
  SGK269 WILD-TYPE     39     25     30     28     38     61     18     11
                  vv
clus               CLUS_9
  SGK269 MUTATED        0
  SGK269 WILD-TYPE     22
D163V6, multiclass
        clus
vv       SGK269 MUTATED SGK269 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              8               61
  CLUS_7              2               18
  CLUS_8              3               11
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SGK269 MUTATED        3      9      7      1
  SGK269 WILD-TYPE     97     63     65    120
D163V7, multiclass
        clus
vv       SGK269 MUTATED SGK269 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              9               63
  CLUS_3              7               65
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGK269 MUTATED        2      5     12      0      1
  SGK269 WILD-TYPE     57     70     62    119     37
D163V8, multiclass
        clus
vv       SGK269 MUTATED SGK269 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              5               70
  CLUS_3             12               62
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGK269 MUTATED        0     14      5      0      1
  SGK269 WILD-TYPE     51     62     56     71     94
D163V9, multiclass
        clus
vv       SGK269 MUTATED SGK269 WILD-TYPE
  CLUS_1              0               51
  CLUS_2             14               62
  CLUS_3              5               56
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SGK269 MUTATED        6      5      2      5      1      0      0      1
  SGK269 WILD-TYPE     63     43     37     11     52     20     21     37
                  vv
clus               CLUS_9
  SGK269 MUTATED        0
  SGK269 WILD-TYPE     50
D163V10, multiclass
        clus
vv       SGK269 MUTATED SGK269 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              5               43
  CLUS_3              2               37
  CLUS_4              5               11
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SGK269 MUTATED        1      0      2      1      2      0
  SGK269 WILD-TYPE     12     16     12     10      9      9
D163V11, multiclass
        clus
vv       SGK269 MUTATED SGK269 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SGK269 MUTATED        0      0      1      1      2      0      1      1
  SGK269 WILD-TYPE     11      7      6      8      6      7     10      8
                  vv
clus               CLUS_9
  SGK269 MUTATED        0
  SGK269 WILD-TYPE      5
D163V12, multiclass
        clus
vv       SGK269 MUTATED SGK269 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(164) Variable = CLSPN MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLSPN MUTATED        2      0      1      1      0
  CLSPN WILD-TYPE     30     18     45     26     23
D164V1, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLSPN MUTATED        1      2      1
  CLSPN WILD-TYPE     42     65     35
D164V2, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLSPN MUTATED        7      9     14
  CLSPN WILD-TYPE     35    164    133
D164V3, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1             7              35
  CLUS_2             9             164
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLSPN MUTATED       13      6      7
  CLSPN WILD-TYPE     49     67     68
D164V4, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1            13              49
  CLUS_2             6              67
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLSPN MUTATED        4     11     13
  CLSPN WILD-TYPE     66    109     87
D164V5, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1             4              66
  CLUS_2            11             109
  CLUS_3            13              87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLSPN MUTATED        5      1      1      4      2      9      0      3
  CLSPN WILD-TYPE     36     25     29     25     37     60     20     11
                 vv
clus              CLUS_9
  CLSPN MUTATED        3
  CLSPN WILD-TYPE     19
D164V6, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1             5              36
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             2              37
  CLUS_6             9              60
  CLUS_7             0              20
  CLUS_8             3              11
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLSPN MUTATED       10      8      9      3
  CLSPN WILD-TYPE     90     64     63    118
D164V7, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1            10              90
  CLUS_2             8              64
  CLUS_3             9              63
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLSPN MUTATED        9      9      8      3      1
  CLSPN WILD-TYPE     50     66     66    116     37
D164V8, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1             9              50
  CLUS_2             9              66
  CLUS_3             8              66
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLSPN MUTATED        5      6     11      5      2
  CLSPN WILD-TYPE     46     70     50     66     93
D164V9, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1             5              46
  CLUS_2             6              70
  CLUS_3            11              50
  CLUS_4             5              66
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLSPN MUTATED        6      4      7      2      7      1      0      1
  CLSPN WILD-TYPE     63     44     32     14     46     19     21     37
                 vv
clus              CLUS_9
  CLSPN MUTATED        1
  CLSPN WILD-TYPE     49
D164V10, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1             6              63
  CLUS_2             4              44
  CLUS_3             7              32
  CLUS_4             2              14
  CLUS_5             7              46
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLSPN MUTATED        1      4      1      3      1      1
  CLSPN WILD-TYPE     12     12     13      8     10      8
D164V11, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1             1              12
  CLUS_2             4              12
  CLUS_3             1              13
  CLUS_4             3               8
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLSPN MUTATED        3      2      0      1      1      1      2      1
  CLSPN WILD-TYPE      8      5      7      8      7      6      9      8
                 vv
clus              CLUS_9
  CLSPN MUTATED        0
  CLSPN WILD-TYPE      5
D164V12, multiclass
        clus
vv       CLSPN MUTATED CLSPN WILD-TYPE
  CLUS_1             3               8
  CLUS_2             2               5
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(165) Variable = LATS1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LATS1 MUTATED        3      0      1      2      0
  LATS1 WILD-TYPE     29     18     45     25     23
D165V1, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LATS1 MUTATED        3      2      1
  LATS1 WILD-TYPE     40     65     35
D165V2, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LATS1 MUTATED        1      3     14
  LATS1 WILD-TYPE     41    170    133
D165V3, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LATS1 MUTATED        3      0      9
  LATS1 WILD-TYPE     59     73     66
D165V4, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LATS1 MUTATED        2      4      8
  LATS1 WILD-TYPE     68    116     92
D165V5, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LATS1 MUTATED        0      1      0      2      1      7      3      0
  LATS1 WILD-TYPE     41     25     30     27     38     62     17     14
                 vv
clus              CLUS_9
  LATS1 MUTATED        0
  LATS1 WILD-TYPE     22
D165V6, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             7              62
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LATS1 MUTATED        1      7      5      5
  LATS1 WILD-TYPE     99     65     67    116
D165V7, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             7              65
  CLUS_3             5              67
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LATS1 MUTATED        2      0     10      2      4
  LATS1 WILD-TYPE     57     75     64    117     34
D165V8, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3            10              64
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LATS1 MUTATED        0      9      2      2      4
  LATS1 WILD-TYPE     51     67     59     69     91
D165V9, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             9              67
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LATS1 MUTATED        2      3      0      5      2      1      0      4
  LATS1 WILD-TYPE     67     45     39     11     51     19     21     34
                 vv
clus              CLUS_9
  LATS1 MUTATED        0
  LATS1 WILD-TYPE     50
D165V10, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             5              11
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LATS1 MUTATED        0      0      1      1      4      0
  LATS1 WILD-TYPE     13     16     13     10      7      9
D165V11, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LATS1 MUTATED        0      0      0      2      2      0      2      0
  LATS1 WILD-TYPE     11      7      7      7      6      7      9      9
                 vv
clus              CLUS_9
  LATS1 MUTATED        0
  LATS1 WILD-TYPE      5
D165V12, multiclass
        clus
vv       LATS1 MUTATED LATS1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(166) Variable = SCD5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCD5 MUTATED        1      0      0      1      0
  SCD5 WILD-TYPE     31     18     46     26     23
D166V1, multiclass
[1] "Remove cluster labels:" "SCD5 MUTATED"          
clus
  SCD5 MUTATED SCD5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3867 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCD5 MUTATED        1      1      0
  SCD5 WILD-TYPE     42     66     36
D166V2, multiclass
[1] "Remove cluster labels:" "SCD5 MUTATED"          
clus
  SCD5 MUTATED SCD5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3867 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCD5 MUTATED        2      0      5
  SCD5 WILD-TYPE     40    173    142
D166V3, multiclass
        clus
vv       SCD5 MUTATED SCD5 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            0            173
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCD5 MUTATED        2      1      2
  SCD5 WILD-TYPE     60     72     73
D166V4, multiclass
        clus
vv       SCD5 MUTATED SCD5 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCD5 MUTATED        0      1      4
  SCD5 WILD-TYPE     70    119     96
D166V5, multiclass
        clus
vv       SCD5 MUTATED SCD5 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SCD5 MUTATED        0      0      0      0      2      2      1      0      0
  SCD5 WILD-TYPE     41     26     30     29     37     67     19     14     22
D166V6, multiclass
        clus
vv       SCD5 MUTATED SCD5 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SCD5 MUTATED        2      2      2      1
  SCD5 WILD-TYPE     98     70     70    120
D166V7, multiclass
        clus
vv       SCD5 MUTATED SCD5 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCD5 MUTATED        0      1      4      1      1
  SCD5 WILD-TYPE     59     74     70    118     37
D166V8, multiclass
        clus
vv       SCD5 MUTATED SCD5 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCD5 MUTATED        0      3      1      1      2
  SCD5 WILD-TYPE     51     73     60     70     93
D166V9, multiclass
        clus
vv       SCD5 MUTATED SCD5 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SCD5 MUTATED        2      1      0      0      2      1      0      1      0
  SCD5 WILD-TYPE     67     47     39     16     51     19     21     37     50
D166V10, multiclass
        clus
vv       SCD5 MUTATED SCD5 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SCD5 MUTATED        0      0      1      0      0      0
  SCD5 WILD-TYPE     13     16     13     11     11      9
D166V11, multiclass
[1] "Remove cluster labels:" "SCD5 MUTATED"          
clus
  SCD5 MUTATED SCD5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-G4-6628 
"SCD5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SCD5 MUTATED        0      0      0      0      1      0      0      0      0
  SCD5 WILD-TYPE     11      7      7      9      7      7     11      9      5
D166V12, multiclass
[1] "Remove cluster labels:" "SCD5 MUTATED"          
clus
  SCD5 MUTATED SCD5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" "SCD5 WILD-TYPE" 
    TCGA-G4-6628 
"SCD5 WILD-TYPE" 

Clustering(167) Variable = DDX5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX5 MUTATED        1      0      0      1      0
  DDX5 WILD-TYPE     31     18     46     26     23
D167V1, multiclass
[1] "Remove cluster labels:" "DDX5 MUTATED"          
clus
  DDX5 MUTATED DDX5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DDX5 MUTATED        2      0      0
  DDX5 WILD-TYPE     41     67     36
D167V2, multiclass
[1] "Remove cluster labels:" "DDX5 MUTATED"          
clus
  DDX5 MUTATED DDX5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DDX5 MUTATED        1      2      6
  DDX5 WILD-TYPE     41    171    141
D167V3, multiclass
        clus
vv       DDX5 MUTATED DDX5 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DDX5 MUTATED        2      1      4
  DDX5 WILD-TYPE     60     72     71
D167V4, multiclass
        clus
vv       DDX5 MUTATED DDX5 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DDX5 MUTATED        2      0      5
  DDX5 WILD-TYPE     68    120     95
D167V5, multiclass
        clus
vv       DDX5 MUTATED DDX5 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            0            120
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DDX5 MUTATED        1      0      0      0      1      3      1      1      0
  DDX5 WILD-TYPE     40     26     30     29     38     66     19     13     22
D167V6, multiclass
        clus
vv       DDX5 MUTATED DDX5 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDX5 MUTATED        2      4      1      2
  DDX5 WILD-TYPE     98     68     71    119
D167V7, multiclass
        clus
vv       DDX5 MUTATED DDX5 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX5 MUTATED        1      2      4      0      2
  DDX5 WILD-TYPE     58     73     70    119     36
D167V8, multiclass
        clus
vv       DDX5 MUTATED DDX5 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX5 MUTATED        1      4      1      0      2
  DDX5 WILD-TYPE     50     72     60     71     93
D167V9, multiclass
        clus
vv       DDX5 MUTATED DDX5 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DDX5 MUTATED        1      1      1      0      2      1      0      2      0
  DDX5 WILD-TYPE     68     47     38     16     51     19     21     36     50
D167V10, multiclass
        clus
vv       DDX5 MUTATED DDX5 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDX5 MUTATED        1      0      0      0      0      0
  DDX5 WILD-TYPE     12     16     14     11     11      9
D167V11, multiclass
[1] "Remove cluster labels:" "DDX5 MUTATED"          
clus
  DDX5 MUTATED DDX5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6534 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-G4-6628 
"DDX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DDX5 MUTATED        0      0      0      0      0      0      0      1      0
  DDX5 WILD-TYPE     11      7      7      9      8      7     11      8      5
D167V12, multiclass
[1] "Remove cluster labels:" "DDX5 MUTATED"          
clus
  DDX5 MUTATED DDX5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6534 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" "DDX5 WILD-TYPE" 
    TCGA-G4-6628 
"DDX5 WILD-TYPE" 

Clustering(168) Variable = TAF7L MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF7L MUTATED        0      0      1      1      0
  TAF7L WILD-TYPE     32     18     45     26     23
D168V1, multiclass
[1] "Remove cluster labels:" "TAF7L MUTATED"         
clus
  TAF7L MUTATED TAF7L WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAF7L MUTATED        0      2      0
  TAF7L WILD-TYPE     43     65     36
D168V2, multiclass
[1] "Remove cluster labels:" "TAF7L MUTATED"         
clus
  TAF7L MUTATED TAF7L WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" "TAF7L WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAF7L MUTATED        0      5      6
  TAF7L WILD-TYPE     42    168    141
D168V3, multiclass
        clus
vv       TAF7L MUTATED TAF7L WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAF7L MUTATED        3      2      4
  TAF7L WILD-TYPE     59     71     71
D168V4, multiclass
        clus
vv       TAF7L MUTATED TAF7L WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAF7L MUTATED        1      3      4
  TAF7L WILD-TYPE     69    117     96
D168V5, multiclass
        clus
vv       TAF7L MUTATED TAF7L WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAF7L MUTATED        1      0      1      1      0      3      1      1
  TAF7L WILD-TYPE     40     26     29     28     39     66     19     13
                 vv
clus              CLUS_9
  TAF7L MUTATED        0
  TAF7L WILD-TYPE     22
D168V6, multiclass
        clus
vv       TAF7L MUTATED TAF7L WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAF7L MUTATED        3      4      2      2
  TAF7L WILD-TYPE     97     68     70    119
D168V7, multiclass
        clus
vv       TAF7L MUTATED TAF7L WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF7L MUTATED        1      3      5      2      0
  TAF7L WILD-TYPE     58     72     69    117     38
D168V8, multiclass
        clus
vv       TAF7L MUTATED TAF7L WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF7L MUTATED        1      6      1      1      2
  TAF7L WILD-TYPE     50     70     60     70     93
D168V9, multiclass
        clus
vv       TAF7L MUTATED TAF7L WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAF7L MUTATED        4      1      2      3      0      1      0      0
  TAF7L WILD-TYPE     65     47     37     13     53     19     21     38
                 vv
clus              CLUS_9
  TAF7L MUTATED        0
  TAF7L WILD-TYPE     50
D168V10, multiclass
        clus
vv       TAF7L MUTATED TAF7L WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             2              37
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAF7L MUTATED        1      0      0      1      2      0
  TAF7L WILD-TYPE     12     16     14     10      9      9
D168V11, multiclass
        clus
vv       TAF7L MUTATED TAF7L WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAF7L MUTATED        0      0      1      2      1      0      0      0
  TAF7L WILD-TYPE     11      7      6      7      7      7     11      9
                 vv
clus              CLUS_9
  TAF7L MUTATED        0
  TAF7L WILD-TYPE      5
D168V12, multiclass
        clus
vv       TAF7L MUTATED TAF7L WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(169) Variable = ERBB4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB4 MUTATED        6      2      1      5      3
  ERBB4 WILD-TYPE     26     16     45     22     20
D169V1, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             2              16
  CLUS_3             1              45
  CLUS_4             5              22
  CLUS_5             3              20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB4 MUTATED        8      4      5
  ERBB4 WILD-TYPE     35     63     31
D169V2, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1             8              35
  CLUS_2             4              63
  CLUS_3             5              31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB4 MUTATED        3     20     26
  ERBB4 WILD-TYPE     39    153    121
D169V3, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1             3              39
  CLUS_2            20             153
  CLUS_3            26             121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB4 MUTATED       13      9     12
  ERBB4 WILD-TYPE     49     64     63
D169V4, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1            13              49
  CLUS_2             9              64
  CLUS_3            12              63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB4 MUTATED        7     17     18
  ERBB4 WILD-TYPE     63    103     82
D169V5, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1             7              63
  CLUS_2            17             103
  CLUS_3            18              82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB4 MUTATED        6      2      3      5      5     12      3      2
  ERBB4 WILD-TYPE     35     24     27     24     34     57     17     12
                 vv
clus              CLUS_9
  ERBB4 MUTATED        4
  ERBB4 WILD-TYPE     18
D169V6, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1             6              35
  CLUS_2             2              24
  CLUS_3             3              27
  CLUS_4             5              24
  CLUS_5             5              34
  CLUS_6            12              57
  CLUS_7             3              17
  CLUS_8             2              12
  CLUS_9             4              18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB4 MUTATED       11     10     14     16
  ERBB4 WILD-TYPE     89     62     58    105
D169V7, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1            11              89
  CLUS_2            10              62
  CLUS_3            14              58
  CLUS_4            16             105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB4 MUTATED       11      9     13     11      7
  ERBB4 WILD-TYPE     48     66     61    108     31
D169V8, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1            11              48
  CLUS_2             9              66
  CLUS_3            13              61
  CLUS_4            11             108
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB4 MUTATED        8     12     13      4     12
  ERBB4 WILD-TYPE     43     64     48     67     83
D169V9, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1             8              43
  CLUS_2            12              64
  CLUS_3            13              48
  CLUS_4             4              67
  CLUS_5            12              83
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB4 MUTATED        7     14      2      4      5      5      3      5
  ERBB4 WILD-TYPE     62     34     37     12     48     15     18     33
                 vv
clus              CLUS_9
  ERBB4 MUTATED        4
  ERBB4 WILD-TYPE     46
D169V10, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1             7              62
  CLUS_2            14              34
  CLUS_3             2              37
  CLUS_4             4              12
  CLUS_5             5              48
  CLUS_6             5              15
  CLUS_7             3              18
  CLUS_8             5              33
  CLUS_9             4              46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERBB4 MUTATED        2      1      1      2      1      1
  ERBB4 WILD-TYPE     11     15     13      9     10      8
D169V11, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             2               9
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB4 MUTATED        0      1      1      2      1      1      2      0
  ERBB4 WILD-TYPE     11      6      6      7      7      6      9      9
                 vv
clus              CLUS_9
  ERBB4 MUTATED        0
  ERBB4 WILD-TYPE      5
D169V12, multiclass
        clus
vv       ERBB4 MUTATED ERBB4 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(170) Variable = HNF1B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HNF1B MUTATED        0      0      0      0      1
  HNF1B WILD-TYPE     32     18     46     27     22
D170V1, multiclass
[1] "Remove cluster labels:" "HNF1B MUTATED"         
clus
  HNF1B MUTATED HNF1B WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AY-4071 
"HNF1B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        0      0      1
  HNF1B WILD-TYPE     43     67     35
D170V2, multiclass
[1] "Remove cluster labels:" "HNF1B MUTATED"         
clus
  HNF1B MUTATED HNF1B WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" "HNF1B WILD-TYPE" 
     TCGA-AY-4071 
"HNF1B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        0      5      4
  HNF1B WILD-TYPE     42    168    143
D170V3, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        1      1      6
  HNF1B WILD-TYPE     61     72     69
D170V4, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        3      3      2
  HNF1B WILD-TYPE     67    117     98
D170V5, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             3              67
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HNF1B MUTATED        1      2      1      0      0      2      0      2
  HNF1B WILD-TYPE     40     24     29     29     39     67     20     12
                 vv
clus              CLUS_9
  HNF1B MUTATED        0
  HNF1B WILD-TYPE     22
D170V6, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNF1B MUTATED        3      4      1      1
  HNF1B WILD-TYPE     97     68     71    120
D170V7, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HNF1B MUTATED        1      3      4      1      0
  HNF1B WILD-TYPE     58     72     70    118     38
D170V8, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HNF1B MUTATED        3      4      1      1      0
  HNF1B WILD-TYPE     48     72     60     70     95
D170V9, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             3              48
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HNF1B MUTATED        4      1      1      2      1      0      0      0
  HNF1B WILD-TYPE     65     47     38     14     52     20     21     38
                 vv
clus              CLUS_9
  HNF1B MUTATED        0
  HNF1B WILD-TYPE     50
D170V10, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HNF1B MUTATED        1      0      1      0      1      0
  HNF1B WILD-TYPE     12     16     13     11     10      9
D170V11, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HNF1B MUTATED        0      0      0      1      1      0      0      0
  HNF1B WILD-TYPE     11      7      7      8      7      7     11      9
                 vv
clus              CLUS_9
  HNF1B MUTATED        1
  HNF1B WILD-TYPE      4
D170V12, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(171) Variable = OR7C2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR7C2 MUTATED        1      0      0      1      0
  OR7C2 WILD-TYPE     31     18     46     26     23
D171V1, multiclass
[1] "Remove cluster labels:" "OR7C2 MUTATED"         
clus
  OR7C2 MUTATED OR7C2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7C2 MUTATED        1      1      0
  OR7C2 WILD-TYPE     42     66     36
D171V2, multiclass
[1] "Remove cluster labels:" "OR7C2 MUTATED"         
clus
  OR7C2 MUTATED OR7C2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7C2 MUTATED        0      3      7
  OR7C2 WILD-TYPE     42    170    140
D171V3, multiclass
        clus
vv       OR7C2 MUTATED OR7C2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7C2 MUTATED        3      3      2
  OR7C2 WILD-TYPE     59     70     73
D171V4, multiclass
        clus
vv       OR7C2 MUTATED OR7C2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7C2 MUTATED        0      3      6
  OR7C2 WILD-TYPE     70    117     94
D171V5, multiclass
        clus
vv       OR7C2 MUTATED OR7C2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR7C2 MUTATED        2      0      1      0      0      4      0      1
  OR7C2 WILD-TYPE     39     26     29     29     39     65     20     13
                 vv
clus              CLUS_9
  OR7C2 MUTATED        1
  OR7C2 WILD-TYPE     21
D171V6, multiclass
        clus
vv       OR7C2 MUTATED OR7C2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR7C2 MUTATED        2      2      4      2
  OR7C2 WILD-TYPE     98     70     68    119
D171V7, multiclass
        clus
vv       OR7C2 MUTATED OR7C2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR7C2 MUTATED        3      1      4      1      1
  OR7C2 WILD-TYPE     56     74     70    118     37
D171V8, multiclass
        clus
vv       OR7C2 MUTATED OR7C2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR7C2 MUTATED        3      3      2      0      2
  OR7C2 WILD-TYPE     48     73     59     71     93
D171V9, multiclass
        clus
vv       OR7C2 MUTATED OR7C2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR7C2 MUTATED        2      3      1      1      0      2      0      1
  OR7C2 WILD-TYPE     67     45     38     15     53     18     21     37
                 vv
clus              CLUS_9
  OR7C2 MUTATED        0
  OR7C2 WILD-TYPE     50
D171V10, multiclass
        clus
vv       OR7C2 MUTATED OR7C2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR7C2 MUTATED        0      0      0      0      2      0
  OR7C2 WILD-TYPE     13     16     14     11      9      9
D171V11, multiclass
[1] "Remove cluster labels:" "OR7C2 MUTATED"         
clus
  OR7C2 MUTATED OR7C2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR7C2 MUTATED        0      0      0      0      0      1      1      0
  OR7C2 WILD-TYPE     11      7      7      9      8      6     10      9
                 vv
clus              CLUS_9
  OR7C2 MUTATED        0
  OR7C2 WILD-TYPE      5
D171V12, multiclass
[1] "Remove cluster labels:" "OR7C2 MUTATED"         
clus
  OR7C2 MUTATED OR7C2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" "OR7C2 WILD-TYPE" 

Clustering(172) Variable = KLHL10 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLHL10 MUTATED        0      0      0      0      0
  KLHL10 WILD-TYPE     32     18     46     27     23
D172V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KLHL10 MUTATED        0      0      0
  KLHL10 WILD-TYPE     43     67     36
D172V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KLHL10 MUTATED        2      7     10
  KLHL10 WILD-TYPE     40    166    137
D172V3, multiclass
        clus
vv       KLHL10 MUTATED KLHL10 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              7              166
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KLHL10 MUTATED        7      5      6
  KLHL10 WILD-TYPE     55     68     69
D172V4, multiclass
        clus
vv       KLHL10 MUTATED KLHL10 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              5               68
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KLHL10 MUTATED        3      4     10
  KLHL10 WILD-TYPE     67    116     90
D172V5, multiclass
        clus
vv       KLHL10 MUTATED KLHL10 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              4              116
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLHL10 MUTATED        2      0      2      1      1     10      1      0
  KLHL10 WILD-TYPE     39     26     28     28     38     59     19     14
                  vv
clus               CLUS_9
  KLHL10 MUTATED        0
  KLHL10 WILD-TYPE     22
D172V6, multiclass
        clus
vv       KLHL10 MUTATED KLHL10 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6             10               59
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLHL10 MUTATED        7      5      6      0
  KLHL10 WILD-TYPE     93     67     66    121
D172V7, multiclass
        clus
vv       KLHL10 MUTATED KLHL10 WILD-TYPE
  CLUS_1              7               93
  CLUS_2              5               67
  CLUS_3              6               66
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLHL10 MUTATED        2      6     10      0      0
  KLHL10 WILD-TYPE     57     69     64    119     38
D172V8, multiclass
        clus
vv       KLHL10 MUTATED KLHL10 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              6               69
  CLUS_3             10               64
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLHL10 MUTATED        2     10      3      4      0
  KLHL10 WILD-TYPE     49     66     58     67     95
D172V9, multiclass
        clus
vv       KLHL10 MUTATED KLHL10 WILD-TYPE
  CLUS_1              2               49
  CLUS_2             10               66
  CLUS_3              3               58
  CLUS_4              4               67
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLHL10 MUTATED        5      6      3      3      2      0      0      0
  KLHL10 WILD-TYPE     64     42     36     13     51     20     21     38
                  vv
clus               CLUS_9
  KLHL10 MUTATED        0
  KLHL10 WILD-TYPE     50
D172V10, multiclass
        clus
vv       KLHL10 MUTATED KLHL10 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              6               42
  CLUS_3              3               36
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLHL10 MUTATED        1      1      1      0      2      0
  KLHL10 WILD-TYPE     12     15     13     11      9      9
D172V11, multiclass
        clus
vv       KLHL10 MUTATED KLHL10 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLHL10 MUTATED        1      0      0      0      1      0      2      1
  KLHL10 WILD-TYPE     10      7      7      9      7      7      9      8
                  vv
clus               CLUS_9
  KLHL10 MUTATED        0
  KLHL10 WILD-TYPE      5
D172V12, multiclass
        clus
vv       KLHL10 MUTATED KLHL10 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(173) Variable = FBLN5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBLN5 MUTATED        0      0      0      0      0
  FBLN5 WILD-TYPE     32     18     46     27     23
D173V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBLN5 MUTATED        0      0      0
  FBLN5 WILD-TYPE     43     67     36
D173V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBLN5 MUTATED        2      3      3
  FBLN5 WILD-TYPE     40    170    144
D173V3, multiclass
        clus
vv       FBLN5 MUTATED FBLN5 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBLN5 MUTATED        2      3      3
  FBLN5 WILD-TYPE     60     70     72
D173V4, multiclass
        clus
vv       FBLN5 MUTATED FBLN5 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBLN5 MUTATED        0      4      3
  FBLN5 WILD-TYPE     70    116     97
D173V5, multiclass
        clus
vv       FBLN5 MUTATED FBLN5 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBLN5 MUTATED        1      0      1      1      0      1      0      1
  FBLN5 WILD-TYPE     40     26     29     28     39     68     20     13
                 vv
clus              CLUS_9
  FBLN5 MUTATED        2
  FBLN5 WILD-TYPE     20
D173V6, multiclass
        clus
vv       FBLN5 MUTATED FBLN5 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBLN5 MUTATED        3      4      1      0
  FBLN5 WILD-TYPE     97     68     71    121
D173V7, multiclass
        clus
vv       FBLN5 MUTATED FBLN5 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBLN5 MUTATED        1      4      3      0      0
  FBLN5 WILD-TYPE     58     71     71    119     38
D173V8, multiclass
        clus
vv       FBLN5 MUTATED FBLN5 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBLN5 MUTATED        3      2      1      2      0
  FBLN5 WILD-TYPE     48     74     60     69     95
D173V9, multiclass
        clus
vv       FBLN5 MUTATED FBLN5 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBLN5 MUTATED        1      1      1      2      0      3      0      0
  FBLN5 WILD-TYPE     68     47     38     14     53     17     21     38
                 vv
clus              CLUS_9
  FBLN5 MUTATED        0
  FBLN5 WILD-TYPE     50
D173V10, multiclass
        clus
vv       FBLN5 MUTATED FBLN5 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FBLN5 MUTATED        0      0      0      0      1      1
  FBLN5 WILD-TYPE     13     16     14     11     10      8
D173V11, multiclass
[1] "Remove cluster labels:" "FBLN5 MUTATED"         
clus
  FBLN5 MUTATED FBLN5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBLN5 MUTATED        0      0      0      1      0      0      0      1
  FBLN5 WILD-TYPE     11      7      7      8      8      7     11      8
                 vv
clus              CLUS_9
  FBLN5 MUTATED        0
  FBLN5 WILD-TYPE      5
D173V12, multiclass
[1] "Remove cluster labels:" "FBLN5 MUTATED"         
clus
  FBLN5 MUTATED FBLN5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" "FBLN5 WILD-TYPE" 

Clustering(174) Variable = GPX6 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPX6 MUTATED        1      0      0      1      0
  GPX6 WILD-TYPE     31     18     46     26     23
D174V1, multiclass
[1] "Remove cluster labels:" "GPX6 MUTATED"          
clus
  GPX6 MUTATED GPX6 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3846 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GPX6 MUTATED        1      1      0
  GPX6 WILD-TYPE     42     66     36
D174V2, multiclass
[1] "Remove cluster labels:" "GPX6 MUTATED"          
clus
  GPX6 MUTATED GPX6 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3846 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" "GPX6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GPX6 MUTATED        0      3      6
  GPX6 WILD-TYPE     42    170    141
D174V3, multiclass
        clus
vv       GPX6 MUTATED GPX6 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GPX6 MUTATED        3      3      1
  GPX6 WILD-TYPE     59     70     74
D174V4, multiclass
        clus
vv       GPX6 MUTATED GPX6 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            3             70
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GPX6 MUTATED        1      5      3
  GPX6 WILD-TYPE     69    115     97
D174V5, multiclass
        clus
vv       GPX6 MUTATED GPX6 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GPX6 MUTATED        2      1      1      2      1      1      0      0      1
  GPX6 WILD-TYPE     39     25     29     27     38     68     20     14     21
D174V6, multiclass
        clus
vv       GPX6 MUTATED GPX6 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPX6 MUTATED        2      2      2      3
  GPX6 WILD-TYPE     98     70     70    118
D174V7, multiclass
        clus
vv       GPX6 MUTATED GPX6 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPX6 MUTATED        1      2      3      2      1
  GPX6 WILD-TYPE     58     73     71    117     37
D174V8, multiclass
        clus
vv       GPX6 MUTATED GPX6 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPX6 MUTATED        1      3      2      0      3
  GPX6 WILD-TYPE     50     73     59     71     92
D174V9, multiclass
        clus
vv       GPX6 MUTATED GPX6 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GPX6 MUTATED        1      2      1      1      1      2      0      0      1
  GPX6 WILD-TYPE     68     46     38     15     52     18     21     38     49
D174V10, multiclass
        clus
vv       GPX6 MUTATED GPX6 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPX6 MUTATED        0      0      1      2      0      0
  GPX6 WILD-TYPE     13     16     13      9     11      9
D174V11, multiclass
        clus
vv       GPX6 MUTATED GPX6 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            2              9
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GPX6 MUTATED        0      0      1      0      0      0      2      0      0
  GPX6 WILD-TYPE     11      7      6      9      8      7      9      9      5
D174V12, multiclass
        clus
vv       GPX6 MUTATED GPX6 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(175) Variable = PSD MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSD MUTATED        3      0      0      1      0
  PSD WILD-TYPE     29     18     46     26     23
D175V1, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           3            29
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PSD MUTATED        3      1      0
  PSD WILD-TYPE     40     66     36
D175V2, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           3            40
  CLUS_2           1            66
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PSD MUTATED        2      2     11
  PSD WILD-TYPE     40    171    136
D175V3, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           2            40
  CLUS_2           2           171
  CLUS_3          11           136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PSD MUTATED        3      1      7
  PSD WILD-TYPE     59     72     68
D175V4, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           3            59
  CLUS_2           1            72
  CLUS_3           7            68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PSD MUTATED        1      5      6
  PSD WILD-TYPE     69    115     94
D175V5, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           1            69
  CLUS_2           5           115
  CLUS_3           6            94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PSD MUTATED        2      0      2      1      1      3      2      1      0
  PSD WILD-TYPE     39     26     28     28     38     66     18     13     22
D175V6, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           2            39
  CLUS_2           0            26
  CLUS_3           2            28
  CLUS_4           1            28
  CLUS_5           1            38
  CLUS_6           3            66
  CLUS_7           2            18
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PSD MUTATED        2      6      3      5
  PSD WILD-TYPE     98     66     69    116
D175V7, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           2            98
  CLUS_2           6            66
  CLUS_3           3            69
  CLUS_4           5           116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSD MUTATED        2      2      6      2      4
  PSD WILD-TYPE     57     73     68    117     34
D175V8, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           2            57
  CLUS_2           2            73
  CLUS_3           6            68
  CLUS_4           2           117
  CLUS_5           4            34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSD MUTATED        1      6      1      1      6
  PSD WILD-TYPE     50     70     60     70     89
D175V9, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           1            50
  CLUS_2           6            70
  CLUS_3           1            60
  CLUS_4           1            70
  CLUS_5           6            89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PSD MUTATED        3      2      0      4      1      0      0      3      2
  PSD WILD-TYPE     66     46     39     12     52     20     21     35     48
D175V10, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           3            66
  CLUS_2           2            46
  CLUS_3           0            39
  CLUS_4           4            12
  CLUS_5           1            52
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           3            35
  CLUS_9           2            48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PSD MUTATED        1      0      0      0      2      1
  PSD WILD-TYPE     12     16     14     11      9      8
D175V11, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           1            12
  CLUS_2           0            16
  CLUS_3           0            14
  CLUS_4           0            11
  CLUS_5           2             9
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PSD MUTATED        1      0      0      1      0      0      1      1      0
  PSD WILD-TYPE     10      7      7      8      8      7     10      8      5
D175V12, multiclass
        clus
vv       PSD MUTATED PSD WILD-TYPE
  CLUS_1           1            10
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           1            10
  CLUS_8           1             8
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(176) Variable = EP400 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EP400 MUTATED        7      0      0      3      1
  EP400 WILD-TYPE     25     18     46     24     22
D176V1, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             7              25
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP400 MUTATED        8      1      2
  EP400 WILD-TYPE     35     66     34
D176V2, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             8              35
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP400 MUTATED        5      8     23
  EP400 WILD-TYPE     37    165    124
D176V3, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             5              37
  CLUS_2             8             165
  CLUS_3            23             124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP400 MUTATED        4      6     14
  EP400 WILD-TYPE     58     67     61
D176V4, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             6              67
  CLUS_3            14              61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP400 MUTATED        6     12     11
  EP400 WILD-TYPE     64    108     89
D176V5, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             6              64
  CLUS_2            12             108
  CLUS_3            11              89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EP400 MUTATED        0      0      3      3      6      9      3      1
  EP400 WILD-TYPE     41     26     27     26     33     60     17     13
                 vv
clus              CLUS_9
  EP400 MUTATED        4
  EP400 WILD-TYPE     18
D176V6, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             3              27
  CLUS_4             3              26
  CLUS_5             6              33
  CLUS_6             9              60
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             4              18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EP400 MUTATED        5     12      5     14
  EP400 WILD-TYPE     95     60     67    107
D176V7, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             5              95
  CLUS_2            12              60
  CLUS_3             5              67
  CLUS_4            14             107
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EP400 MUTATED        5      5     12      6      8
  EP400 WILD-TYPE     54     70     62    113     30
D176V8, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             5              70
  CLUS_3            12              62
  CLUS_4             6             113
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EP400 MUTATED        3     12      3      5     10
  EP400 WILD-TYPE     48     64     58     66     85
D176V9, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             3              48
  CLUS_2            12              64
  CLUS_3             3              58
  CLUS_4             5              66
  CLUS_5            10              85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EP400 MUTATED        6      4      0      8      3      2      1      7
  EP400 WILD-TYPE     63     44     39      8     50     18     20     31
                 vv
clus              CLUS_9
  EP400 MUTATED        2
  EP400 WILD-TYPE     48
D176V10, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             8               8
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             7              31
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EP400 MUTATED        1      1      0      0      1      1
  EP400 WILD-TYPE     12     15     14     11     10      8
D176V11, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EP400 MUTATED        0      1      0      1      0      0      0      2
  EP400 WILD-TYPE     11      6      7      8      8      7     11      7
                 vv
clus              CLUS_9
  EP400 MUTATED        0
  EP400 WILD-TYPE      5
D176V12, multiclass
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             2               7
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(177) Variable = DHRS7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHRS7 MUTATED        1      0      0      0      0
  DHRS7 WILD-TYPE     31     18     46     27     23
D177V1, multiclass
[1] "Remove cluster labels:" "DHRS7 MUTATED"         
clus
  DHRS7 MUTATED DHRS7 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AY-4071 
"DHRS7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHRS7 MUTATED        1      0      0
  DHRS7 WILD-TYPE     42     67     36
D177V2, multiclass
[1] "Remove cluster labels:" "DHRS7 MUTATED"         
clus
  DHRS7 MUTATED DHRS7 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AY-4071 
"DHRS7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHRS7 MUTATED        0      2      8
  DHRS7 WILD-TYPE     42    171    139
D177V3, multiclass
        clus
vv       DHRS7 MUTATED DHRS7 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHRS7 MUTATED        4      2      3
  DHRS7 WILD-TYPE     58     71     72
D177V4, multiclass
        clus
vv       DHRS7 MUTATED DHRS7 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHRS7 MUTATED        0      4      5
  DHRS7 WILD-TYPE     70    116     95
D177V5, multiclass
        clus
vv       DHRS7 MUTATED DHRS7 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHRS7 MUTATED        0      1      0      0      0      4      2      2
  DHRS7 WILD-TYPE     41     25     30     29     39     65     18     12
                 vv
clus              CLUS_9
  DHRS7 MUTATED        0
  DHRS7 WILD-TYPE     22
D177V6, multiclass
        clus
vv       DHRS7 MUTATED DHRS7 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DHRS7 MUTATED        1      4      3      2
  DHRS7 WILD-TYPE     99     68     69    119
D177V7, multiclass
        clus
vv       DHRS7 MUTATED DHRS7 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHRS7 MUTATED        1      1      6      1      1
  DHRS7 WILD-TYPE     58     74     68    118     37
D177V8, multiclass
        clus
vv       DHRS7 MUTATED DHRS7 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHRS7 MUTATED        1      6      1      0      2
  DHRS7 WILD-TYPE     50     70     60     71     93
D177V9, multiclass
        clus
vv       DHRS7 MUTATED DHRS7 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHRS7 MUTATED        2      3      0      1      1      1      0      1
  DHRS7 WILD-TYPE     67     45     39     15     52     19     21     37
                 vv
clus              CLUS_9
  DHRS7 MUTATED        1
  DHRS7 WILD-TYPE     49
D177V10, multiclass
        clus
vv       DHRS7 MUTATED DHRS7 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DHRS7 MUTATED        0      0      0      0      2      0
  DHRS7 WILD-TYPE     13     16     14     11      9      9
D177V11, multiclass
[1] "Remove cluster labels:" "DHRS7 MUTATED"         
clus
  DHRS7 MUTATED DHRS7 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHRS7 MUTATED        0      0      0      0      0      1      1      0
  DHRS7 WILD-TYPE     11      7      7      9      8      6     10      9
                 vv
clus              CLUS_9
  DHRS7 MUTATED        0
  DHRS7 WILD-TYPE      5
D177V12, multiclass
[1] "Remove cluster labels:" "DHRS7 MUTATED"         
clus
  DHRS7 MUTATED DHRS7 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" "DHRS7 WILD-TYPE" 

Clustering(178) Variable = ZNF486 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF486 MUTATED        1      0      0      1      0
  ZNF486 WILD-TYPE     31     18     46     26     23
D178V1, multiclass
[1] "Remove cluster labels:" "ZNF486 MUTATED"        
clus
  ZNF486 MUTATED ZNF486 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950       TCGA-AA-3952 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF486 MUTATED        2      0      0
  ZNF486 WILD-TYPE     41     67     36
D178V2, multiclass
[1] "Remove cluster labels:" "ZNF486 MUTATED"        
clus
  ZNF486 MUTATED ZNF486 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950       TCGA-AA-3952 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF486 MUTATED        0      3      9
  ZNF486 WILD-TYPE     42    170    138
D178V3, multiclass
        clus
vv       ZNF486 MUTATED ZNF486 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF486 MUTATED        0      1      8
  ZNF486 WILD-TYPE     62     72     67
D178V4, multiclass
        clus
vv       ZNF486 MUTATED ZNF486 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              1               72
  CLUS_3              8               67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF486 MUTATED        1      3      2
  ZNF486 WILD-TYPE     69    117     98
D178V5, multiclass
        clus
vv       ZNF486 MUTATED ZNF486 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF486 MUTATED        0      1      0      2      1      1      1      0
  ZNF486 WILD-TYPE     41     25     30     27     38     68     19     14
                  vv
clus               CLUS_9
  ZNF486 MUTATED        0
  ZNF486 WILD-TYPE     22
D178V6, multiclass
        clus
vv       ZNF486 MUTATED ZNF486 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF486 MUTATED        3      5      2      2
  ZNF486 WILD-TYPE     97     67     70    119
D178V7, multiclass
        clus
vv       ZNF486 MUTATED ZNF486 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              5               67
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF486 MUTATED        0      3      7      0      2
  ZNF486 WILD-TYPE     59     72     67    119     36
D178V8, multiclass
        clus
vv       ZNF486 MUTATED ZNF486 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF486 MUTATED        1      5      2      1      3
  ZNF486 WILD-TYPE     50     71     59     70     92
D178V9, multiclass
        clus
vv       ZNF486 MUTATED ZNF486 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF486 MUTATED        1      2      0      3      1      2      2      1
  ZNF486 WILD-TYPE     68     46     39     13     52     18     19     37
                  vv
clus               CLUS_9
  ZNF486 MUTATED        0
  ZNF486 WILD-TYPE     50
D178V10, multiclass
        clus
vv       ZNF486 MUTATED ZNF486 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              2               19
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF486 MUTATED        0      0      1      0      0      1
  ZNF486 WILD-TYPE     13     16     13     11     11      8
D178V11, multiclass
[1] "Remove cluster labels:" "ZNF486 MUTATED"        
clus
  ZNF486 MUTATED ZNF486 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF486 MUTATED        0      0      0      0      0      1      0      0
  ZNF486 WILD-TYPE     11      7      7      9      8      6     11      9
                  vv
clus               CLUS_9
  ZNF486 MUTATED        1
  ZNF486 WILD-TYPE      4
D178V12, multiclass
[1] "Remove cluster labels:" "ZNF486 MUTATED"        
clus
  ZNF486 MUTATED ZNF486 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" "ZNF486 WILD-TYPE" 

Clustering(179) Variable = CLEC4F MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLEC4F MUTATED        0      0      1      2      0
  CLEC4F WILD-TYPE     32     18     45     25     23
D179V1, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              0               32
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLEC4F MUTATED        2      1      0
  CLEC4F WILD-TYPE     41     66     36
D179V2, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLEC4F MUTATED        0      3     16
  CLEC4F WILD-TYPE     42    170    131
D179V3, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3             16              131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLEC4F MUTATED        8      3      5
  CLEC4F WILD-TYPE     54     70     70
D179V4, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              8               54
  CLUS_2              3               70
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLEC4F MUTATED        4      5      9
  CLEC4F WILD-TYPE     66    115     91
D179V5, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              4               66
  CLUS_2              5              115
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLEC4F MUTATED        2      1      1      2      2      8      1      1
  CLEC4F WILD-TYPE     39     25     29     27     37     61     19     13
                  vv
clus               CLUS_9
  CLEC4F MUTATED        0
  CLEC4F WILD-TYPE     22
D179V6, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              8               61
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLEC4F MUTATED        3      7      5      4
  CLEC4F WILD-TYPE     97     65     67    117
D179V7, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              3               97
  CLUS_2              7               65
  CLUS_3              5               67
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLEC4F MUTATED        1      6      7      3      2
  CLEC4F WILD-TYPE     58     69     67    116     36
D179V8, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              1               58
  CLUS_2              6               69
  CLUS_3              7               67
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLEC4F MUTATED        3      8      2      1      4
  CLEC4F WILD-TYPE     48     68     59     70     91
D179V9, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              3               48
  CLUS_2              8               68
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLEC4F MUTATED        5      3      1      3      2      1      0      1
  CLEC4F WILD-TYPE     64     45     38     13     51     19     21     37
                  vv
clus               CLUS_9
  CLEC4F MUTATED        2
  CLEC4F WILD-TYPE     48
D179V10, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              5               64
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLEC4F MUTATED        0      1      1      0      2      0
  CLEC4F WILD-TYPE     13     15     13     11      9      9
D179V11, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLEC4F MUTATED        0      0      0      1      1      0      2      0
  CLEC4F WILD-TYPE     11      7      7      8      7      7      9      9
                  vv
clus               CLUS_9
  CLEC4F MUTATED        0
  CLEC4F WILD-TYPE      5
D179V12, multiclass
        clus
vv       CLEC4F MUTATED CLEC4F WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(180) Variable = MMP13 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMP13 MUTATED        0      0      0      2      0
  MMP13 WILD-TYPE     32     18     46     25     23
D180V1, multiclass
[1] "Remove cluster labels:" "MMP13 MUTATED"         
clus
  MMP13 MUTATED MMP13 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3864      TCGA-AA-3866 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP13 MUTATED        0      2      0
  MMP13 WILD-TYPE     43     65     36
D180V2, multiclass
[1] "Remove cluster labels:" "MMP13 MUTATED"         
clus
  MMP13 MUTATED MMP13 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3864      TCGA-AA-3866 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP13 MUTATED        2      3      7
  MMP13 WILD-TYPE     40    170    140
D180V3, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP13 MUTATED        4      1      6
  MMP13 WILD-TYPE     58     72     69
D180V4, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP13 MUTATED        1      7      5
  MMP13 WILD-TYPE     69    113     95
D180V5, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             7             113
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MMP13 MUTATED        1      2      1      2      0      4      3      0
  MMP13 WILD-TYPE     40     24     29     27     39     65     17     14
                 vv
clus              CLUS_9
  MMP13 MUTATED        0
  MMP13 WILD-TYPE     22
D180V6, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MMP13 MUTATED        1      6      5      1
  MMP13 WILD-TYPE     99     66     67    120
D180V7, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             5              67
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMP13 MUTATED        2      1      8      2      0
  MMP13 WILD-TYPE     57     74     66    117     38
D180V8, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMP13 MUTATED        0      7      3      1      2
  MMP13 WILD-TYPE     51     69     58     70     93
D180V9, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MMP13 MUTATED        2      5      0      3      1      2      0      0
  MMP13 WILD-TYPE     67     43     39     13     52     18     21     38
                 vv
clus              CLUS_9
  MMP13 MUTATED        0
  MMP13 WILD-TYPE     50
D180V10, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MMP13 MUTATED        1      1      1      0      3      0
  MMP13 WILD-TYPE     12     15     13     11      8      9
D180V11, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MMP13 MUTATED        0      1      0      2      1      0      2      0
  MMP13 WILD-TYPE     11      6      7      7      7      7      9      9
                 vv
clus              CLUS_9
  MMP13 MUTATED        0
  MMP13 WILD-TYPE      5
D180V12, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(181) Variable = KRT2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT2 MUTATED        1      0      0      0      0
  KRT2 WILD-TYPE     31     18     46     27     23
D181V1, multiclass
[1] "Remove cluster labels:" "KRT2 MUTATED"          
clus
  KRT2 MUTATED KRT2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AY-4071 
"KRT2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRT2 MUTATED        0      0      1
  KRT2 WILD-TYPE     43     67     35
D181V2, multiclass
[1] "Remove cluster labels:" "KRT2 MUTATED"          
clus
  KRT2 MUTATED KRT2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" "KRT2 WILD-TYPE" 
    TCGA-AY-4071 
"KRT2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRT2 MUTATED        1      5      8
  KRT2 WILD-TYPE     41    168    139
D181V3, multiclass
        clus
vv       KRT2 MUTATED KRT2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            5            168
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRT2 MUTATED        4      3      6
  KRT2 WILD-TYPE     58     70     69
D181V4, multiclass
        clus
vv       KRT2 MUTATED KRT2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRT2 MUTATED        0      6      6
  KRT2 WILD-TYPE     70    114     94
D181V5, multiclass
        clus
vv       KRT2 MUTATED KRT2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            114
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KRT2 MUTATED        5      1      0      2      0      4      0      0      0
  KRT2 WILD-TYPE     36     25     30     27     39     65     20     14     22
D181V6, multiclass
        clus
vv       KRT2 MUTATED KRT2 WILD-TYPE
  CLUS_1            5             36
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRT2 MUTATED        2      5      6      1
  KRT2 WILD-TYPE     98     67     66    120
D181V7, multiclass
        clus
vv       KRT2 MUTATED KRT2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            6             66
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT2 MUTATED        6      2      5      1      0
  KRT2 WILD-TYPE     53     73     69    118     38
D181V8, multiclass
        clus
vv       KRT2 MUTATED KRT2 WILD-TYPE
  CLUS_1            6             53
  CLUS_2            2             73
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT2 MUTATED        2      6      4      2      0
  KRT2 WILD-TYPE     49     70     57     69     95
D181V9, multiclass
        clus
vv       KRT2 MUTATED KRT2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KRT2 MUTATED        6      4      0      1      1      2      0      0      0
  KRT2 WILD-TYPE     63     44     39     15     52     18     21     38     50
D181V10, multiclass
        clus
vv       KRT2 MUTATED KRT2 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRT2 MUTATED        0      1      1      0      1      1
  KRT2 WILD-TYPE     13     15     13     11     10      8
D181V11, multiclass
        clus
vv       KRT2 MUTATED KRT2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KRT2 MUTATED        0      0      1      0      1      1      0      1      0
  KRT2 WILD-TYPE     11      7      6      9      7      6     11      8      5
D181V12, multiclass
        clus
vv       KRT2 MUTATED KRT2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(182) Variable = SLC12A6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC12A6 MUTATED        2      0      0      2      0
  SLC12A6 WILD-TYPE     30     18     46     25     23
D182V1, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC12A6 MUTATED        2      2      0
  SLC12A6 WILD-TYPE     41     65     36
D182V2, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC12A6 MUTATED        3      2     15
  SLC12A6 WILD-TYPE     39    171    132
D182V3, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               3                39
  CLUS_2               2               171
  CLUS_3              15               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC12A6 MUTATED        5      0     11
  SLC12A6 WILD-TYPE     57     73     64
D182V4, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               0                73
  CLUS_3              11                64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC12A6 MUTATED        3      7      7
  SLC12A6 WILD-TYPE     67    113     93
D182V5, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               7               113
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC12A6 MUTATED        1      1      2      2      1      5      4      1
  SLC12A6 WILD-TYPE     40     25     28     27     38     64     16     13
                   vv
clus                CLUS_9
  SLC12A6 MUTATED        0
  SLC12A6 WILD-TYPE     22
D182V6, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               4                16
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC12A6 MUTATED        3      8      6      3
  SLC12A6 WILD-TYPE     97     64     66    118
D182V7, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               8                64
  CLUS_3               6                66
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC12A6 MUTATED        1      3     12      2      2
  SLC12A6 WILD-TYPE     58     72     62    117     36
D182V8, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               3                72
  CLUS_3              12                62
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC12A6 MUTATED        1     13      0      0      5
  SLC12A6 WILD-TYPE     50     63     61     71     90
D182V9, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               1                50
  CLUS_2              13                63
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC12A6 MUTATED        2      5      0      3      4      2      0      2
  SLC12A6 WILD-TYPE     67     43     39     13     49     18     21     36
                   vv
clus                CLUS_9
  SLC12A6 MUTATED        1
  SLC12A6 WILD-TYPE     49
D182V10, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               5                43
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               4                49
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC12A6 MUTATED        0      1      1      1      3      0
  SLC12A6 WILD-TYPE     13     15     13     10      8      9
D182V11, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC12A6 MUTATED        0      0      0      1      1      0      4      0
  SLC12A6 WILD-TYPE     11      7      7      8      7      7      7      9
                   vv
clus                CLUS_9
  SLC12A6 MUTATED        0
  SLC12A6 WILD-TYPE      5
D182V12, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               4                 7
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(183) Variable = PRKCH MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCH MUTATED        1      0      1      0      0
  PRKCH WILD-TYPE     31     18     45     27     23
D183V1, multiclass
[1] "Remove cluster labels:" "PRKCH MUTATED"         
clus
  PRKCH MUTATED PRKCH WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCH MUTATED        0      1      1
  PRKCH WILD-TYPE     43     66     35
D183V2, multiclass
[1] "Remove cluster labels:" "PRKCH MUTATED"         
clus
  PRKCH MUTATED PRKCH WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" "PRKCH WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCH MUTATED        1      3      9
  PRKCH WILD-TYPE     41    170    138
D183V3, multiclass
        clus
vv       PRKCH MUTATED PRKCH WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCH MUTATED        5      2      4
  PRKCH WILD-TYPE     57     71     71
D183V4, multiclass
        clus
vv       PRKCH MUTATED PRKCH WILD-TYPE
  CLUS_1             5              57
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCH MUTATED        2      6      4
  PRKCH WILD-TYPE     68    114     96
D183V5, multiclass
        clus
vv       PRKCH MUTATED PRKCH WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCH MUTATED        3      1      1      2      0      3      0      1
  PRKCH WILD-TYPE     38     25     29     27     39     66     20     13
                 vv
clus              CLUS_9
  PRKCH MUTATED        1
  PRKCH WILD-TYPE     21
D183V6, multiclass
        clus
vv       PRKCH MUTATED PRKCH WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRKCH MUTATED        3      4      4      2
  PRKCH WILD-TYPE     97     68     68    119
D183V7, multiclass
        clus
vv       PRKCH MUTATED PRKCH WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCH MUTATED        4      1      6      2      0
  PRKCH WILD-TYPE     55     74     68    117     38
D183V8, multiclass
        clus
vv       PRKCH MUTATED PRKCH WILD-TYPE
  CLUS_1             4              55
  CLUS_2             1              74
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCH MUTATED        2      5      3      1      2
  PRKCH WILD-TYPE     49     71     58     70     93
D183V9, multiclass
        clus
vv       PRKCH MUTATED PRKCH WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCH MUTATED        2      4      3      1      2      1      0      0
  PRKCH WILD-TYPE     67     44     36     15     51     19     21     38
                 vv
clus              CLUS_9
  PRKCH MUTATED        0
  PRKCH WILD-TYPE     50
D183V10, multiclass
        clus
vv       PRKCH MUTATED PRKCH WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              44
  CLUS_3             3              36
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRKCH MUTATED        0      1      0      1      2      0
  PRKCH WILD-TYPE     13     15     14     10      9      9
D183V11, multiclass
        clus
vv       PRKCH MUTATED PRKCH WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCH MUTATED        0      1      0      1      0      0      2      0
  PRKCH WILD-TYPE     11      6      7      8      8      7      9      9
                 vv
clus              CLUS_9
  PRKCH MUTATED        0
  PRKCH WILD-TYPE      5
D183V12, multiclass
        clus
vv       PRKCH MUTATED PRKCH WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(184) Variable = TUBA4A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUBA4A MUTATED        1      0      0      0      0
  TUBA4A WILD-TYPE     31     18     46     27     23
D184V1, multiclass
[1] "Remove cluster labels:" "TUBA4A MUTATED"        
clus
  TUBA4A MUTATED TUBA4A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AY-4071 
"TUBA4A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TUBA4A MUTATED        1      0      0
  TUBA4A WILD-TYPE     42     67     36
D184V2, multiclass
[1] "Remove cluster labels:" "TUBA4A MUTATED"        
clus
  TUBA4A MUTATED TUBA4A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" "TUBA4A WILD-TYPE" 
      TCGA-AY-4071 
"TUBA4A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TUBA4A MUTATED        0      1      8
  TUBA4A WILD-TYPE     42    172    139
D184V3, multiclass
        clus
vv       TUBA4A MUTATED TUBA4A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TUBA4A MUTATED        2      1      5
  TUBA4A WILD-TYPE     60     72     70
D184V4, multiclass
        clus
vv       TUBA4A MUTATED TUBA4A WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TUBA4A MUTATED        0      2      3
  TUBA4A WILD-TYPE     70    118     97
D184V5, multiclass
        clus
vv       TUBA4A MUTATED TUBA4A WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TUBA4A MUTATED        0      1      0      1      0      3      0      0
  TUBA4A WILD-TYPE     41     25     30     28     39     66     20     14
                  vv
clus               CLUS_9
  TUBA4A MUTATED        0
  TUBA4A WILD-TYPE     22
D184V6, multiclass
        clus
vv       TUBA4A MUTATED TUBA4A WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TUBA4A MUTATED        2      4      2      1
  TUBA4A WILD-TYPE     98     68     70    120
D184V7, multiclass
        clus
vv       TUBA4A MUTATED TUBA4A WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUBA4A MUTATED        0      2      6      0      1
  TUBA4A WILD-TYPE     59     73     68    119     37
D184V8, multiclass
        clus
vv       TUBA4A MUTATED TUBA4A WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              6               68
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUBA4A MUTATED        1      6      0      1      1
  TUBA4A WILD-TYPE     50     70     61     70     94
D184V9, multiclass
        clus
vv       TUBA4A MUTATED TUBA4A WILD-TYPE
  CLUS_1              1               50
  CLUS_2              6               70
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TUBA4A MUTATED        3      2      1      1      1      0      0      1
  TUBA4A WILD-TYPE     66     46     38     15     52     20     21     37
                  vv
clus               CLUS_9
  TUBA4A MUTATED        0
  TUBA4A WILD-TYPE     50
D184V10, multiclass
        clus
vv       TUBA4A MUTATED TUBA4A WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TUBA4A MUTATED        1      0      0      0      2      0
  TUBA4A WILD-TYPE     12     16     14     11      9      9
D184V11, multiclass
        clus
vv       TUBA4A MUTATED TUBA4A WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TUBA4A MUTATED        0      0      0      0      0      0      2      1
  TUBA4A WILD-TYPE     11      7      7      9      8      7      9      8
                  vv
clus               CLUS_9
  TUBA4A MUTATED        0
  TUBA4A WILD-TYPE      5
D184V12, multiclass
        clus
vv       TUBA4A MUTATED TUBA4A WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(185) Variable = ZFC3H1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFC3H1 MUTATED        3      0      2      2      0
  ZFC3H1 WILD-TYPE     29     18     44     25     23
D185V1, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              2               44
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZFC3H1 MUTATED        4      2      1
  ZFC3H1 WILD-TYPE     39     65     35
D185V2, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZFC3H1 MUTATED        2      3     13
  ZFC3H1 WILD-TYPE     40    170    134
D185V3, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3              170
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZFC3H1 MUTATED        4      1      7
  ZFC3H1 WILD-TYPE     58     72     68
D185V4, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZFC3H1 MUTATED        1      7      8
  ZFC3H1 WILD-TYPE     69    113     92
D185V5, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              7              113
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFC3H1 MUTATED        2      0      1      3      3      4      2      1
  ZFC3H1 WILD-TYPE     39     26     29     26     36     65     18     13
                  vv
clus               CLUS_9
  ZFC3H1 MUTATED        0
  ZFC3H1 WILD-TYPE     22
D185V6, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              3               36
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFC3H1 MUTATED        1      7      4      7
  ZFC3H1 WILD-TYPE     99     65     68    114
D185V7, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              7               65
  CLUS_3              4               68
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFC3H1 MUTATED        1      2      9      3      4
  ZFC3H1 WILD-TYPE     58     73     65    116     34
D185V8, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              9               65
  CLUS_4              3              116
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFC3H1 MUTATED        1     10      1      1      6
  ZFC3H1 WILD-TYPE     50     66     60     70     89
D185V9, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2             10               66
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFC3H1 MUTATED        3      4      1      4      0      2      0      4
  ZFC3H1 WILD-TYPE     66     44     38     12     53     18     21     34
                  vv
clus               CLUS_9
  ZFC3H1 MUTATED        1
  ZFC3H1 WILD-TYPE     49
D185V10, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              4               12
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              4               34
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZFC3H1 MUTATED        0      1      0      0      3      0
  ZFC3H1 WILD-TYPE     13     15     14     11      8      9
D185V11, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFC3H1 MUTATED        1      0      0      1      0      0      2      0
  ZFC3H1 WILD-TYPE     10      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  ZFC3H1 MUTATED        0
  ZFC3H1 WILD-TYPE      5
D185V12, multiclass
        clus
vv       ZFC3H1 MUTATED ZFC3H1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(186) Variable = FRMPD4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRMPD4 MUTATED        1      0      0      1      0
  FRMPD4 WILD-TYPE     31     18     46     26     23
D186V1, multiclass
[1] "Remove cluster labels:" "FRMPD4 MUTATED"        
clus
  FRMPD4 MUTATED FRMPD4 WILD-TYPE 
               2              144 
      TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677       TCGA-A6-2678 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FRMPD4 MUTATED        2      0      0
  FRMPD4 WILD-TYPE     41     67     36
D186V2, multiclass
[1] "Remove cluster labels:" "FRMPD4 MUTATED"        
clus
  FRMPD4 MUTATED FRMPD4 WILD-TYPE 
               2              144 
      TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677       TCGA-A6-2678 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" "FRMPD4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FRMPD4 MUTATED        5     12     13
  FRMPD4 WILD-TYPE     37    161    134
D186V3, multiclass
        clus
vv       FRMPD4 MUTATED FRMPD4 WILD-TYPE
  CLUS_1              5               37
  CLUS_2             12              161
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FRMPD4 MUTATED        9      9      8
  FRMPD4 WILD-TYPE     53     64     67
D186V4, multiclass
        clus
vv       FRMPD4 MUTATED FRMPD4 WILD-TYPE
  CLUS_1              9               53
  CLUS_2              9               64
  CLUS_3              8               67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FRMPD4 MUTATED        4     12     11
  FRMPD4 WILD-TYPE     66    108     89
D186V5, multiclass
        clus
vv       FRMPD4 MUTATED FRMPD4 WILD-TYPE
  CLUS_1              4               66
  CLUS_2             12              108
  CLUS_3             11               89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FRMPD4 MUTATED        3      3      0      5      3      9      0      1
  FRMPD4 WILD-TYPE     38     23     30     24     36     60     20     13
                  vv
clus               CLUS_9
  FRMPD4 MUTATED        3
  FRMPD4 WILD-TYPE     19
D186V6, multiclass
        clus
vv       FRMPD4 MUTATED FRMPD4 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              3               23
  CLUS_3              0               30
  CLUS_4              5               24
  CLUS_5              3               36
  CLUS_6              9               60
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              3               19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FRMPD4 MUTATED       11      9      6      3
  FRMPD4 WILD-TYPE     89     63     66    118
D186V7, multiclass
        clus
vv       FRMPD4 MUTATED FRMPD4 WILD-TYPE
  CLUS_1             11               89
  CLUS_2              9               63
  CLUS_3              6               66
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRMPD4 MUTATED       10      8      8      1      2
  FRMPD4 WILD-TYPE     49     67     66    118     36
D186V8, multiclass
        clus
vv       FRMPD4 MUTATED FRMPD4 WILD-TYPE
  CLUS_1             10               49
  CLUS_2              8               67
  CLUS_3              8               66
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRMPD4 MUTATED        8      9      7      2      3
  FRMPD4 WILD-TYPE     43     67     54     69     92
D186V9, multiclass
        clus
vv       FRMPD4 MUTATED FRMPD4 WILD-TYPE
  CLUS_1              8               43
  CLUS_2              9               67
  CLUS_3              7               54
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FRMPD4 MUTATED        7      8      3      1      5      2      1      1
  FRMPD4 WILD-TYPE     62     40     36     15     48     18     20     37
                  vv
clus               CLUS_9
  FRMPD4 MUTATED        1
  FRMPD4 WILD-TYPE     49
D186V10, multiclass
        clus
vv       FRMPD4 MUTATED FRMPD4 WILD-TYPE
  CLUS_1              7               62
  CLUS_2              8               40
  CLUS_3              3               36
  CLUS_4              1               15
  CLUS_5              5               48
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FRMPD4 MUTATED        2      1      0      0      0      0
  FRMPD4 WILD-TYPE     11     15     14     11     11      9
D186V11, multiclass
        clus
vv       FRMPD4 MUTATED FRMPD4 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FRMPD4 MUTATED        1      0      0      1      0      0      0      1
  FRMPD4 WILD-TYPE     10      7      7      8      8      7     11      8
                  vv
clus               CLUS_9
  FRMPD4 MUTATED        0
  FRMPD4 WILD-TYPE      5
D186V12, multiclass
        clus
vv       FRMPD4 MUTATED FRMPD4 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(187) Variable = PRRG1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRRG1 MUTATED        0      0      0      0      0
  PRRG1 WILD-TYPE     32     18     46     27     23
D187V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRRG1 MUTATED        0      0      0
  PRRG1 WILD-TYPE     43     67     36
D187V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRRG1 MUTATED        1      2      8
  PRRG1 WILD-TYPE     41    171    139
D187V3, multiclass
        clus
vv       PRRG1 MUTATED PRRG1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRRG1 MUTATED        2      1      8
  PRRG1 WILD-TYPE     60     72     67
D187V4, multiclass
        clus
vv       PRRG1 MUTATED PRRG1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRRG1 MUTATED        2      1      6
  PRRG1 WILD-TYPE     68    119     94
D187V5, multiclass
        clus
vv       PRRG1 MUTATED PRRG1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRRG1 MUTATED        3      0      0      1      0      2      2      0
  PRRG1 WILD-TYPE     38     26     30     28     39     67     18     14
                 vv
clus              CLUS_9
  PRRG1 MUTATED        1
  PRRG1 WILD-TYPE     21
D187V6, multiclass
        clus
vv       PRRG1 MUTATED PRRG1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRRG1 MUTATED        0      6      5      0
  PRRG1 WILD-TYPE    100     66     67    121
D187V7, multiclass
        clus
vv       PRRG1 MUTATED PRRG1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             5              67
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRRG1 MUTATED        2      1      8      0      0
  PRRG1 WILD-TYPE     57     74     66    119     38
D187V8, multiclass
        clus
vv       PRRG1 MUTATED PRRG1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRRG1 MUTATED        1      8      2      0      0
  PRRG1 WILD-TYPE     50     68     59     71     95
D187V9, multiclass
        clus
vv       PRRG1 MUTATED PRRG1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             8              68
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRRG1 MUTATED        1      4      0      4      1      1      0      0
  PRRG1 WILD-TYPE     68     44     39     12     52     19     21     38
                 vv
clus              CLUS_9
  PRRG1 MUTATED        0
  PRRG1 WILD-TYPE     50
D187V10, multiclass
        clus
vv       PRRG1 MUTATED PRRG1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRRG1 MUTATED        0      1      0      1      1      0
  PRRG1 WILD-TYPE     13     15     14     10     10      9
D187V11, multiclass
        clus
vv       PRRG1 MUTATED PRRG1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRRG1 MUTATED        0      0      1      1      0      0      1      0
  PRRG1 WILD-TYPE     11      7      6      8      8      7     10      9
                 vv
clus              CLUS_9
  PRRG1 MUTATED        0
  PRRG1 WILD-TYPE      5
D187V12, multiclass
        clus
vv       PRRG1 MUTATED PRRG1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(188) Variable = PAQR5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAQR5 MUTATED        0      0      0      0      0
  PAQR5 WILD-TYPE     32     18     46     27     23
D188V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAQR5 MUTATED        0      0      0
  PAQR5 WILD-TYPE     43     67     36
D188V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAQR5 MUTATED        0      4      4
  PAQR5 WILD-TYPE     42    169    143
D188V3, multiclass
        clus
vv       PAQR5 MUTATED PAQR5 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAQR5 MUTATED        1      3      4
  PAQR5 WILD-TYPE     61     70     71
D188V4, multiclass
        clus
vv       PAQR5 MUTATED PAQR5 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAQR5 MUTATED        0      2      2
  PAQR5 WILD-TYPE     70    118     98
D188V5, multiclass
        clus
vv       PAQR5 MUTATED PAQR5 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAQR5 MUTATED        0      0      1      0      0      2      0      0
  PAQR5 WILD-TYPE     41     26     29     29     39     67     20     14
                 vv
clus              CLUS_9
  PAQR5 MUTATED        1
  PAQR5 WILD-TYPE     21
D188V6, multiclass
        clus
vv       PAQR5 MUTATED PAQR5 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAQR5 MUTATED        2      3      3      0
  PAQR5 WILD-TYPE     98     69     69    121
D188V7, multiclass
        clus
vv       PAQR5 MUTATED PAQR5 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAQR5 MUTATED        1      4      3      0      0
  PAQR5 WILD-TYPE     58     71     71    119     38
D188V8, multiclass
        clus
vv       PAQR5 MUTATED PAQR5 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAQR5 MUTATED        3      4      1      0      0
  PAQR5 WILD-TYPE     48     72     60     71     95
D188V9, multiclass
        clus
vv       PAQR5 MUTATED PAQR5 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAQR5 MUTATED        2      1      0      2      1      2      0      0
  PAQR5 WILD-TYPE     67     47     39     14     52     18     21     38
                 vv
clus              CLUS_9
  PAQR5 MUTATED        0
  PAQR5 WILD-TYPE     50
D188V10, multiclass
        clus
vv       PAQR5 MUTATED PAQR5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAQR5 MUTATED        0      0      0      0      0      0
  PAQR5 WILD-TYPE     13     16     14     11     11      9
D188V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAQR5 MUTATED        0      0      0      0      0      0      0      0
  PAQR5 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  PAQR5 MUTATED        0
  PAQR5 WILD-TYPE      5
D188V12, multiclass

Clustering(189) Variable = BIRC3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BIRC3 MUTATED        2      0      0      1      0
  BIRC3 WILD-TYPE     30     18     46     26     23
D189V1, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BIRC3 MUTATED        2      1      0
  BIRC3 WILD-TYPE     41     66     36
D189V2, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BIRC3 MUTATED        0      4      7
  BIRC3 WILD-TYPE     42    169    140
D189V3, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BIRC3 MUTATED        3      3      3
  BIRC3 WILD-TYPE     59     70     72
D189V4, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BIRC3 MUTATED        1      4      3
  BIRC3 WILD-TYPE     69    116     97
D189V5, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BIRC3 MUTATED        1      0      2      1      1      3      0      0
  BIRC3 WILD-TYPE     40     26     28     28     38     66     20     14
                 vv
clus              CLUS_9
  BIRC3 MUTATED        0
  BIRC3 WILD-TYPE     22
D189V6, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BIRC3 MUTATED        3      3      2      3
  BIRC3 WILD-TYPE     97     69     70    118
D189V7, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BIRC3 MUTATED        1      3      4      1      2
  BIRC3 WILD-TYPE     58     72     70    118     36
D189V8, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BIRC3 MUTATED        3      4      1      1      2
  BIRC3 WILD-TYPE     48     72     60     70     93
D189V9, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BIRC3 MUTATED        2      2      1      1      0      3      0      2
  BIRC3 WILD-TYPE     67     46     38     15     53     17     21     36
                 vv
clus              CLUS_9
  BIRC3 MUTATED        0
  BIRC3 WILD-TYPE     50
D189V10, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BIRC3 MUTATED        1      1      0      0      1      0
  BIRC3 WILD-TYPE     12     15     14     11     10      9
D189V11, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BIRC3 MUTATED        1      0      0      0      0      0      1      0
  BIRC3 WILD-TYPE     10      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  BIRC3 MUTATED        1
  BIRC3 WILD-TYPE      4
D189V12, multiclass
        clus
vv       BIRC3 MUTATED BIRC3 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(190) Variable = PPP1R12B MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP1R12B MUTATED        0      2      0      1      0
  PPP1R12B WILD-TYPE     32     16     46     26     23
D190V1, multiclass
        clus
vv       PPP1R12B MUTATED PPP1R12B WILD-TYPE
  CLUS_1                0                 32
  CLUS_2                2                 16
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPP1R12B MUTATED        2      0      1
  PPP1R12B WILD-TYPE     41     67     35
D190V2, multiclass
        clus
vv       PPP1R12B MUTATED PPP1R12B WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                0                 67
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPP1R12B MUTATED        1      6      5
  PPP1R12B WILD-TYPE     41    167    142
D190V3, multiclass
        clus
vv       PPP1R12B MUTATED PPP1R12B WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                6                167
  CLUS_3                5                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPP1R12B MUTATED        6      1      2
  PPP1R12B WILD-TYPE     56     72     73
D190V4, multiclass
        clus
vv       PPP1R12B MUTATED PPP1R12B WILD-TYPE
  CLUS_1                6                 56
  CLUS_2                1                 72
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPP1R12B MUTATED        2      2      6
  PPP1R12B WILD-TYPE     68    118     94
D190V5, multiclass
        clus
vv       PPP1R12B MUTATED PPP1R12B WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                2                118
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP1R12B MUTATED        1      0      0      1      2      4      2      0
  PPP1R12B WILD-TYPE     40     26     30     28     37     65     18     14
                    vv
clus                 CLUS_9
  PPP1R12B MUTATED        0
  PPP1R12B WILD-TYPE     22
D190V6, multiclass
        clus
vv       PPP1R12B MUTATED PPP1R12B WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                2                 37
  CLUS_6                4                 65
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP1R12B MUTATED        4      2      4      2
  PPP1R12B WILD-TYPE     96     70     68    119
D190V7, multiclass
        clus
vv       PPP1R12B MUTATED PPP1R12B WILD-TYPE
  CLUS_1                4                 96
  CLUS_2                2                 70
  CLUS_3                4                 68
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP1R12B MUTATED        4      3      2      2      1
  PPP1R12B WILD-TYPE     55     72     72    117     37
D190V8, multiclass
        clus
vv       PPP1R12B MUTATED PPP1R12B WILD-TYPE
  CLUS_1                4                 55
  CLUS_2                3                 72
  CLUS_3                2                 72
  CLUS_4                2                117
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP1R12B MUTATED        0      5      2      3      1
  PPP1R12B WILD-TYPE     51     71     59     68     94
D190V9, multiclass
        clus
vv       PPP1R12B MUTATED PPP1R12B WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                5                 71
  CLUS_3                2                 59
  CLUS_4                3                 68
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP1R12B MUTATED        2      4      0      1      2      0      1      0
  PPP1R12B WILD-TYPE     67     44     39     15     51     20     20     38
                    vv
clus                 CLUS_9
  PPP1R12B MUTATED        1
  PPP1R12B WILD-TYPE     49
D190V10, multiclass
        clus
vv       PPP1R12B MUTATED PPP1R12B WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                4                 44
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                2                 51
  CLUS_6                0                 20
  CLUS_7                1                 20
  CLUS_8                0                 38
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPP1R12B MUTATED        0      0      0      1      0      0
  PPP1R12B WILD-TYPE     13     16     14     10     11      9
D190V11, multiclass
[1] "Remove cluster labels:" "PPP1R12B MUTATED"      
clus
  PPP1R12B MUTATED PPP1R12B WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6676         TCGA-CM-6677 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-D5-5537         TCGA-D5-6533         TCGA-D5-6534 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-G4-6628 
"PPP1R12B WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP1R12B MUTATED        0      0      0      0      0      0      1      0
  PPP1R12B WILD-TYPE     11      7      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  PPP1R12B MUTATED        0
  PPP1R12B WILD-TYPE      5
D190V12, multiclass
[1] "Remove cluster labels:" "PPP1R12B MUTATED"      
clus
  PPP1R12B MUTATED PPP1R12B WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6676         TCGA-CM-6677 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-D5-5537         TCGA-D5-6533         TCGA-D5-6534 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" "PPP1R12B WILD-TYPE" 
        TCGA-G4-6628 
"PPP1R12B WILD-TYPE" 

Clustering(191) Variable = TFE3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TFE3 MUTATED        2      0      0      0      1
  TFE3 WILD-TYPE     30     18     46     27     22
D191V1, multiclass
        clus
vv       TFE3 MUTATED TFE3 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TFE3 MUTATED        2      0      1
  TFE3 WILD-TYPE     41     67     35
D191V2, multiclass
        clus
vv       TFE3 MUTATED TFE3 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TFE3 MUTATED        0      1     10
  TFE3 WILD-TYPE     42    172    137
D191V3, multiclass
        clus
vv       TFE3 MUTATED TFE3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TFE3 MUTATED        3      0      5
  TFE3 WILD-TYPE     59     73     70
D191V4, multiclass
        clus
vv       TFE3 MUTATED TFE3 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TFE3 MUTATED        1      3      6
  TFE3 WILD-TYPE     69    117     94
D191V5, multiclass
        clus
vv       TFE3 MUTATED TFE3 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TFE3 MUTATED        0      2      0      0      2      5      1      0      0
  TFE3 WILD-TYPE     41     24     30     29     37     64     19     14     22
D191V6, multiclass
        clus
vv       TFE3 MUTATED TFE3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            2             24
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TFE3 MUTATED        0      6      2      3
  TFE3 WILD-TYPE    100     66     70    118
D191V7, multiclass
        clus
vv       TFE3 MUTATED TFE3 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            6             66
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TFE3 MUTATED        0      0      8      1      2
  TFE3 WILD-TYPE     59     75     66    118     36
D191V8, multiclass
        clus
vv       TFE3 MUTATED TFE3 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            8             66
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TFE3 MUTATED        0      6      2      0      3
  TFE3 WILD-TYPE     51     70     59     71     92
D191V9, multiclass
        clus
vv       TFE3 MUTATED TFE3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TFE3 MUTATED        1      2      0      4      1      0      0      2      1
  TFE3 WILD-TYPE     68     46     39     12     52     20     21     36     49
D191V10, multiclass
        clus
vv       TFE3 MUTATED TFE3 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TFE3 MUTATED        0      0      0      0      1      0
  TFE3 WILD-TYPE     13     16     14     11     10      9
D191V11, multiclass
[1] "Remove cluster labels:" "TFE3 MUTATED"          
clus
  TFE3 MUTATED TFE3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-G4-6628 
"TFE3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TFE3 MUTATED        0      0      0      1      0      0      0      0      0
  TFE3 WILD-TYPE     11      7      7      8      8      7     11      9      5
D191V12, multiclass
[1] "Remove cluster labels:" "TFE3 MUTATED"          
clus
  TFE3 MUTATED TFE3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" "TFE3 WILD-TYPE" 
    TCGA-G4-6628 
"TFE3 WILD-TYPE" 

Clustering(192) Variable = ZNF473 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF473 MUTATED        3      0      1      1      0
  ZNF473 WILD-TYPE     29     18     45     26     23
D192V1, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF473 MUTATED        3      0      2
  ZNF473 WILD-TYPE     40     67     34
D192V2, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF473 MUTATED        1      4      9
  ZNF473 WILD-TYPE     41    169    138
D192V3, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF473 MUTATED        3      3      3
  ZNF473 WILD-TYPE     59     70     72
D192V4, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              3               70
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF473 MUTATED        1      4      6
  ZNF473 WILD-TYPE     69    116     94
D192V5, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF473 MUTATED        1      0      0      2      1      4      1      1
  ZNF473 WILD-TYPE     40     26     30     27     38     65     19     13
                  vv
clus               CLUS_9
  ZNF473 MUTATED        1
  ZNF473 WILD-TYPE     21
D192V6, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF473 MUTATED        3      3      3      5
  ZNF473 WILD-TYPE     97     69     69    116
D192V7, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF473 MUTATED        4      1      4      2      3
  ZNF473 WILD-TYPE     55     74     70    117     35
D192V8, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF473 MUTATED        3      4      1      3      2
  ZNF473 WILD-TYPE     48     72     60     68     93
D192V9, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF473 MUTATED        4      2      1      1      2      0      1      1
  ZNF473 WILD-TYPE     65     46     38     15     51     20     20     37
                  vv
clus               CLUS_9
  ZNF473 MUTATED        1
  ZNF473 WILD-TYPE     49
D192V10, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF473 MUTATED        0      0      1      1      1      1
  ZNF473 WILD-TYPE     13     16     13     10     10      8
D192V11, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF473 MUTATED        1      0      0      0      1      0      2      0
  ZNF473 WILD-TYPE     10      7      7      9      7      7      9      9
                  vv
clus               CLUS_9
  ZNF473 MUTATED        0
  ZNF473 WILD-TYPE      5
D192V12, multiclass
        clus
vv       ZNF473 MUTATED ZNF473 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(193) Variable = SLAMF7 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLAMF7 MUTATED        0      0      0      2      0
  SLAMF7 WILD-TYPE     32     18     46     25     23
D193V1, multiclass
[1] "Remove cluster labels:" "SLAMF7 MUTATED"        
clus
  SLAMF7 MUTATED SLAMF7 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF7 MUTATED        1      1      0
  SLAMF7 WILD-TYPE     42     66     36
D193V2, multiclass
[1] "Remove cluster labels:" "SLAMF7 MUTATED"        
clus
  SLAMF7 MUTATED SLAMF7 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF7 MUTATED        1      3      7
  SLAMF7 WILD-TYPE     41    170    140
D193V3, multiclass
        clus
vv       SLAMF7 MUTATED SLAMF7 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF7 MUTATED        5      1      3
  SLAMF7 WILD-TYPE     57     72     72
D193V4, multiclass
        clus
vv       SLAMF7 MUTATED SLAMF7 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF7 MUTATED        3      3      4
  SLAMF7 WILD-TYPE     67    117     96
D193V5, multiclass
        clus
vv       SLAMF7 MUTATED SLAMF7 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              3              117
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLAMF7 MUTATED        1      1      1      1      1      4      0      0
  SLAMF7 WILD-TYPE     40     25     29     28     38     65     20     14
                  vv
clus               CLUS_9
  SLAMF7 MUTATED        1
  SLAMF7 WILD-TYPE     21
D193V6, multiclass
        clus
vv       SLAMF7 MUTATED SLAMF7 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLAMF7 MUTATED        1      2      5      3
  SLAMF7 WILD-TYPE     99     70     67    118
D193V7, multiclass
        clus
vv       SLAMF7 MUTATED SLAMF7 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              5               67
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLAMF7 MUTATED        4      2      2      2      1
  SLAMF7 WILD-TYPE     55     73     72    117     37
D193V8, multiclass
        clus
vv       SLAMF7 MUTATED SLAMF7 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLAMF7 MUTATED        2      3      3      0      2
  SLAMF7 WILD-TYPE     49     73     58     71     93
D193V9, multiclass
        clus
vv       SLAMF7 MUTATED SLAMF7 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLAMF7 MUTATED        2      3      0      1      2      1      0      0
  SLAMF7 WILD-TYPE     67     45     39     15     51     19     21     38
                  vv
clus               CLUS_9
  SLAMF7 MUTATED        1
  SLAMF7 WILD-TYPE     49
D193V10, multiclass
        clus
vv       SLAMF7 MUTATED SLAMF7 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLAMF7 MUTATED        0      1      0      1      0      0
  SLAMF7 WILD-TYPE     13     15     14     10     11      9
D193V11, multiclass
[1] "Remove cluster labels:" "SLAMF7 MUTATED"        
clus
  SLAMF7 MUTATED SLAMF7 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-G4-6299       TCGA-G4-6303 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLAMF7 MUTATED        0      1      1      0      0      0      0      0
  SLAMF7 WILD-TYPE     11      6      6      9      8      7     11      9
                  vv
clus               CLUS_9
  SLAMF7 MUTATED        0
  SLAMF7 WILD-TYPE      5
D193V12, multiclass
[1] "Remove cluster labels:" "SLAMF7 MUTATED"        
clus
  SLAMF7 MUTATED SLAMF7 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-G4-6299       TCGA-G4-6303 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" "SLAMF7 WILD-TYPE" 

Clustering(194) Variable = SNAI2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNAI2 MUTATED        0      0      0      1      0
  SNAI2 WILD-TYPE     32     18     46     26     23
D194V1, multiclass
[1] "Remove cluster labels:" "SNAI2 MUTATED"         
clus
  SNAI2 MUTATED SNAI2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AY-4071 
"SNAI2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SNAI2 MUTATED        1      0      0
  SNAI2 WILD-TYPE     42     67     36
D194V2, multiclass
[1] "Remove cluster labels:" "SNAI2 MUTATED"         
clus
  SNAI2 MUTATED SNAI2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AY-4071 
"SNAI2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SNAI2 MUTATED        0      3      7
  SNAI2 WILD-TYPE     42    170    140
D194V3, multiclass
        clus
vv       SNAI2 MUTATED SNAI2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SNAI2 MUTATED        3      3      3
  SNAI2 WILD-TYPE     59     70     72
D194V4, multiclass
        clus
vv       SNAI2 MUTATED SNAI2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SNAI2 MUTATED        3      0      6
  SNAI2 WILD-TYPE     67    120     94
D194V5, multiclass
        clus
vv       SNAI2 MUTATED SNAI2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             0             120
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNAI2 MUTATED        2      0      0      0      1      5      0      1
  SNAI2 WILD-TYPE     39     26     30     29     38     64     20     13
                 vv
clus              CLUS_9
  SNAI2 MUTATED        0
  SNAI2 WILD-TYPE     22
D194V6, multiclass
        clus
vv       SNAI2 MUTATED SNAI2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SNAI2 MUTATED        1      5      2      2
  SNAI2 WILD-TYPE     99     67     70    119
D194V7, multiclass
        clus
vv       SNAI2 MUTATED SNAI2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNAI2 MUTATED        2      2      4      1      1
  SNAI2 WILD-TYPE     57     73     70    118     37
D194V8, multiclass
        clus
vv       SNAI2 MUTATED SNAI2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNAI2 MUTATED        2      5      1      1      0
  SNAI2 WILD-TYPE     49     71     60     70     95
D194V9, multiclass
        clus
vv       SNAI2 MUTATED SNAI2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNAI2 MUTATED        3      2      0      2      2      0      0      0
  SNAI2 WILD-TYPE     66     46     39     14     51     20     21     38
                 vv
clus              CLUS_9
  SNAI2 MUTATED        0
  SNAI2 WILD-TYPE     50
D194V10, multiclass
        clus
vv       SNAI2 MUTATED SNAI2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SNAI2 MUTATED        1      0      0      1      0      0
  SNAI2 WILD-TYPE     12     16     14     10     11      9
D194V11, multiclass
[1] "Remove cluster labels:" "SNAI2 MUTATED"         
clus
  SNAI2 MUTATED SNAI2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNAI2 MUTATED        0      0      1      1      0      0      0      0
  SNAI2 WILD-TYPE     11      7      6      8      8      7     11      9
                 vv
clus              CLUS_9
  SNAI2 MUTATED        0
  SNAI2 WILD-TYPE      5
D194V12, multiclass
[1] "Remove cluster labels:" "SNAI2 MUTATED"         
clus
  SNAI2 MUTATED SNAI2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" "SNAI2 WILD-TYPE" 

Clustering(195) Variable = B4GALNT4 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  B4GALNT4 MUTATED        1      0      0      0      0
  B4GALNT4 WILD-TYPE     31     18     46     27     23
D195V1, multiclass
[1] "Remove cluster labels:" "B4GALNT4 MUTATED"      
clus
  B4GALNT4 MUTATED B4GALNT4 WILD-TYPE 
                 1                145 
        TCGA-A6-2674         TCGA-A6-2676         TCGA-A6-2677 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-A6-2678         TCGA-A6-2683         TCGA-A6-3807 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-A6-3808         TCGA-A6-3809         TCGA-A6-3810 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3514         TCGA-AA-3516         TCGA-AA-3517 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3518         TCGA-AA-3519         TCGA-AA-3520 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AY-4071 
"B4GALNT4 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  B4GALNT4 MUTATED        1      0      0
  B4GALNT4 WILD-TYPE     42     67     36
D195V2, multiclass
[1] "Remove cluster labels:" "B4GALNT4 MUTATED"      
clus
  B4GALNT4 MUTATED B4GALNT4 WILD-TYPE 
                 1                145 
        TCGA-A6-2674         TCGA-A6-2676         TCGA-A6-2677 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-A6-2678         TCGA-A6-2683         TCGA-A6-3807 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-A6-3808         TCGA-A6-3809         TCGA-A6-3810 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3514         TCGA-AA-3516         TCGA-AA-3517 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3518         TCGA-AA-3519         TCGA-AA-3520 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" "B4GALNT4 WILD-TYPE" 
        TCGA-AY-4071 
"B4GALNT4 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  B4GALNT4 MUTATED        1      0     10
  B4GALNT4 WILD-TYPE     41    173    137
D195V3, multiclass
        clus
vv       B4GALNT4 MUTATED B4GALNT4 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                173
  CLUS_3               10                137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  B4GALNT4 MUTATED        5      0      5
  B4GALNT4 WILD-TYPE     57     73     70
D195V4, multiclass
        clus
vv       B4GALNT4 MUTATED B4GALNT4 WILD-TYPE
  CLUS_1                5                 57
  CLUS_2                0                 73
  CLUS_3                5                 70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  B4GALNT4 MUTATED        0      4      6
  B4GALNT4 WILD-TYPE     70    116     94
D195V5, multiclass
        clus
vv       B4GALNT4 MUTATED B4GALNT4 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                4                116
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  B4GALNT4 MUTATED        0      1      0      2      1      6      0      0
  B4GALNT4 WILD-TYPE     41     25     30     27     38     63     20     14
                    vv
clus                 CLUS_9
  B4GALNT4 MUTATED        0
  B4GALNT4 WILD-TYPE     22
D195V6, multiclass
        clus
vv       B4GALNT4 MUTATED B4GALNT4 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                2                 27
  CLUS_5                1                 38
  CLUS_6                6                 63
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  B4GALNT4 MUTATED        0      5      4      2
  B4GALNT4 WILD-TYPE    100     67     68    119
D195V7, multiclass
        clus
vv       B4GALNT4 MUTATED B4GALNT4 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                5                 67
  CLUS_3                4                 68
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  B4GALNT4 MUTATED        0      0      9      1      1
  B4GALNT4 WILD-TYPE     59     75     65    118     37
D195V8, multiclass
        clus
vv       B4GALNT4 MUTATED B4GALNT4 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                9                 65
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  B4GALNT4 MUTATED        0      7      2      0      2
  B4GALNT4 WILD-TYPE     51     69     59     71     93
D195V9, multiclass
        clus
vv       B4GALNT4 MUTATED B4GALNT4 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                7                 69
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  B4GALNT4 MUTATED        0      3      0      5      1      0      0      1
  B4GALNT4 WILD-TYPE     69     45     39     11     52     20     21     37
                    vv
clus                 CLUS_9
  B4GALNT4 MUTATED        1
  B4GALNT4 WILD-TYPE     49
D195V10, multiclass
        clus
vv       B4GALNT4 MUTATED B4GALNT4 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                5                 11
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  B4GALNT4 MUTATED        0      0      1      0      2      0
  B4GALNT4 WILD-TYPE     13     16     13     11      9      9
D195V11, multiclass
        clus
vv       B4GALNT4 MUTATED B4GALNT4 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                0                 16
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  B4GALNT4 MUTATED        0      0      0      1      1      0      1      0
  B4GALNT4 WILD-TYPE     11      7      7      8      7      7     10      9
                    vv
clus                 CLUS_9
  B4GALNT4 MUTATED        0
  B4GALNT4 WILD-TYPE      5
D195V12, multiclass
        clus
vv       B4GALNT4 MUTATED B4GALNT4 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(196) Variable = HIPK2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIPK2 MUTATED        2      0      0      0      0
  HIPK2 WILD-TYPE     30     18     46     27     23
D196V1, multiclass
[1] "Remove cluster labels:" "HIPK2 MUTATED"         
clus
  HIPK2 MUTATED HIPK2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3812 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIPK2 MUTATED        2      0      0
  HIPK2 WILD-TYPE     41     67     36
D196V2, multiclass
[1] "Remove cluster labels:" "HIPK2 MUTATED"         
clus
  HIPK2 MUTATED HIPK2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3812 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" "HIPK2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIPK2 MUTATED        3      8     13
  HIPK2 WILD-TYPE     39    165    134
D196V3, multiclass
        clus
vv       HIPK2 MUTATED HIPK2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             8             165
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIPK2 MUTATED        8      6      7
  HIPK2 WILD-TYPE     54     67     68
D196V4, multiclass
        clus
vv       HIPK2 MUTATED HIPK2 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             6              67
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIPK2 MUTATED        1      7     13
  HIPK2 WILD-TYPE     69    113     87
D196V5, multiclass
        clus
vv       HIPK2 MUTATED HIPK2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             7             113
  CLUS_3            13              87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIPK2 MUTATED        2      1      1      1      3     10      2      0
  HIPK2 WILD-TYPE     39     25     29     28     36     59     18     14
                 vv
clus              CLUS_9
  HIPK2 MUTATED        1
  HIPK2 WILD-TYPE     21
D196V6, multiclass
        clus
vv       HIPK2 MUTATED HIPK2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6            10              59
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIPK2 MUTATED        4     11      6      3
  HIPK2 WILD-TYPE     96     61     66    118
D196V7, multiclass
        clus
vv       HIPK2 MUTATED HIPK2 WILD-TYPE
  CLUS_1             4              96
  CLUS_2            11              61
  CLUS_3             6              66
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIPK2 MUTATED        4      4     13      1      2
  HIPK2 WILD-TYPE     55     71     61    118     36
D196V8, multiclass
        clus
vv       HIPK2 MUTATED HIPK2 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             4              71
  CLUS_3            13              61
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIPK2 MUTATED        2     13      4      2      3
  HIPK2 WILD-TYPE     49     63     57     69     92
D196V9, multiclass
        clus
vv       HIPK2 MUTATED HIPK2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2            13              63
  CLUS_3             4              57
  CLUS_4             2              69
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIPK2 MUTATED       10      4      1      2      2      2      0      2
  HIPK2 WILD-TYPE     59     44     38     14     51     18     21     36
                 vv
clus              CLUS_9
  HIPK2 MUTATED        1
  HIPK2 WILD-TYPE     49
D196V10, multiclass
        clus
vv       HIPK2 MUTATED HIPK2 WILD-TYPE
  CLUS_1            10              59
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIPK2 MUTATED        1      1      1      1      0      1
  HIPK2 WILD-TYPE     12     15     13     10     11      8
D196V11, multiclass
        clus
vv       HIPK2 MUTATED HIPK2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIPK2 MUTATED        1      1      1      0      0      0      1      1
  HIPK2 WILD-TYPE     10      6      6      9      8      7     10      8
                 vv
clus              CLUS_9
  HIPK2 MUTATED        0
  HIPK2 WILD-TYPE      5
D196V12, multiclass
        clus
vv       HIPK2 MUTATED HIPK2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(197) Variable = SHROOM4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SHROOM4 MUTATED        4      0      0      1      0
  SHROOM4 WILD-TYPE     28     18     46     26     23
D197V1, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SHROOM4 MUTATED        4      0      1
  SHROOM4 WILD-TYPE     39     67     35
D197V2, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SHROOM4 MUTATED        2      3     15
  SHROOM4 WILD-TYPE     40    170    132
D197V3, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               3               170
  CLUS_3              15               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SHROOM4 MUTATED        1      6      9
  SHROOM4 WILD-TYPE     61     67     66
D197V4, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               6                67
  CLUS_3               9                66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SHROOM4 MUTATED        2      6      9
  SHROOM4 WILD-TYPE     68    114     91
D197V5, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               6               114
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SHROOM4 MUTATED        1      3      0      2      2      5      3      0
  SHROOM4 WILD-TYPE     40     23     30     27     37     64     17     14
                   vv
clus                CLUS_9
  SHROOM4 MUTATED        1
  SHROOM4 WILD-TYPE     21
D197V6, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               3                23
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               2                37
  CLUS_6               5                64
  CLUS_7               3                17
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SHROOM4 MUTATED        6      7      3      5
  SHROOM4 WILD-TYPE     94     65     69    116
D197V7, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               6                94
  CLUS_2               7                65
  CLUS_3               3                69
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SHROOM4 MUTATED        3      4      9      1      4
  SHROOM4 WILD-TYPE     56     71     65    118     34
D197V8, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               4                71
  CLUS_3               9                65
  CLUS_4               1               118
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SHROOM4 MUTATED        1     11      1      5      2
  SHROOM4 WILD-TYPE     50     65     60     66     93
D197V9, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               1                50
  CLUS_2              11                65
  CLUS_3               1                60
  CLUS_4               5                66
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SHROOM4 MUTATED        4      2      2      7      3      0      0      2
  SHROOM4 WILD-TYPE     65     46     37      9     50     20     21     36
                   vv
clus                CLUS_9
  SHROOM4 MUTATED        0
  SHROOM4 WILD-TYPE     50
D197V10, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               2                46
  CLUS_3               2                37
  CLUS_4               7                 9
  CLUS_5               3                50
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SHROOM4 MUTATED        1      0      0      2      2      0
  SHROOM4 WILD-TYPE     12     16     14      9      9      9
D197V11, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               2                 9
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SHROOM4 MUTATED        0      0      1      1      1      0      1      1
  SHROOM4 WILD-TYPE     11      7      6      8      7      7     10      8
                   vv
clus                CLUS_9
  SHROOM4 MUTATED        0
  SHROOM4 WILD-TYPE      5
D197V12, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(198) Variable = DDX43 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX43 MUTATED        1      0      0      0      0
  DDX43 WILD-TYPE     31     18     46     27     23
D198V1, multiclass
[1] "Remove cluster labels:" "DDX43 MUTATED"         
clus
  DDX43 MUTATED DDX43 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AY-4071 
"DDX43 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX43 MUTATED        1      0      0
  DDX43 WILD-TYPE     42     67     36
D198V2, multiclass
[1] "Remove cluster labels:" "DDX43 MUTATED"         
clus
  DDX43 MUTATED DDX43 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" "DDX43 WILD-TYPE" 
     TCGA-AY-4071 
"DDX43 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX43 MUTATED        1      1      8
  DDX43 WILD-TYPE     41    172    139
D198V3, multiclass
        clus
vv       DDX43 MUTATED DDX43 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX43 MUTATED        6      1      3
  DDX43 WILD-TYPE     56     72     72
D198V4, multiclass
        clus
vv       DDX43 MUTATED DDX43 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX43 MUTATED        1      2      8
  DDX43 WILD-TYPE     69    118     92
D198V5, multiclass
        clus
vv       DDX43 MUTATED DDX43 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX43 MUTATED        1      1      0      0      0      6      1      2
  DDX43 WILD-TYPE     40     25     30     29     39     63     19     12
                 vv
clus              CLUS_9
  DDX43 MUTATED        0
  DDX43 WILD-TYPE     22
D198V6, multiclass
        clus
vv       DDX43 MUTATED DDX43 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDX43 MUTATED        1      5      3      2
  DDX43 WILD-TYPE     99     67     69    119
D198V7, multiclass
        clus
vv       DDX43 MUTATED DDX43 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX43 MUTATED        2      2      5      1      1
  DDX43 WILD-TYPE     57     73     69    118     37
D198V8, multiclass
        clus
vv       DDX43 MUTATED DDX43 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX43 MUTATED        0      4      3      1      3
  DDX43 WILD-TYPE     51     72     58     70     92
D198V9, multiclass
        clus
vv       DDX43 MUTATED DDX43 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX43 MUTATED        2      2      0      3      1      0      0      1
  DDX43 WILD-TYPE     67     46     39     13     52     20     21     37
                 vv
clus              CLUS_9
  DDX43 MUTATED        2
  DDX43 WILD-TYPE     48
D198V10, multiclass
        clus
vv       DDX43 MUTATED DDX43 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDX43 MUTATED        0      1      1      1      3      0
  DDX43 WILD-TYPE     13     15     13     10      8      9
D198V11, multiclass
        clus
vv       DDX43 MUTATED DDX43 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX43 MUTATED        0      0      0      2      1      2      1      0
  DDX43 WILD-TYPE     11      7      7      7      7      5     10      9
                 vv
clus              CLUS_9
  DDX43 MUTATED        0
  DDX43 WILD-TYPE      5
D198V12, multiclass
        clus
vv       DDX43 MUTATED DDX43 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             2               5
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(199) Variable = LHCGR MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LHCGR MUTATED        1      1      1      1      0
  LHCGR WILD-TYPE     31     17     45     26     23
D199V1, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             1              31
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LHCGR MUTATED        1      2      1
  LHCGR WILD-TYPE     42     65     35
D199V2, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LHCGR MUTATED        3      8     12
  LHCGR WILD-TYPE     39    165    135
D199V3, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             3              39
  CLUS_2             8             165
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LHCGR MUTATED        7      4      9
  LHCGR WILD-TYPE     55     69     66
D199V4, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             7              55
  CLUS_2             4              69
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LHCGR MUTATED        4      9      8
  LHCGR WILD-TYPE     66    111     92
D199V5, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             4              66
  CLUS_2             9             111
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LHCGR MUTATED        5      2      2      2      2      5      2      1
  LHCGR WILD-TYPE     36     24     28     27     37     64     18     13
                 vv
clus              CLUS_9
  LHCGR MUTATED        0
  LHCGR WILD-TYPE     22
D199V6, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             5              36
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LHCGR MUTATED        7      5      9      3
  LHCGR WILD-TYPE     93     67     63    118
D199V7, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             7              93
  CLUS_2             5              67
  CLUS_3             9              63
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LHCGR MUTATED        6      8      5      4      1
  LHCGR WILD-TYPE     53     67     69    115     37
D199V8, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             6              53
  CLUS_2             8              67
  CLUS_3             5              69
  CLUS_4             4             115
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LHCGR MUTATED        7      7      6      1      3
  LHCGR WILD-TYPE     44     69     55     70     92
D199V9, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             7              44
  CLUS_2             7              69
  CLUS_3             6              55
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LHCGR MUTATED        4      5      3      2      5      0      2      1
  LHCGR WILD-TYPE     65     43     36     14     48     20     19     37
                 vv
clus              CLUS_9
  LHCGR MUTATED        2
  LHCGR WILD-TYPE     48
D199V10, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             4              65
  CLUS_2             5              43
  CLUS_3             3              36
  CLUS_4             2              14
  CLUS_5             5              48
  CLUS_6             0              20
  CLUS_7             2              19
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LHCGR MUTATED        1      1      0      1      3      1
  LHCGR WILD-TYPE     12     15     14     10      8      8
D199V11, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LHCGR MUTATED        1      1      1      1      1      0      1      0
  LHCGR WILD-TYPE     10      6      6      8      7      7     10      9
                 vv
clus              CLUS_9
  LHCGR MUTATED        1
  LHCGR WILD-TYPE      4
D199V12, multiclass
        clus
vv       LHCGR MUTATED LHCGR WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(200) Variable = USP34 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP34 MUTATED        4      1      1      1      1
  USP34 WILD-TYPE     28     17     45     26     22
D200V1, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP34 MUTATED        5      1      2
  USP34 WILD-TYPE     38     66     34
D200V2, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP34 MUTATED        4     10     27
  USP34 WILD-TYPE     38    163    120
D200V3, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             4              38
  CLUS_2            10             163
  CLUS_3            27             120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP34 MUTATED       11      6     17
  USP34 WILD-TYPE     51     67     58
D200V4, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1            11              51
  CLUS_2             6              67
  CLUS_3            17              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP34 MUTATED        6     10     20
  USP34 WILD-TYPE     64    110     80
D200V5, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             6              64
  CLUS_2            10             110
  CLUS_3            20              80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP34 MUTATED        5      1      1      7      4     15      2      1
  USP34 WILD-TYPE     36     25     29     22     35     54     18     13
                 vv
clus              CLUS_9
  USP34 MUTATED        0
  USP34 WILD-TYPE     22
D200V6, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             5              36
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             7              22
  CLUS_5             4              35
  CLUS_6            15              54
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP34 MUTATED        5     17     13      7
  USP34 WILD-TYPE     95     55     59    114
D200V7, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             5              95
  CLUS_2            17              55
  CLUS_3            13              59
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP34 MUTATED        5      5     23      4      5
  USP34 WILD-TYPE     54     70     51    115     33
D200V8, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             5              70
  CLUS_3            23              51
  CLUS_4             4             115
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP34 MUTATED        3     23      5      5      5
  USP34 WILD-TYPE     48     53     56     66     90
D200V9, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             3              48
  CLUS_2            23              53
  CLUS_3             5              56
  CLUS_4             5              66
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP34 MUTATED        9     10      1     11      2      1      0      4
  USP34 WILD-TYPE     60     38     38      5     51     19     21     34
                 vv
clus              CLUS_9
  USP34 MUTATED        3
  USP34 WILD-TYPE     47
D200V10, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             9              60
  CLUS_2            10              38
  CLUS_3             1              38
  CLUS_4            11               5
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USP34 MUTATED        1      2      1      2      7      1
  USP34 WILD-TYPE     12     14     13      9      4      8
D200V11, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             2               9
  CLUS_5             7               4
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP34 MUTATED        0      1      2      4      1      1      4      1
  USP34 WILD-TYPE     11      6      5      5      7      6      7      8
                 vv
clus              CLUS_9
  USP34 MUTATED        0
  USP34 WILD-TYPE      5
D200V12, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             2               5
  CLUS_4             4               5
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             4               7
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(201) Variable = ERCC5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC5 MUTATED        2      0      0      1      0
  ERCC5 WILD-TYPE     30     18     46     26     23
D201V1, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC5 MUTATED        3      0      0
  ERCC5 WILD-TYPE     40     67     36
D201V2, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC5 MUTATED        1      5     13
  ERCC5 WILD-TYPE     41    168    134
D201V3, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC5 MUTATED        3      5      9
  ERCC5 WILD-TYPE     59     68     66
D201V4, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             5              68
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC5 MUTATED        3      9      6
  ERCC5 WILD-TYPE     67    111     94
D201V5, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             9             111
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC5 MUTATED        0      2      1      3      3      6      1      0
  ERCC5 WILD-TYPE     41     24     29     26     36     63     19     14
                 vv
clus              CLUS_9
  ERCC5 MUTATED        2
  ERCC5 WILD-TYPE     20
D201V6, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERCC5 MUTATED        5     10      2      3
  ERCC5 WILD-TYPE     95     62     70    118
D201V7, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             5              95
  CLUS_2            10              62
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC5 MUTATED        2      7      8      0      3
  ERCC5 WILD-TYPE     57     68     66    119     35
D201V8, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             7              68
  CLUS_3             8              66
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC5 MUTATED        2      7      1      5      4
  ERCC5 WILD-TYPE     49     69     60     66     91
D201V9, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             5              66
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC5 MUTATED        5      3      2      2      2      1      0      3
  ERCC5 WILD-TYPE     64     45     37     14     51     19     21     35
                 vv
clus              CLUS_9
  ERCC5 MUTATED        1
  ERCC5 WILD-TYPE     49
D201V10, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             3              45
  CLUS_3             2              37
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERCC5 MUTATED        3      1      2      0      1      0
  ERCC5 WILD-TYPE     10     15     12     11     10      9
D201V11, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             3              10
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC5 MUTATED        0      1      0      2      0      1      0      1
  ERCC5 WILD-TYPE     11      6      7      7      8      6     11      8
                 vv
clus              CLUS_9
  ERCC5 MUTATED        2
  ERCC5 WILD-TYPE      3
D201V12, multiclass
        clus
vv       ERCC5 MUTATED ERCC5 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             2               3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(202) Variable = HIST1H1T MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1T MUTATED        0      0      0      0      0
  HIST1H1T WILD-TYPE     32     18     46     27     23
D202V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1T MUTATED        0      0      0
  HIST1H1T WILD-TYPE     43     67     36
D202V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1T MUTATED        0      5      4
  HIST1H1T WILD-TYPE     42    168    143
D202V3, multiclass
        clus
vv       HIST1H1T MUTATED HIST1H1T WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                5                168
  CLUS_3                4                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1T MUTATED        2      3      4
  HIST1H1T WILD-TYPE     60     70     71
D202V4, multiclass
        clus
vv       HIST1H1T MUTATED HIST1H1T WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                3                 70
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1T MUTATED        2      2      4
  HIST1H1T WILD-TYPE     68    118     96
D202V5, multiclass
        clus
vv       HIST1H1T MUTATED HIST1H1T WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                2                118
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1T MUTATED        2      0      0      1      0      2      1      1
  HIST1H1T WILD-TYPE     39     26     30     28     39     67     19     13
                    vv
clus                 CLUS_9
  HIST1H1T MUTATED        1
  HIST1H1T WILD-TYPE     21
D202V6, multiclass
        clus
vv       HIST1H1T MUTATED HIST1H1T WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                2                 67
  CLUS_7                1                 19
  CLUS_8                1                 13
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST1H1T MUTATED        2      4      3      0
  HIST1H1T WILD-TYPE     98     68     69    121
D202V7, multiclass
        clus
vv       HIST1H1T MUTATED HIST1H1T WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                4                 68
  CLUS_3                3                 69
  CLUS_4                0                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1T MUTATED        1      3      5      0      0
  HIST1H1T WILD-TYPE     58     72     69    119     38
D202V8, multiclass
        clus
vv       HIST1H1T MUTATED HIST1H1T WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                3                 72
  CLUS_3                5                 69
  CLUS_4                0                119
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1T MUTATED        1      3      3      2      0
  HIST1H1T WILD-TYPE     50     73     58     69     95
D202V9, multiclass
        clus
vv       HIST1H1T MUTATED HIST1H1T WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                3                 73
  CLUS_3                3                 58
  CLUS_4                2                 69
  CLUS_5                0                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1T MUTATED        3      2      1      2      1      0      0      0
  HIST1H1T WILD-TYPE     66     46     38     14     52     20     21     38
                    vv
clus                 CLUS_9
  HIST1H1T MUTATED        0
  HIST1H1T WILD-TYPE     50
D202V10, multiclass
        clus
vv       HIST1H1T MUTATED HIST1H1T WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                2                 46
  CLUS_3                1                 38
  CLUS_4                2                 14
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIST1H1T MUTATED        1      0      1      1      0      0
  HIST1H1T WILD-TYPE     12     16     13     10     11      9
D202V11, multiclass
        clus
vv       HIST1H1T MUTATED HIST1H1T WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                0                 16
  CLUS_3                1                 13
  CLUS_4                1                 10
  CLUS_5                0                 11
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1T MUTATED        0      0      1      0      1      0      0      1
  HIST1H1T WILD-TYPE     11      7      6      9      7      7     11      8
                    vv
clus                 CLUS_9
  HIST1H1T MUTATED        0
  HIST1H1T WILD-TYPE      5
D202V12, multiclass
        clus
vv       HIST1H1T MUTATED HIST1H1T WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                1                  6
  CLUS_4                0                  9
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                0                 11
  CLUS_8                1                  8
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(203) Variable = RBPJ MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBPJ MUTATED        2      0      1      0      0
  RBPJ WILD-TYPE     30     18     45     27     23
D203V1, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBPJ MUTATED        2      1      0
  RBPJ WILD-TYPE     41     66     36
D203V2, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBPJ MUTATED        2      4      8
  RBPJ WILD-TYPE     40    169    139
D203V3, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            2             40
  CLUS_2            4            169
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBPJ MUTATED        3      4      6
  RBPJ WILD-TYPE     59     69     69
D203V4, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            3             59
  CLUS_2            4             69
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBPJ MUTATED        3      6      6
  RBPJ WILD-TYPE     67    114     94
D203V5, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            3             67
  CLUS_2            6            114
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBPJ MUTATED        4      1      1      0      1      3      2      2      1
  RBPJ WILD-TYPE     37     25     29     29     38     66     18     12     21
D203V6, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            4             37
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            2             18
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBPJ MUTATED        3      3      6      3
  RBPJ WILD-TYPE     97     69     66    118
D203V7, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            3             97
  CLUS_2            3             69
  CLUS_3            6             66
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBPJ MUTATED        4      3      5      1      2
  RBPJ WILD-TYPE     55     72     69    118     36
D203V8, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            4             55
  CLUS_2            3             72
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBPJ MUTATED        2      5      5      1      2
  RBPJ WILD-TYPE     49     71     56     70     93
D203V9, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            2             49
  CLUS_2            5             71
  CLUS_3            5             56
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBPJ MUTATED        5      4      1      1      1      0      0      2      1
  RBPJ WILD-TYPE     64     44     38     15     52     20     21     36     49
D203V10, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            5             64
  CLUS_2            4             44
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBPJ MUTATED        0      1      2      1      1      2
  RBPJ WILD-TYPE     13     15     12     10     10      7
D203V11, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBPJ MUTATED        2      0      1      1      1      1      1      0      0
  RBPJ WILD-TYPE      9      7      6      8      7      6     10      9      5
D203V12, multiclass
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(204) Variable = ADAM28 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAM28 MUTATED        2      0      0      1      0
  ADAM28 WILD-TYPE     30     18     46     26     23
D204V1, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM28 MUTATED        2      0      1
  ADAM28 WILD-TYPE     41     67     35
D204V2, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM28 MUTATED        1      5     11
  ADAM28 WILD-TYPE     41    168    136
D204V3, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM28 MUTATED        6      4      4
  ADAM28 WILD-TYPE     56     69     71
D204V4, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              4               69
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM28 MUTATED        2      6      6
  ADAM28 WILD-TYPE     68    114     94
D204V5, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              6              114
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAM28 MUTATED        0      1      0      1      2      7      1      0
  ADAM28 WILD-TYPE     41     25     30     28     37     62     19     14
                  vv
clus               CLUS_9
  ADAM28 MUTATED        2
  ADAM28 WILD-TYPE     20
D204V6, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAM28 MUTATED        5      5      3      4
  ADAM28 WILD-TYPE     95     67     69    117
D204V7, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              5               67
  CLUS_3              3               69
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAM28 MUTATED        2      4      7      2      2
  ADAM28 WILD-TYPE     57     71     67    117     36
D204V8, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              7               67
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAM28 MUTATED        2      4      4      3      3
  ADAM28 WILD-TYPE     49     72     57     68     92
D204V9, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              4               72
  CLUS_3              4               57
  CLUS_4              3               68
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAM28 MUTATED        4      3      1      2      3      0      0      2
  ADAM28 WILD-TYPE     65     45     38     14     50     20     21     36
                  vv
clus               CLUS_9
  ADAM28 MUTATED        1
  ADAM28 WILD-TYPE     49
D204V10, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADAM28 MUTATED        1      1      1      0      0      0
  ADAM28 WILD-TYPE     12     15     13     11     11      9
D204V11, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAM28 MUTATED        2      0      0      1      0      0      0      0
  ADAM28 WILD-TYPE      9      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  ADAM28 MUTATED        0
  ADAM28 WILD-TYPE      5
D204V12, multiclass
        clus
vv       ADAM28 MUTATED ADAM28 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(205) Variable = KDM5B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM5B MUTATED        5      0      0      2      0
  KDM5B WILD-TYPE     27     18     46     25     23
D205V1, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5B MUTATED        5      1      1
  KDM5B WILD-TYPE     38     66     35
D205V2, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5B MUTATED        5      3     15
  KDM5B WILD-TYPE     37    170    132
D205V3, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             5              37
  CLUS_2             3             170
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5B MUTATED        4      3     10
  KDM5B WILD-TYPE     58     70     65
D205V4, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5B MUTATED        2     10      7
  KDM5B WILD-TYPE     68    110     93
D205V5, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             2              68
  CLUS_2            10             110
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM5B MUTATED        3      1      1      2      4      2      4      1
  KDM5B WILD-TYPE     38     25     29     27     35     67     16     13
                 vv
clus              CLUS_9
  KDM5B MUTATED        1
  KDM5B WILD-TYPE     21
D205V6, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             4              35
  CLUS_6             2              67
  CLUS_7             4              16
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM5B MUTATED        5      5      5      8
  KDM5B WILD-TYPE     95     67     67    113
D205V7, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             5              95
  CLUS_2             5              67
  CLUS_3             5              67
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM5B MUTATED        2      6      7      3      5
  KDM5B WILD-TYPE     57     69     67    116     33
D205V8, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             2              57
  CLUS_2             6              69
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM5B MUTATED        2      7      2      6      6
  KDM5B WILD-TYPE     49     69     59     65     89
D205V9, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             2              59
  CLUS_4             6              65
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM5B MUTATED        4      2      1      3      4      2      2      4
  KDM5B WILD-TYPE     65     46     38     13     49     18     19     34
                 vv
clus              CLUS_9
  KDM5B MUTATED        1
  KDM5B WILD-TYPE     49
D205V10, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             4              65
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             4              49
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KDM5B MUTATED        2      0      2      0      2      0
  KDM5B WILD-TYPE     11     16     12     11      9      9
D205V11, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             2              11
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM5B MUTATED        1      0      0      1      1      0      1      1
  KDM5B WILD-TYPE     10      7      7      8      7      7     10      8
                 vv
clus              CLUS_9
  KDM5B MUTATED        1
  KDM5B WILD-TYPE      4
D205V12, multiclass
        clus
vv       KDM5B MUTATED KDM5B WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(206) Variable = RAG1AP1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAG1AP1 MUTATED        1      0      0      0      0
  RAG1AP1 WILD-TYPE     31     18     46     27     23
D206V1, multiclass
[1] "Remove cluster labels:" "RAG1AP1 MUTATED"       
clus
  RAG1AP1 MUTATED RAG1AP1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AY-4071 
"RAG1AP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAG1AP1 MUTATED        1      0      0
  RAG1AP1 WILD-TYPE     42     67     36
D206V2, multiclass
[1] "Remove cluster labels:" "RAG1AP1 MUTATED"       
clus
  RAG1AP1 MUTATED RAG1AP1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AY-4071 
"RAG1AP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAG1AP1 MUTATED        0      2      3
  RAG1AP1 WILD-TYPE     42    171    144
D206V3, multiclass
        clus
vv       RAG1AP1 MUTATED RAG1AP1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAG1AP1 MUTATED        1      2      2
  RAG1AP1 WILD-TYPE     61     71     73
D206V4, multiclass
        clus
vv       RAG1AP1 MUTATED RAG1AP1 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               2                71
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAG1AP1 MUTATED        0      0      5
  RAG1AP1 WILD-TYPE     70    120     95
D206V5, multiclass
        clus
vv       RAG1AP1 MUTATED RAG1AP1 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               0               120
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAG1AP1 MUTATED        1      0      0      0      0      2      2      0
  RAG1AP1 WILD-TYPE     40     26     30     29     39     67     18     14
                   vv
clus                CLUS_9
  RAG1AP1 MUTATED        0
  RAG1AP1 WILD-TYPE     22
D206V6, multiclass
        clus
vv       RAG1AP1 MUTATED RAG1AP1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAG1AP1 MUTATED        1      2      2      1
  RAG1AP1 WILD-TYPE     99     70     70    120
D206V7, multiclass
        clus
vv       RAG1AP1 MUTATED RAG1AP1 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAG1AP1 MUTATED        1      1      3      0      1
  RAG1AP1 WILD-TYPE     58     74     71    119     37
D206V8, multiclass
        clus
vv       RAG1AP1 MUTATED RAG1AP1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAG1AP1 MUTATED        1      3      1      0      1
  RAG1AP1 WILD-TYPE     50     73     60     71     94
D206V9, multiclass
        clus
vv       RAG1AP1 MUTATED RAG1AP1 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAG1AP1 MUTATED        0      2      0      2      0      1      0      1
  RAG1AP1 WILD-TYPE     69     46     39     14     53     19     21     37
                   vv
clus                CLUS_9
  RAG1AP1 MUTATED        0
  RAG1AP1 WILD-TYPE     50
D206V10, multiclass
        clus
vv       RAG1AP1 MUTATED RAG1AP1 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAG1AP1 MUTATED        0      0      0      1      1      0
  RAG1AP1 WILD-TYPE     13     16     14     10     10      9
D206V11, multiclass
[1] "Remove cluster labels:" "RAG1AP1 MUTATED"       
clus
  RAG1AP1 MUTATED RAG1AP1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6654 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAG1AP1 MUTATED        0      0      1      1      0      0      0      0
  RAG1AP1 WILD-TYPE     11      7      6      8      8      7     11      9
                   vv
clus                CLUS_9
  RAG1AP1 MUTATED        0
  RAG1AP1 WILD-TYPE      5
D206V12, multiclass
[1] "Remove cluster labels:" "RAG1AP1 MUTATED"       
clus
  RAG1AP1 MUTATED RAG1AP1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6654 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" "RAG1AP1 WILD-TYPE" 

Clustering(207) Variable = CNIH4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNIH4 MUTATED        0      0      0      0      0
  CNIH4 WILD-TYPE     32     18     46     27     23
D207V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNIH4 MUTATED        0      0      0
  CNIH4 WILD-TYPE     43     67     36
D207V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNIH4 MUTATED        0      4      2
  CNIH4 WILD-TYPE     42    169    145
D207V3, multiclass
        clus
vv       CNIH4 MUTATED CNIH4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNIH4 MUTATED        3      1      2
  CNIH4 WILD-TYPE     59     72     73
D207V4, multiclass
        clus
vv       CNIH4 MUTATED CNIH4 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNIH4 MUTATED        0      1      4
  CNIH4 WILD-TYPE     70    119     96
D207V5, multiclass
        clus
vv       CNIH4 MUTATED CNIH4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNIH4 MUTATED        0      0      0      1      1      3      0      0
  CNIH4 WILD-TYPE     41     26     30     28     38     66     20     14
                 vv
clus              CLUS_9
  CNIH4 MUTATED        0
  CNIH4 WILD-TYPE     22
D207V6, multiclass
        clus
vv       CNIH4 MUTATED CNIH4 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CNIH4 MUTATED        2      0      4      0
  CNIH4 WILD-TYPE     98     72     68    121
D207V7, multiclass
        clus
vv       CNIH4 MUTATED CNIH4 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             0              72
  CLUS_3             4              68
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNIH4 MUTATED        3      1      2      0      0
  CNIH4 WILD-TYPE     56     74     72    119     38
D207V8, multiclass
        clus
vv       CNIH4 MUTATED CNIH4 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNIH4 MUTATED        1      2      2      1      0
  CNIH4 WILD-TYPE     50     74     59     70     95
D207V9, multiclass
        clus
vv       CNIH4 MUTATED CNIH4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNIH4 MUTATED        0      2      0      0      3      1      0      0
  CNIH4 WILD-TYPE     69     46     39     16     50     19     21     38
                 vv
clus              CLUS_9
  CNIH4 MUTATED        0
  CNIH4 WILD-TYPE     50
D207V10, multiclass
        clus
vv       CNIH4 MUTATED CNIH4 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CNIH4 MUTATED        1      1      1      1      0      0
  CNIH4 WILD-TYPE     12     15     13     10     11      9
D207V11, multiclass
        clus
vv       CNIH4 MUTATED CNIH4 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNIH4 MUTATED        0      1      0      0      1      1      0      0
  CNIH4 WILD-TYPE     11      6      7      9      7      6     11      9
                 vv
clus              CLUS_9
  CNIH4 MUTATED        1
  CNIH4 WILD-TYPE      4
D207V12, multiclass
        clus
vv       CNIH4 MUTATED CNIH4 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(208) Variable = TRIM13 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM13 MUTATED        2      0      1      0      0
  TRIM13 WILD-TYPE     30     18     45     27     23
D208V1, multiclass
        clus
vv       TRIM13 MUTATED TRIM13 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM13 MUTATED        2      1      0
  TRIM13 WILD-TYPE     41     66     36
D208V2, multiclass
        clus
vv       TRIM13 MUTATED TRIM13 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM13 MUTATED        0      4      3
  TRIM13 WILD-TYPE     42    169    144
D208V3, multiclass
        clus
vv       TRIM13 MUTATED TRIM13 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM13 MUTATED        0      2      2
  TRIM13 WILD-TYPE     62     71     73
D208V4, multiclass
        clus
vv       TRIM13 MUTATED TRIM13 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM13 MUTATED        0      3      1
  TRIM13 WILD-TYPE     70    117     99
D208V5, multiclass
        clus
vv       TRIM13 MUTATED TRIM13 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM13 MUTATED        0      0      2      0      0      1      1      0
  TRIM13 WILD-TYPE     41     26     28     29     39     68     19     14
                  vv
clus               CLUS_9
  TRIM13 MUTATED        0
  TRIM13 WILD-TYPE     22
D208V6, multiclass
        clus
vv       TRIM13 MUTATED TRIM13 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM13 MUTATED        2      2      0      3
  TRIM13 WILD-TYPE     98     70     72    118
D208V7, multiclass
        clus
vv       TRIM13 MUTATED TRIM13 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              0               72
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM13 MUTATED        0      4      0      1      2
  TRIM13 WILD-TYPE     59     71     74    118     36
D208V8, multiclass
        clus
vv       TRIM13 MUTATED TRIM13 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              4               71
  CLUS_3              0               74
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM13 MUTATED        4      0      0      0      3
  TRIM13 WILD-TYPE     47     76     61     71     92
D208V9, multiclass
        clus
vv       TRIM13 MUTATED TRIM13 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              0               76
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM13 MUTATED        0      0      0      0      1      3      0      3
  TRIM13 WILD-TYPE     69     48     39     16     52     17     21     35
                  vv
clus               CLUS_9
  TRIM13 MUTATED        0
  TRIM13 WILD-TYPE     50
D208V10, multiclass
        clus
vv       TRIM13 MUTATED TRIM13 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              3               17
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM13 MUTATED        0      0      0      0      0      0
  TRIM13 WILD-TYPE     13     16     14     11     11      9
D208V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM13 MUTATED        0      0      0      0      0      0      0      0
  TRIM13 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  TRIM13 MUTATED        0
  TRIM13 WILD-TYPE      5
D208V12, multiclass

Clustering(209) Variable = SNTN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNTN MUTATED        0      0      0      0      0
  SNTN WILD-TYPE     32     18     46     27     23
D209V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNTN MUTATED        0      0      0
  SNTN WILD-TYPE     43     67     36
D209V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNTN MUTATED        1      3      2
  SNTN WILD-TYPE     41    170    145
D209V3, multiclass
        clus
vv       SNTN MUTATED SNTN WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNTN MUTATED        0      2      4
  SNTN WILD-TYPE     62     71     71
D209V4, multiclass
        clus
vv       SNTN MUTATED SNTN WILD-TYPE
  CLUS_1            0             62
  CLUS_2            2             71
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNTN MUTATED        0      6      0
  SNTN WILD-TYPE     70    114    100
D209V5, multiclass
        clus
vv       SNTN MUTATED SNTN WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            114
  CLUS_3            0            100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SNTN MUTATED        0      1      0      2      0      0      0      2      1
  SNTN WILD-TYPE     41     25     30     27     39     69     20     12     21
D209V6, multiclass
        clus
vv       SNTN MUTATED SNTN WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            0             69
  CLUS_7            0             20
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SNTN MUTATED        3      2      1      0
  SNTN WILD-TYPE     97     70     71    121
D209V7, multiclass
        clus
vv       SNTN MUTATED SNTN WILD-TYPE
  CLUS_1            3             97
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNTN MUTATED        1      2      3      0      0
  SNTN WILD-TYPE     58     73     71    119     38
D209V8, multiclass
        clus
vv       SNTN MUTATED SNTN WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNTN MUTATED        2      1      1      2      0
  SNTN WILD-TYPE     49     75     60     69     95
D209V9, multiclass
        clus
vv       SNTN MUTATED SNTN WILD-TYPE
  CLUS_1            2             49
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SNTN MUTATED        2      0      1      1      2      0      0      0      0
  SNTN WILD-TYPE     67     48     38     15     51     20     21     38     50
D209V10, multiclass
        clus
vv       SNTN MUTATED SNTN WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SNTN MUTATED        0      0      0      1      1      0
  SNTN WILD-TYPE     13     16     14     10     10      9
D209V11, multiclass
[1] "Remove cluster labels:" "SNTN MUTATED"          
clus
  SNTN MUTATED SNTN WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A282     TCGA-DM-A285 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SNTN MUTATED        0      0      0      1      0      0      0      1      0
  SNTN WILD-TYPE     11      7      7      8      8      7     11      8      5
D209V12, multiclass
[1] "Remove cluster labels:" "SNTN MUTATED"          
clus
  SNTN MUTATED SNTN WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A282     TCGA-DM-A285 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" "SNTN WILD-TYPE" 

Clustering(210) Variable = SLC28A2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC28A2 MUTATED        1      0      1      0      0
  SLC28A2 WILD-TYPE     31     18     45     27     23
D210V1, multiclass
[1] "Remove cluster labels:" "SLC28A2 MUTATED"       
clus
  SLC28A2 MUTATED SLC28A2 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02H 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC28A2 MUTATED        1      1      0
  SLC28A2 WILD-TYPE     42     66     36
D210V2, multiclass
[1] "Remove cluster labels:" "SLC28A2 MUTATED"       
clus
  SLC28A2 MUTATED SLC28A2 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02H 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC28A2 MUTATED        0      3     10
  SLC28A2 WILD-TYPE     42    170    137
D210V3, multiclass
        clus
vv       SLC28A2 MUTATED SLC28A2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3              10               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC28A2 MUTATED        4      2      5
  SLC28A2 WILD-TYPE     58     71     70
D210V4, multiclass
        clus
vv       SLC28A2 MUTATED SLC28A2 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               2                71
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC28A2 MUTATED        2      4      6
  SLC28A2 WILD-TYPE     68    116     94
D210V5, multiclass
        clus
vv       SLC28A2 MUTATED SLC28A2 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               4               116
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC28A2 MUTATED        1      1      1      1      1      5      1      0
  SLC28A2 WILD-TYPE     40     25     29     28     38     64     19     14
                   vv
clus                CLUS_9
  SLC28A2 MUTATED        1
  SLC28A2 WILD-TYPE     21
D210V6, multiclass
        clus
vv       SLC28A2 MUTATED SLC28A2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC28A2 MUTATED        2      5      5      1
  SLC28A2 WILD-TYPE     98     67     67    120
D210V7, multiclass
        clus
vv       SLC28A2 MUTATED SLC28A2 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               5                67
  CLUS_3               5                67
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC28A2 MUTATED        2      4      5      2      0
  SLC28A2 WILD-TYPE     57     71     69    117     38
D210V8, multiclass
        clus
vv       SLC28A2 MUTATED SLC28A2 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               4                71
  CLUS_3               5                69
  CLUS_4               2               117
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC28A2 MUTATED        2      7      2      1      1
  SLC28A2 WILD-TYPE     49     69     59     70     94
D210V9, multiclass
        clus
vv       SLC28A2 MUTATED SLC28A2 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               7                69
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC28A2 MUTATED        2      4      0      2      1      2      1      0
  SLC28A2 WILD-TYPE     67     44     39     14     52     18     20     38
                   vv
clus                CLUS_9
  SLC28A2 MUTATED        1
  SLC28A2 WILD-TYPE     49
D210V10, multiclass
        clus
vv       SLC28A2 MUTATED SLC28A2 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               2                18
  CLUS_7               1                20
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC28A2 MUTATED        0      0      1      0      1      0
  SLC28A2 WILD-TYPE     13     16     13     11     10      9
D210V11, multiclass
[1] "Remove cluster labels:" "SLC28A2 MUTATED"       
clus
  SLC28A2 MUTATED SLC28A2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6676 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC28A2 MUTATED        0      0      0      0      0      1      1      0
  SLC28A2 WILD-TYPE     11      7      7      9      8      6     10      9
                   vv
clus                CLUS_9
  SLC28A2 MUTATED        0
  SLC28A2 WILD-TYPE      5
D210V12, multiclass
[1] "Remove cluster labels:" "SLC28A2 MUTATED"       
clus
  SLC28A2 MUTATED SLC28A2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6676 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" "SLC28A2 WILD-TYPE" 

Clustering(211) Variable = OR2M3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2M3 MUTATED        1      0      0      0      0
  OR2M3 WILD-TYPE     31     18     46     27     23
D211V1, multiclass
[1] "Remove cluster labels:" "OR2M3 MUTATED"         
clus
  OR2M3 MUTATED OR2M3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3950 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AY-4071 
"OR2M3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2M3 MUTATED        1      0      0
  OR2M3 WILD-TYPE     42     67     36
D211V2, multiclass
[1] "Remove cluster labels:" "OR2M3 MUTATED"         
clus
  OR2M3 MUTATED OR2M3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3950 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" "OR2M3 WILD-TYPE" 
     TCGA-AY-4071 
"OR2M3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2M3 MUTATED        2      4      9
  OR2M3 WILD-TYPE     40    169    138
D211V3, multiclass
        clus
vv       OR2M3 MUTATED OR2M3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4             169
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2M3 MUTATED        8      3      2
  OR2M3 WILD-TYPE     54     70     73
D211V4, multiclass
        clus
vv       OR2M3 MUTATED OR2M3 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2M3 MUTATED        2      1     10
  OR2M3 WILD-TYPE     68    119     90
D211V5, multiclass
        clus
vv       OR2M3 MUTATED OR2M3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2M3 MUTATED        1      0      1      1      0      8      1      0
  OR2M3 WILD-TYPE     40     26     29     28     39     61     19     14
                 vv
clus              CLUS_9
  OR2M3 MUTATED        1
  OR2M3 WILD-TYPE     21
D211V6, multiclass
        clus
vv       OR2M3 MUTATED OR2M3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             8              61
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2M3 MUTATED        3      3      7      2
  OR2M3 WILD-TYPE     97     69     65    119
D211V7, multiclass
        clus
vv       OR2M3 MUTATED OR2M3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             7              65
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2M3 MUTATED        6      3      4      0      2
  OR2M3 WILD-TYPE     53     72     70    119     36
D211V8, multiclass
        clus
vv       OR2M3 MUTATED OR2M3 WILD-TYPE
  CLUS_1             6              53
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2M3 MUTATED        1      4      5      1      4
  OR2M3 WILD-TYPE     50     72     56     70     91
D211V9, multiclass
        clus
vv       OR2M3 MUTATED OR2M3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             5              56
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2M3 MUTATED        4      5      0      1      0      1      1      2
  OR2M3 WILD-TYPE     65     43     39     15     53     19     20     36
                 vv
clus              CLUS_9
  OR2M3 MUTATED        1
  OR2M3 WILD-TYPE     49
D211V10, multiclass
        clus
vv       OR2M3 MUTATED OR2M3 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR2M3 MUTATED        0      1      1      0      1      1
  OR2M3 WILD-TYPE     13     15     13     11     10      8
D211V11, multiclass
        clus
vv       OR2M3 MUTATED OR2M3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2M3 MUTATED        0      1      0      0      0      0      2      1
  OR2M3 WILD-TYPE     11      6      7      9      8      7      9      8
                 vv
clus              CLUS_9
  OR2M3 MUTATED        0
  OR2M3 WILD-TYPE      5
D211V12, multiclass
        clus
vv       OR2M3 MUTATED OR2M3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(212) Variable = MLL3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL3 MUTATED        6      1      1      1      1
  MLL3 WILD-TYPE     26     17     45     26     22
D212V1, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            1             17
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL3 MUTATED        7      1      2
  MLL3 WILD-TYPE     36     66     34
D212V2, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1            7             36
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL3 MUTATED        1     25     32
  MLL3 WILD-TYPE     41    148    115
D212V3, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2           25            148
  CLUS_3           32            115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL3 MUTATED       16     15     17
  MLL3 WILD-TYPE     46     58     58
D212V4, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1           16             46
  CLUS_2           15             58
  CLUS_3           17             58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL3 MUTATED        5     24     18
  MLL3 WILD-TYPE     65     96     82
D212V5, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1            5             65
  CLUS_2           24             96
  CLUS_3           18             82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL3 MUTATED        7      4      3      8      4     13      3      2      3
  MLL3 WILD-TYPE     34     22     27     21     35     56     17     12     19
D212V6, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1            7             34
  CLUS_2            4             22
  CLUS_3            3             27
  CLUS_4            8             21
  CLUS_5            4             35
  CLUS_6           13             56
  CLUS_7            3             17
  CLUS_8            2             12
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLL3 MUTATED       15     18     14     11
  MLL3 WILD-TYPE     85     54     58    110
D212V7, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1           15             85
  CLUS_2           18             54
  CLUS_3           14             58
  CLUS_4           11            110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL3 MUTATED       12     13     21      5      7
  MLL3 WILD-TYPE     47     62     53    114     31
D212V8, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1           12             47
  CLUS_2           13             62
  CLUS_3           21             53
  CLUS_4            5            114
  CLUS_5            7             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL3 MUTATED       14     17     11      6      9
  MLL3 WILD-TYPE     37     59     50     65     86
D212V9, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1           14             37
  CLUS_2           17             59
  CLUS_3           11             50
  CLUS_4            6             65
  CLUS_5            9             86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL3 MUTATED       15     13      1      7      7      3      2      5      4
  MLL3 WILD-TYPE     54     35     38      9     46     17     19     33     46
D212V10, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1           15             54
  CLUS_2           13             35
  CLUS_3            1             38
  CLUS_4            7              9
  CLUS_5            7             46
  CLUS_6            3             17
  CLUS_7            2             19
  CLUS_8            5             33
  CLUS_9            4             46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MLL3 MUTATED        2      2      6      0      2      1
  MLL3 WILD-TYPE     11     14      8     11      9      8
D212V11, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            2             14
  CLUS_3            6              8
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL3 MUTATED        0      2      1      1      4      2      1      1      1
  MLL3 WILD-TYPE     11      5      6      8      4      5     10      8      4
D212V12, multiclass
        clus
vv       MLL3 MUTATED MLL3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            2              5
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            4              4
  CLUS_6            2              5
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(213) Variable = FIGNL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FIGNL1 MUTATED        3      0      0      1      0
  FIGNL1 WILD-TYPE     29     18     46     26     23
D213V1, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FIGNL1 MUTATED        2      1      1
  FIGNL1 WILD-TYPE     41     66     35
D213V2, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FIGNL1 MUTATED        1      3     12
  FIGNL1 WILD-TYPE     41    170    135
D213V3, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FIGNL1 MUTATED        5      2      5
  FIGNL1 WILD-TYPE     57     71     70
D213V4, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FIGNL1 MUTATED        1      5      7
  FIGNL1 WILD-TYPE     69    115     93
D213V5, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FIGNL1 MUTATED        3      1      1      1      0      3      3      1
  FIGNL1 WILD-TYPE     38     25     29     28     39     66     17     13
                  vv
clus               CLUS_9
  FIGNL1 MUTATED        0
  FIGNL1 WILD-TYPE     22
D213V6, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              3               17
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FIGNL1 MUTATED        1      6      4      5
  FIGNL1 WILD-TYPE     99     66     68    116
D213V7, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              6               66
  CLUS_3              4               68
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FIGNL1 MUTATED        4      3      4      3      2
  FIGNL1 WILD-TYPE     55     72     70    116     36
D213V8, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              3               72
  CLUS_3              4               70
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FIGNL1 MUTATED        2      4      4      1      5
  FIGNL1 WILD-TYPE     49     72     57     70     90
D213V9, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              4               72
  CLUS_3              4               57
  CLUS_4              1               70
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FIGNL1 MUTATED        0      5      0      3      1      4      0      1
  FIGNL1 WILD-TYPE     69     43     39     13     52     16     21     37
                  vv
clus               CLUS_9
  FIGNL1 MUTATED        2
  FIGNL1 WILD-TYPE     48
D213V10, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              5               43
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              4               16
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FIGNL1 MUTATED        0      0      0      1      0      0
  FIGNL1 WILD-TYPE     13     16     14     10     11      9
D213V11, multiclass
[1] "Remove cluster labels:" "FIGNL1 MUTATED"        
clus
  FIGNL1 MUTATED FIGNL1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-G4-6628 
"FIGNL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FIGNL1 MUTATED        0      0      1      0      0      0      0      0
  FIGNL1 WILD-TYPE     11      7      6      9      8      7     11      9
                  vv
clus               CLUS_9
  FIGNL1 MUTATED        0
  FIGNL1 WILD-TYPE      5
D213V12, multiclass
[1] "Remove cluster labels:" "FIGNL1 MUTATED"        
clus
  FIGNL1 MUTATED FIGNL1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" "FIGNL1 WILD-TYPE" 
      TCGA-G4-6628 
"FIGNL1 WILD-TYPE" 

Clustering(214) Variable = COLEC10 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COLEC10 MUTATED        2      0      0      0      0
  COLEC10 WILD-TYPE     30     18     46     27     23
D214V1, multiclass
[1] "Remove cluster labels:" "COLEC10 MUTATED"       
clus
  COLEC10 MUTATED COLEC10 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COLEC10 MUTATED        2      0      0
  COLEC10 WILD-TYPE     41     67     36
D214V2, multiclass
[1] "Remove cluster labels:" "COLEC10 MUTATED"       
clus
  COLEC10 MUTATED COLEC10 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COLEC10 MUTATED        1      5      2
  COLEC10 WILD-TYPE     41    168    145
D214V3, multiclass
        clus
vv       COLEC10 MUTATED COLEC10 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               5               168
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COLEC10 MUTATED        1      4      1
  COLEC10 WILD-TYPE     61     69     74
D214V4, multiclass
        clus
vv       COLEC10 MUTATED COLEC10 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               4                69
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COLEC10 MUTATED        1      3      2
  COLEC10 WILD-TYPE     69    117     98
D214V5, multiclass
        clus
vv       COLEC10 MUTATED COLEC10 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COLEC10 MUTATED        0      0      0      1      2      2      0      0
  COLEC10 WILD-TYPE     41     26     30     28     37     67     20     14
                   vv
clus                CLUS_9
  COLEC10 MUTATED        1
  COLEC10 WILD-TYPE     21
D214V6, multiclass
        clus
vv       COLEC10 MUTATED COLEC10 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COLEC10 MUTATED        3      0      2      3
  COLEC10 WILD-TYPE     97     72     70    118
D214V7, multiclass
        clus
vv       COLEC10 MUTATED COLEC10 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               0                72
  CLUS_3               2                70
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COLEC10 MUTATED        3      1      1      1      2
  COLEC10 WILD-TYPE     56     74     73    118     36
D214V8, multiclass
        clus
vv       COLEC10 MUTATED COLEC10 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               1                74
  CLUS_3               1                73
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COLEC10 MUTATED        4      0      1      1      2
  COLEC10 WILD-TYPE     47     76     60     70     93
D214V9, multiclass
        clus
vv       COLEC10 MUTATED COLEC10 WILD-TYPE
  CLUS_1               4                47
  CLUS_2               0                76
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COLEC10 MUTATED        0      0      1      0      4      0      0      2
  COLEC10 WILD-TYPE     69     48     38     16     49     20     21     36
                   vv
clus                CLUS_9
  COLEC10 MUTATED        1
  COLEC10 WILD-TYPE     49
D214V10, multiclass
        clus
vv       COLEC10 MUTATED COLEC10 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               0                48
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               4                49
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  COLEC10 MUTATED        0      0      0      0      1      0
  COLEC10 WILD-TYPE     13     16     14     11     10      9
D214V11, multiclass
[1] "Remove cluster labels:" "COLEC10 MUTATED"       
clus
  COLEC10 MUTATED COLEC10 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A282 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-G4-6628 
"COLEC10 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COLEC10 MUTATED        0      0      0      1      0      0      0      0
  COLEC10 WILD-TYPE     11      7      7      8      8      7     11      9
                   vv
clus                CLUS_9
  COLEC10 MUTATED        0
  COLEC10 WILD-TYPE      5
D214V12, multiclass
[1] "Remove cluster labels:" "COLEC10 MUTATED"       
clus
  COLEC10 MUTATED COLEC10 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A282 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" "COLEC10 WILD-TYPE" 
       TCGA-G4-6628 
"COLEC10 WILD-TYPE" 

Clustering(215) Variable = MYEOV MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYEOV MUTATED        1      0      0      0      0
  MYEOV WILD-TYPE     31     18     46     27     23
D215V1, multiclass
[1] "Remove cluster labels:" "MYEOV MUTATED"         
clus
  MYEOV MUTATED MYEOV WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00F      TCGA-AA-A00J 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AY-4071 
"MYEOV WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYEOV MUTATED        1      0      0
  MYEOV WILD-TYPE     42     67     36
D215V2, multiclass
[1] "Remove cluster labels:" "MYEOV MUTATED"         
clus
  MYEOV MUTATED MYEOV WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00F      TCGA-AA-A00J 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AY-4071 
"MYEOV WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYEOV MUTATED        0      1      5
  MYEOV WILD-TYPE     42    172    142
D215V3, multiclass
        clus
vv       MYEOV MUTATED MYEOV WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYEOV MUTATED        1      1      3
  MYEOV WILD-TYPE     61     72     72
D215V4, multiclass
        clus
vv       MYEOV MUTATED MYEOV WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYEOV MUTATED        0      3      3
  MYEOV WILD-TYPE     70    117     97
D215V5, multiclass
        clus
vv       MYEOV MUTATED MYEOV WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYEOV MUTATED        0      1      1      0      0      2      1      0
  MYEOV WILD-TYPE     41     25     29     29     39     67     19     14
                 vv
clus              CLUS_9
  MYEOV MUTATED        1
  MYEOV WILD-TYPE     21
D215V6, multiclass
        clus
vv       MYEOV MUTATED MYEOV WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYEOV MUTATED        0      3      2      1
  MYEOV WILD-TYPE    100     69     70    120
D215V7, multiclass
        clus
vv       MYEOV MUTATED MYEOV WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYEOV MUTATED        1      0      4      0      1
  MYEOV WILD-TYPE     58     75     70    119     37
D215V8, multiclass
        clus
vv       MYEOV MUTATED MYEOV WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYEOV MUTATED        1      4      0      0      0
  MYEOV WILD-TYPE     50     72     61     71     95
D215V9, multiclass
        clus
vv       MYEOV MUTATED MYEOV WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYEOV MUTATED        1      1      0      3      0      0      0      0
  MYEOV WILD-TYPE     68     47     39     13     53     20     21     38
                 vv
clus              CLUS_9
  MYEOV MUTATED        0
  MYEOV WILD-TYPE     50
D215V10, multiclass
        clus
vv       MYEOV MUTATED MYEOV WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MYEOV MUTATED        0      0      0      0      1      0
  MYEOV WILD-TYPE     13     16     14     11     10      9
D215V11, multiclass
[1] "Remove cluster labels:" "MYEOV MUTATED"         
clus
  MYEOV MUTATED MYEOV WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-G4-6628 
"MYEOV WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYEOV MUTATED        0      0      0      1      0      0      0      0
  MYEOV WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  MYEOV MUTATED        0
  MYEOV WILD-TYPE      5
D215V12, multiclass
[1] "Remove cluster labels:" "MYEOV MUTATED"         
clus
  MYEOV MUTATED MYEOV WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" "MYEOV WILD-TYPE" 
     TCGA-G4-6628 
"MYEOV WILD-TYPE" 

Clustering(216) Variable = EFHC2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFHC2 MUTATED        2      0      0      1      0
  EFHC2 WILD-TYPE     30     18     46     26     23
D216V1, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFHC2 MUTATED        3      0      0
  EFHC2 WILD-TYPE     40     67     36
D216V2, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFHC2 MUTATED        1      4     10
  EFHC2 WILD-TYPE     41    169    137
D216V3, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFHC2 MUTATED        4      3      5
  EFHC2 WILD-TYPE     58     70     70
D216V4, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFHC2 MUTATED        2      3      7
  EFHC2 WILD-TYPE     68    117     93
D216V5, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFHC2 MUTATED        3      0      1      0      1      4      1      1
  EFHC2 WILD-TYPE     38     26     29     29     38     65     19     13
                 vv
clus              CLUS_9
  EFHC2 MUTATED        1
  EFHC2 WILD-TYPE     21
D216V6, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EFHC2 MUTATED        3      5      4      3
  EFHC2 WILD-TYPE     97     67     68    118
D216V7, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFHC2 MUTATED        3      4      5      0      3
  EFHC2 WILD-TYPE     56     71     69    119     35
D216V8, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             4              71
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFHC2 MUTATED        4      5      1      0      4
  EFHC2 WILD-TYPE     47     71     60     71     91
D216V9, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFHC2 MUTATED        4      3      1      1      0      1      1      2
  EFHC2 WILD-TYPE     65     45     38     15     53     19     20     36
                 vv
clus              CLUS_9
  EFHC2 MUTATED        1
  EFHC2 WILD-TYPE     49
D216V10, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EFHC2 MUTATED        0      1      0      0      1      1
  EFHC2 WILD-TYPE     13     15     14     11     10      8
D216V11, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFHC2 MUTATED        1      0      0      0      0      0      2      0
  EFHC2 WILD-TYPE     10      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  EFHC2 MUTATED        0
  EFHC2 WILD-TYPE      5
D216V12, multiclass
        clus
vv       EFHC2 MUTATED EFHC2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(217) Variable = MYL1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYL1 MUTATED        0      0      1      0      0
  MYL1 WILD-TYPE     32     18     45     27     23
D217V1, multiclass
[1] "Remove cluster labels:" "MYL1 MUTATED"          
clus
  MYL1 MUTATED MYL1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AY-4071 
"MYL1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYL1 MUTATED        0      1      0
  MYL1 WILD-TYPE     43     66     36
D217V2, multiclass
[1] "Remove cluster labels:" "MYL1 MUTATED"          
clus
  MYL1 MUTATED MYL1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AY-4071 
"MYL1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYL1 MUTATED        1      6      1
  MYL1 WILD-TYPE     41    167    146
D217V3, multiclass
        clus
vv       MYL1 MUTATED MYL1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            6            167
  CLUS_3            1            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYL1 MUTATED        1      5      1
  MYL1 WILD-TYPE     61     68     74
D217V4, multiclass
        clus
vv       MYL1 MUTATED MYL1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            5             68
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYL1 MUTATED        0      3      3
  MYL1 WILD-TYPE     70    117     97
D217V5, multiclass
        clus
vv       MYL1 MUTATED MYL1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYL1 MUTATED        0      0      0      0      0      3      0      2      1
  MYL1 WILD-TYPE     41     26     30     29     39     66     20     12     21
D217V6, multiclass
        clus
vv       MYL1 MUTATED MYL1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYL1 MUTATED        5      1      1      1
  MYL1 WILD-TYPE     95     71     71    120
D217V7, multiclass
        clus
vv       MYL1 MUTATED MYL1 WILD-TYPE
  CLUS_1            5             95
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYL1 MUTATED        4      2      1      1      0
  MYL1 WILD-TYPE     55     73     73    118     38
D217V8, multiclass
        clus
vv       MYL1 MUTATED MYL1 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            2             73
  CLUS_3            1             73
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYL1 MUTATED        4      1      2      1      0
  MYL1 WILD-TYPE     47     75     59     70     95
D217V9, multiclass
        clus
vv       MYL1 MUTATED MYL1 WILD-TYPE
  CLUS_1            4             47
  CLUS_2            1             75
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYL1 MUTATED        1      2      2      0      1      1      0      0      1
  MYL1 WILD-TYPE     68     46     37     16     52     19     21     38     49
D217V10, multiclass
        clus
vv       MYL1 MUTATED MYL1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            2             37
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MYL1 MUTATED        0      0      0      0      1      0
  MYL1 WILD-TYPE     13     16     14     11     10      9
D217V11, multiclass
[1] "Remove cluster labels:" "MYL1 MUTATED"          
clus
  MYL1 MUTATED MYL1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-G4-6628 
"MYL1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYL1 MUTATED        0      0      0      0      0      0      1      0      0
  MYL1 WILD-TYPE     11      7      7      9      8      7     10      9      5
D217V12, multiclass
[1] "Remove cluster labels:" "MYL1 MUTATED"          
clus
  MYL1 MUTATED MYL1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" "MYL1 WILD-TYPE" 
    TCGA-G4-6628 
"MYL1 WILD-TYPE" 

Clustering(218) Variable = C12ORF5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF5 MUTATED        0      0      0      0      0
  C12ORF5 WILD-TYPE     32     18     46     27     23
D218V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C12ORF5 MUTATED        0      0      0
  C12ORF5 WILD-TYPE     43     67     36
D218V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C12ORF5 MUTATED        0      4      2
  C12ORF5 WILD-TYPE     42    169    145
D218V3, multiclass
        clus
vv       C12ORF5 MUTATED C12ORF5 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               4               169
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C12ORF5 MUTATED        2      2      2
  C12ORF5 WILD-TYPE     60     71     73
D218V4, multiclass
        clus
vv       C12ORF5 MUTATED C12ORF5 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               2                71
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C12ORF5 MUTATED        1      1      4
  C12ORF5 WILD-TYPE     69    119     96
D218V5, multiclass
        clus
vv       C12ORF5 MUTATED C12ORF5 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF5 MUTATED        0      0      0      0      0      3      1      0
  C12ORF5 WILD-TYPE     41     26     30     29     39     66     19     14
                   vv
clus                CLUS_9
  C12ORF5 MUTATED        2
  C12ORF5 WILD-TYPE     20
D218V6, multiclass
        clus
vv       C12ORF5 MUTATED C12ORF5 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               2                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C12ORF5 MUTATED        3      2      1      0
  C12ORF5 WILD-TYPE     97     70     71    121
D218V7, multiclass
        clus
vv       C12ORF5 MUTATED C12ORF5 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               2                70
  CLUS_3               1                71
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF5 MUTATED        1      5      0      0      0
  C12ORF5 WILD-TYPE     58     70     74    119     38
D218V8, multiclass
        clus
vv       C12ORF5 MUTATED C12ORF5 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               5                70
  CLUS_3               0                74
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF5 MUTATED        3      1      0      1      1
  C12ORF5 WILD-TYPE     48     75     61     70     94
D218V9, multiclass
        clus
vv       C12ORF5 MUTATED C12ORF5 WILD-TYPE
  CLUS_1               3                48
  CLUS_2               1                75
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF5 MUTATED        1      0      1      0      2      1      0      0
  C12ORF5 WILD-TYPE     68     48     38     16     51     19     21     38
                   vv
clus                CLUS_9
  C12ORF5 MUTATED        1
  C12ORF5 WILD-TYPE     49
D218V10, multiclass
        clus
vv       C12ORF5 MUTATED C12ORF5 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               0                48
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C12ORF5 MUTATED        1      0      0      0      0      0
  C12ORF5 WILD-TYPE     12     16     14     11     11      9
D218V11, multiclass
[1] "Remove cluster labels:" "C12ORF5 MUTATED"       
clus
  C12ORF5 MUTATED C12ORF5 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6309        TCGA-G4-6625 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-G4-6628 
"C12ORF5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF5 MUTATED        0      0      0      1      0      0      0      0
  C12ORF5 WILD-TYPE     11      7      7      8      8      7     11      9
                   vv
clus                CLUS_9
  C12ORF5 MUTATED        0
  C12ORF5 WILD-TYPE      5
D218V12, multiclass
[1] "Remove cluster labels:" "C12ORF5 MUTATED"       
clus
  C12ORF5 MUTATED C12ORF5 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6309        TCGA-G4-6625 
"C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" "C12ORF5 WILD-TYPE" 
       TCGA-G4-6628 
"C12ORF5 WILD-TYPE" 

Clustering(219) Variable = ZNF280B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF280B MUTATED        3      0      0      1      0
  ZNF280B WILD-TYPE     29     18     46     26     23
D219V1, multiclass
        clus
vv       ZNF280B MUTATED ZNF280B WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF280B MUTATED        2      1      1
  ZNF280B WILD-TYPE     41     66     35
D219V2, multiclass
        clus
vv       ZNF280B MUTATED ZNF280B WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF280B MUTATED        2      1      9
  ZNF280B WILD-TYPE     40    172    138
D219V3, multiclass
        clus
vv       ZNF280B MUTATED ZNF280B WILD-TYPE
  CLUS_1               2                40
  CLUS_2               1               172
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF280B MUTATED        3      1      4
  ZNF280B WILD-TYPE     59     72     71
D219V4, multiclass
        clus
vv       ZNF280B MUTATED ZNF280B WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF280B MUTATED        0      4      5
  ZNF280B WILD-TYPE     70    116     95
D219V5, multiclass
        clus
vv       ZNF280B MUTATED ZNF280B WILD-TYPE
  CLUS_1               0                70
  CLUS_2               4               116
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF280B MUTATED        1      0      1      1      1      2      1      2
  ZNF280B WILD-TYPE     40     26     29     28     38     67     19     12
                   vv
clus                CLUS_9
  ZNF280B MUTATED        0
  ZNF280B WILD-TYPE     22
D219V6, multiclass
        clus
vv       ZNF280B MUTATED ZNF280B WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               1                19
  CLUS_8               2                12
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF280B MUTATED        2      2      4      4
  ZNF280B WILD-TYPE     98     70     68    117
D219V7, multiclass
        clus
vv       ZNF280B MUTATED ZNF280B WILD-TYPE
  CLUS_1               2                98
  CLUS_2               2                70
  CLUS_3               4                68
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF280B MUTATED        2      3      3      2      2
  ZNF280B WILD-TYPE     57     72     71    117     36
D219V8, multiclass
        clus
vv       ZNF280B MUTATED ZNF280B WILD-TYPE
  CLUS_1               2                57
  CLUS_2               3                72
  CLUS_3               3                71
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF280B MUTATED        2      1      4      2      3
  ZNF280B WILD-TYPE     49     75     57     69     92
D219V9, multiclass
        clus
vv       ZNF280B MUTATED ZNF280B WILD-TYPE
  CLUS_1               2                49
  CLUS_2               1                75
  CLUS_3               4                57
  CLUS_4               2                69
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF280B MUTATED        0      2      2      1      3      2      1      1
  ZNF280B WILD-TYPE     69     46     37     15     50     18     20     37
                   vv
clus                CLUS_9
  ZNF280B MUTATED        0
  ZNF280B WILD-TYPE     50
D219V10, multiclass
        clus
vv       ZNF280B MUTATED ZNF280B WILD-TYPE
  CLUS_1               0                69
  CLUS_2               2                46
  CLUS_3               2                37
  CLUS_4               1                15
  CLUS_5               3                50
  CLUS_6               2                18
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF280B MUTATED        0      0      1      1      0      0
  ZNF280B WILD-TYPE     13     16     13     10     11      9
D219V11, multiclass
[1] "Remove cluster labels:" "ZNF280B MUTATED"       
clus
  ZNF280B MUTATED ZNF280B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6303 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF280B MUTATED        0      0      0      0      1      1      0      0
  ZNF280B WILD-TYPE     11      7      7      9      7      6     11      9
                   vv
clus                CLUS_9
  ZNF280B MUTATED        0
  ZNF280B WILD-TYPE      5
D219V12, multiclass
[1] "Remove cluster labels:" "ZNF280B MUTATED"       
clus
  ZNF280B MUTATED ZNF280B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6303 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" "ZNF280B WILD-TYPE" 

Clustering(220) Variable = MIER3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIER3 MUTATED        6      0      0      3      0
  MIER3 WILD-TYPE     26     18     46     24     23
D220V1, multiclass
        clus
vv       MIER3 MUTATED MIER3 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIER3 MUTATED        7      1      1
  MIER3 WILD-TYPE     36     66     35
D220V2, multiclass
        clus
vv       MIER3 MUTATED MIER3 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIER3 MUTATED        0      0     13
  MIER3 WILD-TYPE     42    173    134
D220V3, multiclass
        clus
vv       MIER3 MUTATED MIER3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIER3 MUTATED        1      0      2
  MIER3 WILD-TYPE     61     73     73
D220V4, multiclass
        clus
vv       MIER3 MUTATED MIER3 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIER3 MUTATED        1      7      2
  MIER3 WILD-TYPE     69    113     98
D220V5, multiclass
        clus
vv       MIER3 MUTATED MIER3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             7             113
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MIER3 MUTATED        0      0      2      2      3      2      0      0
  MIER3 WILD-TYPE     41     26     28     27     36     67     20     14
                 vv
clus              CLUS_9
  MIER3 MUTATED        1
  MIER3 WILD-TYPE     21
D220V6, multiclass
        clus
vv       MIER3 MUTATED MIER3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MIER3 MUTATED        1      2      1      9
  MIER3 WILD-TYPE     99     70     71    112
D220V7, multiclass
        clus
vv       MIER3 MUTATED MIER3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIER3 MUTATED        0      1      3      3      6
  MIER3 WILD-TYPE     59     74     71    116     32
D220V8, multiclass
        clus
vv       MIER3 MUTATED MIER3 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             3             116
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIER3 MUTATED        0      3      0      1      9
  MIER3 WILD-TYPE     51     73     61     70     86
D220V9, multiclass
        clus
vv       MIER3 MUTATED MIER3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MIER3 MUTATED        1      2      0      0      1      1      1      7
  MIER3 WILD-TYPE     68     46     39     16     52     19     20     31
                 vv
clus              CLUS_9
  MIER3 MUTATED        0
  MIER3 WILD-TYPE     50
D220V10, multiclass
        clus
vv       MIER3 MUTATED MIER3 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             7              31
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MIER3 MUTATED        0      0      0      0      0      0
  MIER3 WILD-TYPE     13     16     14     11     11      9
D220V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MIER3 MUTATED        0      0      0      0      0      0      0      0
  MIER3 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  MIER3 MUTATED        0
  MIER3 WILD-TYPE      5
D220V12, multiclass

Clustering(221) Variable = SCLY MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCLY MUTATED        2      0      1      0      0
  SCLY WILD-TYPE     30     18     45     27     23
D221V1, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCLY MUTATED        2      0      1
  SCLY WILD-TYPE     41     67     35
D221V2, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCLY MUTATED        2      3      6
  SCLY WILD-TYPE     40    170    141
D221V3, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            2             40
  CLUS_2            3            170
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCLY MUTATED        3      2      4
  SCLY WILD-TYPE     59     71     71
D221V4, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            3             59
  CLUS_2            2             71
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SCLY MUTATED        1      5      4
  SCLY WILD-TYPE     69    115     96
D221V5, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SCLY MUTATED        0      0      0      3      2      4      1      0      0
  SCLY WILD-TYPE     41     26     30     26     37     65     19     14     22
D221V6, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            3             26
  CLUS_5            2             37
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SCLY MUTATED        2      2      4      3
  SCLY WILD-TYPE     98     70     68    118
D221V7, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            4             68
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCLY MUTATED        1      2      5      1      2
  SCLY WILD-TYPE     58     73     69    118     36
D221V8, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCLY MUTATED        1      4      2      2      2
  SCLY WILD-TYPE     50     72     59     69     93
D221V9, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SCLY MUTATED        0      5      1      1      2      0      1      1      0
  SCLY WILD-TYPE     69     43     38     15     51     20     20     37     50
D221V10, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            0             69
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SCLY MUTATED        1      0      0      0      2      0
  SCLY WILD-TYPE     12     16     14     11      9      9
D221V11, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SCLY MUTATED        0      0      0      2      0      0      1      0      0
  SCLY WILD-TYPE     11      7      7      7      8      7     10      9      5
D221V12, multiclass
        clus
vv       SCLY MUTATED SCLY WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(222) Variable = SCLT1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCLT1 MUTATED        3      0      0      2      0
  SCLT1 WILD-TYPE     29     18     46     25     23
D222V1, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCLT1 MUTATED        4      1      0
  SCLT1 WILD-TYPE     39     66     36
D222V2, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCLT1 MUTATED        0      4     14
  SCLT1 WILD-TYPE     42    169    133
D222V3, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCLT1 MUTATED        3      4      6
  SCLT1 WILD-TYPE     59     69     69
D222V4, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCLT1 MUTATED        1      6      9
  SCLT1 WILD-TYPE     69    114     91
D222V5, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCLT1 MUTATED        1      1      1      2      2      7      0      0
  SCLT1 WILD-TYPE     40     25     29     27     37     62     20     14
                 vv
clus              CLUS_9
  SCLT1 MUTATED        2
  SCLT1 WILD-TYPE     20
D222V6, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             7              62
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SCLT1 MUTATED        2      6      5      5
  SCLT1 WILD-TYPE     98     66     67    116
D222V7, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             5              67
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCLT1 MUTATED        2      4      7      2      3
  SCLT1 WILD-TYPE     57     71     67    117     35
D222V8, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             7              67
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCLT1 MUTATED        1      6      2      3      5
  SCLT1 WILD-TYPE     50     70     59     68     90
D222V9, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCLT1 MUTATED        1      2      0      4      5      2      1      1
  SCLT1 WILD-TYPE     68     46     39     12     48     18     20     37
                 vv
clus              CLUS_9
  SCLT1 MUTATED        1
  SCLT1 WILD-TYPE     49
D222V10, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             5              48
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SCLT1 MUTATED        1      0      2      0      2      1
  SCLT1 WILD-TYPE     12     16     12     11      9      8
D222V11, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCLT1 MUTATED        1      0      0      2      1      0      1      0
  SCLT1 WILD-TYPE     10      7      7      7      7      7     10      9
                 vv
clus              CLUS_9
  SCLT1 MUTATED        1
  SCLT1 WILD-TYPE      4
D222V12, multiclass
        clus
vv       SCLT1 MUTATED SCLT1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(223) Variable = ERBB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB2 MUTATED        2      0      1      2      0
  ERBB2 WILD-TYPE     30     18     45     25     23
D223V1, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        4      1      0
  ERBB2 WILD-TYPE     39     66     36
D223V2, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        3     12     12
  ERBB2 WILD-TYPE     39    161    135
D223V3, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2            12             161
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        7      7      8
  ERBB2 WILD-TYPE     55     66     67
D223V4, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             7              66
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        2      7     12
  ERBB2 WILD-TYPE     68    113     88
D223V5, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             7             113
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB2 MUTATED        5      0      1      2      2      6      3      0
  ERBB2 WILD-TYPE     36     26     29     27     37     63     17     14
                 vv
clus              CLUS_9
  ERBB2 MUTATED        2
  ERBB2 WILD-TYPE     20
D223V6, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             5              36
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB2 MUTATED        6      8      8      5
  ERBB2 WILD-TYPE     94     64     64    116
D223V7, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             6              94
  CLUS_2             8              64
  CLUS_3             8              64
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB2 MUTATED        5      8      9      1      4
  ERBB2 WILD-TYPE     54     67     65    118     34
D223V8, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             8              67
  CLUS_3             9              65
  CLUS_4             1             118
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB2 MUTATED        5     11      4      2      5
  ERBB2 WILD-TYPE     46     65     57     69     90
D223V9, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             5              46
  CLUS_2            11              65
  CLUS_3             4              57
  CLUS_4             2              69
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB2 MUTATED       10      5      1      1      2      3      1      3
  ERBB2 WILD-TYPE     59     43     38     15     51     17     20     35
                 vv
clus              CLUS_9
  ERBB2 MUTATED        1
  ERBB2 WILD-TYPE     49
D223V10, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1            10              59
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             3              17
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERBB2 MUTATED        0      1      1      1      1      2
  ERBB2 WILD-TYPE     13     15     13     10     10      7
D223V11, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB2 MUTATED        2      0      1      0      1      0      1      1
  ERBB2 WILD-TYPE      9      7      6      9      7      7     10      8
                 vv
clus              CLUS_9
  ERBB2 MUTATED        0
  ERBB2 WILD-TYPE      5
D223V12, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(224) Variable = HM13 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HM13 MUTATED        1      0      0      0      0
  HM13 WILD-TYPE     31     18     46     27     23
D224V1, multiclass
[1] "Remove cluster labels:" "HM13 MUTATED"          
clus
  HM13 MUTATED HM13 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AY-4071 
"HM13 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HM13 MUTATED        1      0      0
  HM13 WILD-TYPE     42     67     36
D224V2, multiclass
[1] "Remove cluster labels:" "HM13 MUTATED"          
clus
  HM13 MUTATED HM13 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AY-4071 
"HM13 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HM13 MUTATED        1      2      2
  HM13 WILD-TYPE     41    171    145
D224V3, multiclass
        clus
vv       HM13 MUTATED HM13 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HM13 MUTATED        3      1      0
  HM13 WILD-TYPE     59     72     75
D224V4, multiclass
        clus
vv       HM13 MUTATED HM13 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HM13 MUTATED        1      1      3
  HM13 WILD-TYPE     69    119     97
D224V5, multiclass
        clus
vv       HM13 MUTATED HM13 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HM13 MUTATED        1      0      0      0      0      2      1      0      1
  HM13 WILD-TYPE     40     26     30     29     39     67     19     14     21
D224V6, multiclass
        clus
vv       HM13 MUTATED HM13 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HM13 MUTATED        1      1      2      1
  HM13 WILD-TYPE     99     71     70    120
D224V7, multiclass
        clus
vv       HM13 MUTATED HM13 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HM13 MUTATED        2      0      2      0      1
  HM13 WILD-TYPE     57     75     72    119     37
D224V8, multiclass
        clus
vv       HM13 MUTATED HM13 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            0             75
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HM13 MUTATED        0      2      2      0      1
  HM13 WILD-TYPE     51     74     59     71     94
D224V9, multiclass
        clus
vv       HM13 MUTATED HM13 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HM13 MUTATED        1      3      0      0      0      0      0      1      0
  HM13 WILD-TYPE     68     45     39     16     53     20     21     37     50
D224V10, multiclass
        clus
vv       HM13 MUTATED HM13 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HM13 MUTATED        0      0      0      2      0      0
  HM13 WILD-TYPE     13     16     14      9     11      9
D224V11, multiclass
[1] "Remove cluster labels:" "HM13 MUTATED"          
clus
  HM13 MUTATED HM13 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6460     TCGA-F4-6569 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HM13 MUTATED        0      0      1      0      0      0      1      0      0
  HM13 WILD-TYPE     11      7      6      9      8      7     10      9      5
D224V12, multiclass
[1] "Remove cluster labels:" "HM13 MUTATED"          
clus
  HM13 MUTATED HM13 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6460     TCGA-F4-6569 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" "HM13 WILD-TYPE" 

Clustering(225) Variable = RASAL2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASAL2 MUTATED        3      1      0      2      1
  RASAL2 WILD-TYPE     29     17     46     25     22
D225V1, multiclass
        clus
vv       RASAL2 MUTATED RASAL2 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RASAL2 MUTATED        4      2      1
  RASAL2 WILD-TYPE     39     65     35
D225V2, multiclass
        clus
vv       RASAL2 MUTATED RASAL2 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RASAL2 MUTATED        1      3     10
  RASAL2 WILD-TYPE     41    170    137
D225V3, multiclass
        clus
vv       RASAL2 MUTATED RASAL2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RASAL2 MUTATED        3      3      2
  RASAL2 WILD-TYPE     59     70     73
D225V4, multiclass
        clus
vv       RASAL2 MUTATED RASAL2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              3               70
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RASAL2 MUTATED        2      2      9
  RASAL2 WILD-TYPE     68    118     91
D225V5, multiclass
        clus
vv       RASAL2 MUTATED RASAL2 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RASAL2 MUTATED        2      0      1      0      2      5      2      1
  RASAL2 WILD-TYPE     39     26     29     29     37     64     18     13
                  vv
clus               CLUS_9
  RASAL2 MUTATED        0
  RASAL2 WILD-TYPE     22
D225V6, multiclass
        clus
vv       RASAL2 MUTATED RASAL2 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RASAL2 MUTATED        2      2      5      6
  RASAL2 WILD-TYPE     98     70     67    115
D225V7, multiclass
        clus
vv       RASAL2 MUTATED RASAL2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              5               67
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASAL2 MUTATED        2      2      4      3      4
  RASAL2 WILD-TYPE     57     73     70    116     34
D225V8, multiclass
        clus
vv       RASAL2 MUTATED RASAL2 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              4               70
  CLUS_4              3              116
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASAL2 MUTATED        2      5      2      1      3
  RASAL2 WILD-TYPE     49     71     59     70     92
D225V9, multiclass
        clus
vv       RASAL2 MUTATED RASAL2 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RASAL2 MUTATED        1      4      1      0      2      2      0      2
  RASAL2 WILD-TYPE     68     44     38     16     51     18     21     36
                  vv
clus               CLUS_9
  RASAL2 MUTATED        1
  RASAL2 WILD-TYPE     49
D225V10, multiclass
        clus
vv       RASAL2 MUTATED RASAL2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RASAL2 MUTATED        0      0      0      0      2      0
  RASAL2 WILD-TYPE     13     16     14     11      9      9
D225V11, multiclass
[1] "Remove cluster labels:" "RASAL2 MUTATED"        
clus
  RASAL2 MUTATED RASAL2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-6748 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RASAL2 MUTATED        0      0      0      0      0      0      2      0
  RASAL2 WILD-TYPE     11      7      7      9      8      7      9      9
                  vv
clus               CLUS_9
  RASAL2 MUTATED        0
  RASAL2 WILD-TYPE      5
D225V12, multiclass
[1] "Remove cluster labels:" "RASAL2 MUTATED"        
clus
  RASAL2 MUTATED RASAL2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-6748 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" "RASAL2 WILD-TYPE" 

Clustering(226) Variable = OSBPL2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSBPL2 MUTATED        0      0      0      0      0
  OSBPL2 WILD-TYPE     32     18     46     27     23
D226V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OSBPL2 MUTATED        0      0      0
  OSBPL2 WILD-TYPE     43     67     36
D226V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OSBPL2 MUTATED        0      4      7
  OSBPL2 WILD-TYPE     42    169    140
D226V3, multiclass
        clus
vv       OSBPL2 MUTATED OSBPL2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OSBPL2 MUTATED        4      2      5
  OSBPL2 WILD-TYPE     58     71     70
D226V4, multiclass
        clus
vv       OSBPL2 MUTATED OSBPL2 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OSBPL2 MUTATED        0      3      5
  OSBPL2 WILD-TYPE     70    117     95
D226V5, multiclass
        clus
vv       OSBPL2 MUTATED OSBPL2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSBPL2 MUTATED        0      1      0      1      0      3      3      0
  OSBPL2 WILD-TYPE     41     25     30     28     39     66     17     14
                  vv
clus               CLUS_9
  OSBPL2 MUTATED        0
  OSBPL2 WILD-TYPE     22
D226V6, multiclass
        clus
vv       OSBPL2 MUTATED OSBPL2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OSBPL2 MUTATED        2      5      4      0
  OSBPL2 WILD-TYPE     98     67     68    121
D226V7, multiclass
        clus
vv       OSBPL2 MUTATED OSBPL2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              5               67
  CLUS_3              4               68
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSBPL2 MUTATED        3      3      5      0      0
  OSBPL2 WILD-TYPE     56     72     69    119     38
D226V8, multiclass
        clus
vv       OSBPL2 MUTATED OSBPL2 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3              5               69
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSBPL2 MUTATED        2      7      1      0      1
  OSBPL2 WILD-TYPE     49     69     60     71     94
D226V9, multiclass
        clus
vv       OSBPL2 MUTATED OSBPL2 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              7               69
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSBPL2 MUTATED        0      4      1      2      1      2      0      0
  OSBPL2 WILD-TYPE     69     44     38     14     52     18     21     38
                  vv
clus               CLUS_9
  OSBPL2 MUTATED        1
  OSBPL2 WILD-TYPE     49
D226V10, multiclass
        clus
vv       OSBPL2 MUTATED OSBPL2 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OSBPL2 MUTATED        0      1      0      0      0      0
  OSBPL2 WILD-TYPE     13     15     14     11     11      9
D226V11, multiclass
[1] "Remove cluster labels:" "OSBPL2 MUTATED"        
clus
  OSBPL2 MUTATED OSBPL2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-G4-6628 
"OSBPL2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSBPL2 MUTATED        0      1      0      0      0      0      0      0
  OSBPL2 WILD-TYPE     11      6      7      9      8      7     11      9
                  vv
clus               CLUS_9
  OSBPL2 MUTATED        0
  OSBPL2 WILD-TYPE      5
D226V12, multiclass
[1] "Remove cluster labels:" "OSBPL2 MUTATED"        
clus
  OSBPL2 MUTATED OSBPL2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" "OSBPL2 WILD-TYPE" 
      TCGA-G4-6628 
"OSBPL2 WILD-TYPE" 

Clustering(227) Variable = OVGP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OVGP1 MUTATED        1      0      0      1      0
  OVGP1 WILD-TYPE     31     18     46     26     23
D227V1, multiclass
[1] "Remove cluster labels:" "OVGP1 MUTATED"         
clus
  OVGP1 MUTATED OVGP1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00D 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OVGP1 MUTATED        2      0      0
  OVGP1 WILD-TYPE     41     67     36
D227V2, multiclass
[1] "Remove cluster labels:" "OVGP1 MUTATED"         
clus
  OVGP1 MUTATED OVGP1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00D 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" "OVGP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OVGP1 MUTATED        0      7      7
  OVGP1 WILD-TYPE     42    166    140
D227V3, multiclass
        clus
vv       OVGP1 MUTATED OVGP1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             7             166
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OVGP1 MUTATED        3      4      5
  OVGP1 WILD-TYPE     59     69     70
D227V4, multiclass
        clus
vv       OVGP1 MUTATED OVGP1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OVGP1 MUTATED        3      5      3
  OVGP1 WILD-TYPE     67    115     97
D227V5, multiclass
        clus
vv       OVGP1 MUTATED OVGP1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OVGP1 MUTATED        1      3      1      1      1      2      1      1
  OVGP1 WILD-TYPE     40     23     29     28     38     67     19     13
                 vv
clus              CLUS_9
  OVGP1 MUTATED        0
  OVGP1 WILD-TYPE     22
D227V6, multiclass
        clus
vv       OVGP1 MUTATED OVGP1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OVGP1 MUTATED        3      3      4      4
  OVGP1 WILD-TYPE     97     69     68    117
D227V7, multiclass
        clus
vv       OVGP1 MUTATED OVGP1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OVGP1 MUTATED        4      3      3      3      1
  OVGP1 WILD-TYPE     55     72     71    116     37
D227V8, multiclass
        clus
vv       OVGP1 MUTATED OVGP1 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OVGP1 MUTATED        3      5      2      0      3
  OVGP1 WILD-TYPE     48     71     59     71     92
D227V9, multiclass
        clus
vv       OVGP1 MUTATED OVGP1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OVGP1 MUTATED        4      3      0      2      1      0      0      1
  OVGP1 WILD-TYPE     65     45     39     14     52     20     21     37
                 vv
clus              CLUS_9
  OVGP1 MUTATED        2
  OVGP1 WILD-TYPE     48
D227V10, multiclass
        clus
vv       OVGP1 MUTATED OVGP1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OVGP1 MUTATED        0      1      0      1      1      1
  OVGP1 WILD-TYPE     13     15     14     10     10      8
D227V11, multiclass
        clus
vv       OVGP1 MUTATED OVGP1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OVGP1 MUTATED        1      0      0      1      0      0      2      0
  OVGP1 WILD-TYPE     10      7      7      8      8      7      9      9
                 vv
clus              CLUS_9
  OVGP1 MUTATED        0
  OVGP1 WILD-TYPE      5
D227V12, multiclass
        clus
vv       OVGP1 MUTATED OVGP1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(228) Variable = GMCL1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GMCL1 MUTATED        0      0      0      0      0
  GMCL1 WILD-TYPE     32     18     46     27     23
D228V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GMCL1 MUTATED        0      0      0
  GMCL1 WILD-TYPE     43     67     36
D228V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GMCL1 MUTATED        1      4      5
  GMCL1 WILD-TYPE     41    169    142
D228V3, multiclass
        clus
vv       GMCL1 MUTATED GMCL1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GMCL1 MUTATED        5      2      3
  GMCL1 WILD-TYPE     57     71     72
D228V4, multiclass
        clus
vv       GMCL1 MUTATED GMCL1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GMCL1 MUTATED        2      3      5
  GMCL1 WILD-TYPE     68    117     95
D228V5, multiclass
        clus
vv       GMCL1 MUTATED GMCL1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GMCL1 MUTATED        1      0      1      1      0      5      0      1
  GMCL1 WILD-TYPE     40     26     29     28     39     64     20     13
                 vv
clus              CLUS_9
  GMCL1 MUTATED        1
  GMCL1 WILD-TYPE     21
D228V6, multiclass
        clus
vv       GMCL1 MUTATED GMCL1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GMCL1 MUTATED        3      3      4      0
  GMCL1 WILD-TYPE     97     69     68    121
D228V7, multiclass
        clus
vv       GMCL1 MUTATED GMCL1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GMCL1 MUTATED        2      5      3      0      0
  GMCL1 WILD-TYPE     57     70     71    119     38
D228V8, multiclass
        clus
vv       GMCL1 MUTATED GMCL1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             5              70
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GMCL1 MUTATED        1      5      1      2      1
  GMCL1 WILD-TYPE     50     71     60     69     94
D228V9, multiclass
        clus
vv       GMCL1 MUTATED GMCL1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GMCL1 MUTATED        4      1      1      1      2      0      0      0
  GMCL1 WILD-TYPE     65     47     38     15     51     20     21     38
                 vv
clus              CLUS_9
  GMCL1 MUTATED        1
  GMCL1 WILD-TYPE     49
D228V10, multiclass
        clus
vv       GMCL1 MUTATED GMCL1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GMCL1 MUTATED        1      0      2      0      2      0
  GMCL1 WILD-TYPE     12     16     12     11      9      9
D228V11, multiclass
        clus
vv       GMCL1 MUTATED GMCL1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GMCL1 MUTATED        1      0      1      0      1      0      1      1
  GMCL1 WILD-TYPE     10      7      6      9      7      7     10      8
                 vv
clus              CLUS_9
  GMCL1 MUTATED        0
  GMCL1 WILD-TYPE      5
D228V12, multiclass
        clus
vv       GMCL1 MUTATED GMCL1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(229) Variable = ZNF789 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF789 MUTATED        1      0      0      1      0
  ZNF789 WILD-TYPE     31     18     46     26     23
D229V1, multiclass
[1] "Remove cluster labels:" "ZNF789 MUTATED"        
clus
  ZNF789 MUTATED ZNF789 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF789 MUTATED        2      0      0
  ZNF789 WILD-TYPE     41     67     36
D229V2, multiclass
[1] "Remove cluster labels:" "ZNF789 MUTATED"        
clus
  ZNF789 MUTATED ZNF789 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" "ZNF789 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF789 MUTATED        1      1      5
  ZNF789 WILD-TYPE     41    172    142
D229V3, multiclass
        clus
vv       ZNF789 MUTATED ZNF789 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF789 MUTATED        3      1      1
  ZNF789 WILD-TYPE     59     72     74
D229V4, multiclass
        clus
vv       ZNF789 MUTATED ZNF789 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF789 MUTATED        0      0      6
  ZNF789 WILD-TYPE     70    120     94
D229V5, multiclass
        clus
vv       ZNF789 MUTATED ZNF789 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              0              120
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF789 MUTATED        1      0      0      0      0      4      1      0
  ZNF789 WILD-TYPE     40     26     30     29     39     65     19     14
                  vv
clus               CLUS_9
  ZNF789 MUTATED        0
  ZNF789 WILD-TYPE     22
D229V6, multiclass
        clus
vv       ZNF789 MUTATED ZNF789 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF789 MUTATED        1      2      2      2
  ZNF789 WILD-TYPE     99     70     70    119
D229V7, multiclass
        clus
vv       ZNF789 MUTATED ZNF789 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF789 MUTATED        2      2      1      0      2
  ZNF789 WILD-TYPE     57     73     73    119     36
D229V8, multiclass
        clus
vv       ZNF789 MUTATED ZNF789 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF789 MUTATED        0      2      1      1      2
  ZNF789 WILD-TYPE     51     74     60     70     93
D229V9, multiclass
        clus
vv       ZNF789 MUTATED ZNF789 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF789 MUTATED        1      2      0      1      0      0      0      1
  ZNF789 WILD-TYPE     68     46     39     15     53     20     21     37
                  vv
clus               CLUS_9
  ZNF789 MUTATED        1
  ZNF789 WILD-TYPE     49
D229V10, multiclass
        clus
vv       ZNF789 MUTATED ZNF789 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF789 MUTATED        0      0      0      0      0      0
  ZNF789 WILD-TYPE     13     16     14     11     11      9
D229V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF789 MUTATED        0      0      0      0      0      0      0      0
  ZNF789 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  ZNF789 MUTATED        0
  ZNF789 WILD-TYPE      5
D229V12, multiclass

Clustering(230) Variable = IVL MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IVL MUTATED        1      0      0      0      1
  IVL WILD-TYPE     31     18     46     27     22
D230V1, multiclass
[1] "Remove cluster labels:" "IVL MUTATED"           
clus
  IVL MUTATED IVL WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680    TCGA-AA-3681 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692    TCGA-AA-3693 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811    TCGA-AA-3812 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819    TCGA-AA-3821 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842    TCGA-AA-3844 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982    TCGA-AA-3984 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004    TCGA-AA-A00A 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J    TCGA-AA-A00K 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q    TCGA-AA-A00R 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IVL MUTATED        1      1      0
  IVL WILD-TYPE     42     66     36
D230V2, multiclass
[1] "Remove cluster labels:" "IVL MUTATED"           
clus
  IVL MUTATED IVL WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680    TCGA-AA-3681 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692    TCGA-AA-3693 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811    TCGA-AA-3812 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819    TCGA-AA-3821 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842    TCGA-AA-3844 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982    TCGA-AA-3984 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004    TCGA-AA-A00A 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J    TCGA-AA-A00K 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q    TCGA-AA-A00R 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" "IVL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IVL MUTATED        1      9      7
  IVL WILD-TYPE     41    164    140
D230V3, multiclass
        clus
vv       IVL MUTATED IVL WILD-TYPE
  CLUS_1           1            41
  CLUS_2           9           164
  CLUS_3           7           140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IVL MUTATED        3      7      5
  IVL WILD-TYPE     59     66     70
D230V4, multiclass
        clus
vv       IVL MUTATED IVL WILD-TYPE
  CLUS_1           3            59
  CLUS_2           7            66
  CLUS_3           5            70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IVL MUTATED        2      4      6
  IVL WILD-TYPE     68    116     94
D230V5, multiclass
        clus
vv       IVL MUTATED IVL WILD-TYPE
  CLUS_1           2            68
  CLUS_2           4           116
  CLUS_3           6            94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IVL MUTATED        4      2      0      2      0      4      0      0      0
  IVL WILD-TYPE     37     24     30     27     39     65     20     14     22
D230V6, multiclass
        clus
vv       IVL MUTATED IVL WILD-TYPE
  CLUS_1           4            37
  CLUS_2           2            24
  CLUS_3           0            30
  CLUS_4           2            27
  CLUS_5           0            39
  CLUS_6           4            65
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IVL MUTATED        5      3      6      3
  IVL WILD-TYPE     95     69     66    118
D230V7, multiclass
        clus
vv       IVL MUTATED IVL WILD-TYPE
  CLUS_1           5            95
  CLUS_2           3            69
  CLUS_3           6            66
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IVL MUTATED        6      5      3      2      1
  IVL WILD-TYPE     53     70     71    117     37
D230V8, multiclass
        clus
vv       IVL MUTATED IVL WILD-TYPE
  CLUS_1           6            53
  CLUS_2           5            70
  CLUS_3           3            71
  CLUS_4           2           117
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IVL MUTATED        2      5      5      4      1
  IVL WILD-TYPE     49     71     56     67     94
D230V9, multiclass
        clus
vv       IVL MUTATED IVL WILD-TYPE
  CLUS_1           2            49
  CLUS_2           5            71
  CLUS_3           5            56
  CLUS_4           4            67
  CLUS_5           1            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IVL MUTATED        6      4      0      2      1      1      0      1      2
  IVL WILD-TYPE     63     44     39     14     52     19     21     37     48
D230V10, multiclass
        clus
vv       IVL MUTATED IVL WILD-TYPE
  CLUS_1           6            63
  CLUS_2           4            44
  CLUS_3           0            39
  CLUS_4           2            14
  CLUS_5           1            52
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           2            48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IVL MUTATED        0      0      1      2      1      1
  IVL WILD-TYPE     13     16     13      9     10      8
D230V11, multiclass
        clus
vv       IVL MUTATED IVL WILD-TYPE
  CLUS_1           0            13
  CLUS_2           0            16
  CLUS_3           1            13
  CLUS_4           2             9
  CLUS_5           1            10
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IVL MUTATED        1      0      2      0      1      1      0      0      0
  IVL WILD-TYPE     10      7      5      9      7      6     11      9      5
D230V12, multiclass
        clus
vv       IVL MUTATED IVL WILD-TYPE
  CLUS_1           1            10
  CLUS_2           0             7
  CLUS_3           2             5
  CLUS_4           0             9
  CLUS_5           1             7
  CLUS_6           1             6
  CLUS_7           0            11
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(231) Variable = SPR MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPR MUTATED        0      0      0      0      0
  SPR WILD-TYPE     32     18     46     27     23
D231V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SPR MUTATED        0      0      0
  SPR WILD-TYPE     43     67     36
D231V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SPR MUTATED        0      1      6
  SPR WILD-TYPE     42    172    141
D231V3, multiclass
        clus
vv       SPR MUTATED SPR WILD-TYPE
  CLUS_1           0            42
  CLUS_2           1           172
  CLUS_3           6           141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SPR MUTATED        1      0      6
  SPR WILD-TYPE     61     73     69
D231V4, multiclass
        clus
vv       SPR MUTATED SPR WILD-TYPE
  CLUS_1           1            61
  CLUS_2           0            73
  CLUS_3           6            69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SPR MUTATED        1      2      1
  SPR WILD-TYPE     69    118     99
D231V5, multiclass
        clus
vv       SPR MUTATED SPR WILD-TYPE
  CLUS_1           1            69
  CLUS_2           2           118
  CLUS_3           1            99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SPR MUTATED        0      0      0      0      1      1      2      0      0
  SPR WILD-TYPE     41     26     30     29     38     68     18     14     22
D231V6, multiclass
        clus
vv       SPR MUTATED SPR WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           1            38
  CLUS_6           1            68
  CLUS_7           2            18
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPR MUTATED        1      5      1      0
  SPR WILD-TYPE     99     67     71    121
D231V7, multiclass
        clus
vv       SPR MUTATED SPR WILD-TYPE
  CLUS_1           1            99
  CLUS_2           5            67
  CLUS_3           1            71
  CLUS_4           0           121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPR MUTATED        0      2      5      0      0
  SPR WILD-TYPE     59     73     69    119     38
D231V8, multiclass
        clus
vv       SPR MUTATED SPR WILD-TYPE
  CLUS_1           0            59
  CLUS_2           2            73
  CLUS_3           5            69
  CLUS_4           0           119
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPR MUTATED        2      3      1      0      1
  SPR WILD-TYPE     49     73     60     71     94
D231V9, multiclass
        clus
vv       SPR MUTATED SPR WILD-TYPE
  CLUS_1           2            49
  CLUS_2           3            73
  CLUS_3           1            60
  CLUS_4           0            71
  CLUS_5           1            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SPR MUTATED        1      1      0      2      1      1      0      1      0
  SPR WILD-TYPE     68     47     39     14     52     19     21     37     50
D231V10, multiclass
        clus
vv       SPR MUTATED SPR WILD-TYPE
  CLUS_1           1            68
  CLUS_2           1            47
  CLUS_3           0            39
  CLUS_4           2            14
  CLUS_5           1            52
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPR MUTATED        0      0      0      0      0      0
  SPR WILD-TYPE     13     16     14     11     11      9
D231V11, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SPR MUTATED        0      0      0      0      0      0      0      0      0
  SPR WILD-TYPE     11      7      7      9      8      7     11      9      5
D231V12, multiclass

Clustering(232) Variable = C2ORF77 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C2ORF77 MUTATED        1      1      0      1      0
  C2ORF77 WILD-TYPE     31     17     46     26     23
D232V1, multiclass
        clus
vv       C2ORF77 MUTATED C2ORF77 WILD-TYPE
  CLUS_1               1                31
  CLUS_2               1                17
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF77 MUTATED        1      1      1
  C2ORF77 WILD-TYPE     42     66     35
D232V2, multiclass
        clus
vv       C2ORF77 MUTATED C2ORF77 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF77 MUTATED        0      1      7
  C2ORF77 WILD-TYPE     42    172    140
D232V3, multiclass
        clus
vv       C2ORF77 MUTATED C2ORF77 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF77 MUTATED        2      0      3
  C2ORF77 WILD-TYPE     60     73     72
D232V4, multiclass
        clus
vv       C2ORF77 MUTATED C2ORF77 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF77 MUTATED        2      1      5
  C2ORF77 WILD-TYPE     68    119     95
D232V5, multiclass
        clus
vv       C2ORF77 MUTATED C2ORF77 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               1               119
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C2ORF77 MUTATED        3      0      1      0      1      3      0      0
  C2ORF77 WILD-TYPE     38     26     29     29     38     66     20     14
                   vv
clus                CLUS_9
  C2ORF77 MUTATED        0
  C2ORF77 WILD-TYPE     22
D232V6, multiclass
        clus
vv       C2ORF77 MUTATED C2ORF77 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C2ORF77 MUTATED        0      2      3      3
  C2ORF77 WILD-TYPE    100     70     69    118
D232V7, multiclass
        clus
vv       C2ORF77 MUTATED C2ORF77 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C2ORF77 MUTATED        1      0      4      2      1
  C2ORF77 WILD-TYPE     58     75     70    117     37
D232V8, multiclass
        clus
vv       C2ORF77 MUTATED C2ORF77 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               4                70
  CLUS_4               2               117
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C2ORF77 MUTATED        0      3      3      0      2
  C2ORF77 WILD-TYPE     51     73     58     71     93
D232V9, multiclass
        clus
vv       C2ORF77 MUTATED C2ORF77 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C2ORF77 MUTATED        2      3      0      0      0      1      1      1
  C2ORF77 WILD-TYPE     67     45     39     16     53     19     20     37
                   vv
clus                CLUS_9
  C2ORF77 MUTATED        0
  C2ORF77 WILD-TYPE     50
D232V10, multiclass
        clus
vv       C2ORF77 MUTATED C2ORF77 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C2ORF77 MUTATED        0      1      0      0      0      0
  C2ORF77 WILD-TYPE     13     15     14     11     11      9
D232V11, multiclass
[1] "Remove cluster labels:" "C2ORF77 MUTATED"       
clus
  C2ORF77 MUTATED C2ORF77 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-G4-6628 
"C2ORF77 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C2ORF77 MUTATED        0      0      0      0      0      0      1      0
  C2ORF77 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  C2ORF77 MUTATED        0
  C2ORF77 WILD-TYPE      5
D232V12, multiclass
[1] "Remove cluster labels:" "C2ORF77 MUTATED"       
clus
  C2ORF77 MUTATED C2ORF77 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" "C2ORF77 WILD-TYPE" 
       TCGA-G4-6628 
"C2ORF77 WILD-TYPE" 

Clustering(233) Variable = NT5DC3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NT5DC3 MUTATED        1      0      0      0      0
  NT5DC3 WILD-TYPE     31     18     46     27     23
D233V1, multiclass
[1] "Remove cluster labels:" "NT5DC3 MUTATED"        
clus
  NT5DC3 MUTATED NT5DC3 WILD-TYPE 
               1              145 
      TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677       TCGA-A6-2678 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AY-4071 
"NT5DC3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NT5DC3 MUTATED        1      0      0
  NT5DC3 WILD-TYPE     42     67     36
D233V2, multiclass
[1] "Remove cluster labels:" "NT5DC3 MUTATED"        
clus
  NT5DC3 MUTATED NT5DC3 WILD-TYPE 
               1              145 
      TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677       TCGA-A6-2678 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" "NT5DC3 WILD-TYPE" 
      TCGA-AY-4071 
"NT5DC3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NT5DC3 MUTATED        1      4      7
  NT5DC3 WILD-TYPE     41    169    140
D233V3, multiclass
        clus
vv       NT5DC3 MUTATED NT5DC3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NT5DC3 MUTATED        3      2      6
  NT5DC3 WILD-TYPE     59     71     69
D233V4, multiclass
        clus
vv       NT5DC3 MUTATED NT5DC3 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NT5DC3 MUTATED        3      3      5
  NT5DC3 WILD-TYPE     67    117     95
D233V5, multiclass
        clus
vv       NT5DC3 MUTATED NT5DC3 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NT5DC3 MUTATED        2      0      0      1      2      5      1      0
  NT5DC3 WILD-TYPE     39     26     30     28     37     64     19     14
                  vv
clus               CLUS_9
  NT5DC3 MUTATED        0
  NT5DC3 WILD-TYPE     22
D233V6, multiclass
        clus
vv       NT5DC3 MUTATED NT5DC3 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NT5DC3 MUTATED        3      5      3      1
  NT5DC3 WILD-TYPE     97     67     69    120
D233V7, multiclass
        clus
vv       NT5DC3 MUTATED NT5DC3 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              5               67
  CLUS_3              3               69
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NT5DC3 MUTATED        1      4      6      0      1
  NT5DC3 WILD-TYPE     58     71     68    119     37
D233V8, multiclass
        clus
vv       NT5DC3 MUTATED NT5DC3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3              6               68
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NT5DC3 MUTATED        1      7      2      0      2
  NT5DC3 WILD-TYPE     50     69     59     71     93
D233V9, multiclass
        clus
vv       NT5DC3 MUTATED NT5DC3 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              7               69
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NT5DC3 MUTATED        2      3      1      3      1      1      0      1
  NT5DC3 WILD-TYPE     67     45     38     13     52     19     21     37
                  vv
clus               CLUS_9
  NT5DC3 MUTATED        0
  NT5DC3 WILD-TYPE     50
D233V10, multiclass
        clus
vv       NT5DC3 MUTATED NT5DC3 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NT5DC3 MUTATED        0      0      0      0      3      0
  NT5DC3 WILD-TYPE     13     16     14     11      8      9
D233V11, multiclass
        clus
vv       NT5DC3 MUTATED NT5DC3 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NT5DC3 MUTATED        0      0      0      1      1      0      1      0
  NT5DC3 WILD-TYPE     11      7      7      8      7      7     10      9
                  vv
clus               CLUS_9
  NT5DC3 MUTATED        0
  NT5DC3 WILD-TYPE      5
D233V12, multiclass
        clus
vv       NT5DC3 MUTATED NT5DC3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(234) Variable = ITPR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITPR1 MUTATED        4      0      0      5      0
  ITPR1 WILD-TYPE     28     18     46     22     23
D234V1, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             5              22
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITPR1 MUTATED        7      2      0
  ITPR1 WILD-TYPE     36     65     36
D234V2, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITPR1 MUTATED        2      8     26
  ITPR1 WILD-TYPE     40    165    121
D234V3, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             8             165
  CLUS_3            26             121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITPR1 MUTATED       11      7      8
  ITPR1 WILD-TYPE     51     66     67
D234V4, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1            11              51
  CLUS_2             7              66
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITPR1 MUTATED        4     14     16
  ITPR1 WILD-TYPE     66    106     84
D234V5, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2            14             106
  CLUS_3            16              84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITPR1 MUTATED        2      3      2      3      6     12      4      1
  ITPR1 WILD-TYPE     39     23     28     26     33     57     16     13
                 vv
clus              CLUS_9
  ITPR1 MUTATED        1
  ITPR1 WILD-TYPE     21
D234V6, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             3              23
  CLUS_3             2              28
  CLUS_4             3              26
  CLUS_5             6              33
  CLUS_6            12              57
  CLUS_7             4              16
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITPR1 MUTATED        7      9     10     10
  ITPR1 WILD-TYPE     93     63     62    111
D234V7, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1             7              93
  CLUS_2             9              63
  CLUS_3            10              62
  CLUS_4            10             111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITPR1 MUTATED        3      9     14      2      8
  ITPR1 WILD-TYPE     56     66     60    117     30
D234V8, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             9              66
  CLUS_3            14              60
  CLUS_4             2             117
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITPR1 MUTATED        2     16      6      3      9
  ITPR1 WILD-TYPE     49     60     55     68     86
D234V9, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2            16              60
  CLUS_3             6              55
  CLUS_4             3              68
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITPR1 MUTATED        5      8      2      6      2      3      2      4
  ITPR1 WILD-TYPE     64     40     37     10     51     17     19     34
                 vv
clus              CLUS_9
  ITPR1 MUTATED        4
  ITPR1 WILD-TYPE     46
D234V10, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             8              40
  CLUS_3             2              37
  CLUS_4             6              10
  CLUS_5             2              51
  CLUS_6             3              17
  CLUS_7             2              19
  CLUS_8             4              34
  CLUS_9             4              46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ITPR1 MUTATED        2      1      1      1      6      0
  ITPR1 WILD-TYPE     11     15     13     10      5      9
D234V11, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             6               5
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITPR1 MUTATED        0      1      0      3      1      1      4      1
  ITPR1 WILD-TYPE     11      6      7      6      7      6      7      8
                 vv
clus              CLUS_9
  ITPR1 MUTATED        0
  ITPR1 WILD-TYPE      5
D234V12, multiclass
        clus
vv       ITPR1 MUTATED ITPR1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             4               7
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(235) Variable = PDCD5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDCD5 MUTATED        1      0      0      0      0
  PDCD5 WILD-TYPE     31     18     46     27     23
D235V1, multiclass
[1] "Remove cluster labels:" "PDCD5 MUTATED"         
clus
  PDCD5 MUTATED PDCD5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AY-4071 
"PDCD5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDCD5 MUTATED        1      0      0
  PDCD5 WILD-TYPE     42     67     36
D235V2, multiclass
[1] "Remove cluster labels:" "PDCD5 MUTATED"         
clus
  PDCD5 MUTATED PDCD5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AY-4071 
"PDCD5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDCD5 MUTATED        1      1      6
  PDCD5 WILD-TYPE     41    172    141
D235V3, multiclass
        clus
vv       PDCD5 MUTATED PDCD5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDCD5 MUTATED        3      2      2
  PDCD5 WILD-TYPE     59     71     73
D235V4, multiclass
        clus
vv       PDCD5 MUTATED PDCD5 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDCD5 MUTATED        2      2      3
  PDCD5 WILD-TYPE     68    118     97
D235V5, multiclass
        clus
vv       PDCD5 MUTATED PDCD5 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PDCD5 MUTATED        2      1      0      1      0      2      0      0
  PDCD5 WILD-TYPE     39     25     30     28     39     67     20     14
                 vv
clus              CLUS_9
  PDCD5 MUTATED        1
  PDCD5 WILD-TYPE     21
D235V6, multiclass
        clus
vv       PDCD5 MUTATED PDCD5 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PDCD5 MUTATED        1      3      3      1
  PDCD5 WILD-TYPE     99     69     69    120
D235V7, multiclass
        clus
vv       PDCD5 MUTATED PDCD5 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDCD5 MUTATED        2      2      3      1      0
  PDCD5 WILD-TYPE     57     73     71    118     38
D235V8, multiclass
        clus
vv       PDCD5 MUTATED PDCD5 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDCD5 MUTATED        0      2      3      0      3
  PDCD5 WILD-TYPE     51     74     58     71     92
D235V9, multiclass
        clus
vv       PDCD5 MUTATED PDCD5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PDCD5 MUTATED        2      1      2      0      0      1      1      0
  PDCD5 WILD-TYPE     67     47     37     16     53     19     20     38
                 vv
clus              CLUS_9
  PDCD5 MUTATED        1
  PDCD5 WILD-TYPE     49
D235V10, multiclass
        clus
vv       PDCD5 MUTATED PDCD5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PDCD5 MUTATED        0      1      0      0      0      0
  PDCD5 WILD-TYPE     13     15     14     11     11      9
D235V11, multiclass
[1] "Remove cluster labels:" "PDCD5 MUTATED"         
clus
  PDCD5 MUTATED PDCD5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6653      TCGA-A6-6654 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-G4-6628 
"PDCD5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PDCD5 MUTATED        0      1      0      0      0      0      0      0
  PDCD5 WILD-TYPE     11      6      7      9      8      7     11      9
                 vv
clus              CLUS_9
  PDCD5 MUTATED        0
  PDCD5 WILD-TYPE      5
D235V12, multiclass
[1] "Remove cluster labels:" "PDCD5 MUTATED"         
clus
  PDCD5 MUTATED PDCD5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6653      TCGA-A6-6654 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" "PDCD5 WILD-TYPE" 
     TCGA-G4-6628 
"PDCD5 WILD-TYPE" 

Clustering(236) Variable = AKAP3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP3 MUTATED        2      0      2      1      0
  AKAP3 WILD-TYPE     30     18     44     26     23
D236V1, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP3 MUTATED        2      2      1
  AKAP3 WILD-TYPE     41     65     35
D236V2, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP3 MUTATED        3      3     15
  AKAP3 WILD-TYPE     39    170    132
D236V3, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             3             170
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP3 MUTATED        6      1      8
  AKAP3 WILD-TYPE     56     72     67
D236V4, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             1              72
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP3 MUTATED        7      5      6
  AKAP3 WILD-TYPE     63    115     94
D236V5, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             7              63
  CLUS_2             5             115
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP3 MUTATED        4      0      3      2      5      3      0      1
  AKAP3 WILD-TYPE     37     26     27     27     34     66     20     13
                 vv
clus              CLUS_9
  AKAP3 MUTATED        0
  AKAP3 WILD-TYPE     22
D236V6, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             0              26
  CLUS_3             3              27
  CLUS_4             2              27
  CLUS_5             5              34
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AKAP3 MUTATED        2     11      3      5
  AKAP3 WILD-TYPE     98     61     69    116
D236V7, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             2              98
  CLUS_2            11              61
  CLUS_3             3              69
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP3 MUTATED        3      3      9      3      3
  AKAP3 WILD-TYPE     56     72     65    116     35
D236V8, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             9              65
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP3 MUTATED        1      8      3      2      6
  AKAP3 WILD-TYPE     50     68     58     69     89
D236V9, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             8              68
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP3 MUTATED        6      2      0      2      2      2      0      3
  AKAP3 WILD-TYPE     63     46     39     14     51     18     21     35
                 vv
clus              CLUS_9
  AKAP3 MUTATED        3
  AKAP3 WILD-TYPE     47
D236V10, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AKAP3 MUTATED        0      1      2      0      0      1
  AKAP3 WILD-TYPE     13     15     12     11     11      8
D236V11, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP3 MUTATED        2      0      0      0      2      0      0      0
  AKAP3 WILD-TYPE      9      7      7      9      6      7     11      9
                 vv
clus              CLUS_9
  AKAP3 MUTATED        0
  AKAP3 WILD-TYPE      5
D236V12, multiclass
        clus
vv       AKAP3 MUTATED AKAP3 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(237) Variable = TNFAIP3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNFAIP3 MUTATED        2      0      1      0      0
  TNFAIP3 WILD-TYPE     30     18     45     27     23
D237V1, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TNFAIP3 MUTATED        2      0      1
  TNFAIP3 WILD-TYPE     41     67     35
D237V2, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TNFAIP3 MUTATED        2      9     23
  TNFAIP3 WILD-TYPE     40    164    124
D237V3, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               9               164
  CLUS_3              23               124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TNFAIP3 MUTATED        9      4     18
  TNFAIP3 WILD-TYPE     53     69     57
D237V4, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1               9                53
  CLUS_2               4                69
  CLUS_3              18                57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TNFAIP3 MUTATED        2     12     14
  TNFAIP3 WILD-TYPE     68    108     86
D237V5, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1               2                68
  CLUS_2              12               108
  CLUS_3              14                86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNFAIP3 MUTATED        3      1      1      4      3     10      4      2
  TNFAIP3 WILD-TYPE     38     25     29     25     36     59     16     12
                   vv
clus                CLUS_9
  TNFAIP3 MUTATED        0
  TNFAIP3 WILD-TYPE     22
D237V6, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               4                25
  CLUS_5               3                36
  CLUS_6              10                59
  CLUS_7               4                16
  CLUS_8               2                12
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNFAIP3 MUTATED        5     16      9      4
  TNFAIP3 WILD-TYPE     95     56     63    117
D237V7, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1               5                95
  CLUS_2              16                56
  CLUS_3               9                63
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNFAIP3 MUTATED        4      9     17      2      2
  TNFAIP3 WILD-TYPE     55     66     57    117     36
D237V8, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               9                66
  CLUS_3              17                57
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNFAIP3 MUTATED        6     18      3      3      4
  TNFAIP3 WILD-TYPE     45     58     58     68     91
D237V9, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1               6                45
  CLUS_2              18                58
  CLUS_3               3                58
  CLUS_4               3                68
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNFAIP3 MUTATED       10      5      3      4      4      3      0      2
  TNFAIP3 WILD-TYPE     59     43     36     12     49     17     21     36
                   vv
clus                CLUS_9
  TNFAIP3 MUTATED        3
  TNFAIP3 WILD-TYPE     47
D237V10, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1              10                59
  CLUS_2               5                43
  CLUS_3               3                36
  CLUS_4               4                12
  CLUS_5               4                49
  CLUS_6               3                17
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               3                47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TNFAIP3 MUTATED        0      0      3      1      1      0
  TNFAIP3 WILD-TYPE     13     16     11     10     10      9
D237V11, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               3                11
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNFAIP3 MUTATED        0      0      0      0      2      0      3      0
  TNFAIP3 WILD-TYPE     11      7      7      9      6      7      8      9
                   vv
clus                CLUS_9
  TNFAIP3 MUTATED        0
  TNFAIP3 WILD-TYPE      5
D237V12, multiclass
        clus
vv       TNFAIP3 MUTATED TNFAIP3 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               2                 6
  CLUS_6               0                 7
  CLUS_7               3                 8
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(238) Variable = GFI1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GFI1 MUTATED        3      0      0      0      0
  GFI1 WILD-TYPE     29     18     46     27     23
D238V1, multiclass
        clus
vv       GFI1 MUTATED GFI1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GFI1 MUTATED        3      0      0
  GFI1 WILD-TYPE     40     67     36
D238V2, multiclass
        clus
vv       GFI1 MUTATED GFI1 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GFI1 MUTATED        1      4      5
  GFI1 WILD-TYPE     41    169    142
D238V3, multiclass
        clus
vv       GFI1 MUTATED GFI1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GFI1 MUTATED        3      2      2
  GFI1 WILD-TYPE     59     71     73
D238V4, multiclass
        clus
vv       GFI1 MUTATED GFI1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            2             71
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GFI1 MUTATED        1      1      6
  GFI1 WILD-TYPE     69    119     94
D238V5, multiclass
        clus
vv       GFI1 MUTATED GFI1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GFI1 MUTATED        1      1      1      0      1      4      0      0      0
  GFI1 WILD-TYPE     40     25     29     29     38     65     20     14     22
D238V6, multiclass
        clus
vv       GFI1 MUTATED GFI1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GFI1 MUTATED        3      1      3      3
  GFI1 WILD-TYPE     97     71     69    118
D238V7, multiclass
        clus
vv       GFI1 MUTATED GFI1 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            1             71
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GFI1 MUTATED        1      4      2      0      3
  GFI1 WILD-TYPE     58     71     72    119     35
D238V8, multiclass
        clus
vv       GFI1 MUTATED GFI1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            4             71
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GFI1 MUTATED        1      3      1      2      3
  GFI1 WILD-TYPE     50     73     60     69     92
D238V9, multiclass
        clus
vv       GFI1 MUTATED GFI1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GFI1 MUTATED        5      1      0      0      0      0      0      3      1
  GFI1 WILD-TYPE     64     47     39     16     53     20     21     35     49
D238V10, multiclass
        clus
vv       GFI1 MUTATED GFI1 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GFI1 MUTATED        0      0      0      0      0      1
  GFI1 WILD-TYPE     13     16     14     11     11      8
D238V11, multiclass
[1] "Remove cluster labels:" "GFI1 MUTATED"          
clus
  GFI1 MUTATED GFI1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-G4-6628 
"GFI1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GFI1 MUTATED        1      0      0      0      0      0      0      0      0
  GFI1 WILD-TYPE     10      7      7      9      8      7     11      9      5
D238V12, multiclass
[1] "Remove cluster labels:" "GFI1 MUTATED"          
clus
  GFI1 MUTATED GFI1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" "GFI1 WILD-TYPE" 
    TCGA-G4-6628 
"GFI1 WILD-TYPE" 

Clustering(239) Variable = TWISTNB MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TWISTNB MUTATED        1      0      0      0      0
  TWISTNB WILD-TYPE     31     18     46     27     23
D239V1, multiclass
[1] "Remove cluster labels:" "TWISTNB MUTATED"       
clus
  TWISTNB MUTATED TWISTNB WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AY-4071 
"TWISTNB WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TWISTNB MUTATED        1      0      0
  TWISTNB WILD-TYPE     42     67     36
D239V2, multiclass
[1] "Remove cluster labels:" "TWISTNB MUTATED"       
clus
  TWISTNB MUTATED TWISTNB WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" "TWISTNB WILD-TYPE" 
       TCGA-AY-4071 
"TWISTNB WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TWISTNB MUTATED        0      4      4
  TWISTNB WILD-TYPE     42    169    143
D239V3, multiclass
        clus
vv       TWISTNB MUTATED TWISTNB WILD-TYPE
  CLUS_1               0                42
  CLUS_2               4               169
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TWISTNB MUTATED        4      2      1
  TWISTNB WILD-TYPE     58     71     74
D239V4, multiclass
        clus
vv       TWISTNB MUTATED TWISTNB WILD-TYPE
  CLUS_1               4                58
  CLUS_2               2                71
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TWISTNB MUTATED        1      3      2
  TWISTNB WILD-TYPE     69    117     98
D239V5, multiclass
        clus
vv       TWISTNB MUTATED TWISTNB WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TWISTNB MUTATED        2      0      1      0      1      1      0      1
  TWISTNB WILD-TYPE     39     26     29     29     38     68     20     13
                   vv
clus                CLUS_9
  TWISTNB MUTATED        0
  TWISTNB WILD-TYPE     22
D239V6, multiclass
        clus
vv       TWISTNB MUTATED TWISTNB WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TWISTNB MUTATED        3      2      2      1
  TWISTNB WILD-TYPE     97     70     70    120
D239V7, multiclass
        clus
vv       TWISTNB MUTATED TWISTNB WILD-TYPE
  CLUS_1               3                97
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TWISTNB MUTATED        4      1      2      0      1
  TWISTNB WILD-TYPE     55     74     72    119     37
D239V8, multiclass
        clus
vv       TWISTNB MUTATED TWISTNB WILD-TYPE
  CLUS_1               4                55
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TWISTNB MUTATED        0      4      2      1      1
  TWISTNB WILD-TYPE     51     72     59     70     94
D239V9, multiclass
        clus
vv       TWISTNB MUTATED TWISTNB WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TWISTNB MUTATED        1      3      0      2      1      0      0      1
  TWISTNB WILD-TYPE     68     45     39     14     52     20     21     37
                   vv
clus                CLUS_9
  TWISTNB MUTATED        0
  TWISTNB WILD-TYPE     50
D239V10, multiclass
        clus
vv       TWISTNB MUTATED TWISTNB WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TWISTNB MUTATED        1      0      1      0      1      0
  TWISTNB WILD-TYPE     12     16     13     11     10      9
D239V11, multiclass
        clus
vv       TWISTNB MUTATED TWISTNB WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TWISTNB MUTATED        0      0      1      1      1      0      0      0
  TWISTNB WILD-TYPE     11      7      6      8      7      7     11      9
                   vv
clus                CLUS_9
  TWISTNB MUTATED        0
  TWISTNB WILD-TYPE      5
D239V12, multiclass
        clus
vv       TWISTNB MUTATED TWISTNB WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(240) Variable = ASB11 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASB11 MUTATED        0      0      0      0      0
  ASB11 WILD-TYPE     32     18     46     27     23
D240V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASB11 MUTATED        0      0      0
  ASB11 WILD-TYPE     43     67     36
D240V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASB11 MUTATED        0      1      7
  ASB11 WILD-TYPE     42    172    140
D240V3, multiclass
        clus
vv       ASB11 MUTATED ASB11 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASB11 MUTATED        4      1      3
  ASB11 WILD-TYPE     58     72     72
D240V4, multiclass
        clus
vv       ASB11 MUTATED ASB11 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASB11 MUTATED        0      1      5
  ASB11 WILD-TYPE     70    119     95
D240V5, multiclass
        clus
vv       ASB11 MUTATED ASB11 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ASB11 MUTATED        1      0      0      1      0      4      0      0
  ASB11 WILD-TYPE     40     26     30     28     39     65     20     14
                 vv
clus              CLUS_9
  ASB11 MUTATED        0
  ASB11 WILD-TYPE     22
D240V6, multiclass
        clus
vv       ASB11 MUTATED ASB11 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASB11 MUTATED        0      5      3      0
  ASB11 WILD-TYPE    100     67     69    121
D240V7, multiclass
        clus
vv       ASB11 MUTATED ASB11 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASB11 MUTATED        2      1      5      0      0
  ASB11 WILD-TYPE     57     74     69    119     38
D240V8, multiclass
        clus
vv       ASB11 MUTATED ASB11 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASB11 MUTATED        0      5      2      0      1
  ASB11 WILD-TYPE     51     71     59     71     94
D240V9, multiclass
        clus
vv       ASB11 MUTATED ASB11 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ASB11 MUTATED        4      1      0      2      0      0      0      0
  ASB11 WILD-TYPE     65     47     39     14     53     20     21     38
                 vv
clus              CLUS_9
  ASB11 MUTATED        1
  ASB11 WILD-TYPE     49
D240V10, multiclass
        clus
vv       ASB11 MUTATED ASB11 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ASB11 MUTATED        0      0      1      0      0      1
  ASB11 WILD-TYPE     13     16     13     11     11      8
D240V11, multiclass
[1] "Remove cluster labels:" "ASB11 MUTATED"         
clus
  ASB11 MUTATED ASB11 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ASB11 MUTATED        1      0      0      0      0      0      1      0
  ASB11 WILD-TYPE     10      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  ASB11 MUTATED        0
  ASB11 WILD-TYPE      5
D240V12, multiclass
[1] "Remove cluster labels:" "ASB11 MUTATED"         
clus
  ASB11 MUTATED ASB11 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" "ASB11 WILD-TYPE" 

Clustering(241) Variable = ETAA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ETAA1 MUTATED        2      1      0      1      0
  ETAA1 WILD-TYPE     30     17     46     26     23
D241V1, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ETAA1 MUTATED        2      1      1
  ETAA1 WILD-TYPE     41     66     35
D241V2, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ETAA1 MUTATED        1      4     11
  ETAA1 WILD-TYPE     41    169    136
D241V3, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ETAA1 MUTATED        4      2      6
  ETAA1 WILD-TYPE     58     71     69
D241V4, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ETAA1 MUTATED        3      5      6
  ETAA1 WILD-TYPE     67    115     94
D241V5, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             5             115
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ETAA1 MUTATED        4      0      1      1      1      4      1      1
  ETAA1 WILD-TYPE     37     26     29     28     38     65     19     13
                 vv
clus              CLUS_9
  ETAA1 MUTATED        1
  ETAA1 WILD-TYPE     21
D241V6, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ETAA1 MUTATED        2      7      4      3
  ETAA1 WILD-TYPE     98     65     68    118
D241V7, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             7              65
  CLUS_3             4              68
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ETAA1 MUTATED        3      1      8      2      2
  ETAA1 WILD-TYPE     56     74     66    117     36
D241V8, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ETAA1 MUTATED        3      5      3      0      5
  ETAA1 WILD-TYPE     48     71     58     71     90
D241V9, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             5              71
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ETAA1 MUTATED        1      4      0      2      2      2      1      3
  ETAA1 WILD-TYPE     68     44     39     14     51     18     20     35
                 vv
clus              CLUS_9
  ETAA1 MUTATED        1
  ETAA1 WILD-TYPE     49
D241V10, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ETAA1 MUTATED        0      1      0      1      1      0
  ETAA1 WILD-TYPE     13     15     14     10     10      9
D241V11, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ETAA1 MUTATED        0      0      1      1      0      0      1      0
  ETAA1 WILD-TYPE     11      7      6      8      8      7     10      9
                 vv
clus              CLUS_9
  ETAA1 MUTATED        0
  ETAA1 WILD-TYPE      5
D241V12, multiclass
        clus
vv       ETAA1 MUTATED ETAA1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(242) Variable = NUP188 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP188 MUTATED        3      0      1      1      0
  NUP188 WILD-TYPE     29     18     45     26     23
D242V1, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP188 MUTATED        2      1      2
  NUP188 WILD-TYPE     41     66     34
D242V2, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP188 MUTATED        1      4     14
  NUP188 WILD-TYPE     41    169    133
D242V3, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP188 MUTATED        6      2      6
  NUP188 WILD-TYPE     56     71     69
D242V4, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              2               71
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP188 MUTATED        4      4      8
  NUP188 WILD-TYPE     66    116     92
D242V5, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              4              116
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP188 MUTATED        1      1      1      1      2      8      1      0
  NUP188 WILD-TYPE     40     25     29     28     37     61     19     14
                  vv
clus               CLUS_9
  NUP188 MUTATED        1
  NUP188 WILD-TYPE     21
D242V6, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              8               61
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUP188 MUTATED        3      6      5      5
  NUP188 WILD-TYPE     97     66     67    116
D242V7, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              6               66
  CLUS_3              5               67
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP188 MUTATED        4      1      8      4      2
  NUP188 WILD-TYPE     55     74     66    115     36
D242V8, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              1               74
  CLUS_3              8               66
  CLUS_4              4              115
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP188 MUTATED        1      7      4      2      3
  NUP188 WILD-TYPE     50     69     57     69     92
D242V9, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              7               69
  CLUS_3              4               57
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP188 MUTATED        3      5      0      4      1      1      0      0
  NUP188 WILD-TYPE     66     43     39     12     52     19     21     38
                  vv
clus               CLUS_9
  NUP188 MUTATED        3
  NUP188 WILD-TYPE     47
D242V10, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              5               43
  CLUS_3              0               39
  CLUS_4              4               12
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUP188 MUTATED        1      2      0      1      3      0
  NUP188 WILD-TYPE     12     14     14     10      8      9
D242V11, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP188 MUTATED        1      1      1      2      1      0      1      0
  NUP188 WILD-TYPE     10      6      6      7      7      7     10      9
                  vv
clus               CLUS_9
  NUP188 MUTATED        0
  NUP188 WILD-TYPE      5
D242V12, multiclass
        clus
vv       NUP188 MUTATED NUP188 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              1                6
  CLUS_3              1                6
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(243) Variable = GNPAT MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNPAT MUTATED        1      0      0      0      0
  GNPAT WILD-TYPE     31     18     46     27     23
D243V1, multiclass
[1] "Remove cluster labels:" "GNPAT MUTATED"         
clus
  GNPAT MUTATED GNPAT WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AY-4071 
"GNPAT WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNPAT MUTATED        1      0      0
  GNPAT WILD-TYPE     42     67     36
D243V2, multiclass
[1] "Remove cluster labels:" "GNPAT MUTATED"         
clus
  GNPAT MUTATED GNPAT WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" "GNPAT WILD-TYPE" 
     TCGA-AY-4071 
"GNPAT WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNPAT MUTATED        2      6      9
  GNPAT WILD-TYPE     40    167    138
D243V3, multiclass
        clus
vv       GNPAT MUTATED GNPAT WILD-TYPE
  CLUS_1             2              40
  CLUS_2             6             167
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNPAT MUTATED        5      3      8
  GNPAT WILD-TYPE     57     70     67
D243V4, multiclass
        clus
vv       GNPAT MUTATED GNPAT WILD-TYPE
  CLUS_1             5              57
  CLUS_2             3              70
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNPAT MUTATED        1      9      7
  GNPAT WILD-TYPE     69    111     93
D243V5, multiclass
        clus
vv       GNPAT MUTATED GNPAT WILD-TYPE
  CLUS_1             1              69
  CLUS_2             9             111
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNPAT MUTATED        2      0      0      6      1      4      2      1
  GNPAT WILD-TYPE     39     26     30     23     38     65     18     13
                 vv
clus              CLUS_9
  GNPAT MUTATED        1
  GNPAT WILD-TYPE     21
D243V6, multiclass
        clus
vv       GNPAT MUTATED GNPAT WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             6              23
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GNPAT MUTATED        6      5      5      1
  GNPAT WILD-TYPE     94     67     67    120
D243V7, multiclass
        clus
vv       GNPAT MUTATED GNPAT WILD-TYPE
  CLUS_1             6              94
  CLUS_2             5              67
  CLUS_3             5              67
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNPAT MUTATED        5      3      8      0      1
  GNPAT WILD-TYPE     54     72     66    119     37
D243V8, multiclass
        clus
vv       GNPAT MUTATED GNPAT WILD-TYPE
  CLUS_1             5              54
  CLUS_2             3              72
  CLUS_3             8              66
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNPAT MUTATED        2     10      3      1      1
  GNPAT WILD-TYPE     49     66     58     70     94
D243V9, multiclass
        clus
vv       GNPAT MUTATED GNPAT WILD-TYPE
  CLUS_1             2              49
  CLUS_2            10              66
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNPAT MUTATED        6      2      3      2      3      0      0      1
  GNPAT WILD-TYPE     63     46     36     14     50     20     21     37
                 vv
clus              CLUS_9
  GNPAT MUTATED        0
  GNPAT WILD-TYPE     50
D243V10, multiclass
        clus
vv       GNPAT MUTATED GNPAT WILD-TYPE
  CLUS_1             6              63
  CLUS_2             2              46
  CLUS_3             3              36
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GNPAT MUTATED        0      0      0      1      4      0
  GNPAT WILD-TYPE     13     16     14     10      7      9
D243V11, multiclass
        clus
vv       GNPAT MUTATED GNPAT WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNPAT MUTATED        0      0      0      1      1      1      2      0
  GNPAT WILD-TYPE     11      7      7      8      7      6      9      9
                 vv
clus              CLUS_9
  GNPAT MUTATED        0
  GNPAT WILD-TYPE      5
D243V12, multiclass
        clus
vv       GNPAT MUTATED GNPAT WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(244) Variable = TRIM32 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM32 MUTATED        3      0      1      1      0
  TRIM32 WILD-TYPE     29     18     45     26     23
D244V1, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM32 MUTATED        3      1      1
  TRIM32 WILD-TYPE     40     66     35
D244V2, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM32 MUTATED        1      3      8
  TRIM32 WILD-TYPE     41    170    139
D244V3, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM32 MUTATED        3      2      1
  TRIM32 WILD-TYPE     59     71     74
D244V4, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM32 MUTATED        2      3      5
  TRIM32 WILD-TYPE     68    117     95
D244V5, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM32 MUTATED        0      0      1      2      3      2      2      0
  TRIM32 WILD-TYPE     41     26     29     27     36     67     18     14
                  vv
clus               CLUS_9
  TRIM32 MUTATED        0
  TRIM32 WILD-TYPE     22
D244V6, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              3               36
  CLUS_6              2               67
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM32 MUTATED        3      2      2      5
  TRIM32 WILD-TYPE     97     70     70    116
D244V7, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM32 MUTATED        1      2      3      2      4
  TRIM32 WILD-TYPE     58     73     71    117     34
D244V8, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              2              117
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM32 MUTATED        1      3      1      2      5
  TRIM32 WILD-TYPE     50     73     60     69     90
D244V9, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM32 MUTATED        1      1      1      0      1      2      0      5
  TRIM32 WILD-TYPE     68     47     38     16     52     18     21     33
                  vv
clus               CLUS_9
  TRIM32 MUTATED        1
  TRIM32 WILD-TYPE     49
D244V10, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              5               33
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM32 MUTATED        1      1      2      0      0      0
  TRIM32 WILD-TYPE     12     15     12     11     11      9
D244V11, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM32 MUTATED        1      0      0      0      1      0      1      0
  TRIM32 WILD-TYPE     10      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  TRIM32 MUTATED        1
  TRIM32 WILD-TYPE      4
D244V12, multiclass
        clus
vv       TRIM32 MUTATED TRIM32 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(245) Variable = HAS2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAS2 MUTATED        1      0      0      1      0
  HAS2 WILD-TYPE     31     18     46     26     23
D245V1, multiclass
[1] "Remove cluster labels:" "HAS2 MUTATED"          
clus
  HAS2 MUTATED HAS2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HAS2 MUTATED        2      0      0
  HAS2 WILD-TYPE     41     67     36
D245V2, multiclass
[1] "Remove cluster labels:" "HAS2 MUTATED"          
clus
  HAS2 MUTATED HAS2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HAS2 MUTATED        1      1      7
  HAS2 WILD-TYPE     41    172    140
D245V3, multiclass
        clus
vv       HAS2 MUTATED HAS2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HAS2 MUTATED        0      1      6
  HAS2 WILD-TYPE     62     72     69
D245V4, multiclass
        clus
vv       HAS2 MUTATED HAS2 WILD-TYPE
  CLUS_1            0             62
  CLUS_2            1             72
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HAS2 MUTATED        2      3      3
  HAS2 WILD-TYPE     68    117     97
D245V5, multiclass
        clus
vv       HAS2 MUTATED HAS2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HAS2 MUTATED        0      1      0      0      1      3      1      2      0
  HAS2 WILD-TYPE     41     25     30     29     38     66     19     12     22
D245V6, multiclass
        clus
vv       HAS2 MUTATED HAS2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            2             12
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HAS2 MUTATED        2      5      0      2
  HAS2 WILD-TYPE     98     67     72    119
D245V7, multiclass
        clus
vv       HAS2 MUTATED HAS2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            0             72
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAS2 MUTATED        0      4      3      0      2
  HAS2 WILD-TYPE     59     71     71    119     36
D245V8, multiclass
        clus
vv       HAS2 MUTATED HAS2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            4             71
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAS2 MUTATED        0      4      1      2      1
  HAS2 WILD-TYPE     51     72     60     69     94
D245V9, multiclass
        clus
vv       HAS2 MUTATED HAS2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HAS2 MUTATED        2      0      1      1      2      0      0      2      0
  HAS2 WILD-TYPE     67     48     38     15     51     20     21     36     50
D245V10, multiclass
        clus
vv       HAS2 MUTATED HAS2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HAS2 MUTATED        1      0      0      0      1      0
  HAS2 WILD-TYPE     12     16     14     11     10      9
D245V11, multiclass
[1] "Remove cluster labels:" "HAS2 MUTATED"          
clus
  HAS2 MUTATED HAS2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HAS2 MUTATED        0      0      0      2      0      0      0      0      0
  HAS2 WILD-TYPE     11      7      7      7      8      7     11      9      5
D245V12, multiclass
[1] "Remove cluster labels:" "HAS2 MUTATED"          
clus
  HAS2 MUTATED HAS2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" "HAS2 WILD-TYPE" 

Clustering(246) Variable = MKL2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MKL2 MUTATED        1      0      0      0      0
  MKL2 WILD-TYPE     31     18     46     27     23
D246V1, multiclass
[1] "Remove cluster labels:" "MKL2 MUTATED"          
clus
  MKL2 MUTATED MKL2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AY-4071 
"MKL2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MKL2 MUTATED        1      0      0
  MKL2 WILD-TYPE     42     67     36
D246V2, multiclass
[1] "Remove cluster labels:" "MKL2 MUTATED"          
clus
  MKL2 MUTATED MKL2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" "MKL2 WILD-TYPE" 
    TCGA-AY-4071 
"MKL2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MKL2 MUTATED        0      2      8
  MKL2 WILD-TYPE     42    171    139
D246V3, multiclass
        clus
vv       MKL2 MUTATED MKL2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MKL2 MUTATED        3      1      5
  MKL2 WILD-TYPE     59     72     70
D246V4, multiclass
        clus
vv       MKL2 MUTATED MKL2 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MKL2 MUTATED        3      1      3
  MKL2 WILD-TYPE     67    119     97
D246V5, multiclass
        clus
vv       MKL2 MUTATED MKL2 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            1            119
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MKL2 MUTATED        1      0      0      1      1      3      1      0      0
  MKL2 WILD-TYPE     40     26     30     28     38     66     19     14     22
D246V6, multiclass
        clus
vv       MKL2 MUTATED MKL2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MKL2 MUTATED        2      2      5      1
  MKL2 WILD-TYPE     98     70     67    120
D246V7, multiclass
        clus
vv       MKL2 MUTATED MKL2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            5             67
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MKL2 MUTATED        0      2      7      0      1
  MKL2 WILD-TYPE     59     73     67    119     37
D246V8, multiclass
        clus
vv       MKL2 MUTATED MKL2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            7             67
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MKL2 MUTATED        0      7      1      0      2
  MKL2 WILD-TYPE     51     69     60     71     93
D246V9, multiclass
        clus
vv       MKL2 MUTATED MKL2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            7             69
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MKL2 MUTATED        2      3      0      1      2      1      0      1      0
  MKL2 WILD-TYPE     67     45     39     15     51     19     21     37     50
D246V10, multiclass
        clus
vv       MKL2 MUTATED MKL2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MKL2 MUTATED        0      1      2      0      2      0
  MKL2 WILD-TYPE     13     15     12     11      9      9
D246V11, multiclass
        clus
vv       MKL2 MUTATED MKL2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MKL2 MUTATED        0      0      0      0      3      0      2      0      0
  MKL2 WILD-TYPE     11      7      7      9      5      7      9      9      5
D246V12, multiclass
        clus
vv       MKL2 MUTATED MKL2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            3              5
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(247) Variable = PCSK1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCSK1 MUTATED        2      0      0      1      0
  PCSK1 WILD-TYPE     30     18     46     26     23
D247V1, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK1 MUTATED        2      1      0
  PCSK1 WILD-TYPE     41     66     36
D247V2, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK1 MUTATED        2      4     10
  PCSK1 WILD-TYPE     40    169    137
D247V3, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4             169
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK1 MUTATED        7      0      6
  PCSK1 WILD-TYPE     55     73     69
D247V4, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             0              73
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK1 MUTATED        0      6      4
  PCSK1 WILD-TYPE     70    114     96
D247V5, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             6             114
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCSK1 MUTATED        1      2      1      2      0      2      1      0
  PCSK1 WILD-TYPE     40     24     29     27     39     67     19     14
                 vv
clus              CLUS_9
  PCSK1 MUTATED        1
  PCSK1 WILD-TYPE     21
D247V6, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCSK1 MUTATED        2      6      5      3
  PCSK1 WILD-TYPE     98     66     67    118
D247V7, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             5              67
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCSK1 MUTATED        4      2      6      2      2
  PCSK1 WILD-TYPE     55     73     68    117     36
D247V8, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCSK1 MUTATED        1      7      3      0      5
  PCSK1 WILD-TYPE     50     69     58     71     90
D247V9, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCSK1 MUTATED        4      4      0      2      1      1      0      3
  PCSK1 WILD-TYPE     65     44     39     14     52     19     21     35
                 vv
clus              CLUS_9
  PCSK1 MUTATED        1
  PCSK1 WILD-TYPE     49
D247V10, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCSK1 MUTATED        0      1      3      1      1      0
  PCSK1 WILD-TYPE     13     15     11     10     10      9
D247V11, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             3              11
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCSK1 MUTATED        1      0      0      1      2      0      2      0
  PCSK1 WILD-TYPE     10      7      7      8      6      7      9      9
                 vv
clus              CLUS_9
  PCSK1 MUTATED        0
  PCSK1 WILD-TYPE      5
D247V12, multiclass
        clus
vv       PCSK1 MUTATED PCSK1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(248) Variable = TIAL1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIAL1 MUTATED        2      0      0      1      0
  TIAL1 WILD-TYPE     30     18     46     26     23
D248V1, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIAL1 MUTATED        3      0      0
  TIAL1 WILD-TYPE     40     67     36
D248V2, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIAL1 MUTATED        0      1     11
  TIAL1 WILD-TYPE     42    172    136
D248V3, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIAL1 MUTATED        3      1      5
  TIAL1 WILD-TYPE     59     72     70
D248V4, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIAL1 MUTATED        1      6      4
  TIAL1 WILD-TYPE     69    114     96
D248V5, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TIAL1 MUTATED        1      1      0      2      2      4      1      0
  TIAL1 WILD-TYPE     40     25     30     27     37     65     19     14
                 vv
clus              CLUS_9
  TIAL1 MUTATED        0
  TIAL1 WILD-TYPE     22
D248V6, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TIAL1 MUTATED        1      6      2      3
  TIAL1 WILD-TYPE     99     66     70    118
D248V7, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIAL1 MUTATED        1      0      8      0      3
  TIAL1 WILD-TYPE     58     75     66    119     35
D248V8, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             8              66
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIAL1 MUTATED        2      6      1      0      3
  TIAL1 WILD-TYPE     49     70     60     71     92
D248V9, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TIAL1 MUTATED        2      2      0      3      2      0      0      3
  TIAL1 WILD-TYPE     67     46     39     13     51     20     21     35
                 vv
clus              CLUS_9
  TIAL1 MUTATED        0
  TIAL1 WILD-TYPE     50
D248V10, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TIAL1 MUTATED        0      0      0      0      1      0
  TIAL1 WILD-TYPE     13     16     14     11     10      9
D248V11, multiclass
[1] "Remove cluster labels:" "TIAL1 MUTATED"         
clus
  TIAL1 MUTATED TIAL1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-G4-6628 
"TIAL1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TIAL1 MUTATED        0      0      0      0      0      0      1      0
  TIAL1 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  TIAL1 MUTATED        0
  TIAL1 WILD-TYPE      5
D248V12, multiclass
[1] "Remove cluster labels:" "TIAL1 MUTATED"         
clus
  TIAL1 MUTATED TIAL1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" "TIAL1 WILD-TYPE" 
     TCGA-G4-6628 
"TIAL1 WILD-TYPE" 

Clustering(249) Variable = NBEA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NBEA MUTATED        3      0      3      3      1
  NBEA WILD-TYPE     29     18     43     24     22
D249V1, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            3             43
  CLUS_4            3             24
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NBEA MUTATED        4      3      3
  NBEA WILD-TYPE     39     64     33
D249V2, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1            4             39
  CLUS_2            3             64
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NBEA MUTATED        3     15     28
  NBEA WILD-TYPE     39    158    119
D249V3, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1            3             39
  CLUS_2           15            158
  CLUS_3           28            119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NBEA MUTATED       12      8     16
  NBEA WILD-TYPE     50     65     59
D249V4, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1           12             50
  CLUS_2            8             65
  CLUS_3           16             59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NBEA MUTATED        6     15     19
  NBEA WILD-TYPE     64    105     81
D249V5, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1            6             64
  CLUS_2           15            105
  CLUS_3           19             81
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NBEA MUTATED        6      5      2      6      5     11      3      2      0
  NBEA WILD-TYPE     35     21     28     23     34     58     17     12     22
D249V6, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1            6             35
  CLUS_2            5             21
  CLUS_3            2             28
  CLUS_4            6             23
  CLUS_5            5             34
  CLUS_6           11             58
  CLUS_7            3             17
  CLUS_8            2             12
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NBEA MUTATED        7     13     16     10
  NBEA WILD-TYPE     93     59     56    111
D249V7, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1            7             93
  CLUS_2           13             59
  CLUS_3           16             56
  CLUS_4           10            111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NBEA MUTATED        8     11     16      7      4
  NBEA WILD-TYPE     51     64     58    112     34
D249V8, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1            8             51
  CLUS_2           11             64
  CLUS_3           16             58
  CLUS_4            7            112
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NBEA MUTATED       10     12      8      7      7
  NBEA WILD-TYPE     41     64     53     64     88
D249V9, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1           10             41
  CLUS_2           12             64
  CLUS_3            8             53
  CLUS_4            7             64
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NBEA MUTATED       11     11      2      2      6      4      2      2      4
  NBEA WILD-TYPE     58     37     37     14     47     16     19     36     46
D249V10, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1           11             58
  CLUS_2           11             37
  CLUS_3            2             37
  CLUS_4            2             14
  CLUS_5            6             47
  CLUS_6            4             16
  CLUS_7            2             19
  CLUS_8            2             36
  CLUS_9            4             46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NBEA MUTATED        0      2      2      1      2      1
  NBEA WILD-TYPE     13     14     12     10      9      8
D249V11, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NBEA MUTATED        2      0      1      1      2      0      2      0      0
  NBEA WILD-TYPE      9      7      6      8      6      7      9      9      5
D249V12, multiclass
        clus
vv       NBEA MUTATED NBEA WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            2              6
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(250) Variable = F2RL1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F2RL1 MUTATED        0      0      0      0      0
  F2RL1 WILD-TYPE     32     18     46     27     23
D250V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  F2RL1 MUTATED        0      0      0
  F2RL1 WILD-TYPE     43     67     36
D250V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  F2RL1 MUTATED        3      2      2
  F2RL1 WILD-TYPE     39    171    145
D250V3, multiclass
        clus
vv       F2RL1 MUTATED F2RL1 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             2             171
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  F2RL1 MUTATED        2      2      3
  F2RL1 WILD-TYPE     60     71     72
D250V4, multiclass
        clus
vv       F2RL1 MUTATED F2RL1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  F2RL1 MUTATED        0      0      6
  F2RL1 WILD-TYPE     70    120     94
D250V5, multiclass
        clus
vv       F2RL1 MUTATED F2RL1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             0             120
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  F2RL1 MUTATED        1      0      0      0      0      5      0      0
  F2RL1 WILD-TYPE     40     26     30     29     39     64     20     14
                 vv
clus              CLUS_9
  F2RL1 MUTATED        0
  F2RL1 WILD-TYPE     22
D250V6, multiclass
        clus
vv       F2RL1 MUTATED F2RL1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  F2RL1 MUTATED        3      3      1      0
  F2RL1 WILD-TYPE     97     69     71    121
D250V7, multiclass
        clus
vv       F2RL1 MUTATED F2RL1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F2RL1 MUTATED        2      3      2      0      0
  F2RL1 WILD-TYPE     57     72     72    119     38
D250V8, multiclass
        clus
vv       F2RL1 MUTATED F2RL1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F2RL1 MUTATED        1      0      2      2      2
  F2RL1 WILD-TYPE     50     76     59     69     93
D250V9, multiclass
        clus
vv       F2RL1 MUTATED F2RL1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             0              76
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  F2RL1 MUTATED        3      1      1      0      0      0      0      1
  F2RL1 WILD-TYPE     66     47     38     16     53     20     21     37
                 vv
clus              CLUS_9
  F2RL1 MUTATED        1
  F2RL1 WILD-TYPE     49
D250V10, multiclass
        clus
vv       F2RL1 MUTATED F2RL1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  F2RL1 MUTATED        0      0      1      1      0      0
  F2RL1 WILD-TYPE     13     16     13     10     11      9
D250V11, multiclass
[1] "Remove cluster labels:" "F2RL1 MUTATED"         
clus
  F2RL1 MUTATED F2RL1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6679      TCGA-CM-6680 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  F2RL1 MUTATED        1      0      0      0      0      0      1      0
  F2RL1 WILD-TYPE     10      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  F2RL1 MUTATED        0
  F2RL1 WILD-TYPE      5
D250V12, multiclass
[1] "Remove cluster labels:" "F2RL1 MUTATED"         
clus
  F2RL1 MUTATED F2RL1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6679      TCGA-CM-6680 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" "F2RL1 WILD-TYPE" 

Clustering(251) Variable = ALG2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALG2 MUTATED        1      0      0      2      0
  ALG2 WILD-TYPE     31     18     46     25     23
D251V1, multiclass
        clus
vv       ALG2 MUTATED ALG2 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG2 MUTATED        2      1      0
  ALG2 WILD-TYPE     41     66     36
D251V2, multiclass
        clus
vv       ALG2 MUTATED ALG2 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG2 MUTATED        0      2      6
  ALG2 WILD-TYPE     42    171    141
D251V3, multiclass
        clus
vv       ALG2 MUTATED ALG2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG2 MUTATED        2      1      2
  ALG2 WILD-TYPE     60     72     73
D251V4, multiclass
        clus
vv       ALG2 MUTATED ALG2 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG2 MUTATED        0      3      3
  ALG2 WILD-TYPE     70    117     97
D251V5, multiclass
        clus
vv       ALG2 MUTATED ALG2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALG2 MUTATED        0      0      1      0      0      3      1      1      0
  ALG2 WILD-TYPE     41     26     29     29     39     66     19     13     22
D251V6, multiclass
        clus
vv       ALG2 MUTATED ALG2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALG2 MUTATED        2      2      1      3
  ALG2 WILD-TYPE     98     70     71    118
D251V7, multiclass
        clus
vv       ALG2 MUTATED ALG2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALG2 MUTATED        2      1      2      1      2
  ALG2 WILD-TYPE     57     74     72    118     36
D251V8, multiclass
        clus
vv       ALG2 MUTATED ALG2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALG2 MUTATED        1      3      1      0      2
  ALG2 WILD-TYPE     50     73     60     71     93
D251V9, multiclass
        clus
vv       ALG2 MUTATED ALG2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALG2 MUTATED        1      2      0      1      0      3      0      0      0
  ALG2 WILD-TYPE     68     46     39     15     53     17     21     38     50
D251V10, multiclass
        clus
vv       ALG2 MUTATED ALG2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            3             17
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ALG2 MUTATED        0      1      0      0      0      0
  ALG2 WILD-TYPE     13     15     14     11     11      9
D251V11, multiclass
[1] "Remove cluster labels:" "ALG2 MUTATED"          
clus
  ALG2 MUTATED ALG2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6598 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-G4-6628 
"ALG2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALG2 MUTATED        1      0      0      0      0      0      0      0      0
  ALG2 WILD-TYPE     10      7      7      9      8      7     11      9      5
D251V12, multiclass
[1] "Remove cluster labels:" "ALG2 MUTATED"          
clus
  ALG2 MUTATED ALG2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6598 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" "ALG2 WILD-TYPE" 
    TCGA-G4-6628 
"ALG2 WILD-TYPE" 

Clustering(252) Variable = STBD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STBD1 MUTATED        0      0      1      0      0
  STBD1 WILD-TYPE     32     18     45     27     23
D252V1, multiclass
[1] "Remove cluster labels:" "STBD1 MUTATED"         
clus
  STBD1 MUTATED STBD1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3679 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AY-4071 
"STBD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STBD1 MUTATED        0      0      1
  STBD1 WILD-TYPE     43     67     35
D252V2, multiclass
[1] "Remove cluster labels:" "STBD1 MUTATED"         
clus
  STBD1 MUTATED STBD1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3679 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" "STBD1 WILD-TYPE" 
     TCGA-AY-4071 
"STBD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STBD1 MUTATED        0      4      2
  STBD1 WILD-TYPE     42    169    145
D252V3, multiclass
        clus
vv       STBD1 MUTATED STBD1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STBD1 MUTATED        3      2      0
  STBD1 WILD-TYPE     59     71     75
D252V4, multiclass
        clus
vv       STBD1 MUTATED STBD1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STBD1 MUTATED        1      2      2
  STBD1 WILD-TYPE     69    118     98
D252V5, multiclass
        clus
vv       STBD1 MUTATED STBD1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STBD1 MUTATED        0      0      0      1      1      2      0      0
  STBD1 WILD-TYPE     41     26     30     28     38     67     20     14
                 vv
clus              CLUS_9
  STBD1 MUTATED        1
  STBD1 WILD-TYPE     21
D252V6, multiclass
        clus
vv       STBD1 MUTATED STBD1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STBD1 MUTATED        3      1      1      1
  STBD1 WILD-TYPE     97     71     71    120
D252V7, multiclass
        clus
vv       STBD1 MUTATED STBD1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STBD1 MUTATED        0      4      1      1      0
  STBD1 WILD-TYPE     59     71     73    118     38
D252V8, multiclass
        clus
vv       STBD1 MUTATED STBD1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             4              71
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STBD1 MUTATED        2      3      0      1      0
  STBD1 WILD-TYPE     49     73     61     70     95
D252V9, multiclass
        clus
vv       STBD1 MUTATED STBD1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STBD1 MUTATED        2      0      1      0      2      1      0      0
  STBD1 WILD-TYPE     67     48     38     16     51     19     21     38
                 vv
clus              CLUS_9
  STBD1 MUTATED        0
  STBD1 WILD-TYPE     50
D252V10, multiclass
        clus
vv       STBD1 MUTATED STBD1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STBD1 MUTATED        0      0      0      0      0      0
  STBD1 WILD-TYPE     13     16     14     11     11      9
D252V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STBD1 MUTATED        0      0      0      0      0      0      0      0
  STBD1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  STBD1 MUTATED        0
  STBD1 WILD-TYPE      5
D252V12, multiclass

Clustering(253) Variable = C12ORF40 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF40 MUTATED        0      1      0      1      0
  C12ORF40 WILD-TYPE     32     17     46     26     23
D253V1, multiclass
[1] "Remove cluster labels:" "C12ORF40 MUTATED"      
clus
  C12ORF40 MUTATED C12ORF40 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3875         TCGA-AA-3877 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00O 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF40 MUTATED        1      1      0
  C12ORF40 WILD-TYPE     42     66     36
D253V2, multiclass
[1] "Remove cluster labels:" "C12ORF40 MUTATED"      
clus
  C12ORF40 MUTATED C12ORF40 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3875         TCGA-AA-3877 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00O 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" "C12ORF40 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF40 MUTATED        1      8     12
  C12ORF40 WILD-TYPE     41    165    135
D253V3, multiclass
        clus
vv       C12ORF40 MUTATED C12ORF40 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                8                165
  CLUS_3               12                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF40 MUTATED        4      6      9
  C12ORF40 WILD-TYPE     58     67     66
D253V4, multiclass
        clus
vv       C12ORF40 MUTATED C12ORF40 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                6                 67
  CLUS_3                9                 66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF40 MUTATED        4      6      8
  C12ORF40 WILD-TYPE     66    114     92
D253V5, multiclass
        clus
vv       C12ORF40 MUTATED C12ORF40 WILD-TYPE
  CLUS_1                4                 66
  CLUS_2                6                114
  CLUS_3                8                 92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF40 MUTATED        4      1      0      2      2      7      1      1
  C12ORF40 WILD-TYPE     37     25     30     27     37     62     19     13
                    vv
clus                 CLUS_9
  C12ORF40 MUTATED        0
  C12ORF40 WILD-TYPE     22
D253V6, multiclass
        clus
vv       C12ORF40 MUTATED C12ORF40 WILD-TYPE
  CLUS_1                4                 37
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                2                 27
  CLUS_5                2                 37
  CLUS_6                7                 62
  CLUS_7                1                 19
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C12ORF40 MUTATED        5     10      5      1
  C12ORF40 WILD-TYPE     95     62     67    120
D253V7, multiclass
        clus
vv       C12ORF40 MUTATED C12ORF40 WILD-TYPE
  CLUS_1                5                 95
  CLUS_2               10                 62
  CLUS_3                5                 67
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF40 MUTATED        4      4     11      1      1
  C12ORF40 WILD-TYPE     55     71     63    118     37
D253V8, multiclass
        clus
vv       C12ORF40 MUTATED C12ORF40 WILD-TYPE
  CLUS_1                4                 55
  CLUS_2                4                 71
  CLUS_3               11                 63
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF40 MUTATED        3     13      2      2      0
  C12ORF40 WILD-TYPE     48     63     59     69     95
D253V9, multiclass
        clus
vv       C12ORF40 MUTATED C12ORF40 WILD-TYPE
  CLUS_1                3                 48
  CLUS_2               13                 63
  CLUS_3                2                 59
  CLUS_4                2                 69
  CLUS_5                0                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF40 MUTATED        7      4      0      6      2      1      0      0
  C12ORF40 WILD-TYPE     62     44     39     10     51     19     21     38
                    vv
clus                 CLUS_9
  C12ORF40 MUTATED        0
  C12ORF40 WILD-TYPE     50
D253V10, multiclass
        clus
vv       C12ORF40 MUTATED C12ORF40 WILD-TYPE
  CLUS_1                7                 62
  CLUS_2                4                 44
  CLUS_3                0                 39
  CLUS_4                6                 10
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C12ORF40 MUTATED        0      1      0      2      2      0
  C12ORF40 WILD-TYPE     13     15     14      9      9      9
D253V11, multiclass
        clus
vv       C12ORF40 MUTATED C12ORF40 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                0                 14
  CLUS_4                2                  9
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF40 MUTATED        1      0      1      2      0      0      0      1
  C12ORF40 WILD-TYPE     10      7      6      7      8      7     11      8
                    vv
clus                 CLUS_9
  C12ORF40 MUTATED        0
  C12ORF40 WILD-TYPE      5
D253V12, multiclass
        clus
vv       C12ORF40 MUTATED C12ORF40 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                1                  6
  CLUS_4                2                  7
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                0                 11
  CLUS_8                1                  8
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(254) Variable = GNAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNAS MUTATED        2      0      3      3      0
  GNAS WILD-TYPE     30     18     43     24     23
D254V1, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            3             43
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GNAS MUTATED        2      5      1
  GNAS WILD-TYPE     41     62     35
D254V2, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            2             41
  CLUS_2            5             62
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GNAS MUTATED        3     11     16
  GNAS WILD-TYPE     39    162    131
D254V3, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            3             39
  CLUS_2           11            162
  CLUS_3           16            131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GNAS MUTATED        7      5     12
  GNAS WILD-TYPE     55     68     63
D254V4, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            7             55
  CLUS_2            5             68
  CLUS_3           12             63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GNAS MUTATED        4     10     13
  GNAS WILD-TYPE     66    110     87
D254V5, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            4             66
  CLUS_2           10            110
  CLUS_3           13             87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GNAS MUTATED        3      1      3      4      1     11      3      1      0
  GNAS WILD-TYPE     38     25     27     25     38     58     17     13     22
D254V6, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            3             38
  CLUS_2            1             25
  CLUS_3            3             27
  CLUS_4            4             25
  CLUS_5            1             38
  CLUS_6           11             58
  CLUS_7            3             17
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GNAS MUTATED        6     14      5      7
  GNAS WILD-TYPE     94     58     67    114
D254V7, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            6             94
  CLUS_2           14             58
  CLUS_3            5             67
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNAS MUTATED        2      4     18      5      3
  GNAS WILD-TYPE     57     71     56    114     35
D254V8, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            2             57
  CLUS_2            4             71
  CLUS_3           18             56
  CLUS_4            5            114
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNAS MUTATED        4     14      4      2      8
  GNAS WILD-TYPE     47     62     57     69     87
D254V9, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            4             47
  CLUS_2           14             62
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GNAS MUTATED        8      5      2      6      3      4      0      2      2
  GNAS WILD-TYPE     61     43     37     10     50     16     21     36     48
D254V10, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            8             61
  CLUS_2            5             43
  CLUS_3            2             37
  CLUS_4            6             10
  CLUS_5            3             50
  CLUS_6            4             16
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GNAS MUTATED        2      3      1      0      4      0
  GNAS WILD-TYPE     11     13     13     11      7      9
D254V11, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            2             11
  CLUS_2            3             13
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GNAS MUTATED        2      0      1      4      1      0      2      0      0
  GNAS WILD-TYPE      9      7      6      5      7      7      9      9      5
D254V12, multiclass
        clus
vv       GNAS MUTATED GNAS WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            4              5
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(255) Variable = RBM7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM7 MUTATED        0      0      0      2      0
  RBM7 WILD-TYPE     32     18     46     25     23
D255V1, multiclass
[1] "Remove cluster labels:" "RBM7 MUTATED"          
clus
  RBM7 MUTATED RBM7 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBM7 MUTATED        1      1      0
  RBM7 WILD-TYPE     42     66     36
D255V2, multiclass
[1] "Remove cluster labels:" "RBM7 MUTATED"          
clus
  RBM7 MUTATED RBM7 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" "RBM7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBM7 MUTATED        0      3      7
  RBM7 WILD-TYPE     42    170    140
D255V3, multiclass
        clus
vv       RBM7 MUTATED RBM7 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBM7 MUTATED        2      3      3
  RBM7 WILD-TYPE     60     70     72
D255V4, multiclass
        clus
vv       RBM7 MUTATED RBM7 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            3             70
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBM7 MUTATED        0      3      6
  RBM7 WILD-TYPE     70    117     94
D255V5, multiclass
        clus
vv       RBM7 MUTATED RBM7 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBM7 MUTATED        2      0      2      0      1      3      1      0      0
  RBM7 WILD-TYPE     39     26     28     29     38     66     19     14     22
D255V6, multiclass
        clus
vv       RBM7 MUTATED RBM7 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM7 MUTATED        2      4      2      2
  RBM7 WILD-TYPE     98     68     70    119
D255V7, multiclass
        clus
vv       RBM7 MUTATED RBM7 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM7 MUTATED        4      2      2      1      1
  RBM7 WILD-TYPE     55     73     72    118     37
D255V8, multiclass
        clus
vv       RBM7 MUTATED RBM7 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            2             73
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM7 MUTATED        1      2      3      1      2
  RBM7 WILD-TYPE     50     74     58     70     93
D255V9, multiclass
        clus
vv       RBM7 MUTATED RBM7 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBM7 MUTATED        2      3      0      1      2      0      0      0      1
  RBM7 WILD-TYPE     67     45     39     15     51     20     21     38     49
D255V10, multiclass
        clus
vv       RBM7 MUTATED RBM7 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBM7 MUTATED        1      0      0      2      0      0
  RBM7 WILD-TYPE     12     16     14      9     11      9
D255V11, multiclass
        clus
vv       RBM7 MUTATED RBM7 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            2              9
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBM7 MUTATED        0      0      2      0      0      0      1      0      0
  RBM7 WILD-TYPE     11      7      5      9      8      7     10      9      5
D255V12, multiclass
        clus
vv       RBM7 MUTATED RBM7 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            2              5
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(256) Variable = RUNX1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUNX1 MUTATED        2      0      0      2      0
  RUNX1 WILD-TYPE     30     18     46     25     23
D256V1, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUNX1 MUTATED        2      2      0
  RUNX1 WILD-TYPE     41     65     36
D256V2, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUNX1 MUTATED        3     12     21
  RUNX1 WILD-TYPE     39    161    126
D256V3, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             3              39
  CLUS_2            12             161
  CLUS_3            21             126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUNX1 MUTATED        8      9     15
  RUNX1 WILD-TYPE     54     64     60
D256V4, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             9              64
  CLUS_3            15              60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUNX1 MUTATED        4     11     16
  RUNX1 WILD-TYPE     66    109     84
D256V5, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2            11             109
  CLUS_3            16              84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUNX1 MUTATED        2      3      2      2      2     13      5      1
  RUNX1 WILD-TYPE     39     23     28     27     37     56     15     13
                 vv
clus              CLUS_9
  RUNX1 MUTATED        1
  RUNX1 WILD-TYPE     21
D256V6, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             3              23
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6            13              56
  CLUS_7             5              15
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RUNX1 MUTATED        9     16      7      5
  RUNX1 WILD-TYPE     91     56     65    116
D256V7, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             9              91
  CLUS_2            16              56
  CLUS_3             7              65
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUNX1 MUTATED        5     11     15      5      1
  RUNX1 WILD-TYPE     54     64     59    114     37
D256V8, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             5              54
  CLUS_2            11              64
  CLUS_3            15              59
  CLUS_4             5             114
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUNX1 MUTATED        6     19      5      2      5
  RUNX1 WILD-TYPE     45     57     56     69     90
D256V9, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             6              45
  CLUS_2            19              57
  CLUS_3             5              56
  CLUS_4             2              69
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUNX1 MUTATED        9      6      1      5      3      7      2      1
  RUNX1 WILD-TYPE     60     42     38     11     50     13     19     37
                 vv
clus              CLUS_9
  RUNX1 MUTATED        3
  RUNX1 WILD-TYPE     47
D256V10, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             9              60
  CLUS_2             6              42
  CLUS_3             1              38
  CLUS_4             5              11
  CLUS_5             3              50
  CLUS_6             7              13
  CLUS_7             2              19
  CLUS_8             1              37
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RUNX1 MUTATED        2      2      1      0      3      1
  RUNX1 WILD-TYPE     11     14     13     11      8      8
D256V11, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUNX1 MUTATED        2      1      1      2      0      1      1      1
  RUNX1 WILD-TYPE      9      6      6      7      8      6     10      8
                 vv
clus              CLUS_9
  RUNX1 MUTATED        0
  RUNX1 WILD-TYPE      5
D256V12, multiclass
        clus
vv       RUNX1 MUTATED RUNX1 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(257) Variable = FAM133B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM133B MUTATED        1      0      0      0      0
  FAM133B WILD-TYPE     31     18     46     27     23
D257V1, multiclass
[1] "Remove cluster labels:" "FAM133B MUTATED"       
clus
  FAM133B MUTATED FAM133B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AY-4071 
"FAM133B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM133B MUTATED        1      0      0
  FAM133B WILD-TYPE     42     67     36
D257V2, multiclass
[1] "Remove cluster labels:" "FAM133B MUTATED"       
clus
  FAM133B MUTATED FAM133B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" "FAM133B WILD-TYPE" 
       TCGA-AY-4071 
"FAM133B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM133B MUTATED        0      0      5
  FAM133B WILD-TYPE     42    173    142
D257V3, multiclass
        clus
vv       FAM133B MUTATED FAM133B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM133B MUTATED        3      0      2
  FAM133B WILD-TYPE     59     73     73
D257V4, multiclass
        clus
vv       FAM133B MUTATED FAM133B WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM133B MUTATED        1      2      2
  FAM133B WILD-TYPE     69    118     98
D257V5, multiclass
        clus
vv       FAM133B MUTATED FAM133B WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM133B MUTATED        1      0      0      0      1      2      0      1
  FAM133B WILD-TYPE     40     26     30     29     38     67     20     13
                   vv
clus                CLUS_9
  FAM133B MUTATED        0
  FAM133B WILD-TYPE     22
D257V6, multiclass
        clus
vv       FAM133B MUTATED FAM133B WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM133B MUTATED        0      1      3      1
  FAM133B WILD-TYPE    100     71     69    120
D257V7, multiclass
        clus
vv       FAM133B MUTATED FAM133B WILD-TYPE
  CLUS_1               0               100
  CLUS_2               1                71
  CLUS_3               3                69
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM133B MUTATED        1      0      3      0      1
  FAM133B WILD-TYPE     58     75     71    119     37
D257V8, multiclass
        clus
vv       FAM133B MUTATED FAM133B WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM133B MUTATED        0      3      1      0      1
  FAM133B WILD-TYPE     51     73     60     71     94
D257V9, multiclass
        clus
vv       FAM133B MUTATED FAM133B WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM133B MUTATED        1      2      0      1      0      0      0      1
  FAM133B WILD-TYPE     68     46     39     15     53     20     21     37
                   vv
clus                CLUS_9
  FAM133B MUTATED        0
  FAM133B WILD-TYPE     50
D257V10, multiclass
        clus
vv       FAM133B MUTATED FAM133B WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM133B MUTATED        0      1      1      0      2      0
  FAM133B WILD-TYPE     13     15     13     11      9      9
D257V11, multiclass
        clus
vv       FAM133B MUTATED FAM133B WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM133B MUTATED        0      1      0      1      0      0      2      0
  FAM133B WILD-TYPE     11      6      7      8      8      7      9      9
                   vv
clus                CLUS_9
  FAM133B MUTATED        0
  FAM133B WILD-TYPE      5
D257V12, multiclass
        clus
vv       FAM133B MUTATED FAM133B WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(258) Variable = CARD11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CARD11 MUTATED        4      0      1      1      1
  CARD11 WILD-TYPE     28     18     45     26     22
D258V1, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CARD11 MUTATED        4      2      1
  CARD11 WILD-TYPE     39     65     35
D258V2, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CARD11 MUTATED        5     16     19
  CARD11 WILD-TYPE     37    157    128
D258V3, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1              5               37
  CLUS_2             16              157
  CLUS_3             19              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CARD11 MUTATED       12     10     12
  CARD11 WILD-TYPE     50     63     63
D258V4, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1             12               50
  CLUS_2             10               63
  CLUS_3             12               63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CARD11 MUTATED        5     16     13
  CARD11 WILD-TYPE     65    104     87
D258V5, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1              5               65
  CLUS_2             16              104
  CLUS_3             13               87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CARD11 MUTATED        8      3      2      3      3      8      2      2
  CARD11 WILD-TYPE     33     23     28     26     36     61     18     12
                  vv
clus               CLUS_9
  CARD11 MUTATED        3
  CARD11 WILD-TYPE     19
D258V6, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1              8               33
  CLUS_2              3               23
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              3               36
  CLUS_6              8               61
  CLUS_7              2               18
  CLUS_8              2               12
  CLUS_9              3               19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CARD11 MUTATED       16     11      7      7
  CARD11 WILD-TYPE     84     61     65    114
D258V7, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1             16               84
  CLUS_2             11               61
  CLUS_3              7               65
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CARD11 MUTATED        7     13     13      4      4
  CARD11 WILD-TYPE     52     62     61    115     34
D258V8, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1              7               52
  CLUS_2             13               62
  CLUS_3             13               61
  CLUS_4              4              115
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CARD11 MUTATED        8     12      9      4      7
  CARD11 WILD-TYPE     43     64     52     67     88
D258V9, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1              8               43
  CLUS_2             12               64
  CLUS_3              9               52
  CLUS_4              4               67
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CARD11 MUTATED       10      7      3      1      7      3      1      5
  CARD11 WILD-TYPE     59     41     36     15     46     17     20     33
                  vv
clus               CLUS_9
  CARD11 MUTATED        3
  CARD11 WILD-TYPE     47
D258V10, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1             10               59
  CLUS_2              7               41
  CLUS_3              3               36
  CLUS_4              1               15
  CLUS_5              7               46
  CLUS_6              3               17
  CLUS_7              1               20
  CLUS_8              5               33
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CARD11 MUTATED        1      1      2      0      1      1
  CARD11 WILD-TYPE     12     15     12     11     10      8
D258V11, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CARD11 MUTATED        0      1      0      1      1      1      1      1
  CARD11 WILD-TYPE     11      6      7      8      7      6     10      8
                  vv
clus               CLUS_9
  CARD11 MUTATED        0
  CARD11 WILD-TYPE      5
D258V12, multiclass
        clus
vv       CARD11 MUTATED CARD11 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(259) Variable = IFT57 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFT57 MUTATED        0      0      0      1      0
  IFT57 WILD-TYPE     32     18     46     26     23
D259V1, multiclass
[1] "Remove cluster labels:" "IFT57 MUTATED"         
clus
  IFT57 MUTATED IFT57 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AY-4071 
"IFT57 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFT57 MUTATED        1      0      0
  IFT57 WILD-TYPE     42     67     36
D259V2, multiclass
[1] "Remove cluster labels:" "IFT57 MUTATED"         
clus
  IFT57 MUTATED IFT57 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AY-4071 
"IFT57 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFT57 MUTATED        1      2      7
  IFT57 WILD-TYPE     41    171    140
D259V3, multiclass
        clus
vv       IFT57 MUTATED IFT57 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFT57 MUTATED        3      2      4
  IFT57 WILD-TYPE     59     71     71
D259V4, multiclass
        clus
vv       IFT57 MUTATED IFT57 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFT57 MUTATED        1      3      6
  IFT57 WILD-TYPE     69    117     94
D259V5, multiclass
        clus
vv       IFT57 MUTATED IFT57 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFT57 MUTATED        1      0      0      3      0      4      1      1
  IFT57 WILD-TYPE     40     26     30     26     39     65     19     13
                 vv
clus              CLUS_9
  IFT57 MUTATED        0
  IFT57 WILD-TYPE     22
D259V6, multiclass
        clus
vv       IFT57 MUTATED IFT57 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFT57 MUTATED        2      6      1      1
  IFT57 WILD-TYPE     98     66     71    120
D259V7, multiclass
        clus
vv       IFT57 MUTATED IFT57 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFT57 MUTATED        1      2      6      0      1
  IFT57 WILD-TYPE     58     73     68    119     37
D259V8, multiclass
        clus
vv       IFT57 MUTATED IFT57 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFT57 MUTATED        1      6      1      0      1
  IFT57 WILD-TYPE     50     70     60     71     94
D259V9, multiclass
        clus
vv       IFT57 MUTATED IFT57 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFT57 MUTATED        1      2      0      3      2      0      0      0
  IFT57 WILD-TYPE     68     46     39     13     51     20     21     38
                 vv
clus              CLUS_9
  IFT57 MUTATED        1
  IFT57 WILD-TYPE     49
D259V10, multiclass
        clus
vv       IFT57 MUTATED IFT57 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IFT57 MUTATED        1      0      0      0      0      0
  IFT57 WILD-TYPE     12     16     14     11     11      9
D259V11, multiclass
[1] "Remove cluster labels:" "IFT57 MUTATED"         
clus
  IFT57 MUTATED IFT57 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1HA      TCGA-DM-A282 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-G4-6628 
"IFT57 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFT57 MUTATED        0      0      0      1      0      0      0      0
  IFT57 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  IFT57 MUTATED        0
  IFT57 WILD-TYPE      5
D259V12, multiclass
[1] "Remove cluster labels:" "IFT57 MUTATED"         
clus
  IFT57 MUTATED IFT57 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1HA      TCGA-DM-A282 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" "IFT57 WILD-TYPE" 
     TCGA-G4-6628 
"IFT57 WILD-TYPE" 

Clustering(260) Variable = TNFRSF9 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNFRSF9 MUTATED        1      0      0      0      0
  TNFRSF9 WILD-TYPE     31     18     46     27     23
D260V1, multiclass
[1] "Remove cluster labels:" "TNFRSF9 MUTATED"       
clus
  TNFRSF9 MUTATED TNFRSF9 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AY-4071 
"TNFRSF9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TNFRSF9 MUTATED        1      0      0
  TNFRSF9 WILD-TYPE     42     67     36
D260V2, multiclass
[1] "Remove cluster labels:" "TNFRSF9 MUTATED"       
clus
  TNFRSF9 MUTATED TNFRSF9 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AY-4071 
"TNFRSF9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TNFRSF9 MUTATED        1      2      6
  TNFRSF9 WILD-TYPE     41    171    141
D260V3, multiclass
        clus
vv       TNFRSF9 MUTATED TNFRSF9 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TNFRSF9 MUTATED        2      2      3
  TNFRSF9 WILD-TYPE     60     71     72
D260V4, multiclass
        clus
vv       TNFRSF9 MUTATED TNFRSF9 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               2                71
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TNFRSF9 MUTATED        5      2      2
  TNFRSF9 WILD-TYPE     65    118     98
D260V5, multiclass
        clus
vv       TNFRSF9 MUTATED TNFRSF9 WILD-TYPE
  CLUS_1               5                65
  CLUS_2               2               118
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNFRSF9 MUTATED        3      2      0      2      1      1      0      0
  TNFRSF9 WILD-TYPE     38     24     30     27     38     68     20     14
                   vv
clus                CLUS_9
  TNFRSF9 MUTATED        0
  TNFRSF9 WILD-TYPE     22
D260V6, multiclass
        clus
vv       TNFRSF9 MUTATED TNFRSF9 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               2                24
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNFRSF9 MUTATED        2      2      3      2
  TNFRSF9 WILD-TYPE     98     70     69    119
D260V7, multiclass
        clus
vv       TNFRSF9 MUTATED TNFRSF9 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNFRSF9 MUTATED        2      2      3      1      1
  TNFRSF9 WILD-TYPE     57     73     71    118     37
D260V8, multiclass
        clus
vv       TNFRSF9 MUTATED TNFRSF9 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               3                71
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNFRSF9 MUTATED        2      2      2      1      2
  TNFRSF9 WILD-TYPE     49     74     59     70     93
D260V9, multiclass
        clus
vv       TNFRSF9 MUTATED TNFRSF9 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               2                74
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNFRSF9 MUTATED        1      2      1      1      1      0      1      1
  TNFRSF9 WILD-TYPE     68     46     38     15     52     20     20     37
                   vv
clus                CLUS_9
  TNFRSF9 MUTATED        1
  TNFRSF9 WILD-TYPE     49
D260V10, multiclass
        clus
vv       TNFRSF9 MUTATED TNFRSF9 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TNFRSF9 MUTATED        0      1      0      0      1      0
  TNFRSF9 WILD-TYPE     13     15     14     11     10      9
D260V11, multiclass
[1] "Remove cluster labels:" "TNFRSF9 MUTATED"       
clus
  TNFRSF9 MUTATED TNFRSF9 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6654 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6674        TCGA-CM-6676 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNFRSF9 MUTATED        0      1      0      1      0      0      0      0
  TNFRSF9 WILD-TYPE     11      6      7      8      8      7     11      9
                   vv
clus                CLUS_9
  TNFRSF9 MUTATED        0
  TNFRSF9 WILD-TYPE      5
D260V12, multiclass
[1] "Remove cluster labels:" "TNFRSF9 MUTATED"       
clus
  TNFRSF9 MUTATED TNFRSF9 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6654 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6674        TCGA-CM-6676 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" "TNFRSF9 WILD-TYPE" 

Clustering(261) Variable = WNT16 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNT16 MUTATED        0      0      0      1      0
  WNT16 WILD-TYPE     32     18     46     26     23
D261V1, multiclass
[1] "Remove cluster labels:" "WNT16 MUTATED"         
clus
  WNT16 MUTATED WNT16 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AY-4071 
"WNT16 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WNT16 MUTATED        0      1      0
  WNT16 WILD-TYPE     43     66     36
D261V2, multiclass
[1] "Remove cluster labels:" "WNT16 MUTATED"         
clus
  WNT16 MUTATED WNT16 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AY-4071 
"WNT16 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WNT16 MUTATED        0      2      6
  WNT16 WILD-TYPE     42    171    141
D261V3, multiclass
        clus
vv       WNT16 MUTATED WNT16 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WNT16 MUTATED        4      1      2
  WNT16 WILD-TYPE     58     72     73
D261V4, multiclass
        clus
vv       WNT16 MUTATED WNT16 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WNT16 MUTATED        1      2      3
  WNT16 WILD-TYPE     69    118     97
D261V5, multiclass
        clus
vv       WNT16 MUTATED WNT16 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WNT16 MUTATED        0      0      1      1      1      3      0      0
  WNT16 WILD-TYPE     41     26     29     28     38     66     20     14
                 vv
clus              CLUS_9
  WNT16 MUTATED        0
  WNT16 WILD-TYPE     22
D261V6, multiclass
        clus
vv       WNT16 MUTATED WNT16 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WNT16 MUTATED        2      3      2      1
  WNT16 WILD-TYPE     98     69     70    120
D261V7, multiclass
        clus
vv       WNT16 MUTATED WNT16 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNT16 MUTATED        1      2      4      1      0
  WNT16 WILD-TYPE     58     73     70    118     38
D261V8, multiclass
        clus
vv       WNT16 MUTATED WNT16 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNT16 MUTATED        1      2      2      0      3
  WNT16 WILD-TYPE     50     74     59     71     92
D261V9, multiclass
        clus
vv       WNT16 MUTATED WNT16 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WNT16 MUTATED        1      2      0      1      0      2      0      1
  WNT16 WILD-TYPE     68     46     39     15     53     18     21     37
                 vv
clus              CLUS_9
  WNT16 MUTATED        1
  WNT16 WILD-TYPE     49
D261V10, multiclass
        clus
vv       WNT16 MUTATED WNT16 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WNT16 MUTATED        0      1      0      0      1      0
  WNT16 WILD-TYPE     13     15     14     11     10      9
D261V11, multiclass
[1] "Remove cluster labels:" "WNT16 MUTATED"         
clus
  WNT16 MUTATED WNT16 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-6598      TCGA-AZ-6600 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WNT16 MUTATED        1      0      0      0      0      1      0      0
  WNT16 WILD-TYPE     10      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  WNT16 MUTATED        0
  WNT16 WILD-TYPE      5
D261V12, multiclass
[1] "Remove cluster labels:" "WNT16 MUTATED"         
clus
  WNT16 MUTATED WNT16 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-6598      TCGA-AZ-6600 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" "WNT16 WILD-TYPE" 

Clustering(262) Variable = SLC9A10 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC9A10 MUTATED        2      0      1      1      0
  SLC9A10 WILD-TYPE     30     18     45     26     23
D262V1, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC9A10 MUTATED        2      2      0
  SLC9A10 WILD-TYPE     41     65     36
D262V2, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC9A10 MUTATED        1      3     14
  SLC9A10 WILD-TYPE     41    170    133
D262V3, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3              14               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC9A10 MUTATED        7      2      5
  SLC9A10 WILD-TYPE     55     71     70
D262V4, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               7                55
  CLUS_2               2                71
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC9A10 MUTATED        2      4     12
  SLC9A10 WILD-TYPE     68    116     88
D262V5, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               4               116
  CLUS_3              12                88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC9A10 MUTATED        1      0      2      0      2     10      1      1
  SLC9A10 WILD-TYPE     40     26     28     29     37     59     19     13
                   vv
clus                CLUS_9
  SLC9A10 MUTATED        1
  SLC9A10 WILD-TYPE     21
D262V6, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               0                29
  CLUS_5               2                37
  CLUS_6              10                59
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC9A10 MUTATED        5      5      5      3
  SLC9A10 WILD-TYPE     95     67     67    118
D262V7, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               5                95
  CLUS_2               5                67
  CLUS_3               5                67
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC9A10 MUTATED        3      5      6      2      2
  SLC9A10 WILD-TYPE     56     70     68    117     36
D262V8, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               5                70
  CLUS_3               6                68
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC9A10 MUTATED        1      7      3      2      4
  SLC9A10 WILD-TYPE     50     69     58     69     91
D262V9, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               7                69
  CLUS_3               3                58
  CLUS_4               2                69
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC9A10 MUTATED        2      5      2      2      3      1      0      1
  SLC9A10 WILD-TYPE     67     43     37     14     50     19     21     37
                   vv
clus                CLUS_9
  SLC9A10 MUTATED        1
  SLC9A10 WILD-TYPE     49
D262V10, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               5                43
  CLUS_3               2                37
  CLUS_4               2                14
  CLUS_5               3                50
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC9A10 MUTATED        2      0      1      0      1      0
  SLC9A10 WILD-TYPE     11     16     13     11     10      9
D262V11, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               2                11
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC9A10 MUTATED        0      0      0      1      0      1      1      1
  SLC9A10 WILD-TYPE     11      7      7      8      8      6     10      8
                   vv
clus                CLUS_9
  SLC9A10 MUTATED        0
  SLC9A10 WILD-TYPE      5
D262V12, multiclass
        clus
vv       SLC9A10 MUTATED SLC9A10 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(263) Variable = VAV2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VAV2 MUTATED        0      0      1      0      0
  VAV2 WILD-TYPE     32     18     45     27     23
D263V1, multiclass
[1] "Remove cluster labels:" "VAV2 MUTATED"          
clus
  VAV2 MUTATED VAV2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3538     TCGA-AA-3542 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AY-4071 
"VAV2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV2 MUTATED        0      1      0
  VAV2 WILD-TYPE     43     66     36
D263V2, multiclass
[1] "Remove cluster labels:" "VAV2 MUTATED"          
clus
  VAV2 MUTATED VAV2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3538     TCGA-AA-3542 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" "VAV2 WILD-TYPE" 
    TCGA-AY-4071 
"VAV2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV2 MUTATED        1      5     11
  VAV2 WILD-TYPE     41    168    136
D263V3, multiclass
        clus
vv       VAV2 MUTATED VAV2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            5            168
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV2 MUTATED        6      4      5
  VAV2 WILD-TYPE     56     69     70
D263V4, multiclass
        clus
vv       VAV2 MUTATED VAV2 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            4             69
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV2 MUTATED        2      3      9
  VAV2 WILD-TYPE     68    117     91
D263V5, multiclass
        clus
vv       VAV2 MUTATED VAV2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VAV2 MUTATED        1      0      1      1      0      9      2      0      0
  VAV2 WILD-TYPE     40     26     29     28     39     60     18     14     22
D263V6, multiclass
        clus
vv       VAV2 MUTATED VAV2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            9             60
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VAV2 MUTATED        6      5      5      1
  VAV2 WILD-TYPE     94     67     67    120
D263V7, multiclass
        clus
vv       VAV2 MUTATED VAV2 WILD-TYPE
  CLUS_1            6             94
  CLUS_2            5             67
  CLUS_3            5             67
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VAV2 MUTATED        3      6      6      1      1
  VAV2 WILD-TYPE     56     69     68    118     37
D263V8, multiclass
        clus
vv       VAV2 MUTATED VAV2 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            6             69
  CLUS_3            6             68
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VAV2 MUTATED        2     11      0      2      2
  VAV2 WILD-TYPE     49     65     61     69     93
D263V9, multiclass
        clus
vv       VAV2 MUTATED VAV2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2           11             65
  CLUS_3            0             61
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VAV2 MUTATED        8      2      2      2      2      0      0      1      0
  VAV2 WILD-TYPE     61     46     37     14     51     20     21     37     50
D263V10, multiclass
        clus
vv       VAV2 MUTATED VAV2 WILD-TYPE
  CLUS_1            8             61
  CLUS_2            2             46
  CLUS_3            2             37
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VAV2 MUTATED        1      0      2      1      1      0
  VAV2 WILD-TYPE     12     16     12     10     10      9
D263V11, multiclass
        clus
vv       VAV2 MUTATED VAV2 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VAV2 MUTATED        0      0      0      0      1      1      2      1      0
  VAV2 WILD-TYPE     11      7      7      9      7      6      9      8      5
D263V12, multiclass
        clus
vv       VAV2 MUTATED VAV2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(264) Variable = HMG20A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HMG20A MUTATED        1      0      2      1      0
  HMG20A WILD-TYPE     31     18     44     26     23
D264V1, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              2               44
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HMG20A MUTATED        1      1      2
  HMG20A WILD-TYPE     42     66     34
D264V2, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HMG20A MUTATED        2      3      8
  HMG20A WILD-TYPE     40    170    139
D264V3, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3              170
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HMG20A MUTATED        4      1      4
  HMG20A WILD-TYPE     58     72     71
D264V4, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HMG20A MUTATED        3      3      6
  HMG20A WILD-TYPE     67    117     94
D264V5, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              3               67
  CLUS_2              3              117
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HMG20A MUTATED        2      0      1      0      2      4      1      2
  HMG20A WILD-TYPE     39     26     29     29     37     65     19     12
                  vv
clus               CLUS_9
  HMG20A MUTATED        0
  HMG20A WILD-TYPE     22
D264V6, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HMG20A MUTATED        1      5      2      5
  HMG20A WILD-TYPE     99     67     70    116
D264V7, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              1               99
  CLUS_2              5               67
  CLUS_3              2               70
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HMG20A MUTATED        1      3      4      4      1
  HMG20A WILD-TYPE     58     72     70    115     37
D264V8, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              4               70
  CLUS_4              4              115
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HMG20A MUTATED        2      3      2      2      4
  HMG20A WILD-TYPE     49     73     59     69     91
D264V9, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HMG20A MUTATED        3      2      0      1      2      2      0      0
  HMG20A WILD-TYPE     66     46     39     15     51     18     21     38
                  vv
clus               CLUS_9
  HMG20A MUTATED        3
  HMG20A WILD-TYPE     47
D264V10, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HMG20A MUTATED        1      0      1      0      1      0
  HMG20A WILD-TYPE     12     16     13     11     10      9
D264V11, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HMG20A MUTATED        0      0      0      0      1      0      1      1
  HMG20A WILD-TYPE     11      7      7      9      7      7     10      8
                  vv
clus               CLUS_9
  HMG20A MUTATED        0
  HMG20A WILD-TYPE      5
D264V12, multiclass
        clus
vv       HMG20A MUTATED HMG20A WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(265) Variable = ETF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ETF1 MUTATED        2      0      0      0      0
  ETF1 WILD-TYPE     30     18     46     27     23
D265V1, multiclass
[1] "Remove cluster labels:" "ETF1 MUTATED"          
clus
  ETF1 MUTATED ETF1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3968 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ETF1 MUTATED        2      0      0
  ETF1 WILD-TYPE     41     67     36
D265V2, multiclass
[1] "Remove cluster labels:" "ETF1 MUTATED"          
clus
  ETF1 MUTATED ETF1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3968 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ETF1 MUTATED        2      2      6
  ETF1 WILD-TYPE     40    171    141
D265V3, multiclass
        clus
vv       ETF1 MUTATED ETF1 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2            171
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ETF1 MUTATED        4      0      4
  ETF1 WILD-TYPE     58     73     71
D265V4, multiclass
        clus
vv       ETF1 MUTATED ETF1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ETF1 MUTATED        1      3      4
  ETF1 WILD-TYPE     69    117     96
D265V5, multiclass
        clus
vv       ETF1 MUTATED ETF1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ETF1 MUTATED        1      1      0      1      0      3      0      1      1
  ETF1 WILD-TYPE     40     25     30     28     39     66     20     13     21
D265V6, multiclass
        clus
vv       ETF1 MUTATED ETF1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ETF1 MUTATED        2      3      3      2
  ETF1 WILD-TYPE     98     69     69    119
D265V7, multiclass
        clus
vv       ETF1 MUTATED ETF1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            3             69
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ETF1 MUTATED        4      1      3      1      1
  ETF1 WILD-TYPE     55     74     71    118     37
D265V8, multiclass
        clus
vv       ETF1 MUTATED ETF1 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ETF1 MUTATED        1      3      4      0      2
  ETF1 WILD-TYPE     50     73     57     71     93
D265V9, multiclass
        clus
vv       ETF1 MUTATED ETF1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            4             57
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ETF1 MUTATED        2      3      1      1      1      0      1      1      0
  ETF1 WILD-TYPE     67     45     38     15     52     20     20     37     50
D265V10, multiclass
        clus
vv       ETF1 MUTATED ETF1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ETF1 MUTATED        0      2      0      0      0      0
  ETF1 WILD-TYPE     13     14     14     11     11      9
D265V11, multiclass
[1] "Remove cluster labels:" "ETF1 MUTATED"          
clus
  ETF1 MUTATED ETF1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-G4-6299     TCGA-G4-6303 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ETF1 MUTATED        0      2      0      0      0      0      0      0      0
  ETF1 WILD-TYPE     11      5      7      9      8      7     11      9      5
D265V12, multiclass
[1] "Remove cluster labels:" "ETF1 MUTATED"          
clus
  ETF1 MUTATED ETF1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-G4-6299     TCGA-G4-6303 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" "ETF1 WILD-TYPE" 

Clustering(266) Variable = CBL MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBL MUTATED        1      0      1      1      0
  CBL WILD-TYPE     31     18     45     26     23
D266V1, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1           1            31
  CLUS_2           0            18
  CLUS_3           1            45
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CBL MUTATED        1      1      1
  CBL WILD-TYPE     42     66     35
D266V2, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1           1            42
  CLUS_2           1            66
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CBL MUTATED        2     17     15
  CBL WILD-TYPE     40    156    132
D266V3, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1           2            40
  CLUS_2          17           156
  CLUS_3          15           132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CBL MUTATED       11     13      7
  CBL WILD-TYPE     51     60     68
D266V4, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1          11            51
  CLUS_2          13            60
  CLUS_3           7            68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CBL MUTATED        4     15     11
  CBL WILD-TYPE     66    105     89
D266V5, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1           4            66
  CLUS_2          15           105
  CLUS_3          11            89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CBL MUTATED        4      1      4      1      1     10      0      6      3
  CBL WILD-TYPE     37     25     26     28     38     59     20      8     19
D266V6, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1           4            37
  CLUS_2           1            25
  CLUS_3           4            26
  CLUS_4           1            28
  CLUS_5           1            38
  CLUS_6          10            59
  CLUS_7           0            20
  CLUS_8           6             8
  CLUS_9           3            19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CBL MUTATED       12     10      7      5
  CBL WILD-TYPE     88     62     65    116
D266V7, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1          12            88
  CLUS_2          10            62
  CLUS_3           7            65
  CLUS_4           5           116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBL MUTATED       10     10      9      4      1
  CBL WILD-TYPE     49     65     65    115     37
D266V8, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1          10            49
  CLUS_2          10            65
  CLUS_3           9            65
  CLUS_4           4           115
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBL MUTATED        9     12      4      5      4
  CBL WILD-TYPE     42     64     57     66     91
D266V9, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1           9            42
  CLUS_2          12            64
  CLUS_3           4            57
  CLUS_4           5            66
  CLUS_5           4            91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CBL MUTATED        9      8      1      2      4      7      0      0      3
  CBL WILD-TYPE     60     40     38     14     49     13     21     38     47
D266V10, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1           9            60
  CLUS_2           8            40
  CLUS_3           1            38
  CLUS_4           2            14
  CLUS_5           4            49
  CLUS_6           7            13
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           3            47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CBL MUTATED        2      4      1      1      3      1
  CBL WILD-TYPE     11     12     13     10      8      8
D266V11, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1           2            11
  CLUS_2           4            12
  CLUS_3           1            13
  CLUS_4           1            10
  CLUS_5           3             8
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CBL MUTATED        1      1      2      1      0      0      4      3      0
  CBL WILD-TYPE     10      6      5      8      8      7      7      6      5
D266V12, multiclass
        clus
vv       CBL MUTATED CBL WILD-TYPE
  CLUS_1           1            10
  CLUS_2           1             6
  CLUS_3           2             5
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           4             7
  CLUS_8           3             6
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(267) Variable = PRB4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRB4 MUTATED        0      1      0      1      1
  PRB4 WILD-TYPE     32     17     46     26     22
D267V1, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            0             32
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB4 MUTATED        0      1      2
  PRB4 WILD-TYPE     43     66     34
D267V2, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            0             43
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB4 MUTATED        0      6      4
  PRB4 WILD-TYPE     42    167    143
D267V3, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            6            167
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB4 MUTATED        3      3      1
  PRB4 WILD-TYPE     59     70     74
D267V4, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            3             70
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB4 MUTATED        2      2      5
  PRB4 WILD-TYPE     68    118     95
D267V5, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            2            118
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PRB4 MUTATED        5      0      1      1      0      1      0      0      1
  PRB4 WILD-TYPE     36     26     29     28     39     68     20     14     21
D267V6, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            5             36
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRB4 MUTATED        2      0      5      3
  PRB4 WILD-TYPE     98     72     67    118
D267V7, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            0             72
  CLUS_3            5             67
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRB4 MUTATED        5      2      0      3      0
  PRB4 WILD-TYPE     54     73     74    116     38
D267V8, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            5             54
  CLUS_2            2             73
  CLUS_3            0             74
  CLUS_4            3            116
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRB4 MUTATED        2      1      3      3      1
  PRB4 WILD-TYPE     49     75     58     68     94
D267V9, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            1             75
  CLUS_3            3             58
  CLUS_4            3             68
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PRB4 MUTATED        2      3      2      0      1      1      0      0      1
  PRB4 WILD-TYPE     67     45     37     16     52     19     21     38     49
D267V10, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            2             37
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRB4 MUTATED        1      1      1      0      0      0
  PRB4 WILD-TYPE     12     15     13     11     11      9
D267V11, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PRB4 MUTATED        0      1      0      0      1      0      0      1      0
  PRB4 WILD-TYPE     11      6      7      9      7      7     11      8      5
D267V12, multiclass
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(268) Variable = SOX7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SOX7 MUTATED        3      0      0      1      0
  SOX7 WILD-TYPE     29     18     46     26     23
D268V1, multiclass
        clus
vv       SOX7 MUTATED SOX7 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX7 MUTATED        3      1      0
  SOX7 WILD-TYPE     40     66     36
D268V2, multiclass
        clus
vv       SOX7 MUTATED SOX7 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX7 MUTATED        1      1      8
  SOX7 WILD-TYPE     41    172    139
D268V3, multiclass
        clus
vv       SOX7 MUTATED SOX7 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX7 MUTATED        2      1      4
  SOX7 WILD-TYPE     60     72     71
D268V4, multiclass
        clus
vv       SOX7 MUTATED SOX7 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX7 MUTATED        0      4      7
  SOX7 WILD-TYPE     70    116     93
D268V5, multiclass
        clus
vv       SOX7 MUTATED SOX7 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SOX7 MUTATED        1      0      1      2      1      4      2      0      0
  SOX7 WILD-TYPE     40     26     29     27     38     65     18     14     22
D268V6, multiclass
        clus
vv       SOX7 MUTATED SOX7 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOX7 MUTATED        1      5      1      4
  SOX7 WILD-TYPE     99     67     71    117
D268V7, multiclass
        clus
vv       SOX7 MUTATED SOX7 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            1             71
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SOX7 MUTATED        1      3      3      2      2
  SOX7 WILD-TYPE     58     72     71    117     36
D268V8, multiclass
        clus
vv       SOX7 MUTATED SOX7 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SOX7 MUTATED        0      4      1      1      5
  SOX7 WILD-TYPE     51     72     60     70     90
D268V9, multiclass
        clus
vv       SOX7 MUTATED SOX7 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SOX7 MUTATED        1      1      0      2      2      1      1      2      1
  SOX7 WILD-TYPE     68     47     39     14     51     19     20     36     49
D268V10, multiclass
        clus
vv       SOX7 MUTATED SOX7 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SOX7 MUTATED        0      0      0      0      1      1
  SOX7 WILD-TYPE     13     16     14     11     10      8
D268V11, multiclass
[1] "Remove cluster labels:" "SOX7 MUTATED"          
clus
  SOX7 MUTATED SOX7 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D8     TCGA-DM-A1D9 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SOX7 MUTATED        0      0      0      1      0      0      0      1      0
  SOX7 WILD-TYPE     11      7      7      8      8      7     11      8      5
D268V12, multiclass
[1] "Remove cluster labels:" "SOX7 MUTATED"          
clus
  SOX7 MUTATED SOX7 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D8     TCGA-DM-A1D9 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" "SOX7 WILD-TYPE" 

Clustering(269) Variable = ARHGAP5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP5 MUTATED        3      1      0      0      0
  ARHGAP5 WILD-TYPE     29     17     46     27     23
D269V1, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               1                17
  CLUS_3               0                46
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGAP5 MUTATED        3      1      0
  ARHGAP5 WILD-TYPE     40     66     36
D269V2, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGAP5 MUTATED        0      3     16
  ARHGAP5 WILD-TYPE     42    170    131
D269V3, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3              16               131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGAP5 MUTATED        5      1      8
  ARHGAP5 WILD-TYPE     57     72     67
D269V4, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               1                72
  CLUS_3               8                67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGAP5 MUTATED        2      6      9
  ARHGAP5 WILD-TYPE     68    114     91
D269V5, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               6               114
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP5 MUTATED        2      3      1      0      2      6      1      1
  ARHGAP5 WILD-TYPE     39     23     29     29     37     63     19     13
                   vv
clus                CLUS_9
  ARHGAP5 MUTATED        1
  ARHGAP5 WILD-TYPE     21
D269V6, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               3                23
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               2                37
  CLUS_6               6                63
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGAP5 MUTATED        2      5      7      5
  ARHGAP5 WILD-TYPE     98     67     65    116
D269V7, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               5                67
  CLUS_3               7                65
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP5 MUTATED        4      0      9      2      4
  ARHGAP5 WILD-TYPE     55     75     65    117     34
D269V8, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               0                75
  CLUS_3               9                65
  CLUS_4               2               117
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP5 MUTATED        2      7      3      2      5
  ARHGAP5 WILD-TYPE     49     69     58     69     90
D269V9, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               7                69
  CLUS_3               3                58
  CLUS_4               2                69
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP5 MUTATED        3      4      0      5      1      0      1      4
  ARHGAP5 WILD-TYPE     66     44     39     11     52     20     20     34
                   vv
clus                CLUS_9
  ARHGAP5 MUTATED        1
  ARHGAP5 WILD-TYPE     49
D269V10, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               5                11
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               4                34
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARHGAP5 MUTATED        0      0      1      1      3      1
  ARHGAP5 WILD-TYPE     13     16     13     10      8      8
D269V11, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               3                 8
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP5 MUTATED        1      0      0      1      1      0      3      0
  ARHGAP5 WILD-TYPE     10      7      7      8      7      7      8      9
                   vv
clus                CLUS_9
  ARHGAP5 MUTATED        0
  ARHGAP5 WILD-TYPE      5
D269V12, multiclass
        clus
vv       ARHGAP5 MUTATED ARHGAP5 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               3                 8
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(270) Variable = MAGEC1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEC1 MUTATED        5      0      3      2      0
  MAGEC1 WILD-TYPE     27     18     43     25     23
D270V1, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              3               43
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEC1 MUTATED        4      2      4
  MAGEC1 WILD-TYPE     39     65     32
D270V2, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              2               65
  CLUS_3              4               32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEC1 MUTATED        1     12     14
  MAGEC1 WILD-TYPE     41    161    133
D270V3, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2             12              161
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEC1 MUTATED        4      6      9
  MAGEC1 WILD-TYPE     58     67     66
D270V4, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              6               67
  CLUS_3              9               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEC1 MUTATED        4      9      8
  MAGEC1 WILD-TYPE     66    111     92
D270V5, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              9              111
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEC1 MUTATED        2      2      1      4      4      3      1      0
  MAGEC1 WILD-TYPE     39     24     29     25     35     66     19     14
                  vv
clus               CLUS_9
  MAGEC1 MUTATED        4
  MAGEC1 WILD-TYPE     18
D270V6, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              4               25
  CLUS_5              4               35
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              4               18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAGEC1 MUTATED        7      6      7      8
  MAGEC1 WILD-TYPE     93     66     65    113
D270V7, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              7               93
  CLUS_2              6               66
  CLUS_3              7               65
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEC1 MUTATED        6      6      6      6      4
  MAGEC1 WILD-TYPE     53     69     68    113     34
D270V8, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              6               53
  CLUS_2              6               69
  CLUS_3              6               68
  CLUS_4              6              113
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEC1 MUTATED        6      4      6      6      5
  MAGEC1 WILD-TYPE     45     72     55     65     90
D270V9, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              6               45
  CLUS_2              4               72
  CLUS_3              6               55
  CLUS_4              6               65
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEC1 MUTATED        3      3      3      1      5      5      1      3
  MAGEC1 WILD-TYPE     66     45     36     15     48     15     20     35
                  vv
clus               CLUS_9
  MAGEC1 MUTATED        3
  MAGEC1 WILD-TYPE     47
D270V10, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               45
  CLUS_3              3               36
  CLUS_4              1               15
  CLUS_5              5               48
  CLUS_6              5               15
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAGEC1 MUTATED        1      0      1      0      1      2
  MAGEC1 WILD-TYPE     12     16     13     11     10      7
D270V11, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEC1 MUTATED        1      0      0      1      0      0      0      1
  MAGEC1 WILD-TYPE     10      7      7      8      8      7     11      8
                  vv
clus               CLUS_9
  MAGEC1 MUTATED        2
  MAGEC1 WILD-TYPE      3
D270V12, multiclass
        clus
vv       MAGEC1 MUTATED MAGEC1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              1                8
  CLUS_9              2                3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(271) Variable = RAB28 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB28 MUTATED        0      0      0      0      0
  RAB28 WILD-TYPE     32     18     46     27     23
D271V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB28 MUTATED        0      0      0
  RAB28 WILD-TYPE     43     67     36
D271V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB28 MUTATED        1      0      5
  RAB28 WILD-TYPE     41    173    142
D271V3, multiclass
        clus
vv       RAB28 MUTATED RAB28 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB28 MUTATED        2      0      4
  RAB28 WILD-TYPE     60     73     71
D271V4, multiclass
        clus
vv       RAB28 MUTATED RAB28 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB28 MUTATED        0      3      3
  RAB28 WILD-TYPE     70    117     97
D271V5, multiclass
        clus
vv       RAB28 MUTATED RAB28 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB28 MUTATED        0      1      0      1      0      3      1      0
  RAB28 WILD-TYPE     41     25     30     28     39     66     19     14
                 vv
clus              CLUS_9
  RAB28 MUTATED        0
  RAB28 WILD-TYPE     22
D271V6, multiclass
        clus
vv       RAB28 MUTATED RAB28 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAB28 MUTATED        1      4      1      0
  RAB28 WILD-TYPE     99     68     71    121
D271V7, multiclass
        clus
vv       RAB28 MUTATED RAB28 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB28 MUTATED        0      2      4      0      0
  RAB28 WILD-TYPE     59     73     70    119     38
D271V8, multiclass
        clus
vv       RAB28 MUTATED RAB28 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB28 MUTATED        1      5      0      0      0
  RAB28 WILD-TYPE     50     71     61     71     95
D271V9, multiclass
        clus
vv       RAB28 MUTATED RAB28 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB28 MUTATED        2      0      1      2      1      0      0      0
  RAB28 WILD-TYPE     67     48     38     14     52     20     21     38
                 vv
clus              CLUS_9
  RAB28 MUTATED        0
  RAB28 WILD-TYPE     50
D271V10, multiclass
        clus
vv       RAB28 MUTATED RAB28 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAB28 MUTATED        0      0      0      0      1      0
  RAB28 WILD-TYPE     13     16     14     11     10      9
D271V11, multiclass
[1] "Remove cluster labels:" "RAB28 MUTATED"         
clus
  RAB28 MUTATED RAB28 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-G4-6628 
"RAB28 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB28 MUTATED        0      0      0      1      0      0      0      0
  RAB28 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  RAB28 MUTATED        0
  RAB28 WILD-TYPE      5
D271V12, multiclass
[1] "Remove cluster labels:" "RAB28 MUTATED"         
clus
  RAB28 MUTATED RAB28 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" "RAB28 WILD-TYPE" 
     TCGA-G4-6628 
"RAB28 WILD-TYPE" 

Clustering(272) Variable = UBR4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBR4 MUTATED        6      0      1      2      0
  UBR4 WILD-TYPE     26     18     45     25     23
D272V1, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR4 MUTATED        6      1      2
  UBR4 WILD-TYPE     37     66     34
D272V2, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR4 MUTATED        1      9     28
  UBR4 WILD-TYPE     41    164    119
D272V3, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            9            164
  CLUS_3           28            119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR4 MUTATED       11      6     12
  UBR4 WILD-TYPE     51     67     63
D272V4, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1           11             51
  CLUS_2            6             67
  CLUS_3           12             63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR4 MUTATED        4     10     17
  UBR4 WILD-TYPE     66    110     83
D272V5, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1            4             66
  CLUS_2           10            110
  CLUS_3           17             83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBR4 MUTATED        1      0      3      3      5     14      3      1      1
  UBR4 WILD-TYPE     40     26     27     26     34     55     17     13     21
D272V6, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            3             27
  CLUS_4            3             26
  CLUS_5            5             34
  CLUS_6           14             55
  CLUS_7            3             17
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UBR4 MUTATED        7     15      8      9
  UBR4 WILD-TYPE     93     57     64    112
D272V7, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1            7             93
  CLUS_2           15             57
  CLUS_3            8             64
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBR4 MUTATED        2     10     18      3      6
  UBR4 WILD-TYPE     57     65     56    116     32
D272V8, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1            2             57
  CLUS_2           10             65
  CLUS_3           18             56
  CLUS_4            3            116
  CLUS_5            6             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBR4 MUTATED        3     21      3      3      9
  UBR4 WILD-TYPE     48     55     58     68     86
D272V9, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1            3             48
  CLUS_2           21             55
  CLUS_3            3             58
  CLUS_4            3             68
  CLUS_5            9             86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBR4 MUTATED        8      6      2      8      6      3      0      5      1
  UBR4 WILD-TYPE     61     42     37      8     47     17     21     33     49
D272V10, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1            8             61
  CLUS_2            6             42
  CLUS_3            2             37
  CLUS_4            8              8
  CLUS_5            6             47
  CLUS_6            3             17
  CLUS_7            0             21
  CLUS_8            5             33
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UBR4 MUTATED        1      0      3      1      2      0
  UBR4 WILD-TYPE     12     16     11     10      9      9
D272V11, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            3             11
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBR4 MUTATED        0      0      0      0      3      1      1      2      0
  UBR4 WILD-TYPE     11      7      7      9      5      6     10      7      5
D272V12, multiclass
        clus
vv       UBR4 MUTATED UBR4 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            3              5
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            2              7
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(273) Variable = OR2T33 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2T33 MUTATED        3      0      0      1      0
  OR2T33 WILD-TYPE     29     18     46     26     23
D273V1, multiclass
        clus
vv       OR2T33 MUTATED OR2T33 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR2T33 MUTATED        2      1      1
  OR2T33 WILD-TYPE     41     66     35
D273V2, multiclass
        clus
vv       OR2T33 MUTATED OR2T33 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR2T33 MUTATED        1      6      9
  OR2T33 WILD-TYPE     41    167    138
D273V3, multiclass
        clus
vv       OR2T33 MUTATED OR2T33 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              6              167
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR2T33 MUTATED        6      2      3
  OR2T33 WILD-TYPE     56     71     72
D273V4, multiclass
        clus
vv       OR2T33 MUTATED OR2T33 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR2T33 MUTATED        2      5      6
  OR2T33 WILD-TYPE     68    115     94
D273V5, multiclass
        clus
vv       OR2T33 MUTATED OR2T33 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2T33 MUTATED        3      0      2      1      2      3      1      0
  OR2T33 WILD-TYPE     38     26     28     28     37     66     19     14
                  vv
clus               CLUS_9
  OR2T33 MUTATED        1
  OR2T33 WILD-TYPE     21
D273V6, multiclass
        clus
vv       OR2T33 MUTATED OR2T33 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2T33 MUTATED        3      4      4      5
  OR2T33 WILD-TYPE     97     68     68    116
D273V7, multiclass
        clus
vv       OR2T33 MUTATED OR2T33 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              4               68
  CLUS_3              4               68
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2T33 MUTATED        4      5      2      3      2
  OR2T33 WILD-TYPE     55     70     72    116     36
D273V8, multiclass
        clus
vv       OR2T33 MUTATED OR2T33 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              5               70
  CLUS_3              2               72
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2T33 MUTATED        3      3      2      3      5
  OR2T33 WILD-TYPE     48     73     59     68     90
D273V9, multiclass
        clus
vv       OR2T33 MUTATED OR2T33 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              3               68
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2T33 MUTATED        3      3      0      0      3      2      0      3
  OR2T33 WILD-TYPE     66     45     39     16     50     18     21     35
                  vv
clus               CLUS_9
  OR2T33 MUTATED        2
  OR2T33 WILD-TYPE     48
D273V10, multiclass
        clus
vv       OR2T33 MUTATED OR2T33 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR2T33 MUTATED        0      1      1      0      0      0
  OR2T33 WILD-TYPE     13     15     13     11     11      9
D273V11, multiclass
[1] "Remove cluster labels:" "OR2T33 MUTATED"        
clus
  OR2T33 MUTATED OR2T33 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6628 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2T33 MUTATED        1      0      0      0      1      0      0      0
  OR2T33 WILD-TYPE     10      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  OR2T33 MUTATED        0
  OR2T33 WILD-TYPE      5
D273V12, multiclass
[1] "Remove cluster labels:" "OR2T33 MUTATED"        
clus
  OR2T33 MUTATED OR2T33 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6628 
"OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" "OR2T33 WILD-TYPE" 

Clustering(274) Variable = TRIP11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIP11 MUTATED        3      0      0      2      0
  TRIP11 WILD-TYPE     29     18     46     25     23
D274V1, multiclass
        clus
vv       TRIP11 MUTATED TRIP11 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP11 MUTATED        3      1      1
  TRIP11 WILD-TYPE     40     66     35
D274V2, multiclass
        clus
vv       TRIP11 MUTATED TRIP11 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP11 MUTATED        0      3     16
  TRIP11 WILD-TYPE     42    170    131
D274V3, multiclass
        clus
vv       TRIP11 MUTATED TRIP11 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3             16              131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP11 MUTATED        4      3      7
  TRIP11 WILD-TYPE     58     70     68
D274V4, multiclass
        clus
vv       TRIP11 MUTATED TRIP11 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              3               70
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP11 MUTATED        1      6      7
  TRIP11 WILD-TYPE     69    114     93
D274V5, multiclass
        clus
vv       TRIP11 MUTATED TRIP11 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              6              114
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIP11 MUTATED        1      0      2      3      0      5      2      1
  TRIP11 WILD-TYPE     40     26     28     26     39     64     18     13
                  vv
clus               CLUS_9
  TRIP11 MUTATED        0
  TRIP11 WILD-TYPE     22
D274V6, multiclass
        clus
vv       TRIP11 MUTATED TRIP11 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIP11 MUTATED        3      8      3      5
  TRIP11 WILD-TYPE     97     64     69    116
D274V7, multiclass
        clus
vv       TRIP11 MUTATED TRIP11 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              8               64
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIP11 MUTATED        3      4      7      2      3
  TRIP11 WILD-TYPE     56     71     67    117     35
D274V8, multiclass
        clus
vv       TRIP11 MUTATED TRIP11 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              4               71
  CLUS_3              7               67
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIP11 MUTATED        1      9      3      1      4
  TRIP11 WILD-TYPE     50     67     58     70     91
D274V9, multiclass
        clus
vv       TRIP11 MUTATED TRIP11 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              9               67
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIP11 MUTATED        4      3      1      4      2      1      0      2
  TRIP11 WILD-TYPE     65     45     38     12     51     19     21     36
                  vv
clus               CLUS_9
  TRIP11 MUTATED        1
  TRIP11 WILD-TYPE     49
D274V10, multiclass
        clus
vv       TRIP11 MUTATED TRIP11 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              4               12
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIP11 MUTATED        1      0      1      0      0      0
  TRIP11 WILD-TYPE     12     16     13     11     11      9
D274V11, multiclass
[1] "Remove cluster labels:" "TRIP11 MUTATED"        
clus
  TRIP11 MUTATED TRIP11 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6605 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIP11 MUTATED        0      0      1      0      0      0      1      0
  TRIP11 WILD-TYPE     11      7      6      9      8      7     10      9
                  vv
clus               CLUS_9
  TRIP11 MUTATED        0
  TRIP11 WILD-TYPE      5
D274V12, multiclass
[1] "Remove cluster labels:" "TRIP11 MUTATED"        
clus
  TRIP11 MUTATED TRIP11 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6605 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" "TRIP11 WILD-TYPE" 

Clustering(275) Variable = ZBTB7C MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB7C MUTATED        2      1      0      2      0
  ZBTB7C WILD-TYPE     30     17     46     25     23
D275V1, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              2               30
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB7C MUTATED        4      1      0
  ZBTB7C WILD-TYPE     39     66     36
D275V2, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB7C MUTATED        1      2     11
  ZBTB7C WILD-TYPE     41    171    136
D275V3, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB7C MUTATED        2      2      5
  ZBTB7C WILD-TYPE     60     71     70
D275V4, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB7C MUTATED        4      5      2
  ZBTB7C WILD-TYPE     66    115     98
D275V5, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              4               66
  CLUS_2              5              115
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB7C MUTATED        2      2      0      0      4      1      0      2
  ZBTB7C WILD-TYPE     39     24     30     29     35     68     20     12
                  vv
clus               CLUS_9
  ZBTB7C MUTATED        0
  ZBTB7C WILD-TYPE     22
D275V6, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              4               35
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZBTB7C MUTATED        3      5      2      4
  ZBTB7C WILD-TYPE     97     67     70    117
D275V7, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              3               97
  CLUS_2              5               67
  CLUS_3              2               70
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB7C MUTATED        1      2      6      1      4
  ZBTB7C WILD-TYPE     58     73     68    118     34
D275V8, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB7C MUTATED        2      5      2      0      5
  ZBTB7C WILD-TYPE     49     71     59     71     90
D275V9, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              2               49
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB7C MUTATED        0      2      2      4      2      0      0      4
  ZBTB7C WILD-TYPE     69     46     37     12     51     20     21     34
                  vv
clus               CLUS_9
  ZBTB7C MUTATED        0
  ZBTB7C WILD-TYPE     50
D275V10, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              2               37
  CLUS_4              4               12
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              4               34
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZBTB7C MUTATED        0      0      0      1      2      0
  ZBTB7C WILD-TYPE     13     16     14     10      9      9
D275V11, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB7C MUTATED        0      0      1      2      0      0      0      0
  ZBTB7C WILD-TYPE     11      7      6      7      8      7     11      9
                  vv
clus               CLUS_9
  ZBTB7C MUTATED        0
  ZBTB7C WILD-TYPE      5
D275V12, multiclass
        clus
vv       ZBTB7C MUTATED ZBTB7C WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(276) Variable = ABCC4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCC4 MUTATED        2      0      2      2      0
  ABCC4 WILD-TYPE     30     18     44     25     23
D276V1, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC4 MUTATED        2      2      2
  ABCC4 WILD-TYPE     41     65     34
D276V2, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC4 MUTATED        1      5     14
  ABCC4 WILD-TYPE     41    168    133
D276V3, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC4 MUTATED        6      2      4
  ABCC4 WILD-TYPE     56     71     71
D276V4, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC4 MUTATED        3      5      9
  ABCC4 WILD-TYPE     67    115     91
D276V5, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             5             115
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCC4 MUTATED        2      1      3      2      1      7      1      0
  ABCC4 WILD-TYPE     39     25     27     27     38     62     19     14
                 vv
clus              CLUS_9
  ABCC4 MUTATED        0
  ABCC4 WILD-TYPE     22
D276V6, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             3              27
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCC4 MUTATED        6      5      3      6
  ABCC4 WILD-TYPE     94     67     69    115
D276V7, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             6              94
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCC4 MUTATED        2      5      5      4      4
  ABCC4 WILD-TYPE     57     70     69    115     34
D276V8, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             5              70
  CLUS_3             5              69
  CLUS_4             4             115
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCC4 MUTATED        3      4      3      3      6
  ABCC4 WILD-TYPE     48     72     58     68     89
D276V9, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             3              68
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCC4 MUTATED        2      4      1      2      4      1      0      3
  ABCC4 WILD-TYPE     67     44     38     14     49     19     21     35
                 vv
clus              CLUS_9
  ABCC4 MUTATED        2
  ABCC4 WILD-TYPE     48
D276V10, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             4              49
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABCC4 MUTATED        1      1      0      0      1      1
  ABCC4 WILD-TYPE     12     15     14     11     10      8
D276V11, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCC4 MUTATED        0      0      0      1      0      2      1      0
  ABCC4 WILD-TYPE     11      7      7      8      8      5     10      9
                 vv
clus              CLUS_9
  ABCC4 MUTATED        0
  ABCC4 WILD-TYPE      5
D276V12, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             2               5
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(277) Variable = CENPF MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CENPF MUTATED       10      0      0      2      0
  CENPF WILD-TYPE     22     18     46     25     23
D277V1, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1            10              22
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPF MUTATED       11      1      0
  CENPF WILD-TYPE     32     66     36
D277V2, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1            11              32
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPF MUTATED        1     12     27
  CENPF WILD-TYPE     41    161    120
D277V3, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1             1              41
  CLUS_2            12             161
  CLUS_3            27             120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPF MUTATED        8      8     13
  CENPF WILD-TYPE     54     65     62
D277V4, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1             8              54
  CLUS_2             8              65
  CLUS_3            13              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPF MUTATED        4     14     19
  CENPF WILD-TYPE     66    106     81
D277V5, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1             4              66
  CLUS_2            14             106
  CLUS_3            19              81
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CENPF MUTATED        7      2      3      4      2     12      5      0
  CENPF WILD-TYPE     34     24     27     25     37     57     15     14
                 vv
clus              CLUS_9
  CENPF MUTATED        2
  CENPF WILD-TYPE     20
D277V6, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1             7              34
  CLUS_2             2              24
  CLUS_3             3              27
  CLUS_4             4              25
  CLUS_5             2              37
  CLUS_6            12              57
  CLUS_7             5              15
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CENPF MUTATED        6     13      8     14
  CENPF WILD-TYPE     94     59     64    107
D277V7, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1             6              94
  CLUS_2            13              59
  CLUS_3             8              64
  CLUS_4            14             107
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CENPF MUTATED        5     10     11      4     11
  CENPF WILD-TYPE     54     65     63    115     27
D277V8, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1             5              54
  CLUS_2            10              65
  CLUS_3            11              63
  CLUS_4             4             115
  CLUS_5            11              27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CENPF MUTATED        7     13      4      2     12
  CENPF WILD-TYPE     44     63     57     69     83
D277V9, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1             7              44
  CLUS_2            13              63
  CLUS_3             4              57
  CLUS_4             2              69
  CLUS_5            12              83
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CENPF MUTATED        9      8      0      4      3      4      0      7
  CENPF WILD-TYPE     60     40     39     12     50     16     21     31
                 vv
clus              CLUS_9
  CENPF MUTATED        3
  CENPF WILD-TYPE     47
D277V10, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1             9              60
  CLUS_2             8              40
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             3              50
  CLUS_6             4              16
  CLUS_7             0              21
  CLUS_8             7              31
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CENPF MUTATED        1      3      1      1      0      1
  CENPF WILD-TYPE     12     13     13     10     11      8
D277V11, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1             1              12
  CLUS_2             3              13
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CENPF MUTATED        1      0      2      0      1      0      1      1
  CENPF WILD-TYPE     10      7      5      9      7      7     10      8
                 vv
clus              CLUS_9
  CENPF MUTATED        1
  CENPF WILD-TYPE      4
D277V12, multiclass
        clus
vv       CENPF MUTATED CENPF WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             2               5
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(278) Variable = MYO3B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYO3B MUTATED        1      0      0      1      0
  MYO3B WILD-TYPE     31     18     46     26     23
D278V1, multiclass
[1] "Remove cluster labels:" "MYO3B MUTATED"         
clus
  MYO3B MUTATED MYO3B WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO3B MUTATED        2      0      0
  MYO3B WILD-TYPE     41     67     36
D278V2, multiclass
[1] "Remove cluster labels:" "MYO3B MUTATED"         
clus
  MYO3B MUTATED MYO3B WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" "MYO3B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO3B MUTATED        1     13     17
  MYO3B WILD-TYPE     41    160    130
D278V3, multiclass
        clus
vv       MYO3B MUTATED MYO3B WILD-TYPE
  CLUS_1             1              41
  CLUS_2            13             160
  CLUS_3            17             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO3B MUTATED       11      9      9
  MYO3B WILD-TYPE     51     64     66
D278V4, multiclass
        clus
vv       MYO3B MUTATED MYO3B WILD-TYPE
  CLUS_1            11              51
  CLUS_2             9              64
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO3B MUTATED        4      9     15
  MYO3B WILD-TYPE     66    111     85
D278V5, multiclass
        clus
vv       MYO3B MUTATED MYO3B WILD-TYPE
  CLUS_1             4              66
  CLUS_2             9             111
  CLUS_3            15              85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYO3B MUTATED        6      1      1      3      3     11      1      2
  MYO3B WILD-TYPE     35     25     29     26     36     58     19     12
                 vv
clus              CLUS_9
  MYO3B MUTATED        0
  MYO3B WILD-TYPE     22
D278V6, multiclass
        clus
vv       MYO3B MUTATED MYO3B WILD-TYPE
  CLUS_1             6              35
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6            11              58
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO3B MUTATED        8     10      9      4
  MYO3B WILD-TYPE     92     62     63    117
D278V7, multiclass
        clus
vv       MYO3B MUTATED MYO3B WILD-TYPE
  CLUS_1             8              92
  CLUS_2            10              62
  CLUS_3             9              63
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYO3B MUTATED        4      9     14      2      2
  MYO3B WILD-TYPE     55     66     60    117     36
D278V8, multiclass
        clus
vv       MYO3B MUTATED MYO3B WILD-TYPE
  CLUS_1             4              55
  CLUS_2             9              66
  CLUS_3            14              60
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYO3B MUTATED        9     14      4      1      2
  MYO3B WILD-TYPE     42     62     57     70     93
D278V9, multiclass
        clus
vv       MYO3B MUTATED MYO3B WILD-TYPE
  CLUS_1             9              42
  CLUS_2            14              62
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYO3B MUTATED       12      5      2      2      5      2      1      0
  MYO3B WILD-TYPE     57     43     37     14     48     18     20     38
                 vv
clus              CLUS_9
  MYO3B MUTATED        1
  MYO3B WILD-TYPE     49
D278V10, multiclass
        clus
vv       MYO3B MUTATED MYO3B WILD-TYPE
  CLUS_1            12              57
  CLUS_2             5              43
  CLUS_3             2              37
  CLUS_4             2              14
  CLUS_5             5              48
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MYO3B MUTATED        0      1      3      1      2      1
  MYO3B WILD-TYPE     13     15     11     10      9      8
D278V11, multiclass
        clus
vv       MYO3B MUTATED MYO3B WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             3              11
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYO3B MUTATED        1      0      0      0      3      3      0      1
  MYO3B WILD-TYPE     10      7      7      9      5      4     11      8
                 vv
clus              CLUS_9
  MYO3B MUTATED        0
  MYO3B WILD-TYPE      5
D278V12, multiclass
        clus
vv       MYO3B MUTATED MYO3B WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             3               5
  CLUS_6             3               4
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(279) Variable = G3BP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  G3BP2 MUTATED        0      0      0      2      0
  G3BP2 WILD-TYPE     32     18     46     25     23
D279V1, multiclass
[1] "Remove cluster labels:" "G3BP2 MUTATED"         
clus
  G3BP2 MUTATED G3BP2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP2 MUTATED        1      1      0
  G3BP2 WILD-TYPE     42     66     36
D279V2, multiclass
[1] "Remove cluster labels:" "G3BP2 MUTATED"         
clus
  G3BP2 MUTATED G3BP2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" "G3BP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP2 MUTATED        0      1      8
  G3BP2 WILD-TYPE     42    172    139
D279V3, multiclass
        clus
vv       G3BP2 MUTATED G3BP2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP2 MUTATED        3      0      4
  G3BP2 WILD-TYPE     59     73     71
D279V4, multiclass
        clus
vv       G3BP2 MUTATED G3BP2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP2 MUTATED        0      1      7
  G3BP2 WILD-TYPE     70    119     93
D279V5, multiclass
        clus
vv       G3BP2 MUTATED G3BP2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  G3BP2 MUTATED        1      0      1      0      0      4      2      0
  G3BP2 WILD-TYPE     40     26     29     29     39     65     18     14
                 vv
clus              CLUS_9
  G3BP2 MUTATED        0
  G3BP2 WILD-TYPE     22
D279V6, multiclass
        clus
vv       G3BP2 MUTATED G3BP2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  G3BP2 MUTATED        0      3      4      2
  G3BP2 WILD-TYPE    100     69     68    119
D279V7, multiclass
        clus
vv       G3BP2 MUTATED G3BP2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  G3BP2 MUTATED        2      1      4      1      1
  G3BP2 WILD-TYPE     57     74     70    118     37
D279V8, multiclass
        clus
vv       G3BP2 MUTATED G3BP2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  G3BP2 MUTATED        0      5      1      1      1
  G3BP2 WILD-TYPE     51     71     60     70     94
D279V9, multiclass
        clus
vv       G3BP2 MUTATED G3BP2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  G3BP2 MUTATED        1      2      0      2      1      2      0      0
  G3BP2 WILD-TYPE     68     46     39     14     52     18     21     38
                 vv
clus              CLUS_9
  G3BP2 MUTATED        0
  G3BP2 WILD-TYPE     50
D279V10, multiclass
        clus
vv       G3BP2 MUTATED G3BP2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  G3BP2 MUTATED        0      0      2      1      1      0
  G3BP2 WILD-TYPE     13     16     12     10     10      9
D279V11, multiclass
        clus
vv       G3BP2 MUTATED G3BP2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  G3BP2 MUTATED        0      0      1      0      0      0      2      0
  G3BP2 WILD-TYPE     11      7      6      9      8      7      9      9
                 vv
clus              CLUS_9
  G3BP2 MUTATED        1
  G3BP2 WILD-TYPE      4
D279V12, multiclass
        clus
vv       G3BP2 MUTATED G3BP2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(280) Variable = MBD6 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MBD6 MUTATED        0      0      0      2      0
  MBD6 WILD-TYPE     32     18     46     25     23
D280V1, multiclass
[1] "Remove cluster labels:" "MBD6 MUTATED"          
clus
  MBD6 MUTATED MBD6 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MBD6 MUTATED        1      1      0
  MBD6 WILD-TYPE     42     66     36
D280V2, multiclass
[1] "Remove cluster labels:" "MBD6 MUTATED"          
clus
  MBD6 MUTATED MBD6 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MBD6 MUTATED        1      2     12
  MBD6 WILD-TYPE     41    171    135
D280V3, multiclass
        clus
vv       MBD6 MUTATED MBD6 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MBD6 MUTATED        4      2      6
  MBD6 WILD-TYPE     58     71     69
D280V4, multiclass
        clus
vv       MBD6 MUTATED MBD6 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            2             71
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MBD6 MUTATED        2      5      6
  MBD6 WILD-TYPE     68    115     94
D280V5, multiclass
        clus
vv       MBD6 MUTATED MBD6 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MBD6 MUTATED        0      1      3      1      1      5      2      0      0
  MBD6 WILD-TYPE     41     25     27     28     38     64     18     14     22
D280V6, multiclass
        clus
vv       MBD6 MUTATED MBD6 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            3             27
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MBD6 MUTATED        2      5      5      3
  MBD6 WILD-TYPE     98     67     67    118
D280V7, multiclass
        clus
vv       MBD6 MUTATED MBD6 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            5             67
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MBD6 MUTATED        0      2     10      1      2
  MBD6 WILD-TYPE     59     73     64    118     36
D280V8, multiclass
        clus
vv       MBD6 MUTATED MBD6 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3           10             64
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MBD6 MUTATED        0      7      3      1      3
  MBD6 WILD-TYPE     51     69     58     70     92
D280V9, multiclass
        clus
vv       MBD6 MUTATED MBD6 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            7             69
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MBD6 MUTATED        1      4      0      4      0      3      0      2      0
  MBD6 WILD-TYPE     68     44     39     12     53     17     21     36     50
D280V10, multiclass
        clus
vv       MBD6 MUTATED MBD6 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            0             53
  CLUS_6            3             17
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MBD6 MUTATED        0      0      0      0      2      0
  MBD6 WILD-TYPE     13     16     14     11      9      9
D280V11, multiclass
[1] "Remove cluster labels:" "MBD6 MUTATED"          
clus
  MBD6 MUTATED MBD6 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MBD6 MUTATED        0      0      0      1      1      0      0      0      0
  MBD6 WILD-TYPE     11      7      7      8      7      7     11      9      5
D280V12, multiclass
[1] "Remove cluster labels:" "MBD6 MUTATED"          
clus
  MBD6 MUTATED MBD6 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" "MBD6 WILD-TYPE" 

Clustering(281) Variable = ANAPC4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANAPC4 MUTATED        0      0      0      1      0
  ANAPC4 WILD-TYPE     32     18     46     26     23
D281V1, multiclass
[1] "Remove cluster labels:" "ANAPC4 MUTATED"        
clus
  ANAPC4 MUTATED ANAPC4 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AY-4071 
"ANAPC4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANAPC4 MUTATED        1      0      0
  ANAPC4 WILD-TYPE     42     67     36
D281V2, multiclass
[1] "Remove cluster labels:" "ANAPC4 MUTATED"        
clus
  ANAPC4 MUTATED ANAPC4 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" "ANAPC4 WILD-TYPE" 
      TCGA-AY-4071 
"ANAPC4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANAPC4 MUTATED        0      5      5
  ANAPC4 WILD-TYPE     42    168    142
D281V3, multiclass
        clus
vv       ANAPC4 MUTATED ANAPC4 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              5              168
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANAPC4 MUTATED        2      3      4
  ANAPC4 WILD-TYPE     60     70     71
D281V4, multiclass
        clus
vv       ANAPC4 MUTATED ANAPC4 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3               70
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANAPC4 MUTATED        2      5      2
  ANAPC4 WILD-TYPE     68    115     98
D281V5, multiclass
        clus
vv       ANAPC4 MUTATED ANAPC4 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANAPC4 MUTATED        2      0      0      3      1      1      0      2
  ANAPC4 WILD-TYPE     39     26     30     26     38     68     20     12
                  vv
clus               CLUS_9
  ANAPC4 MUTATED        0
  ANAPC4 WILD-TYPE     22
D281V6, multiclass
        clus
vv       ANAPC4 MUTATED ANAPC4 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              3               26
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANAPC4 MUTATED        5      2      2      1
  ANAPC4 WILD-TYPE     95     70     70    120
D281V7, multiclass
        clus
vv       ANAPC4 MUTATED ANAPC4 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANAPC4 MUTATED        2      4      3      0      1
  ANAPC4 WILD-TYPE     57     71     71    119     37
D281V8, multiclass
        clus
vv       ANAPC4 MUTATED ANAPC4 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANAPC4 MUTATED        1      4      2      2      0
  ANAPC4 WILD-TYPE     50     72     59     69     95
D281V9, multiclass
        clus
vv       ANAPC4 MUTATED ANAPC4 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANAPC4 MUTATED        5      2      2      0      0      0      0      0
  ANAPC4 WILD-TYPE     64     46     37     16     53     20     21     38
                  vv
clus               CLUS_9
  ANAPC4 MUTATED        0
  ANAPC4 WILD-TYPE     50
D281V10, multiclass
        clus
vv       ANAPC4 MUTATED ANAPC4 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              2               46
  CLUS_3              2               37
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANAPC4 MUTATED        0      1      1      1      0      0
  ANAPC4 WILD-TYPE     13     15     13     10     11      9
D281V11, multiclass
        clus
vv       ANAPC4 MUTATED ANAPC4 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANAPC4 MUTATED        0      0      0      0      1      0      1      1
  ANAPC4 WILD-TYPE     11      7      7      9      7      7     10      8
                  vv
clus               CLUS_9
  ANAPC4 MUTATED        0
  ANAPC4 WILD-TYPE      5
D281V12, multiclass
        clus
vv       ANAPC4 MUTATED ANAPC4 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(282) Variable = TTF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTF1 MUTATED        0      0      0      0      0
  TTF1 WILD-TYPE     32     18     46     27     23
D282V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TTF1 MUTATED        0      0      0
  TTF1 WILD-TYPE     43     67     36
D282V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TTF1 MUTATED        0      1      8
  TTF1 WILD-TYPE     42    172    139
D282V3, multiclass
        clus
vv       TTF1 MUTATED TTF1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TTF1 MUTATED        3      0      6
  TTF1 WILD-TYPE     59     73     69
D282V4, multiclass
        clus
vv       TTF1 MUTATED TTF1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TTF1 MUTATED        3      3      3
  TTF1 WILD-TYPE     67    117     97
D282V5, multiclass
        clus
vv       TTF1 MUTATED TTF1 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            3            117
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TTF1 MUTATED        2      1      0      2      1      1      1      1      0
  TTF1 WILD-TYPE     39     25     30     27     38     68     19     13     22
D282V6, multiclass
        clus
vv       TTF1 MUTATED TTF1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TTF1 MUTATED        1      6      2      0
  TTF1 WILD-TYPE     99     66     70    121
D282V7, multiclass
        clus
vv       TTF1 MUTATED TTF1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            6             66
  CLUS_3            2             70
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTF1 MUTATED        2      0      7      0      0
  TTF1 WILD-TYPE     57     75     67    119     38
D282V8, multiclass
        clus
vv       TTF1 MUTATED TTF1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            0             75
  CLUS_3            7             67
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTF1 MUTATED        1      5      2      0      1
  TTF1 WILD-TYPE     50     71     59     71     94
D282V9, multiclass
        clus
vv       TTF1 MUTATED TTF1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TTF1 MUTATED        2      4      0      2      0      0      0      1      0
  TTF1 WILD-TYPE     67     44     39     14     53     20     21     37     50
D282V10, multiclass
        clus
vv       TTF1 MUTATED TTF1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TTF1 MUTATED        0      0      2      0      1      0
  TTF1 WILD-TYPE     13     16     12     11     10      9
D282V11, multiclass
        clus
vv       TTF1 MUTATED TTF1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TTF1 MUTATED        0      0      0      0      1      0      2      0      0
  TTF1 WILD-TYPE     11      7      7      9      7      7      9      9      5
D282V12, multiclass
        clus
vv       TTF1 MUTATED TTF1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(283) Variable = FAM134A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM134A MUTATED        1      0      0      1      1
  FAM134A WILD-TYPE     31     18     46     26     22
D283V1, multiclass
        clus
vv       FAM134A MUTATED FAM134A WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               1                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM134A MUTATED        2      0      1
  FAM134A WILD-TYPE     41     67     35
D283V2, multiclass
        clus
vv       FAM134A MUTATED FAM134A WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM134A MUTATED        1      2      5
  FAM134A WILD-TYPE     41    171    142
D283V3, multiclass
        clus
vv       FAM134A MUTATED FAM134A WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM134A MUTATED        0      2      3
  FAM134A WILD-TYPE     62     71     72
D283V4, multiclass
        clus
vv       FAM134A MUTATED FAM134A WILD-TYPE
  CLUS_1               0                62
  CLUS_2               2                71
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM134A MUTATED        0      5      2
  FAM134A WILD-TYPE     70    115     98
D283V5, multiclass
        clus
vv       FAM134A MUTATED FAM134A WILD-TYPE
  CLUS_1               0                70
  CLUS_2               5               115
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM134A MUTATED        0      0      1      3      1      2      0      0
  FAM134A WILD-TYPE     41     26     29     26     38     67     20     14
                   vv
clus                CLUS_9
  FAM134A MUTATED        0
  FAM134A WILD-TYPE     22
D283V6, multiclass
        clus
vv       FAM134A MUTATED FAM134A WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               3                26
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM134A MUTATED        1      4      0      3
  FAM134A WILD-TYPE     99     68     72    118
D283V7, multiclass
        clus
vv       FAM134A MUTATED FAM134A WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               0                72
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM134A MUTATED        0      2      3      1      2
  FAM134A WILD-TYPE     59     73     71    118     36
D283V8, multiclass
        clus
vv       FAM134A MUTATED FAM134A WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               3                71
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM134A MUTATED        1      3      1      2      0
  FAM134A WILD-TYPE     50     73     60     69     95
D283V9, multiclass
        clus
vv       FAM134A MUTATED FAM134A WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               2                69
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM134A MUTATED        2      1      1      1      0      1      1      0
  FAM134A WILD-TYPE     67     47     38     15     53     19     20     38
                   vv
clus                CLUS_9
  FAM134A MUTATED        0
  FAM134A WILD-TYPE     50
D283V10, multiclass
        clus
vv       FAM134A MUTATED FAM134A WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM134A MUTATED        0      0      0      0      1      1
  FAM134A WILD-TYPE     13     16     14     11     10      8
D283V11, multiclass
[1] "Remove cluster labels:" "FAM134A MUTATED"       
clus
  FAM134A MUTATED FAM134A WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM134A MUTATED        0      0      0      1      0      0      0      1
  FAM134A WILD-TYPE     11      7      7      8      8      7     11      8
                   vv
clus                CLUS_9
  FAM134A MUTATED        0
  FAM134A WILD-TYPE      5
D283V12, multiclass
[1] "Remove cluster labels:" "FAM134A MUTATED"       
clus
  FAM134A MUTATED FAM134A WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" "FAM134A WILD-TYPE" 

Clustering(284) Variable = ZKSCAN2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZKSCAN2 MUTATED        3      0      0      2      0
  ZKSCAN2 WILD-TYPE     29     18     46     25     23
D284V1, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN2 MUTATED        4      1      0
  ZKSCAN2 WILD-TYPE     39     66     36
D284V2, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN2 MUTATED        0      5      8
  ZKSCAN2 WILD-TYPE     42    168    139
D284V3, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               5               168
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN2 MUTATED        3      2      3
  ZKSCAN2 WILD-TYPE     59     71     72
D284V4, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               2                71
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN2 MUTATED        1      2      5
  ZKSCAN2 WILD-TYPE     69    118     95
D284V5, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZKSCAN2 MUTATED        0      0      1      0      1      4      1      1
  ZKSCAN2 WILD-TYPE     41     26     29     29     38     65     19     13
                   vv
clus                CLUS_9
  ZKSCAN2 MUTATED        0
  ZKSCAN2 WILD-TYPE     22
D284V6, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZKSCAN2 MUTATED        3      3      2      5
  ZKSCAN2 WILD-TYPE     97     69     70    116
D284V7, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               3                69
  CLUS_3               2                70
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZKSCAN2 MUTATED        2      4      2      1      4
  ZKSCAN2 WILD-TYPE     57     71     72    118     34
D284V8, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               4                71
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZKSCAN2 MUTATED        1      2      1      4      4
  ZKSCAN2 WILD-TYPE     50     74     60     67     91
D284V9, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               4                67
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZKSCAN2 MUTATED        3      2      0      0      1      0      0      4
  ZKSCAN2 WILD-TYPE     66     46     39     16     52     20     21     34
                   vv
clus                CLUS_9
  ZKSCAN2 MUTATED        2
  ZKSCAN2 WILD-TYPE     48
D284V10, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               4                34
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZKSCAN2 MUTATED        2      0      0      1      0      0
  ZKSCAN2 WILD-TYPE     11     16     14     10     11      9
D284V11, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               2                11
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZKSCAN2 MUTATED        0      0      0      1      0      0      0      1
  ZKSCAN2 WILD-TYPE     11      7      7      8      8      7     11      8
                   vv
clus                CLUS_9
  ZKSCAN2 MUTATED        1
  ZKSCAN2 WILD-TYPE      4
D284V12, multiclass
        clus
vv       ZKSCAN2 MUTATED ZKSCAN2 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               1                 8
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(285) Variable = RNF182 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF182 MUTATED        0      1      0      1      0
  RNF182 WILD-TYPE     32     17     46     26     23
D285V1, multiclass
[1] "Remove cluster labels:" "RNF182 MUTATED"        
clus
  RNF182 MUTATED RNF182 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-A6-3809       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667       TCGA-AA-3672 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679       TCGA-AA-3680 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685       TCGA-AA-3688 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696       TCGA-AA-3710 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3821 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837       TCGA-AA-3842 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846       TCGA-AA-3848 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF182 MUTATED        0      2      0
  RNF182 WILD-TYPE     43     65     36
D285V2, multiclass
[1] "Remove cluster labels:" "RNF182 MUTATED"        
clus
  RNF182 MUTATED RNF182 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-A6-3809       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667       TCGA-AA-3672 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679       TCGA-AA-3680 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685       TCGA-AA-3688 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696       TCGA-AA-3710 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3821 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837       TCGA-AA-3842 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846       TCGA-AA-3848 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF182 MUTATED        1      4      8
  RNF182 WILD-TYPE     41    169    139
D285V3, multiclass
        clus
vv       RNF182 MUTATED RNF182 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF182 MUTATED        2      5      5
  RNF182 WILD-TYPE     60     68     70
D285V4, multiclass
        clus
vv       RNF182 MUTATED RNF182 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              5               68
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF182 MUTATED        4      5      3
  RNF182 WILD-TYPE     66    115     97
D285V5, multiclass
        clus
vv       RNF182 MUTATED RNF182 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              5              115
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF182 MUTATED        0      1      0      2      3      3      0      1
  RNF182 WILD-TYPE     41     25     30     27     36     66     20     13
                  vv
clus               CLUS_9
  RNF182 MUTATED        2
  RNF182 WILD-TYPE     20
D285V6, multiclass
        clus
vv       RNF182 MUTATED RNF182 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              3               36
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF182 MUTATED        3      7      2      0
  RNF182 WILD-TYPE     97     65     70    121
D285V7, multiclass
        clus
vv       RNF182 MUTATED RNF182 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              7               65
  CLUS_3              2               70
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF182 MUTATED        2      4      5      1      0
  RNF182 WILD-TYPE     57     71     69    118     38
D285V8, multiclass
        clus
vv       RNF182 MUTATED RNF182 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF182 MUTATED        2      5      1      3      2
  RNF182 WILD-TYPE     49     71     60     68     93
D285V9, multiclass
        clus
vv       RNF182 MUTATED RNF182 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF182 MUTATED        3      1      2      2      1      1      1      0
  RNF182 WILD-TYPE     66     47     37     14     52     19     20     38
                  vv
clus               CLUS_9
  RNF182 MUTATED        2
  RNF182 WILD-TYPE     48
D285V10, multiclass
        clus
vv       RNF182 MUTATED RNF182 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              2               37
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF182 MUTATED        1      1      0      0      0      0
  RNF182 WILD-TYPE     12     15     14     11     11      9
D285V11, multiclass
[1] "Remove cluster labels:" "RNF182 MUTATED"        
clus
  RNF182 MUTATED RNF182 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-G4-6299       TCGA-G4-6303 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF182 MUTATED        0      1      0      0      0      0      0      1
  RNF182 WILD-TYPE     11      6      7      9      8      7     11      8
                  vv
clus               CLUS_9
  RNF182 MUTATED        0
  RNF182 WILD-TYPE      5
D285V12, multiclass
[1] "Remove cluster labels:" "RNF182 MUTATED"        
clus
  RNF182 MUTATED RNF182 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-G4-6299       TCGA-G4-6303 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" "RNF182 WILD-TYPE" 

Clustering(286) Variable = RBBP7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBBP7 MUTATED        1      0      0      4      0
  RBBP7 WILD-TYPE     31     18     46     23     23
D286V1, multiclass
        clus
vv       RBBP7 MUTATED RBBP7 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             4              23
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBBP7 MUTATED        3      2      0
  RBBP7 WILD-TYPE     40     65     36
D286V2, multiclass
        clus
vv       RBBP7 MUTATED RBBP7 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBBP7 MUTATED        0      5     10
  RBBP7 WILD-TYPE     42    168    137
D286V3, multiclass
        clus
vv       RBBP7 MUTATED RBBP7 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBBP7 MUTATED        3      1      6
  RBBP7 WILD-TYPE     59     72     69
D286V4, multiclass
        clus
vv       RBBP7 MUTATED RBBP7 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBBP7 MUTATED        3      4      6
  RBBP7 WILD-TYPE     67    116     94
D286V5, multiclass
        clus
vv       RBBP7 MUTATED RBBP7 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             116
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBBP7 MUTATED        3      0      1      1      2      5      0      0
  RBBP7 WILD-TYPE     38     26     29     28     37     64     20     14
                 vv
clus              CLUS_9
  RBBP7 MUTATED        1
  RBBP7 WILD-TYPE     21
D286V6, multiclass
        clus
vv       RBBP7 MUTATED RBBP7 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBBP7 MUTATED        2      3      4      6
  RBBP7 WILD-TYPE     98     69     68    115
D286V7, multiclass
        clus
vv       RBBP7 MUTATED RBBP7 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBBP7 MUTATED        2      3      4      3      3
  RBBP7 WILD-TYPE     57     72     70    116     35
D286V8, multiclass
        clus
vv       RBBP7 MUTATED RBBP7 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBBP7 MUTATED        3      5      1      1      3
  RBBP7 WILD-TYPE     48     71     60     70     92
D286V9, multiclass
        clus
vv       RBBP7 MUTATED RBBP7 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBBP7 MUTATED        0      5      0      1      2      1      1      1
  RBBP7 WILD-TYPE     69     43     39     15     51     19     20     37
                 vv
clus              CLUS_9
  RBBP7 MUTATED        2
  RBBP7 WILD-TYPE     48
D286V10, multiclass
        clus
vv       RBBP7 MUTATED RBBP7 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBBP7 MUTATED        0      1      0      0      1      0
  RBBP7 WILD-TYPE     13     15     14     11     10      9
D286V11, multiclass
[1] "Remove cluster labels:" "RBBP7 MUTATED"         
clus
  RBBP7 MUTATED RBBP7 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-6748 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBBP7 MUTATED        0      0      0      0      0      0      2      0
  RBBP7 WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  RBBP7 MUTATED        0
  RBBP7 WILD-TYPE      5
D286V12, multiclass
[1] "Remove cluster labels:" "RBBP7 MUTATED"         
clus
  RBBP7 MUTATED RBBP7 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-6748 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" "RBBP7 WILD-TYPE" 

Clustering(287) Variable = MAGEA1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEA1 MUTATED        0      0      0      0      0
  MAGEA1 WILD-TYPE     32     18     46     27     23
D287V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEA1 MUTATED        0      0      0
  MAGEA1 WILD-TYPE     43     67     36
D287V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEA1 MUTATED        2      6      5
  MAGEA1 WILD-TYPE     40    167    142
D287V3, multiclass
        clus
vv       MAGEA1 MUTATED MAGEA1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              6              167
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEA1 MUTATED        7      4      2
  MAGEA1 WILD-TYPE     55     69     73
D287V4, multiclass
        clus
vv       MAGEA1 MUTATED MAGEA1 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              4               69
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEA1 MUTATED        1      4      6
  MAGEA1 WILD-TYPE     69    116     94
D287V5, multiclass
        clus
vv       MAGEA1 MUTATED MAGEA1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEA1 MUTATED        2      1      1      1      0      5      1      0
  MAGEA1 WILD-TYPE     39     25     29     28     39     64     19     14
                  vv
clus               CLUS_9
  MAGEA1 MUTATED        0
  MAGEA1 WILD-TYPE     22
D287V6, multiclass
        clus
vv       MAGEA1 MUTATED MAGEA1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAGEA1 MUTATED        3      4      5      1
  MAGEA1 WILD-TYPE     97     68     67    120
D287V7, multiclass
        clus
vv       MAGEA1 MUTATED MAGEA1 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              4               68
  CLUS_3              5               67
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEA1 MUTATED        4      3      5      1      0
  MAGEA1 WILD-TYPE     55     72     69    118     38
D287V8, multiclass
        clus
vv       MAGEA1 MUTATED MAGEA1 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              3               72
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEA1 MUTATED        2      7      3      0      1
  MAGEA1 WILD-TYPE     49     69     58     71     94
D287V9, multiclass
        clus
vv       MAGEA1 MUTATED MAGEA1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              7               69
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEA1 MUTATED        3      4      1      1      2      1      0      0
  MAGEA1 WILD-TYPE     66     44     38     15     51     19     21     38
                  vv
clus               CLUS_9
  MAGEA1 MUTATED        1
  MAGEA1 WILD-TYPE     49
D287V10, multiclass
        clus
vv       MAGEA1 MUTATED MAGEA1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAGEA1 MUTATED        0      2      2      2      0      0
  MAGEA1 WILD-TYPE     13     14     12      9     11      9
D287V11, multiclass
        clus
vv       MAGEA1 MUTATED MAGEA1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              2               12
  CLUS_4              2                9
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEA1 MUTATED        1      1      2      0      1      0      1      0
  MAGEA1 WILD-TYPE     10      6      5      9      7      7     10      9
                  vv
clus               CLUS_9
  MAGEA1 MUTATED        0
  MAGEA1 WILD-TYPE      5
D287V12, multiclass
        clus
vv       MAGEA1 MUTATED MAGEA1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              1                6
  CLUS_3              2                5
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(288) Variable = HEPACAM2 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HEPACAM2 MUTATED        3      0      0      0      0
  HEPACAM2 WILD-TYPE     29     18     46     27     23
D288V1, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                0                 27
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HEPACAM2 MUTATED        3      0      0
  HEPACAM2 WILD-TYPE     40     67     36
D288V2, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                0                 67
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HEPACAM2 MUTATED        2      1     10
  HEPACAM2 WILD-TYPE     40    172    137
D288V3, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                1                172
  CLUS_3               10                137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HEPACAM2 MUTATED        8      1      2
  HEPACAM2 WILD-TYPE     54     72     73
D288V4, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                8                 54
  CLUS_2                1                 72
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HEPACAM2 MUTATED        1      2      8
  HEPACAM2 WILD-TYPE     69    118     92
D288V5, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                2                118
  CLUS_3                8                 92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HEPACAM2 MUTATED        1      0      0      1      3      6      0      0
  HEPACAM2 WILD-TYPE     40     26     30     28     36     63     20     14
                    vv
clus                 CLUS_9
  HEPACAM2 MUTATED        0
  HEPACAM2 WILD-TYPE     22
D288V6, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                3                 36
  CLUS_6                6                 63
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HEPACAM2 MUTATED        1      3      6      3
  HEPACAM2 WILD-TYPE     99     69     66    118
D288V7, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                3                 69
  CLUS_3                6                 66
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HEPACAM2 MUTATED        1      1      8      0      3
  HEPACAM2 WILD-TYPE     58     74     66    119     35
D288V8, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                1                 74
  CLUS_3                8                 66
  CLUS_4                0                119
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HEPACAM2 MUTATED        0      8      2      0      3
  HEPACAM2 WILD-TYPE     51     68     59     71     92
D288V9, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                8                 68
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HEPACAM2 MUTATED        3      3      1      2      2      0      0      2
  HEPACAM2 WILD-TYPE     66     45     38     14     51     20     21     36
                    vv
clus                 CLUS_9
  HEPACAM2 MUTATED        0
  HEPACAM2 WILD-TYPE     50
D288V10, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                3                 45
  CLUS_3                1                 38
  CLUS_4                2                 14
  CLUS_5                2                 51
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HEPACAM2 MUTATED        0      1      1      0      2      0
  HEPACAM2 WILD-TYPE     13     15     13     11      9      9
D288V11, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HEPACAM2 MUTATED        1      0      0      0      0      1      2      0
  HEPACAM2 WILD-TYPE     10      7      7      9      8      6      9      9
                    vv
clus                 CLUS_9
  HEPACAM2 MUTATED        0
  HEPACAM2 WILD-TYPE      5
D288V12, multiclass
        clus
vv       HEPACAM2 MUTATED HEPACAM2 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(289) Variable = DHX35 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHX35 MUTATED        2      0      0      1      0
  DHX35 WILD-TYPE     30     18     46     26     23
D289V1, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX35 MUTATED        1      1      1
  DHX35 WILD-TYPE     42     66     35
D289V2, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX35 MUTATED        2      2      6
  DHX35 WILD-TYPE     40    171    141
D289V3, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX35 MUTATED        2      1      4
  DHX35 WILD-TYPE     60     72     71
D289V4, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX35 MUTATED        1      3      5
  DHX35 WILD-TYPE     69    117     95
D289V5, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHX35 MUTATED        2      0      1      2      0      2      2      0
  DHX35 WILD-TYPE     39     26     29     27     39     67     18     14
                 vv
clus              CLUS_9
  DHX35 MUTATED        0
  DHX35 WILD-TYPE     22
D289V6, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DHX35 MUTATED        2      5      1      3
  DHX35 WILD-TYPE     98     67     71    118
D289V7, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHX35 MUTATED        1      3      4      2      1
  DHX35 WILD-TYPE     58     72     70    117     37
D289V8, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHX35 MUTATED        1      5      0      1      4
  DHX35 WILD-TYPE     50     71     61     70     91
D289V9, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHX35 MUTATED        2      0      1      3      2      2      0      0
  DHX35 WILD-TYPE     67     48     38     13     51     18     21     38
                 vv
clus              CLUS_9
  DHX35 MUTATED        1
  DHX35 WILD-TYPE     49
D289V10, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DHX35 MUTATED        0      1      0      0      1      1
  DHX35 WILD-TYPE     13     15     14     11     10      8
D289V11, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHX35 MUTATED        2      0      0      1      0      0      0      0
  DHX35 WILD-TYPE      9      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  DHX35 MUTATED        0
  DHX35 WILD-TYPE      5
D289V12, multiclass
        clus
vv       DHX35 MUTATED DHX35 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(290) Variable = PARP12 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARP12 MUTATED        2      0      0      0      0
  PARP12 WILD-TYPE     30     18     46     27     23
D290V1, multiclass
[1] "Remove cluster labels:" "PARP12 MUTATED"        
clus
  PARP12 MUTATED PARP12 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3968 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PARP12 MUTATED        2      0      0
  PARP12 WILD-TYPE     41     67     36
D290V2, multiclass
[1] "Remove cluster labels:" "PARP12 MUTATED"        
clus
  PARP12 MUTATED PARP12 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3968 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" "PARP12 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PARP12 MUTATED        1      2      6
  PARP12 WILD-TYPE     41    171    141
D290V3, multiclass
        clus
vv       PARP12 MUTATED PARP12 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PARP12 MUTATED        2      1      4
  PARP12 WILD-TYPE     60     72     71
D290V4, multiclass
        clus
vv       PARP12 MUTATED PARP12 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PARP12 MUTATED        0      2      4
  PARP12 WILD-TYPE     70    118     96
D290V5, multiclass
        clus
vv       PARP12 MUTATED PARP12 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PARP12 MUTATED        0      0      0      1      0      4      0      1
  PARP12 WILD-TYPE     41     26     30     28     39     65     20     13
                  vv
clus               CLUS_9
  PARP12 MUTATED        0
  PARP12 WILD-TYPE     22
D290V6, multiclass
        clus
vv       PARP12 MUTATED PARP12 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PARP12 MUTATED        2      4      1      2
  PARP12 WILD-TYPE     98     68     71    119
D290V7, multiclass
        clus
vv       PARP12 MUTATED PARP12 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARP12 MUTATED        1      3      3      0      2
  PARP12 WILD-TYPE     58     72     71    119     36
D290V8, multiclass
        clus
vv       PARP12 MUTATED PARP12 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARP12 MUTATED        1      5      1      0      2
  PARP12 WILD-TYPE     50     71     60     71     93
D290V9, multiclass
        clus
vv       PARP12 MUTATED PARP12 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PARP12 MUTATED        3      0      1      1      1      1      0      2
  PARP12 WILD-TYPE     66     48     38     15     52     19     21     36
                  vv
clus               CLUS_9
  PARP12 MUTATED        0
  PARP12 WILD-TYPE     50
D290V10, multiclass
        clus
vv       PARP12 MUTATED PARP12 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PARP12 MUTATED        0      0      1      1      1      0
  PARP12 WILD-TYPE     13     16     13     10     10      9
D290V11, multiclass
        clus
vv       PARP12 MUTATED PARP12 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PARP12 MUTATED        0      0      0      1      0      0      2      0
  PARP12 WILD-TYPE     11      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  PARP12 MUTATED        0
  PARP12 WILD-TYPE      5
D290V12, multiclass
        clus
vv       PARP12 MUTATED PARP12 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(291) Variable = BRCA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRCA2 MUTATED        3      0      0      2      1
  BRCA2 WILD-TYPE     29     18     46     25     22
D291V1, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        4      1      1
  BRCA2 WILD-TYPE     39     66     35
D291V2, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        2     19     26
  BRCA2 WILD-TYPE     40    154    121
D291V3, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2            19             154
  CLUS_3            26             121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED       17     12     12
  BRCA2 WILD-TYPE     45     61     63
D291V4, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1            17              45
  CLUS_2            12              61
  CLUS_3            12              63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        5     15     20
  BRCA2 WILD-TYPE     65    105     80
D291V5, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             5              65
  CLUS_2            15             105
  CLUS_3            20              80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BRCA2 MUTATED        5      3      3      3      4     13      3      2
  BRCA2 WILD-TYPE     36     23     27     26     35     56     17     12
                 vv
clus              CLUS_9
  BRCA2 MUTATED        4
  BRCA2 WILD-TYPE     18
D291V6, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             5              36
  CLUS_2             3              23
  CLUS_3             3              27
  CLUS_4             3              26
  CLUS_5             4              35
  CLUS_6            13              56
  CLUS_7             3              17
  CLUS_8             2              12
  CLUS_9             4              18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRCA2 MUTATED       11     13     15      8
  BRCA2 WILD-TYPE     89     59     57    113
D291V7, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1            11              89
  CLUS_2            13              59
  CLUS_3            15              57
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRCA2 MUTATED        9     12     18      4      4
  BRCA2 WILD-TYPE     50     63     56    115     34
D291V8, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             9              50
  CLUS_2            12              63
  CLUS_3            18              56
  CLUS_4             4             115
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRCA2 MUTATED        8     19      8      4      7
  BRCA2 WILD-TYPE     43     57     53     67     88
D291V9, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             8              43
  CLUS_2            19              57
  CLUS_3             8              53
  CLUS_4             4              67
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BRCA2 MUTATED       11     10      3      6      7      5      0      2
  BRCA2 WILD-TYPE     58     38     36     10     46     15     21     36
                 vv
clus              CLUS_9
  BRCA2 MUTATED        2
  BRCA2 WILD-TYPE     48
D291V10, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1            11              58
  CLUS_2            10              38
  CLUS_3             3              36
  CLUS_4             6              10
  CLUS_5             7              46
  CLUS_6             5              15
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRCA2 MUTATED        1      1      4      3      3      1
  BRCA2 WILD-TYPE     12     15     10      8      8      8
D291V11, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             4              10
  CLUS_4             3               8
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BRCA2 MUTATED        2      1      0      1      1      0      6      1
  BRCA2 WILD-TYPE      9      6      7      8      7      7      5      8
                 vv
clus              CLUS_9
  BRCA2 MUTATED        1
  BRCA2 WILD-TYPE      4
D291V12, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             6               5
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(292) Variable = IFIT2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFIT2 MUTATED        2      0      0      0      0
  IFIT2 WILD-TYPE     30     18     46     27     23
D292V1, multiclass
[1] "Remove cluster labels:" "IFIT2 MUTATED"         
clus
  IFIT2 MUTATED IFIT2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFIT2 MUTATED        2      0      0
  IFIT2 WILD-TYPE     41     67     36
D292V2, multiclass
[1] "Remove cluster labels:" "IFIT2 MUTATED"         
clus
  IFIT2 MUTATED IFIT2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" "IFIT2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFIT2 MUTATED        0      0      7
  IFIT2 WILD-TYPE     42    173    140
D292V3, multiclass
        clus
vv       IFIT2 MUTATED IFIT2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFIT2 MUTATED        4      0      1
  IFIT2 WILD-TYPE     58     73     74
D292V4, multiclass
        clus
vv       IFIT2 MUTATED IFIT2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFIT2 MUTATED        1      1      4
  IFIT2 WILD-TYPE     69    119     96
D292V5, multiclass
        clus
vv       IFIT2 MUTATED IFIT2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFIT2 MUTATED        2      0      0      0      1      2      0      1
  IFIT2 WILD-TYPE     39     26     30     29     38     67     20     13
                 vv
clus              CLUS_9
  IFIT2 MUTATED        0
  IFIT2 WILD-TYPE     22
D292V6, multiclass
        clus
vv       IFIT2 MUTATED IFIT2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFIT2 MUTATED        0      2      3      2
  IFIT2 WILD-TYPE    100     70     69    119
D292V7, multiclass
        clus
vv       IFIT2 MUTATED IFIT2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFIT2 MUTATED        2      0      3      0      2
  IFIT2 WILD-TYPE     57     75     71    119     36
D292V8, multiclass
        clus
vv       IFIT2 MUTATED IFIT2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFIT2 MUTATED        0      2      2      0      3
  IFIT2 WILD-TYPE     51     74     59     71     92
D292V9, multiclass
        clus
vv       IFIT2 MUTATED IFIT2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFIT2 MUTATED        0      3      0      1      0      0      0      3
  IFIT2 WILD-TYPE     69     45     39     15     53     20     21     35
                 vv
clus              CLUS_9
  IFIT2 MUTATED        0
  IFIT2 WILD-TYPE     50
D292V10, multiclass
        clus
vv       IFIT2 MUTATED IFIT2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IFIT2 MUTATED        0      1      0      0      2      0
  IFIT2 WILD-TYPE     13     15     14     11      9      9
D292V11, multiclass
        clus
vv       IFIT2 MUTATED IFIT2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFIT2 MUTATED        0      0      0      1      0      1      1      0
  IFIT2 WILD-TYPE     11      7      7      8      8      6     10      9
                 vv
clus              CLUS_9
  IFIT2 MUTATED        0
  IFIT2 WILD-TYPE      5
D292V12, multiclass
        clus
vv       IFIT2 MUTATED IFIT2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(293) Variable = MUC17 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUC17 MUTATED        7      1      0      6      0
  MUC17 WILD-TYPE     25     17     46     21     23
D293V1, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1             7              25
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             6              21
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC17 MUTATED        7      6      1
  MUC17 WILD-TYPE     36     61     35
D293V2, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             6              61
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC17 MUTATED        7      9     28
  MUC17 WILD-TYPE     35    164    119
D293V3, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1             7              35
  CLUS_2             9             164
  CLUS_3            28             119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC17 MUTATED        8      7     17
  MUC17 WILD-TYPE     54     66     58
D293V4, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             7              66
  CLUS_3            17              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC17 MUTATED        3     16     17
  MUC17 WILD-TYPE     67    104     83
D293V5, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1             3              67
  CLUS_2            16             104
  CLUS_3            17              83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MUC17 MUTATED        3      3      3      3      5     13      2      3
  MUC17 WILD-TYPE     38     23     27     26     34     56     18     11
                 vv
clus              CLUS_9
  MUC17 MUTATED        1
  MUC17 WILD-TYPE     21
D293V6, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             3              23
  CLUS_3             3              27
  CLUS_4             3              26
  CLUS_5             5              34
  CLUS_6            13              56
  CLUS_7             2              18
  CLUS_8             3              11
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUC17 MUTATED       10     14      8     14
  MUC17 WILD-TYPE     90     58     64    107
D293V7, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1            10              90
  CLUS_2            14              58
  CLUS_3             8              64
  CLUS_4            14             107
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUC17 MUTATED        3      9     18      9      7
  MUC17 WILD-TYPE     56     66     56    110     31
D293V8, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             9              66
  CLUS_3            18              56
  CLUS_4             9             110
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUC17 MUTATED        6     16      6      3     13
  MUC17 WILD-TYPE     45     60     55     68     82
D293V9, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1             6              45
  CLUS_2            16              60
  CLUS_3             6              55
  CLUS_4             3              68
  CLUS_5            13              82
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MUC17 MUTATED        9      7      4      5      3      4      0      7
  MUC17 WILD-TYPE     60     41     35     11     50     16     21     31
                 vv
clus              CLUS_9
  MUC17 MUTATED        5
  MUC17 WILD-TYPE     45
D293V10, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1             9              60
  CLUS_2             7              41
  CLUS_3             4              35
  CLUS_4             5              11
  CLUS_5             3              50
  CLUS_6             4              16
  CLUS_7             0              21
  CLUS_8             7              31
  CLUS_9             5              45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MUC17 MUTATED        0      1      1      2      3      1
  MUC17 WILD-TYPE     13     15     13      9      8      8
D293V11, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             2               9
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MUC17 MUTATED        2      0      1      1      0      2      2      0
  MUC17 WILD-TYPE      9      7      6      8      8      5      9      9
                 vv
clus              CLUS_9
  MUC17 MUTATED        0
  MUC17 WILD-TYPE      5
D293V12, multiclass
        clus
vv       MUC17 MUTATED MUC17 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             2               5
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(294) Variable = TET3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TET3 MUTATED        1      0      0      1      2
  TET3 WILD-TYPE     31     18     46     26     21
D294V1, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            2             21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TET3 MUTATED        2      1      1
  TET3 WILD-TYPE     41     66     35
D294V2, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TET3 MUTATED        1      4     15
  TET3 WILD-TYPE     41    169    132
D294V3, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3           15            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TET3 MUTATED        2      2     11
  TET3 WILD-TYPE     60     71     64
D294V4, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3           11             64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TET3 MUTATED        3      6      7
  TET3 WILD-TYPE     67    114     93
D294V5, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            6            114
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TET3 MUTATED        0      2      1      3      2      7      1      0      0
  TET3 WILD-TYPE     41     24     29     26     37     62     19     14     22
D294V6, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            2             37
  CLUS_6            7             62
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TET3 MUTATED        3     10      2      5
  TET3 WILD-TYPE     97     62     70    116
D294V7, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            3             97
  CLUS_2           10             62
  CLUS_3            2             70
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TET3 MUTATED        0      3     11      3      3
  TET3 WILD-TYPE     59     72     63    116     35
D294V8, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            3             72
  CLUS_3           11             63
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TET3 MUTATED        0     13      0      3      4
  TET3 WILD-TYPE     51     63     61     68     91
D294V9, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2           13             63
  CLUS_3            0             61
  CLUS_4            3             68
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TET3 MUTATED        3      1      2      8      0      0      0      4      2
  TET3 WILD-TYPE     66     47     37      8     53     20     21     34     48
D294V10, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            1             47
  CLUS_3            2             37
  CLUS_4            8              8
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            4             34
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TET3 MUTATED        1      0      0      0      4      0
  TET3 WILD-TYPE     12     16     14     11      7      9
D294V11, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TET3 MUTATED        0      0      0      2      1      0      1      1      0
  TET3 WILD-TYPE     11      7      7      7      7      7     10      8      5
D294V12, multiclass
        clus
vv       TET3 MUTATED TET3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(295) Variable = TOB1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOB1 MUTATED        0      0      0      0      0
  TOB1 WILD-TYPE     32     18     46     27     23
D295V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TOB1 MUTATED        0      0      0
  TOB1 WILD-TYPE     43     67     36
D295V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TOB1 MUTATED        0      1      5
  TOB1 WILD-TYPE     42    172    142
D295V3, multiclass
        clus
vv       TOB1 MUTATED TOB1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TOB1 MUTATED        1      1      4
  TOB1 WILD-TYPE     61     72     71
D295V4, multiclass
        clus
vv       TOB1 MUTATED TOB1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TOB1 MUTATED        2      0      3
  TOB1 WILD-TYPE     68    120     97
D295V5, multiclass
        clus
vv       TOB1 MUTATED TOB1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            0            120
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TOB1 MUTATED        1      0      0      0      0      3      0      0      1
  TOB1 WILD-TYPE     40     26     30     29     39     66     20     14     21
D295V6, multiclass
        clus
vv       TOB1 MUTATED TOB1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TOB1 MUTATED        1      5      0      0
  TOB1 WILD-TYPE     99     67     72    121
D295V7, multiclass
        clus
vv       TOB1 MUTATED TOB1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            0             72
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOB1 MUTATED        1      1      4      0      0
  TOB1 WILD-TYPE     58     74     70    119     38
D295V8, multiclass
        clus
vv       TOB1 MUTATED TOB1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOB1 MUTATED        0      5      1      0      0
  TOB1 WILD-TYPE     51     71     60     71     95
D295V9, multiclass
        clus
vv       TOB1 MUTATED TOB1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            5             71
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TOB1 MUTATED        3      1      0      1      1      0      0      0      0
  TOB1 WILD-TYPE     66     47     39     15     52     20     21     38     50
D295V10, multiclass
        clus
vv       TOB1 MUTATED TOB1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TOB1 MUTATED        0      0      0      0      0      0
  TOB1 WILD-TYPE     13     16     14     11     11      9
D295V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TOB1 MUTATED        0      0      0      0      0      0      0      0      0
  TOB1 WILD-TYPE     11      7      7      9      8      7     11      9      5
D295V12, multiclass

Clustering(296) Variable = GOLPH3L MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLPH3L MUTATED        0      0      0      0      1
  GOLPH3L WILD-TYPE     32     18     46     27     22
D296V1, multiclass
[1] "Remove cluster labels:" "GOLPH3L MUTATED"       
clus
  GOLPH3L MUTATED GOLPH3L WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3530        TCGA-AA-3531 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AY-4071 
"GOLPH3L WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GOLPH3L MUTATED        0      1      0
  GOLPH3L WILD-TYPE     43     66     36
D296V2, multiclass
[1] "Remove cluster labels:" "GOLPH3L MUTATED"       
clus
  GOLPH3L MUTATED GOLPH3L WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3530        TCGA-AA-3531 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AY-4071 
"GOLPH3L WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GOLPH3L MUTATED        0      2      3
  GOLPH3L WILD-TYPE     42    171    144
D296V3, multiclass
        clus
vv       GOLPH3L MUTATED GOLPH3L WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GOLPH3L MUTATED        1      1      2
  GOLPH3L WILD-TYPE     61     72     73
D296V4, multiclass
        clus
vv       GOLPH3L MUTATED GOLPH3L WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GOLPH3L MUTATED        2      1      2
  GOLPH3L WILD-TYPE     68    119     98
D296V5, multiclass
        clus
vv       GOLPH3L MUTATED GOLPH3L WILD-TYPE
  CLUS_1               2                68
  CLUS_2               1               119
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLPH3L MUTATED        2      0      0      1      0      1      0      1
  GOLPH3L WILD-TYPE     39     26     30     28     39     68     20     13
                   vv
clus                CLUS_9
  GOLPH3L MUTATED        0
  GOLPH3L WILD-TYPE     22
D296V6, multiclass
        clus
vv       GOLPH3L MUTATED GOLPH3L WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GOLPH3L MUTATED        1      2      1      1
  GOLPH3L WILD-TYPE     99     70     71    120
D296V7, multiclass
        clus
vv       GOLPH3L MUTATED GOLPH3L WILD-TYPE
  CLUS_1               1                99
  CLUS_2               2                70
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLPH3L MUTATED        1      3      0      1      0
  GOLPH3L WILD-TYPE     58     72     74    118     38
D296V8, multiclass
        clus
vv       GOLPH3L MUTATED GOLPH3L WILD-TYPE
  CLUS_1               1                58
  CLUS_2               3                72
  CLUS_3               0                74
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLPH3L MUTATED        0      1      1      1      2
  GOLPH3L WILD-TYPE     51     75     60     70     93
D296V9, multiclass
        clus
vv       GOLPH3L MUTATED GOLPH3L WILD-TYPE
  CLUS_1               0                51
  CLUS_2               1                75
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLPH3L MUTATED        2      1      0      0      1      0      0      0
  GOLPH3L WILD-TYPE     67     47     39     16     52     20     21     38
                   vv
clus                CLUS_9
  GOLPH3L MUTATED        1
  GOLPH3L WILD-TYPE     49
D296V10, multiclass
        clus
vv       GOLPH3L MUTATED GOLPH3L WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GOLPH3L MUTATED        0      0      0      1      0      0
  GOLPH3L WILD-TYPE     13     16     14     10     11      9
D296V11, multiclass
[1] "Remove cluster labels:" "GOLPH3L MUTATED"       
clus
  GOLPH3L MUTATED GOLPH3L WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-G4-6628 
"GOLPH3L WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLPH3L MUTATED        0      0      1      0      0      0      0      0
  GOLPH3L WILD-TYPE     11      7      6      9      8      7     11      9
                   vv
clus                CLUS_9
  GOLPH3L MUTATED        0
  GOLPH3L WILD-TYPE      5
D296V12, multiclass
[1] "Remove cluster labels:" "GOLPH3L MUTATED"       
clus
  GOLPH3L MUTATED GOLPH3L WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" "GOLPH3L WILD-TYPE" 
       TCGA-G4-6628 
"GOLPH3L WILD-TYPE" 

Clustering(297) Variable = TSHR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSHR MUTATED        4      0      0      1      0
  TSHR WILD-TYPE     28     18     46     26     23
D297V1, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSHR MUTATED        4      1      0
  TSHR WILD-TYPE     39     66     36
D297V2, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSHR MUTATED        2     16     25
  TSHR WILD-TYPE     40    157    122
D297V3, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1            2             40
  CLUS_2           16            157
  CLUS_3           25            122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSHR MUTATED       13     12     12
  TSHR WILD-TYPE     49     61     63
D297V4, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1           13             49
  CLUS_2           12             61
  CLUS_3           12             63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSHR MUTATED        7     12     16
  TSHR WILD-TYPE     63    108     84
D297V5, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1            7             63
  CLUS_2           12            108
  CLUS_3           16             84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TSHR MUTATED        4      2      2      4      1      9      3      6      4
  TSHR WILD-TYPE     37     24     28     25     38     60     17      8     18
D297V6, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1            4             37
  CLUS_2            2             24
  CLUS_3            2             28
  CLUS_4            4             25
  CLUS_5            1             38
  CLUS_6            9             60
  CLUS_7            3             17
  CLUS_8            6              8
  CLUS_9            4             18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TSHR MUTATED       17     12     10      5
  TSHR WILD-TYPE     83     60     62    116
D297V7, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1           17             83
  CLUS_2           12             60
  CLUS_3           10             62
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSHR MUTATED        9     17     13      1      4
  TSHR WILD-TYPE     50     58     61    118     34
D297V8, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1            9             50
  CLUS_2           17             58
  CLUS_3           13             61
  CLUS_4            1            118
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSHR MUTATED        6     15      9      6      7
  TSHR WILD-TYPE     45     61     52     65     88
D297V9, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1            6             45
  CLUS_2           15             61
  CLUS_3            9             52
  CLUS_4            6             65
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TSHR MUTATED       10      8      3      4      9      4      1      3      1
  TSHR WILD-TYPE     59     40     36     12     44     16     20     35     49
D297V10, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1           10             59
  CLUS_2            8             40
  CLUS_3            3             36
  CLUS_4            4             12
  CLUS_5            9             44
  CLUS_6            4             16
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TSHR MUTATED        3      1      3      2      2      2
  TSHR WILD-TYPE     10     15     11      9      9      7
D297V11, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1            3             10
  CLUS_2            1             15
  CLUS_3            3             11
  CLUS_4            2              9
  CLUS_5            2              9
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TSHR MUTATED        1      0      1      3      2      1      3      2      0
  TSHR WILD-TYPE     10      7      6      6      6      6      8      7      5
D297V12, multiclass
        clus
vv       TSHR MUTATED TSHR WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            3              6
  CLUS_5            2              6
  CLUS_6            1              6
  CLUS_7            3              8
  CLUS_8            2              7
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(298) Variable = C14ORF102 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF102 MUTATED        3      0      0      2      0
  C14ORF102 WILD-TYPE     29     18     46     25     23
D298V1, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 3                  29
  CLUS_2                 0                  18
  CLUS_3                 0                  46
  CLUS_4                 2                  25
  CLUS_5                 0                  23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF102 MUTATED        3      2      0
  C14ORF102 WILD-TYPE     40     65     36
D298V2, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 3                  40
  CLUS_2                 2                  65
  CLUS_3                 0                  36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF102 MUTATED        2      2     12
  C14ORF102 WILD-TYPE     40    171    135
D298V3, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 2                  40
  CLUS_2                 2                 171
  CLUS_3                12                 135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF102 MUTATED        4      3      5
  C14ORF102 WILD-TYPE     58     70     70
D298V4, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 4                  58
  CLUS_2                 3                  70
  CLUS_3                 5                  70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF102 MUTATED        3      6      6
  C14ORF102 WILD-TYPE     67    114     94
D298V5, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 3                  67
  CLUS_2                 6                 114
  CLUS_3                 6                  94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF102 MUTATED        4      1      1      1      1      4      2      1
  C14ORF102 WILD-TYPE     37     25     29     28     38     65     18     13
                     vv
clus                  CLUS_9
  C14ORF102 MUTATED        0
  C14ORF102 WILD-TYPE     22
D298V6, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 4                  37
  CLUS_2                 1                  25
  CLUS_3                 1                  29
  CLUS_4                 1                  28
  CLUS_5                 1                  38
  CLUS_6                 4                  65
  CLUS_7                 2                  18
  CLUS_8                 1                  13
  CLUS_9                 0                  22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF102 MUTATED        4      5      3      5
  C14ORF102 WILD-TYPE     96     67     69    116
D298V7, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 4                  96
  CLUS_2                 5                  67
  CLUS_3                 3                  69
  CLUS_4                 5                 116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF102 MUTATED        4      3      5      1      4
  C14ORF102 WILD-TYPE     55     72     69    118     34
D298V8, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 4                  55
  CLUS_2                 3                  72
  CLUS_3                 5                  69
  CLUS_4                 1                 118
  CLUS_5                 4                  34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF102 MUTATED        0      6      5      0      6
  C14ORF102 WILD-TYPE     51     70     56     71     89
D298V9, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 0                  51
  CLUS_2                 6                  70
  CLUS_3                 5                  56
  CLUS_4                 0                  71
  CLUS_5                 6                  89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF102 MUTATED        1      4      2      4      0      1      0      4
  C14ORF102 WILD-TYPE     68     44     37     12     53     19     21     34
                     vv
clus                  CLUS_9
  C14ORF102 MUTATED        1
  C14ORF102 WILD-TYPE     49
D298V10, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 1                  68
  CLUS_2                 4                  44
  CLUS_3                 2                  37
  CLUS_4                 4                  12
  CLUS_5                 0                  53
  CLUS_6                 1                  19
  CLUS_7                 0                  21
  CLUS_8                 4                  34
  CLUS_9                 1                  49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C14ORF102 MUTATED        0      0      0      1      2      0
  C14ORF102 WILD-TYPE     13     16     14     10      9      9
D298V11, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 0                  13
  CLUS_2                 0                  16
  CLUS_3                 0                  14
  CLUS_4                 1                  10
  CLUS_5                 2                   9
  CLUS_6                 0                   9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF102 MUTATED        0      0      1      1      0      0      1      0
  C14ORF102 WILD-TYPE     11      7      6      8      8      7     10      9
                     vv
clus                  CLUS_9
  C14ORF102 MUTATED        0
  C14ORF102 WILD-TYPE      5
D298V12, multiclass
        clus
vv       C14ORF102 MUTATED C14ORF102 WILD-TYPE
  CLUS_1                 0                  11
  CLUS_2                 0                   7
  CLUS_3                 1                   6
  CLUS_4                 1                   8
  CLUS_5                 0                   8
  CLUS_6                 0                   7
  CLUS_7                 1                  10
  CLUS_8                 0                   9
  CLUS_9                 0                   5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(299) Variable = EXOC4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXOC4 MUTATED        1      0      0      2      0
  EXOC4 WILD-TYPE     31     18     46     25     23
D299V1, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EXOC4 MUTATED        3      0      0
  EXOC4 WILD-TYPE     40     67     36
D299V2, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EXOC4 MUTATED        2      3     13
  EXOC4 WILD-TYPE     40    170    134
D299V3, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EXOC4 MUTATED        4      2      9
  EXOC4 WILD-TYPE     58     71     66
D299V4, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EXOC4 MUTATED        3      5      8
  EXOC4 WILD-TYPE     67    115     92
D299V5, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             5             115
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EXOC4 MUTATED        0      2      0      2      3      5      2      1
  EXOC4 WILD-TYPE     41     24     30     27     36     64     18     13
                 vv
clus              CLUS_9
  EXOC4 MUTATED        1
  EXOC4 WILD-TYPE     21
D299V6, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EXOC4 MUTATED        2     11      3      2
  EXOC4 WILD-TYPE     98     61     69    119
D299V7, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             2              98
  CLUS_2            11              61
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXOC4 MUTATED        1      5      9      0      3
  EXOC4 WILD-TYPE     58     70     65    119     35
D299V8, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             5              70
  CLUS_3             9              65
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXOC4 MUTATED        3      9      2      0      4
  EXOC4 WILD-TYPE     48     67     59     71     91
D299V9, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             9              67
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EXOC4 MUTATED        3      1      1      4      4      2      0      2
  EXOC4 WILD-TYPE     66     47     38     12     49     18     21     36
                 vv
clus              CLUS_9
  EXOC4 MUTATED        1
  EXOC4 WILD-TYPE     49
D299V10, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             4              49
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EXOC4 MUTATED        1      0      2      1      0      0
  EXOC4 WILD-TYPE     12     16     12     10     11      9
D299V11, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EXOC4 MUTATED        0      0      0      1      1      0      1      1
  EXOC4 WILD-TYPE     11      7      7      8      7      7     10      8
                 vv
clus              CLUS_9
  EXOC4 MUTATED        0
  EXOC4 WILD-TYPE      5
D299V12, multiclass
        clus
vv       EXOC4 MUTATED EXOC4 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(300) Variable = RPS6KA3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPS6KA3 MUTATED        2      0      0      2      0
  RPS6KA3 WILD-TYPE     30     18     46     25     23
D300V1, multiclass
        clus
vv       RPS6KA3 MUTATED RPS6KA3 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RPS6KA3 MUTATED        3      1      0
  RPS6KA3 WILD-TYPE     40     66     36
D300V2, multiclass
        clus
vv       RPS6KA3 MUTATED RPS6KA3 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RPS6KA3 MUTATED        2      2      9
  RPS6KA3 WILD-TYPE     40    171    138
D300V3, multiclass
        clus
vv       RPS6KA3 MUTATED RPS6KA3 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               2               171
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RPS6KA3 MUTATED        2      1      6
  RPS6KA3 WILD-TYPE     60     72     69
D300V4, multiclass
        clus
vv       RPS6KA3 MUTATED RPS6KA3 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RPS6KA3 MUTATED        2      5      2
  RPS6KA3 WILD-TYPE     68    115     98
D300V5, multiclass
        clus
vv       RPS6KA3 MUTATED RPS6KA3 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               5               115
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPS6KA3 MUTATED        0      3      1      2      1      2      0      0
  RPS6KA3 WILD-TYPE     41     23     29     27     38     67     20     14
                   vv
clus                CLUS_9
  RPS6KA3 MUTATED        0
  RPS6KA3 WILD-TYPE     22
D300V6, multiclass
        clus
vv       RPS6KA3 MUTATED RPS6KA3 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               3                23
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPS6KA3 MUTATED        2      6      1      4
  RPS6KA3 WILD-TYPE     98     66     71    117
D300V7, multiclass
        clus
vv       RPS6KA3 MUTATED RPS6KA3 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               6                66
  CLUS_3               1                71
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPS6KA3 MUTATED        0      2      6      2      3
  RPS6KA3 WILD-TYPE     59     73     68    117     35
D300V8, multiclass
        clus
vv       RPS6KA3 MUTATED RPS6KA3 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               6                68
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPS6KA3 MUTATED        1      5      0      1      6
  RPS6KA3 WILD-TYPE     50     71     61     70     89
D300V9, multiclass
        clus
vv       RPS6KA3 MUTATED RPS6KA3 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               5                71
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPS6KA3 MUTATED        3      1      0      2      1      1      1      3
  RPS6KA3 WILD-TYPE     66     47     39     14     52     19     20     35
                   vv
clus                CLUS_9
  RPS6KA3 MUTATED        1
  RPS6KA3 WILD-TYPE     49
D300V10, multiclass
        clus
vv       RPS6KA3 MUTATED RPS6KA3 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RPS6KA3 MUTATED        0      0      1      0      1      0
  RPS6KA3 WILD-TYPE     13     16     13     11     10      9
D300V11, multiclass
[1] "Remove cluster labels:" "RPS6KA3 MUTATED"       
clus
  RPS6KA3 MUTATED RPS6KA3 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPS6KA3 MUTATED        0      0      0      1      0      0      1      0
  RPS6KA3 WILD-TYPE     11      7      7      8      8      7     10      9
                   vv
clus                CLUS_9
  RPS6KA3 MUTATED        0
  RPS6KA3 WILD-TYPE      5
D300V12, multiclass
[1] "Remove cluster labels:" "RPS6KA3 MUTATED"       
clus
  RPS6KA3 MUTATED RPS6KA3 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" "RPS6KA3 WILD-TYPE" 

Clustering(301) Variable = ZNF438 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF438 MUTATED        1      0      0      1      0
  ZNF438 WILD-TYPE     31     18     46     26     23
D301V1, multiclass
[1] "Remove cluster labels:" "ZNF438 MUTATED"        
clus
  ZNF438 MUTATED ZNF438 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3846 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF438 MUTATED        2      0      0
  ZNF438 WILD-TYPE     41     67     36
D301V2, multiclass
[1] "Remove cluster labels:" "ZNF438 MUTATED"        
clus
  ZNF438 MUTATED ZNF438 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3846 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF438 MUTATED        1      3      8
  ZNF438 WILD-TYPE     41    170    139
D301V3, multiclass
        clus
vv       ZNF438 MUTATED ZNF438 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF438 MUTATED        4      4      2
  ZNF438 WILD-TYPE     58     69     73
D301V4, multiclass
        clus
vv       ZNF438 MUTATED ZNF438 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              4               69
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF438 MUTATED        2      2      6
  ZNF438 WILD-TYPE     68    118     94
D301V5, multiclass
        clus
vv       ZNF438 MUTATED ZNF438 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF438 MUTATED        3      1      0      0      1      4      0      1
  ZNF438 WILD-TYPE     38     25     30     29     38     65     20     13
                  vv
clus               CLUS_9
  ZNF438 MUTATED        0
  ZNF438 WILD-TYPE     22
D301V6, multiclass
        clus
vv       ZNF438 MUTATED ZNF438 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF438 MUTATED        3      2      4      3
  ZNF438 WILD-TYPE     97     70     68    118
D301V7, multiclass
        clus
vv       ZNF438 MUTATED ZNF438 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              2               70
  CLUS_3              4               68
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF438 MUTATED        2      4      3      1      2
  ZNF438 WILD-TYPE     57     71     71    118     36
D301V8, multiclass
        clus
vv       ZNF438 MUTATED ZNF438 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF438 MUTATED        3      5      2      0      1
  ZNF438 WILD-TYPE     48     71     59     71     94
D301V9, multiclass
        clus
vv       ZNF438 MUTATED ZNF438 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF438 MUTATED        1      3      1      2      1      2      1      0
  ZNF438 WILD-TYPE     68     45     38     14     52     18     20     38
                  vv
clus               CLUS_9
  ZNF438 MUTATED        0
  ZNF438 WILD-TYPE     50
D301V10, multiclass
        clus
vv       ZNF438 MUTATED ZNF438 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF438 MUTATED        1      1      0      0      0      0
  ZNF438 WILD-TYPE     12     15     14     11     11      9
D301V11, multiclass
[1] "Remove cluster labels:" "ZNF438 MUTATED"        
clus
  ZNF438 MUTATED ZNF438 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6674       TCGA-CM-6676 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF438 MUTATED        0      1      0      1      0      0      0      0
  ZNF438 WILD-TYPE     11      6      7      8      8      7     11      9
                  vv
clus               CLUS_9
  ZNF438 MUTATED        0
  ZNF438 WILD-TYPE      5
D301V12, multiclass
[1] "Remove cluster labels:" "ZNF438 MUTATED"        
clus
  ZNF438 MUTATED ZNF438 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6674       TCGA-CM-6676 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" "ZNF438 WILD-TYPE" 

Clustering(302) Variable = MST4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MST4 MUTATED        0      0      0      1      0
  MST4 WILD-TYPE     32     18     46     26     23
D302V1, multiclass
[1] "Remove cluster labels:" "MST4 MUTATED"          
clus
  MST4 MUTATED MST4 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AY-4071 
"MST4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MST4 MUTATED        1      0      0
  MST4 WILD-TYPE     42     67     36
D302V2, multiclass
[1] "Remove cluster labels:" "MST4 MUTATED"          
clus
  MST4 MUTATED MST4 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" "MST4 WILD-TYPE" 
    TCGA-AY-4071 
"MST4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MST4 MUTATED        0      3      4
  MST4 WILD-TYPE     42    170    143
D302V3, multiclass
        clus
vv       MST4 MUTATED MST4 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MST4 MUTATED        1      2      3
  MST4 WILD-TYPE     61     71     72
D302V4, multiclass
        clus
vv       MST4 MUTATED MST4 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MST4 MUTATED        0      2      3
  MST4 WILD-TYPE     70    118     97
D302V5, multiclass
        clus
vv       MST4 MUTATED MST4 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MST4 MUTATED        0      0      0      0      0      2      1      1      1
  MST4 WILD-TYPE     41     26     30     29     39     67     19     13     21
D302V6, multiclass
        clus
vv       MST4 MUTATED MST4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MST4 MUTATED        2      2      2      1
  MST4 WILD-TYPE     98     70     70    120
D302V7, multiclass
        clus
vv       MST4 MUTATED MST4 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MST4 MUTATED        1      2      3      0      1
  MST4 WILD-TYPE     58     73     71    119     37
D302V8, multiclass
        clus
vv       MST4 MUTATED MST4 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MST4 MUTATED        1      4      1      0      0
  MST4 WILD-TYPE     50     72     60     71     95
D302V9, multiclass
        clus
vv       MST4 MUTATED MST4 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MST4 MUTATED        1      2      0      1      1      1      0      0      0
  MST4 WILD-TYPE     68     46     39     15     52     19     21     38     50
D302V10, multiclass
        clus
vv       MST4 MUTATED MST4 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MST4 MUTATED        0      0      0      0      0      0
  MST4 WILD-TYPE     13     16     14     11     11      9
D302V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MST4 MUTATED        0      0      0      0      0      0      0      0      0
  MST4 WILD-TYPE     11      7      7      9      8      7     11      9      5
D302V12, multiclass

Clustering(303) Variable = RIF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIF1 MUTATED        5      1      0      2      0
  RIF1 WILD-TYPE     27     17     46     25     23
D303V1, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RIF1 MUTATED        6      2      0
  RIF1 WILD-TYPE     37     65     36
D303V2, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RIF1 MUTATED        1      8     25
  RIF1 WILD-TYPE     41    165    122
D303V3, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            8            165
  CLUS_3           25            122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RIF1 MUTATED       11      7      8
  RIF1 WILD-TYPE     51     66     67
D303V4, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1           11             51
  CLUS_2            7             66
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RIF1 MUTATED        7      9     16
  RIF1 WILD-TYPE     63    111     84
D303V5, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1            7             63
  CLUS_2            9            111
  CLUS_3           16             84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RIF1 MUTATED        4      3      3      1      4     13      4      0      0
  RIF1 WILD-TYPE     37     23     27     28     35     56     16     14     22
D303V6, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1            4             37
  CLUS_2            3             23
  CLUS_3            3             27
  CLUS_4            1             28
  CLUS_5            4             35
  CLUS_6           13             56
  CLUS_7            4             16
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RIF1 MUTATED        7     10      9      9
  RIF1 WILD-TYPE     93     62     63    112
D303V7, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1            7             93
  CLUS_2           10             62
  CLUS_3            9             63
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIF1 MUTATED        4     10     12      3      6
  RIF1 WILD-TYPE     55     65     62    116     32
D303V8, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1            4             55
  CLUS_2           10             65
  CLUS_3           12             62
  CLUS_4            3            116
  CLUS_5            6             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIF1 MUTATED        5     16      3      1      9
  RIF1 WILD-TYPE     46     60     58     70     86
D303V9, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1            5             46
  CLUS_2           16             60
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            9             86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RIF1 MUTATED        8      5      1      2      3      6      1      5      3
  RIF1 WILD-TYPE     61     43     38     14     50     14     20     33     47
D303V10, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1            8             61
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            6             14
  CLUS_7            1             20
  CLUS_8            5             33
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RIF1 MUTATED        3      2      1      0      3      0
  RIF1 WILD-TYPE     10     14     13     11      8      9
D303V11, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1            3             10
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RIF1 MUTATED        1      1      1      0      1      1      2      1      1
  RIF1 WILD-TYPE     10      6      6      9      7      6      9      8      4
D303V12, multiclass
        clus
vv       RIF1 MUTATED RIF1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(304) Variable = INPP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INPP1 MUTATED        0      1      0      1      0
  INPP1 WILD-TYPE     32     17     46     26     23
D304V1, multiclass
[1] "Remove cluster labels:" "INPP1 MUTATED"         
clus
  INPP1 MUTATED INPP1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INPP1 MUTATED        0      1      1
  INPP1 WILD-TYPE     43     66     35
D304V2, multiclass
[1] "Remove cluster labels:" "INPP1 MUTATED"         
clus
  INPP1 MUTATED INPP1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INPP1 MUTATED        1      3      3
  INPP1 WILD-TYPE     41    170    144
D304V3, multiclass
        clus
vv       INPP1 MUTATED INPP1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INPP1 MUTATED        1      2      2
  INPP1 WILD-TYPE     61     71     73
D304V4, multiclass
        clus
vv       INPP1 MUTATED INPP1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INPP1 MUTATED        1      2      3
  INPP1 WILD-TYPE     69    118     97
D304V5, multiclass
        clus
vv       INPP1 MUTATED INPP1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INPP1 MUTATED        1      0      1      0      1      2      1      0
  INPP1 WILD-TYPE     40     26     29     29     38     67     19     14
                 vv
clus              CLUS_9
  INPP1 MUTATED        0
  INPP1 WILD-TYPE     22
D304V6, multiclass
        clus
vv       INPP1 MUTATED INPP1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  INPP1 MUTATED        3      0      2      2
  INPP1 WILD-TYPE     97     72     70    119
D304V7, multiclass
        clus
vv       INPP1 MUTATED INPP1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             0              72
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INPP1 MUTATED        1      2      2      2      0
  INPP1 WILD-TYPE     58     73     72    117     38
D304V8, multiclass
        clus
vv       INPP1 MUTATED INPP1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INPP1 MUTATED        1      3      2      0      1
  INPP1 WILD-TYPE     50     73     59     71     94
D304V9, multiclass
        clus
vv       INPP1 MUTATED INPP1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INPP1 MUTATED        2      1      1      1      0      1      1      0
  INPP1 WILD-TYPE     67     47     38     15     53     19     20     38
                 vv
clus              CLUS_9
  INPP1 MUTATED        0
  INPP1 WILD-TYPE     50
D304V10, multiclass
        clus
vv       INPP1 MUTATED INPP1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  INPP1 MUTATED        0      0      0      0      2      0
  INPP1 WILD-TYPE     13     16     14     11      9      9
D304V11, multiclass
[1] "Remove cluster labels:" "INPP1 MUTATED"         
clus
  INPP1 MUTATED INPP1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INPP1 MUTATED        0      0      0      0      1      0      1      0
  INPP1 WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  INPP1 MUTATED        0
  INPP1 WILD-TYPE      5
D304V12, multiclass
[1] "Remove cluster labels:" "INPP1 MUTATED"         
clus
  INPP1 MUTATED INPP1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" "INPP1 WILD-TYPE" 

Clustering(305) Variable = SAPS2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAPS2 MUTATED        2      0      0      0      0
  SAPS2 WILD-TYPE     30     18     46     27     23
D305V1, multiclass
[1] "Remove cluster labels:" "SAPS2 MUTATED"         
clus
  SAPS2 MUTATED SAPS2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3968 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAPS2 MUTATED        2      0      0
  SAPS2 WILD-TYPE     41     67     36
D305V2, multiclass
[1] "Remove cluster labels:" "SAPS2 MUTATED"         
clus
  SAPS2 MUTATED SAPS2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3968 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" "SAPS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAPS2 MUTATED        1      0     10
  SAPS2 WILD-TYPE     41    173    137
D305V3, multiclass
        clus
vv       SAPS2 MUTATED SAPS2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAPS2 MUTATED        2      0      7
  SAPS2 WILD-TYPE     60     73     68
D305V4, multiclass
        clus
vv       SAPS2 MUTATED SAPS2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAPS2 MUTATED        2      3      3
  SAPS2 WILD-TYPE     68    117     97
D305V5, multiclass
        clus
vv       SAPS2 MUTATED SAPS2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAPS2 MUTATED        0      2      0      1      1      3      1      0
  SAPS2 WILD-TYPE     41     24     30     28     38     66     19     14
                 vv
clus              CLUS_9
  SAPS2 MUTATED        0
  SAPS2 WILD-TYPE     22
D305V6, multiclass
        clus
vv       SAPS2 MUTATED SAPS2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SAPS2 MUTATED        0      6      3      2
  SAPS2 WILD-TYPE    100     66     69    119
D305V7, multiclass
        clus
vv       SAPS2 MUTATED SAPS2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAPS2 MUTATED        0      0      8      1      2
  SAPS2 WILD-TYPE     59     75     66    118     36
D305V8, multiclass
        clus
vv       SAPS2 MUTATED SAPS2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             8              66
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAPS2 MUTATED        0      7      1      0      3
  SAPS2 WILD-TYPE     51     69     60     71     92
D305V9, multiclass
        clus
vv       SAPS2 MUTATED SAPS2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAPS2 MUTATED        1      2      0      5      0      1      0      2
  SAPS2 WILD-TYPE     68     46     39     11     53     19     21     36
                 vv
clus              CLUS_9
  SAPS2 MUTATED        0
  SAPS2 WILD-TYPE     50
D305V10, multiclass
        clus
vv       SAPS2 MUTATED SAPS2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             5              11
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SAPS2 MUTATED        0      0      1      0      3      0
  SAPS2 WILD-TYPE     13     16     13     11      8      9
D305V11, multiclass
        clus
vv       SAPS2 MUTATED SAPS2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAPS2 MUTATED        0      0      0      2      1      1      0      0
  SAPS2 WILD-TYPE     11      7      7      7      7      6     11      9
                 vv
clus              CLUS_9
  SAPS2 MUTATED        0
  SAPS2 WILD-TYPE      5
D305V12, multiclass
        clus
vv       SAPS2 MUTATED SAPS2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(306) Variable = CEP135 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEP135 MUTATED        5      0      0      1      0
  CEP135 WILD-TYPE     27     18     46     26     23
D306V1, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP135 MUTATED        5      0      1
  CEP135 WILD-TYPE     38     67     35
D306V2, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP135 MUTATED        2      6     13
  CEP135 WILD-TYPE     40    167    134
D306V3, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              6              167
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP135 MUTATED        4      5      6
  CEP135 WILD-TYPE     58     68     69
D306V4, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              5               68
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP135 MUTATED        3      8      8
  CEP135 WILD-TYPE     67    112     92
D306V5, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              8              112
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEP135 MUTATED        1      0      2      3      1      7      2      1
  CEP135 WILD-TYPE     40     26     28     26     38     62     18     13
                  vv
clus               CLUS_9
  CEP135 MUTATED        2
  CEP135 WILD-TYPE     20
D306V6, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              1               38
  CLUS_6              7               62
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CEP135 MUTATED        5      4      6      6
  CEP135 WILD-TYPE     95     68     66    115
D306V7, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              4               68
  CLUS_3              6               66
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEP135 MUTATED        4      5      6      1      5
  CEP135 WILD-TYPE     55     70     68    118     33
D306V8, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              5               70
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEP135 MUTATED        2      7      3      4      3
  CEP135 WILD-TYPE     49     69     58     67     92
D306V9, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              7               69
  CLUS_3              3               58
  CLUS_4              4               67
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEP135 MUTATED        6      2      2      3      2      1      0      2
  CEP135 WILD-TYPE     63     46     37     13     51     19     21     36
                  vv
clus               CLUS_9
  CEP135 MUTATED        1
  CEP135 WILD-TYPE     49
D306V10, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              2               46
  CLUS_3              2               37
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CEP135 MUTATED        1      0      1      1      2      2
  CEP135 WILD-TYPE     12     16     13     10      9      7
D306V11, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEP135 MUTATED        2      0      0      0      1      0      2      2
  CEP135 WILD-TYPE      9      7      7      9      7      7      9      7
                  vv
clus               CLUS_9
  CEP135 MUTATED        0
  CEP135 WILD-TYPE      5
D306V12, multiclass
        clus
vv       CEP135 MUTATED CEP135 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              2                7
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(307) Variable = PPP2R1A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R1A MUTATED        0      1      0      0      1
  PPP2R1A WILD-TYPE     32     17     46     27     22
D307V1, multiclass
[1] "Remove cluster labels:" "PPP2R1A MUTATED"       
clus
  PPP2R1A MUTATED PPP2R1A WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3516        TCGA-AA-3517 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED        1      0      1
  PPP2R1A WILD-TYPE     42     67     35
D307V2, multiclass
[1] "Remove cluster labels:" "PPP2R1A MUTATED"       
clus
  PPP2R1A MUTATED PPP2R1A WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3516        TCGA-AA-3517 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" "PPP2R1A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED        2      1     11
  PPP2R1A WILD-TYPE     40    172    136
D307V3, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               2                40
  CLUS_2               1               172
  CLUS_3              11               136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED        2      1      7
  PPP2R1A WILD-TYPE     60     72     68
D307V4, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               7                68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED        2      3      6
  PPP2R1A WILD-TYPE     68    117     94
D307V5, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               2                68
  CLUS_2               3               117
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP2R1A MUTATED        2      0      2      0      0      6      0      1
  PPP2R1A WILD-TYPE     39     26     28     29     39     63     20     13
                   vv
clus                CLUS_9
  PPP2R1A MUTATED        0
  PPP2R1A WILD-TYPE     22
D307V6, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R1A MUTATED        1      6      3      4
  PPP2R1A WILD-TYPE     99     66     69    117
D307V7, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               1                99
  CLUS_2               6                66
  CLUS_3               3                69
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R1A MUTATED        0      1      9      3      1
  PPP2R1A WILD-TYPE     59     74     65    116     37
D307V8, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               9                65
  CLUS_4               3               116
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R1A MUTATED        1      7      2      2      2
  PPP2R1A WILD-TYPE     50     69     59     69     93
D307V9, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               1                50
  CLUS_2               7                69
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP2R1A MUTATED        1      3      0      5      0      1      1      1
  PPP2R1A WILD-TYPE     68     45     39     11     53     19     20     37
                   vv
clus                CLUS_9
  PPP2R1A MUTATED        2
  PPP2R1A WILD-TYPE     48
D307V10, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               5                11
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPP2R1A MUTATED        0      1      0      0      2      0
  PPP2R1A WILD-TYPE     13     15     14     11      9      9
D307V11, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP2R1A MUTATED        0      0      0      1      0      0      2      0
  PPP2R1A WILD-TYPE     11      7      7      8      8      7      9      9
                   vv
clus                CLUS_9
  PPP2R1A MUTATED        0
  PPP2R1A WILD-TYPE      5
D307V12, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(308) Variable = RNF160 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF160 MUTATED        2      0      1      1      0
  RNF160 WILD-TYPE     30     18     45     26     23
D308V1, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF160 MUTATED        3      1      0
  RNF160 WILD-TYPE     40     66     36
D308V2, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF160 MUTATED        0      5     11
  RNF160 WILD-TYPE     42    168    136
D308V3, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              5              168
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF160 MUTATED        4      3      4
  RNF160 WILD-TYPE     58     70     71
D308V4, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              3               70
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF160 MUTATED        0      7      5
  RNF160 WILD-TYPE     70    113     95
D308V5, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              7              113
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF160 MUTATED        1      1      2      2      0      4      1      0
  RNF160 WILD-TYPE     40     25     28     27     39     65     19     14
                  vv
clus               CLUS_9
  RNF160 MUTATED        1
  RNF160 WILD-TYPE     21
D308V6, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF160 MUTATED        5      3      3      5
  RNF160 WILD-TYPE     95     69     69    116
D308V7, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF160 MUTATED        2      6      2      3      3
  RNF160 WILD-TYPE     57     69     72    116     35
D308V8, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              6               69
  CLUS_3              2               72
  CLUS_4              3              116
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF160 MUTATED        4      4      3      0      3
  RNF160 WILD-TYPE     47     72     58     71     92
D308V9, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              4               72
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF160 MUTATED        1      4      1      0      2      2      2      1
  RNF160 WILD-TYPE     68     44     38     16     51     18     19     37
                  vv
clus               CLUS_9
  RNF160 MUTATED        1
  RNF160 WILD-TYPE     49
D308V10, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              2               19
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF160 MUTATED        1      1      0      0      1      0
  RNF160 WILD-TYPE     12     15     14     11     10      9
D308V11, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF160 MUTATED        0      1      0      0      0      0      1      0
  RNF160 WILD-TYPE     11      6      7      9      8      7     10      9
                  vv
clus               CLUS_9
  RNF160 MUTATED        1
  RNF160 WILD-TYPE      4
D308V12, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(309) Variable = ECM2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ECM2 MUTATED        2      1      0      1      0
  ECM2 WILD-TYPE     30     17     46     26     23
D309V1, multiclass
        clus
vv       ECM2 MUTATED ECM2 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ECM2 MUTATED        4      0      0
  ECM2 WILD-TYPE     39     67     36
D309V2, multiclass
        clus
vv       ECM2 MUTATED ECM2 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ECM2 MUTATED        1      3     11
  ECM2 WILD-TYPE     41    170    136
D309V3, multiclass
        clus
vv       ECM2 MUTATED ECM2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ECM2 MUTATED        7      1      5
  ECM2 WILD-TYPE     55     72     70
D309V4, multiclass
        clus
vv       ECM2 MUTATED ECM2 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            1             72
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ECM2 MUTATED        3      5      8
  ECM2 WILD-TYPE     67    115     92
D309V5, multiclass
        clus
vv       ECM2 MUTATED ECM2 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            5            115
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ECM2 MUTATED        2      1      0      1      2      6      2      1      1
  ECM2 WILD-TYPE     39     25     30     28     37     63     18     13     21
D309V6, multiclass
        clus
vv       ECM2 MUTATED ECM2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            6             63
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ECM2 MUTATED        2      6      4      5
  ECM2 WILD-TYPE     98     66     68    116
D309V7, multiclass
        clus
vv       ECM2 MUTATED ECM2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            6             66
  CLUS_3            4             68
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ECM2 MUTATED        2      2      7      2      4
  ECM2 WILD-TYPE     57     73     67    117     34
D309V8, multiclass
        clus
vv       ECM2 MUTATED ECM2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            7             67
  CLUS_4            2            117
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ECM2 MUTATED        4      6      2      1      3
  ECM2 WILD-TYPE     47     70     59     70     92
D309V9, multiclass
        clus
vv       ECM2 MUTATED ECM2 WILD-TYPE
  CLUS_1            4             47
  CLUS_2            6             70
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ECM2 MUTATED        3      2      0      2      4      1      1      1      2
  ECM2 WILD-TYPE     66     46     39     14     49     19     20     37     48
D309V10, multiclass
        clus
vv       ECM2 MUTATED ECM2 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ECM2 MUTATED        0      1      0      0      1      0
  ECM2 WILD-TYPE     13     15     14     11     10      9
D309V11, multiclass
[1] "Remove cluster labels:" "ECM2 MUTATED"          
clus
  ECM2 MUTATED ECM2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AZ-4323 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ECM2 MUTATED        1      0      0      1      0      0      0      0      0
  ECM2 WILD-TYPE     10      7      7      8      8      7     11      9      5
D309V12, multiclass
[1] "Remove cluster labels:" "ECM2 MUTATED"          
clus
  ECM2 MUTATED ECM2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AZ-4323 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" "ECM2 WILD-TYPE" 

Clustering(310) Variable = MSH2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSH2 MUTATED        1      0      1      2      0
  MSH2 WILD-TYPE     31     18     45     25     23
D310V1, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH2 MUTATED        2      1      1
  MSH2 WILD-TYPE     41     66     35
D310V2, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH2 MUTATED        4      9     20
  MSH2 WILD-TYPE     38    164    127
D310V3, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            4             38
  CLUS_2            9            164
  CLUS_3           20            127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH2 MUTATED       10      8     11
  MSH2 WILD-TYPE     52     65     64
D310V4, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1           10             52
  CLUS_2            8             65
  CLUS_3           11             64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH2 MUTATED        4     12     12
  MSH2 WILD-TYPE     66    108     88
D310V5, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            4             66
  CLUS_2           12            108
  CLUS_3           12             88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MSH2 MUTATED        2      4      1      3      3      9      3      2      1
  MSH2 WILD-TYPE     39     22     29     26     36     60     17     12     21
D310V6, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            4             22
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            3             36
  CLUS_6            9             60
  CLUS_7            3             17
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSH2 MUTATED        6     12     10      5
  MSH2 WILD-TYPE     94     60     62    116
D310V7, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            6             94
  CLUS_2           12             60
  CLUS_3           10             62
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSH2 MUTATED        3     10     14      4      2
  MSH2 WILD-TYPE     56     65     60    115     36
D310V8, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            3             56
  CLUS_2           10             65
  CLUS_3           14             60
  CLUS_4            4            115
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSH2 MUTATED        4     15      5      2      6
  MSH2 WILD-TYPE     47     61     56     69     89
D310V9, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            4             47
  CLUS_2           15             61
  CLUS_3            5             56
  CLUS_4            2             69
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MSH2 MUTATED        5      7      2      3      6      3      0      3      3
  MSH2 WILD-TYPE     64     41     37     13     47     17     21     35     47
D310V10, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            7             41
  CLUS_3            2             37
  CLUS_4            3             13
  CLUS_5            6             47
  CLUS_6            3             17
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MSH2 MUTATED        0      1      2      0      3      0
  MSH2 WILD-TYPE     13     15     12     11      8      9
D310V11, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MSH2 MUTATED        2      0      0      2      0      1      1      0      0
  MSH2 WILD-TYPE      9      7      7      7      8      6     10      9      5
D310V12, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(311) Variable = IL1RAPL1 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL1RAPL1 MUTATED        4      0      1      0      0
  IL1RAPL1 WILD-TYPE     28     18     45     27     23
D311V1, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                1                 45
  CLUS_4                0                 27
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  IL1RAPL1 MUTATED        3      1      1
  IL1RAPL1 WILD-TYPE     40     66     35
D311V2, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  IL1RAPL1 MUTATED        4      6     13
  IL1RAPL1 WILD-TYPE     38    167    134
D311V3, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                4                 38
  CLUS_2                6                167
  CLUS_3               13                134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  IL1RAPL1 MUTATED        6      5      7
  IL1RAPL1 WILD-TYPE     56     68     68
D311V4, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                6                 56
  CLUS_2                5                 68
  CLUS_3                7                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  IL1RAPL1 MUTATED        1      7      9
  IL1RAPL1 WILD-TYPE     69    113     91
D311V5, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                7                113
  CLUS_3                9                 91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL1RAPL1 MUTATED        2      1      0      5      0      4      3      0
  IL1RAPL1 WILD-TYPE     39     25     30     24     39     65     17     14
                    vv
clus                 CLUS_9
  IL1RAPL1 MUTATED        2
  IL1RAPL1 WILD-TYPE     20
D311V6, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                5                 24
  CLUS_5                0                 39
  CLUS_6                4                 65
  CLUS_7                3                 17
  CLUS_8                0                 14
  CLUS_9                2                 20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL1RAPL1 MUTATED        7      6      5      5
  IL1RAPL1 WILD-TYPE     93     66     67    116
D311V7, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                7                 93
  CLUS_2                6                 66
  CLUS_3                5                 67
  CLUS_4                5                116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL1RAPL1 MUTATED        3      6      9      2      3
  IL1RAPL1 WILD-TYPE     56     69     65    117     35
D311V8, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                6                 69
  CLUS_3                9                 65
  CLUS_4                2                117
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL1RAPL1 MUTATED        2     11      4      2      4
  IL1RAPL1 WILD-TYPE     49     65     57     69     91
D311V9, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2               11                 65
  CLUS_3                4                 57
  CLUS_4                2                 69
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL1RAPL1 MUTATED        4      3      2      5      4      2      1      2
  IL1RAPL1 WILD-TYPE     65     45     37     11     49     18     20     36
                    vv
clus                 CLUS_9
  IL1RAPL1 MUTATED        0
  IL1RAPL1 WILD-TYPE     50
D311V10, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                4                 65
  CLUS_2                3                 45
  CLUS_3                2                 37
  CLUS_4                5                 11
  CLUS_5                4                 49
  CLUS_6                2                 18
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL1RAPL1 MUTATED        2      1      1      0      1      1
  IL1RAPL1 WILD-TYPE     11     15     13     11     10      8
D311V11, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                2                 11
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                1                 10
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL1RAPL1 MUTATED        0      0      0      2      0      2      1      1
  IL1RAPL1 WILD-TYPE     11      7      7      7      8      5     10      8
                    vv
clus                 CLUS_9
  IL1RAPL1 MUTATED        0
  IL1RAPL1 WILD-TYPE      5
D311V12, multiclass
        clus
vv       IL1RAPL1 MUTATED IL1RAPL1 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                2                  7
  CLUS_5                0                  8
  CLUS_6                2                  5
  CLUS_7                1                 10
  CLUS_8                1                  8
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(312) Variable = C6ORF170 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF170 MUTATED        4      0      0      1      0
  C6ORF170 WILD-TYPE     28     18     46     26     23
D312V1, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF170 MUTATED        3      1      1
  C6ORF170 WILD-TYPE     40     66     35
D312V2, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF170 MUTATED        3      5     10
  C6ORF170 WILD-TYPE     39    168    137
D312V3, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                5                168
  CLUS_3               10                137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF170 MUTATED        7      5      1
  C6ORF170 WILD-TYPE     55     68     74
D312V4, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                7                 55
  CLUS_2                5                 68
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF170 MUTATED        0      7      8
  C6ORF170 WILD-TYPE     70    113     92
D312V5, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                7                113
  CLUS_3                8                 92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF170 MUTATED        2      1      1      2      2      5      1      0
  C6ORF170 WILD-TYPE     39     25     29     27     37     64     19     14
                    vv
clus                 CLUS_9
  C6ORF170 MUTATED        1
  C6ORF170 WILD-TYPE     21
D312V6, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                2                 27
  CLUS_5                2                 37
  CLUS_6                5                 64
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C6ORF170 MUTATED        3      2      7      6
  C6ORF170 WILD-TYPE     97     70     65    115
D312V7, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                3                 97
  CLUS_2                2                 70
  CLUS_3                7                 65
  CLUS_4                6                115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF170 MUTATED        5      3      4      3      3
  C6ORF170 WILD-TYPE     54     72     70    116     35
D312V8, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                5                 54
  CLUS_2                3                 72
  CLUS_3                4                 70
  CLUS_4                3                116
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF170 MUTATED        1      3      5      3      6
  C6ORF170 WILD-TYPE     50     73     56     68     89
D312V9, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                3                 73
  CLUS_3                5                 56
  CLUS_4                3                 68
  CLUS_5                6                 89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF170 MUTATED        2      5      0      1      4      1      0      3
  C6ORF170 WILD-TYPE     67     43     39     15     49     19     21     35
                    vv
clus                 CLUS_9
  C6ORF170 MUTATED        2
  C6ORF170 WILD-TYPE     48
D312V10, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                5                 43
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                4                 49
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                3                 35
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C6ORF170 MUTATED        1      0      0      1      2      3
  C6ORF170 WILD-TYPE     12     16     14     10      9      6
D312V11, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                0                 16
  CLUS_3                0                 14
  CLUS_4                1                 10
  CLUS_5                2                  9
  CLUS_6                3                  6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF170 MUTATED        1      0      0      2      0      2      1      1
  C6ORF170 WILD-TYPE     10      7      7      7      8      5     10      8
                    vv
clus                 CLUS_9
  C6ORF170 MUTATED        0
  C6ORF170 WILD-TYPE      5
D312V12, multiclass
        clus
vv       C6ORF170 MUTATED C6ORF170 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                2                  7
  CLUS_5                0                  8
  CLUS_6                2                  5
  CLUS_7                1                 10
  CLUS_8                1                  8
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(313) Variable = STAB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAB2 MUTATED        7      0      0      3      1
  STAB2 WILD-TYPE     25     18     46     24     22
D313V1, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             7              25
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAB2 MUTATED        8      2      1
  STAB2 WILD-TYPE     35     65     35
D313V2, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             8              35
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAB2 MUTATED        3      6     23
  STAB2 WILD-TYPE     39    167    124
D313V3, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             6             167
  CLUS_3            23             124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAB2 MUTATED        9      3      9
  STAB2 WILD-TYPE     53     70     66
D313V4, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             9              53
  CLUS_2             3              70
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAB2 MUTATED        7      7     12
  STAB2 WILD-TYPE     63    113     88
D313V5, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             7              63
  CLUS_2             7             113
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAB2 MUTATED        6      2      2      1      6      6      1      2
  STAB2 WILD-TYPE     35     24     28     28     33     63     19     12
                 vv
clus              CLUS_9
  STAB2 MUTATED        0
  STAB2 WILD-TYPE     22
D313V6, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             6              35
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             6              33
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STAB2 MUTATED        4     10      5     13
  STAB2 WILD-TYPE     96     62     67    108
D313V7, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             4              96
  CLUS_2            10              62
  CLUS_3             5              67
  CLUS_4            13             108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAB2 MUTATED        5      5      9      5      8
  STAB2 WILD-TYPE     54     70     65    114     30
D313V8, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             5              70
  CLUS_3             9              65
  CLUS_4             5             114
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAB2 MUTATED        4      7      5      3     12
  STAB2 WILD-TYPE     47     69     56     68     83
D313V9, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             7              69
  CLUS_3             5              56
  CLUS_4             3              68
  CLUS_5            12              83
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAB2 MUTATED        3      4      3      2      4      3      1      7
  STAB2 WILD-TYPE     66     44     36     14     49     17     20     31
                 vv
clus              CLUS_9
  STAB2 MUTATED        4
  STAB2 WILD-TYPE     46
D313V10, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             4              44
  CLUS_3             3              36
  CLUS_4             2              14
  CLUS_5             4              49
  CLUS_6             3              17
  CLUS_7             1              20
  CLUS_8             7              31
  CLUS_9             4              46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STAB2 MUTATED        0      2      2      1      1      1
  STAB2 WILD-TYPE     13     14     12     10     10      8
D313V11, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAB2 MUTATED        2      1      0      1      1      0      1      0
  STAB2 WILD-TYPE      9      6      7      8      7      7     10      9
                 vv
clus              CLUS_9
  STAB2 MUTATED        1
  STAB2 WILD-TYPE      4
D313V12, multiclass
        clus
vv       STAB2 MUTATED STAB2 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(314) Variable = ERBB3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB3 MUTATED        5      0      2      2      1
  ERBB3 WILD-TYPE     27     18     44     25     22
D314V1, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB3 MUTATED        6      3      1
  ERBB3 WILD-TYPE     37     64     35
D314V2, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             3              64
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB3 MUTATED        3      4     19
  ERBB3 WILD-TYPE     39    169    128
D314V3, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             4             169
  CLUS_3            19             128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB3 MUTATED        7      1      6
  ERBB3 WILD-TYPE     55     72     69
D314V4, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB3 MUTATED        5      8     10
  ERBB3 WILD-TYPE     65    112     90
D314V5, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             5              65
  CLUS_2             8             112
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB3 MUTATED        1      1      3      2      5      7      3      1
  ERBB3 WILD-TYPE     40     25     27     27     34     62     17     13
                 vv
clus              CLUS_9
  ERBB3 MUTATED        0
  ERBB3 WILD-TYPE     22
D314V6, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             3              27
  CLUS_4             2              27
  CLUS_5             5              34
  CLUS_6             7              62
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB3 MUTATED        2      8      5     10
  ERBB3 WILD-TYPE     98     64     67    111
D314V7, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             8              64
  CLUS_3             5              67
  CLUS_4            10             111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB3 MUTATED        4      2      7      7      5
  ERBB3 WILD-TYPE     55     73     67    112     33
D314V8, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             2              73
  CLUS_3             7              67
  CLUS_4             7             112
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB3 MUTATED        1      8      4      3      8
  ERBB3 WILD-TYPE     50     68     57     68     87
D314V9, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             8              68
  CLUS_3             4              57
  CLUS_4             3              68
  CLUS_5             8              87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB3 MUTATED        5      4      4      0      3      2      1      5
  ERBB3 WILD-TYPE     64     44     35     16     50     18     20     33
                 vv
clus              CLUS_9
  ERBB3 MUTATED        0
  ERBB3 WILD-TYPE     50
D314V10, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             4              44
  CLUS_3             4              35
  CLUS_4             0              16
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             5              33
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERBB3 MUTATED        0      2      0      0      0      0
  ERBB3 WILD-TYPE     13     14     14     11     11      9
D314V11, multiclass
[1] "Remove cluster labels:" "ERBB3 MUTATED"         
clus
  ERBB3 MUTATED ERBB3 WILD-TYPE 
              2              72 
     TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6536 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB3 MUTATED        0      1      0      0      0      1      0      0
  ERBB3 WILD-TYPE     11      6      7      9      8      6     11      9
                 vv
clus              CLUS_9
  ERBB3 MUTATED        0
  ERBB3 WILD-TYPE      5
D314V12, multiclass
[1] "Remove cluster labels:" "ERBB3 MUTATED"         
clus
  ERBB3 MUTATED ERBB3 WILD-TYPE 
              2              72 
     TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6536 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 

Clustering(315) Variable = ZNF708 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF708 MUTATED        1      0      0      2      0
  ZNF708 WILD-TYPE     31     18     46     25     23
D315V1, multiclass
        clus
vv       ZNF708 MUTATED ZNF708 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF708 MUTATED        1      1      1
  ZNF708 WILD-TYPE     42     66     35
D315V2, multiclass
        clus
vv       ZNF708 MUTATED ZNF708 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF708 MUTATED        1      3      8
  ZNF708 WILD-TYPE     41    170    139
D315V3, multiclass
        clus
vv       ZNF708 MUTATED ZNF708 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF708 MUTATED        3      4      2
  ZNF708 WILD-TYPE     59     69     73
D315V4, multiclass
        clus
vv       ZNF708 MUTATED ZNF708 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              4               69
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF708 MUTATED        1      5      3
  ZNF708 WILD-TYPE     69    115     97
D315V5, multiclass
        clus
vv       ZNF708 MUTATED ZNF708 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF708 MUTATED        0      1      2      1      2      3      0      0
  ZNF708 WILD-TYPE     41     25     28     28     37     66     20     14
                  vv
clus               CLUS_9
  ZNF708 MUTATED        0
  ZNF708 WILD-TYPE     22
D315V6, multiclass
        clus
vv       ZNF708 MUTATED ZNF708 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF708 MUTATED        4      2      3      3
  ZNF708 WILD-TYPE     96     70     69    118
D315V7, multiclass
        clus
vv       ZNF708 MUTATED ZNF708 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF708 MUTATED        0      5      4      2      1
  ZNF708 WILD-TYPE     59     70     70    117     37
D315V8, multiclass
        clus
vv       ZNF708 MUTATED ZNF708 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              5               70
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF708 MUTATED        4      3      2      1      1
  ZNF708 WILD-TYPE     47     73     59     70     94
D315V9, multiclass
        clus
vv       ZNF708 MUTATED ZNF708 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF708 MUTATED        2      2      2      0      3      2      0      0
  ZNF708 WILD-TYPE     67     46     37     16     50     18     21     38
                  vv
clus               CLUS_9
  ZNF708 MUTATED        0
  ZNF708 WILD-TYPE     50
D315V10, multiclass
        clus
vv       ZNF708 MUTATED ZNF708 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              2               37
  CLUS_4              0               16
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF708 MUTATED        0      0      1      0      1      0
  ZNF708 WILD-TYPE     13     16     13     11     10      9
D315V11, multiclass
[1] "Remove cluster labels:" "ZNF708 MUTATED"        
clus
  ZNF708 MUTATED ZNF708 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AY-6196 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF708 MUTATED        0      0      0      0      1      0      1      0
  ZNF708 WILD-TYPE     11      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  ZNF708 MUTATED        0
  ZNF708 WILD-TYPE      5
D315V12, multiclass
[1] "Remove cluster labels:" "ZNF708 MUTATED"        
clus
  ZNF708 MUTATED ZNF708 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AY-6196 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" "ZNF708 WILD-TYPE" 

Clustering(316) Variable = MBTD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MBTD1 MUTATED        0      0      0      0      0
  MBTD1 WILD-TYPE     32     18     46     27     23
D316V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MBTD1 MUTATED        0      0      0
  MBTD1 WILD-TYPE     43     67     36
D316V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MBTD1 MUTATED        0      3      6
  MBTD1 WILD-TYPE     42    170    141
D316V3, multiclass
        clus
vv       MBTD1 MUTATED MBTD1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MBTD1 MUTATED        3      1      5
  MBTD1 WILD-TYPE     59     72     70
D316V4, multiclass
        clus
vv       MBTD1 MUTATED MBTD1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MBTD1 MUTATED        1      2      4
  MBTD1 WILD-TYPE     69    118     96
D316V5, multiclass
        clus
vv       MBTD1 MUTATED MBTD1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MBTD1 MUTATED        1      2      0      0      1      3      0      0
  MBTD1 WILD-TYPE     40     24     30     29     38     66     20     14
                 vv
clus              CLUS_9
  MBTD1 MUTATED        0
  MBTD1 WILD-TYPE     22
D316V6, multiclass
        clus
vv       MBTD1 MUTATED MBTD1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MBTD1 MUTATED        1      5      3      0
  MBTD1 WILD-TYPE     99     67     69    121
D316V7, multiclass
        clus
vv       MBTD1 MUTATED MBTD1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MBTD1 MUTATED        1      2      6      0      0
  MBTD1 WILD-TYPE     58     73     68    119     38
D316V8, multiclass
        clus
vv       MBTD1 MUTATED MBTD1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MBTD1 MUTATED        1      5      2      0      1
  MBTD1 WILD-TYPE     50     71     59     71     94
D316V9, multiclass
        clus
vv       MBTD1 MUTATED MBTD1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MBTD1 MUTATED        2      3      0      2      1      0      0      1
  MBTD1 WILD-TYPE     67     45     39     14     52     20     21     37
                 vv
clus              CLUS_9
  MBTD1 MUTATED        0
  MBTD1 WILD-TYPE     50
D316V10, multiclass
        clus
vv       MBTD1 MUTATED MBTD1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MBTD1 MUTATED        0      0      1      1      2      0
  MBTD1 WILD-TYPE     13     16     13     10      9      9
D316V11, multiclass
        clus
vv       MBTD1 MUTATED MBTD1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MBTD1 MUTATED        0      0      1      1      0      0      2      0
  MBTD1 WILD-TYPE     11      7      6      8      8      7      9      9
                 vv
clus              CLUS_9
  MBTD1 MUTATED        0
  MBTD1 WILD-TYPE      5
D316V12, multiclass
        clus
vv       MBTD1 MUTATED MBTD1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(317) Variable = ZNF189 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF189 MUTATED        1      0      0      0      0
  ZNF189 WILD-TYPE     31     18     46     27     23
D317V1, multiclass
[1] "Remove cluster labels:" "ZNF189 MUTATED"        
clus
  ZNF189 MUTATED ZNF189 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF189 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF189 MUTATED        1      0      0
  ZNF189 WILD-TYPE     42     67     36
D317V2, multiclass
[1] "Remove cluster labels:" "ZNF189 MUTATED"        
clus
  ZNF189 MUTATED ZNF189 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF189 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF189 MUTATED        1      7      8
  ZNF189 WILD-TYPE     41    166    139
D317V3, multiclass
        clus
vv       ZNF189 MUTATED ZNF189 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              7              166
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF189 MUTATED        7      5      4
  ZNF189 WILD-TYPE     55     68     71
D317V4, multiclass
        clus
vv       ZNF189 MUTATED ZNF189 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              5               68
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF189 MUTATED        2      5      9
  ZNF189 WILD-TYPE     68    115     91
D317V5, multiclass
        clus
vv       ZNF189 MUTATED ZNF189 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF189 MUTATED        4      1      0      2      0      5      1      2
  ZNF189 WILD-TYPE     37     25     30     27     39     64     19     12
                  vv
clus               CLUS_9
  ZNF189 MUTATED        1
  ZNF189 WILD-TYPE     21
D317V6, multiclass
        clus
vv       ZNF189 MUTATED ZNF189 WILD-TYPE
  CLUS_1              4               37
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF189 MUTATED        5      3      6      3
  ZNF189 WILD-TYPE     95     69     66    118
D317V7, multiclass
        clus
vv       ZNF189 MUTATED ZNF189 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              3               69
  CLUS_3              6               66
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF189 MUTATED        5      6      3      2      1
  ZNF189 WILD-TYPE     54     69     71    117     37
D317V8, multiclass
        clus
vv       ZNF189 MUTATED ZNF189 WILD-TYPE
  CLUS_1              5               54
  CLUS_2              6               69
  CLUS_3              3               71
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF189 MUTATED        4      5      4      0      4
  ZNF189 WILD-TYPE     47     71     57     71     91
D317V9, multiclass
        clus
vv       ZNF189 MUTATED ZNF189 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              5               71
  CLUS_3              4               57
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF189 MUTATED        5      5      1      0      1      1      0      1
  ZNF189 WILD-TYPE     64     43     38     16     52     19     21     37
                  vv
clus               CLUS_9
  ZNF189 MUTATED        3
  ZNF189 WILD-TYPE     47
D317V10, multiclass
        clus
vv       ZNF189 MUTATED ZNF189 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              5               43
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF189 MUTATED        0      1      0      0      1      0
  ZNF189 WILD-TYPE     13     15     14     11     10      9
D317V11, multiclass
[1] "Remove cluster labels:" "ZNF189 MUTATED"        
clus
  ZNF189 MUTATED ZNF189 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901       TCGA-AD-6963 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196       TCGA-AZ-4323 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF189 MUTATED        0      0      0      0      0      1      1      0
  ZNF189 WILD-TYPE     11      7      7      9      8      6     10      9
                  vv
clus               CLUS_9
  ZNF189 MUTATED        0
  ZNF189 WILD-TYPE      5
D317V12, multiclass
[1] "Remove cluster labels:" "ZNF189 MUTATED"        
clus
  ZNF189 MUTATED ZNF189 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901       TCGA-AD-6963 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196       TCGA-AZ-4323 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" "ZNF189 WILD-TYPE" 

Clustering(318) Variable = ACP6 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACP6 MUTATED        0      0      0      0      0
  ACP6 WILD-TYPE     32     18     46     27     23
D318V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ACP6 MUTATED        0      0      0
  ACP6 WILD-TYPE     43     67     36
D318V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ACP6 MUTATED        0      3      3
  ACP6 WILD-TYPE     42    170    144
D318V3, multiclass
        clus
vv       ACP6 MUTATED ACP6 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ACP6 MUTATED        3      1      2
  ACP6 WILD-TYPE     59     72     73
D318V4, multiclass
        clus
vv       ACP6 MUTATED ACP6 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ACP6 MUTATED        1      1      2
  ACP6 WILD-TYPE     69    119     98
D318V5, multiclass
        clus
vv       ACP6 MUTATED ACP6 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ACP6 MUTATED        0      0      0      0      1      2      0      1      0
  ACP6 WILD-TYPE     41     26     30     29     38     67     20     13     22
D318V6, multiclass
        clus
vv       ACP6 MUTATED ACP6 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACP6 MUTATED        3      2      1      0
  ACP6 WILD-TYPE     97     70     71    121
D318V7, multiclass
        clus
vv       ACP6 MUTATED ACP6 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACP6 MUTATED        1      2      3      0      0
  ACP6 WILD-TYPE     58     73     71    119     38
D318V8, multiclass
        clus
vv       ACP6 MUTATED ACP6 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACP6 MUTATED        0      4      2      0      0
  ACP6 WILD-TYPE     51     72     59     71     95
D318V9, multiclass
        clus
vv       ACP6 MUTATED ACP6 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ACP6 MUTATED        2      0      1      1      2      0      0      0      0
  ACP6 WILD-TYPE     67     48     38     15     51     20     21     38     50
D318V10, multiclass
        clus
vv       ACP6 MUTATED ACP6 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACP6 MUTATED        0      0      1      1      0      0
  ACP6 WILD-TYPE     13     16     13     10     11      9
D318V11, multiclass
[1] "Remove cluster labels:" "ACP6 MUTATED"          
clus
  ACP6 MUTATED ACP6 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6569 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ACP6 MUTATED        0      0      0      0      1      0      1      0      0
  ACP6 WILD-TYPE     11      7      7      9      7      7     10      9      5
D318V12, multiclass
[1] "Remove cluster labels:" "ACP6 MUTATED"          
clus
  ACP6 MUTATED ACP6 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6569 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" "ACP6 WILD-TYPE" 

Clustering(319) Variable = PRKCI MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCI MUTATED        4      0      0      1      0
  PRKCI WILD-TYPE     28     18     46     26     23
D319V1, multiclass
        clus
vv       PRKCI MUTATED PRKCI WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCI MUTATED        3      1      1
  PRKCI WILD-TYPE     40     66     35
D319V2, multiclass
        clus
vv       PRKCI MUTATED PRKCI WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCI MUTATED        0      4     13
  PRKCI WILD-TYPE     42    169    134
D319V3, multiclass
        clus
vv       PRKCI MUTATED PRKCI WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCI MUTATED        3      1      9
  PRKCI WILD-TYPE     59     72     66
D319V4, multiclass
        clus
vv       PRKCI MUTATED PRKCI WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCI MUTATED        1      7      7
  PRKCI WILD-TYPE     69    113     93
D319V5, multiclass
        clus
vv       PRKCI MUTATED PRKCI WILD-TYPE
  CLUS_1             1              69
  CLUS_2             7             113
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCI MUTATED        1      1      2      1      0      5      2      1
  PRKCI WILD-TYPE     40     25     28     28     39     64     18     13
                 vv
clus              CLUS_9
  PRKCI MUTATED        2
  PRKCI WILD-TYPE     20
D319V6, multiclass
        clus
vv       PRKCI MUTATED PRKCI WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRKCI MUTATED        2      9      1      6
  PRKCI WILD-TYPE     98     63     71    115
D319V7, multiclass
        clus
vv       PRKCI MUTATED PRKCI WILD-TYPE
  CLUS_1             2              98
  CLUS_2             9              63
  CLUS_3             1              71
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCI MUTATED        2      4      6      3      3
  PRKCI WILD-TYPE     57     71     68    116     35
D319V8, multiclass
        clus
vv       PRKCI MUTATED PRKCI WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             6              68
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCI MUTATED        3      6      1      2      6
  PRKCI WILD-TYPE     48     70     60     69     89
D319V9, multiclass
        clus
vv       PRKCI MUTATED PRKCI WILD-TYPE
  CLUS_1             3              48
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCI MUTATED        4      1      1      3      3      1      0      3
  PRKCI WILD-TYPE     65     47     38     13     50     19     21     35
                 vv
clus              CLUS_9
  PRKCI MUTATED        2
  PRKCI WILD-TYPE     48
D319V10, multiclass
        clus
vv       PRKCI MUTATED PRKCI WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRKCI MUTATED        0      0      1      0      0      0
  PRKCI WILD-TYPE     13     16     13     11     11      9
D319V11, multiclass
[1] "Remove cluster labels:" "PRKCI MUTATED"         
clus
  PRKCI MUTATED PRKCI WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-G4-6628 
"PRKCI WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCI MUTATED        0      0      0      0      1      0      0      0
  PRKCI WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  PRKCI MUTATED        0
  PRKCI WILD-TYPE      5
D319V12, multiclass
[1] "Remove cluster labels:" "PRKCI MUTATED"         
clus
  PRKCI MUTATED PRKCI WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" "PRKCI WILD-TYPE" 
     TCGA-G4-6628 
"PRKCI WILD-TYPE" 

Clustering(320) Variable = ANKRD50 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD50 MUTATED        4      0      0      2      0
  ANKRD50 WILD-TYPE     28     18     46     25     23
D320V1, multiclass
        clus
vv       ANKRD50 MUTATED ANKRD50 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD50 MUTATED        5      1      0
  ANKRD50 WILD-TYPE     38     66     36
D320V2, multiclass
        clus
vv       ANKRD50 MUTATED ANKRD50 WILD-TYPE
  CLUS_1               5                38
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD50 MUTATED        1      1     13
  ANKRD50 WILD-TYPE     41    172    134
D320V3, multiclass
        clus
vv       ANKRD50 MUTATED ANKRD50 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3              13               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD50 MUTATED        2      0      5
  ANKRD50 WILD-TYPE     60     73     70
D320V4, multiclass
        clus
vv       ANKRD50 MUTATED ANKRD50 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD50 MUTATED        4      4      4
  ANKRD50 WILD-TYPE     66    116     96
D320V5, multiclass
        clus
vv       ANKRD50 MUTATED ANKRD50 WILD-TYPE
  CLUS_1               4                66
  CLUS_2               4               116
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD50 MUTATED        0      1      3      1      3      4      0      0
  ANKRD50 WILD-TYPE     41     25     27     28     36     65     20     14
                   vv
clus                CLUS_9
  ANKRD50 MUTATED        0
  ANKRD50 WILD-TYPE     22
D320V6, multiclass
        clus
vv       ANKRD50 MUTATED ANKRD50 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               3                27
  CLUS_4               1                28
  CLUS_5               3                36
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKRD50 MUTATED        1      5      2      7
  ANKRD50 WILD-TYPE     99     67     70    114
D320V7, multiclass
        clus
vv       ANKRD50 MUTATED ANKRD50 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               5                67
  CLUS_3               2                70
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD50 MUTATED        0      1      7      1      6
  ANKRD50 WILD-TYPE     59     74     67    118     32
D320V8, multiclass
        clus
vv       ANKRD50 MUTATED ANKRD50 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               7                67
  CLUS_4               1               118
  CLUS_5               6                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD50 MUTATED        0      6      0      0      7
  ANKRD50 WILD-TYPE     51     70     61     71     88
D320V9, multiclass
        clus
vv       ANKRD50 MUTATED ANKRD50 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               6                70
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               7                88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD50 MUTATED        1      1      0      3      1      1      1      5
  ANKRD50 WILD-TYPE     68     47     39     13     52     19     20     33
                   vv
clus                CLUS_9
  ANKRD50 MUTATED        0
  ANKRD50 WILD-TYPE     50
D320V10, multiclass
        clus
vv       ANKRD50 MUTATED ANKRD50 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               5                33
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANKRD50 MUTATED        0      0      0      0      2      0
  ANKRD50 WILD-TYPE     13     16     14     11      9      9
D320V11, multiclass
[1] "Remove cluster labels:" "ANKRD50 MUTATED"       
clus
  ANKRD50 MUTATED ANKRD50 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD50 MUTATED        0      0      0      1      0      0      1      0
  ANKRD50 WILD-TYPE     11      7      7      8      8      7     10      9
                   vv
clus                CLUS_9
  ANKRD50 MUTATED        0
  ANKRD50 WILD-TYPE      5
D320V12, multiclass
[1] "Remove cluster labels:" "ANKRD50 MUTATED"       
clus
  ANKRD50 MUTATED ANKRD50 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" "ANKRD50 WILD-TYPE" 

Clustering(321) Variable = IL12RB2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL12RB2 MUTATED        3      0      0      2      0
  IL12RB2 WILD-TYPE     29     18     46     25     23
D321V1, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL12RB2 MUTATED        2      2      1
  IL12RB2 WILD-TYPE     41     65     35
D321V2, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               2                65
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL12RB2 MUTATED        2      1     11
  IL12RB2 WILD-TYPE     40    172    136
D321V3, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               1               172
  CLUS_3              11               136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL12RB2 MUTATED        3      1      5
  IL12RB2 WILD-TYPE     59     72     70
D321V4, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL12RB2 MUTATED        1      6      5
  IL12RB2 WILD-TYPE     69    114     95
D321V5, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               6               114
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL12RB2 MUTATED        1      1      2      1      1      4      1      0
  IL12RB2 WILD-TYPE     40     25     28     28     38     65     19     14
                   vv
clus                CLUS_9
  IL12RB2 MUTATED        1
  IL12RB2 WILD-TYPE     21
D321V6, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL12RB2 MUTATED        2      4      5      3
  IL12RB2 WILD-TYPE     98     68     67    118
D321V7, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               4                68
  CLUS_3               5                67
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL12RB2 MUTATED        1      2      6      3      2
  IL12RB2 WILD-TYPE     58     73     68    116     36
D321V8, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               6                68
  CLUS_4               3               116
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL12RB2 MUTATED        1      6      1      3      2
  IL12RB2 WILD-TYPE     50     70     60     68     93
D321V9, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               6                70
  CLUS_3               1                60
  CLUS_4               3                68
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL12RB2 MUTATED        2      4      0      2      3      1      0      1
  IL12RB2 WILD-TYPE     67     44     39     14     50     19     21     37
                   vv
clus                CLUS_9
  IL12RB2 MUTATED        0
  IL12RB2 WILD-TYPE     50
D321V10, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               3                50
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL12RB2 MUTATED        0      0      0      0      3      0
  IL12RB2 WILD-TYPE     13     16     14     11      8      9
D321V11, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL12RB2 MUTATED        0      0      0      1      0      0      2      0
  IL12RB2 WILD-TYPE     11      7      7      8      8      7      9      9
                   vv
clus                CLUS_9
  IL12RB2 MUTATED        0
  IL12RB2 WILD-TYPE      5
D321V12, multiclass
        clus
vv       IL12RB2 MUTATED IL12RB2 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(322) Variable = GPNMB MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPNMB MUTATED        2      0      0      0      0
  GPNMB WILD-TYPE     30     18     46     27     23
D322V1, multiclass
[1] "Remove cluster labels:" "GPNMB MUTATED"         
clus
  GPNMB MUTATED GPNMB WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPNMB MUTATED        2      0      0
  GPNMB WILD-TYPE     41     67     36
D322V2, multiclass
[1] "Remove cluster labels:" "GPNMB MUTATED"         
clus
  GPNMB MUTATED GPNMB WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPNMB MUTATED        0      5      8
  GPNMB WILD-TYPE     42    168    139
D322V3, multiclass
        clus
vv       GPNMB MUTATED GPNMB WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPNMB MUTATED        3      5      3
  GPNMB WILD-TYPE     59     68     72
D322V4, multiclass
        clus
vv       GPNMB MUTATED GPNMB WILD-TYPE
  CLUS_1             3              59
  CLUS_2             5              68
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPNMB MUTATED        0      5      6
  GPNMB WILD-TYPE     70    115     94
D322V5, multiclass
        clus
vv       GPNMB MUTATED GPNMB WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPNMB MUTATED        2      1      0      2      0      3      1      0
  GPNMB WILD-TYPE     39     25     30     27     39     66     19     14
                 vv
clus              CLUS_9
  GPNMB MUTATED        2
  GPNMB WILD-TYPE     20
D322V6, multiclass
        clus
vv       GPNMB MUTATED GPNMB WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPNMB MUTATED        5      2      4      2
  GPNMB WILD-TYPE     95     70     68    119
D322V7, multiclass
        clus
vv       GPNMB MUTATED GPNMB WILD-TYPE
  CLUS_1             5              95
  CLUS_2             2              70
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPNMB MUTATED        3      5      3      1      1
  GPNMB WILD-TYPE     56     70     71    118     37
D322V8, multiclass
        clus
vv       GPNMB MUTATED GPNMB WILD-TYPE
  CLUS_1             3              56
  CLUS_2             5              70
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPNMB MUTATED        2      6      2      1      2
  GPNMB WILD-TYPE     49     70     59     70     93
D322V9, multiclass
        clus
vv       GPNMB MUTATED GPNMB WILD-TYPE
  CLUS_1             2              49
  CLUS_2             6              70
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPNMB MUTATED        1      4      0      2      2      2      1      1
  GPNMB WILD-TYPE     68     44     39     14     51     18     20     37
                 vv
clus              CLUS_9
  GPNMB MUTATED        0
  GPNMB WILD-TYPE     50
D322V10, multiclass
        clus
vv       GPNMB MUTATED GPNMB WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPNMB MUTATED        0      0      0      1      1      0
  GPNMB WILD-TYPE     13     16     14     10     10      9
D322V11, multiclass
[1] "Remove cluster labels:" "GPNMB MUTATED"         
clus
  GPNMB MUTATED GPNMB WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPNMB MUTATED        0      0      0      0      0      0      2      0
  GPNMB WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  GPNMB MUTATED        0
  GPNMB WILD-TYPE      5
D322V12, multiclass
[1] "Remove cluster labels:" "GPNMB MUTATED"         
clus
  GPNMB MUTATED GPNMB WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" "GPNMB WILD-TYPE" 

Clustering(323) Variable = GLI2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLI2 MUTATED        0      0      0      0      0
  GLI2 WILD-TYPE     32     18     46     27     23
D323V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLI2 MUTATED        0      0      0
  GLI2 WILD-TYPE     43     67     36
D323V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLI2 MUTATED        3      6     11
  GLI2 WILD-TYPE     39    167    136
D323V3, multiclass
        clus
vv       GLI2 MUTATED GLI2 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            6            167
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLI2 MUTATED        9      6      3
  GLI2 WILD-TYPE     53     67     72
D323V4, multiclass
        clus
vv       GLI2 MUTATED GLI2 WILD-TYPE
  CLUS_1            9             53
  CLUS_2            6             67
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLI2 MUTATED        5      6      9
  GLI2 WILD-TYPE     65    114     91
D323V5, multiclass
        clus
vv       GLI2 MUTATED GLI2 WILD-TYPE
  CLUS_1            5             65
  CLUS_2            6            114
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GLI2 MUTATED        3      1      2      2      2      9      0      0      1
  GLI2 WILD-TYPE     38     25     28     27     37     60     20     14     21
D323V6, multiclass
        clus
vv       GLI2 MUTATED GLI2 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            9             60
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GLI2 MUTATED        4      6      9      1
  GLI2 WILD-TYPE     96     66     63    120
D323V7, multiclass
        clus
vv       GLI2 MUTATED GLI2 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            6             66
  CLUS_3            9             63
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLI2 MUTATED        6      3     10      0      1
  GLI2 WILD-TYPE     53     72     64    119     37
D323V8, multiclass
        clus
vv       GLI2 MUTATED GLI2 WILD-TYPE
  CLUS_1            6             53
  CLUS_2            3             72
  CLUS_3           10             64
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLI2 MUTATED        4      8      4      1      3
  GLI2 WILD-TYPE     47     68     57     70     92
D323V9, multiclass
        clus
vv       GLI2 MUTATED GLI2 WILD-TYPE
  CLUS_1            4             47
  CLUS_2            8             68
  CLUS_3            4             57
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GLI2 MUTATED        8      4      0      2      2      1      1      2      0
  GLI2 WILD-TYPE     61     44     39     14     51     19     20     36     50
D323V10, multiclass
        clus
vv       GLI2 MUTATED GLI2 WILD-TYPE
  CLUS_1            8             61
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GLI2 MUTATED        1      1      2      1      1      0
  GLI2 WILD-TYPE     12     15     12     10     10      9
D323V11, multiclass
        clus
vv       GLI2 MUTATED GLI2 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GLI2 MUTATED        1      0      1      1      1      0      2      0      0
  GLI2 WILD-TYPE     10      7      6      8      7      7      9      9      5
D323V12, multiclass
        clus
vv       GLI2 MUTATED GLI2 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(324) Variable = OR51E1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51E1 MUTATED        1      1      0      0      0
  OR51E1 WILD-TYPE     31     17     46     27     23
D324V1, multiclass
[1] "Remove cluster labels:" "OR51E1 MUTATED"        
clus
  OR51E1 MUTATED OR51E1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3952 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51E1 MUTATED        1      0      1
  OR51E1 WILD-TYPE     42     67     35
D324V2, multiclass
[1] "Remove cluster labels:" "OR51E1 MUTATED"        
clus
  OR51E1 MUTATED OR51E1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3952 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" "OR51E1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51E1 MUTATED        1      5      7
  OR51E1 WILD-TYPE     41    168    140
D324V3, multiclass
        clus
vv       OR51E1 MUTATED OR51E1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51E1 MUTATED        2      3      6
  OR51E1 WILD-TYPE     60     70     69
D324V4, multiclass
        clus
vv       OR51E1 MUTATED OR51E1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3               70
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51E1 MUTATED        2      4      6
  OR51E1 WILD-TYPE     68    116     94
D324V5, multiclass
        clus
vv       OR51E1 MUTATED OR51E1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51E1 MUTATED        1      0      0      3      2      4      1      0
  OR51E1 WILD-TYPE     40     26     30     26     37     65     19     14
                  vv
clus               CLUS_9
  OR51E1 MUTATED        1
  OR51E1 WILD-TYPE     21
D324V6, multiclass
        clus
vv       OR51E1 MUTATED OR51E1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR51E1 MUTATED        4      5      2      2
  OR51E1 WILD-TYPE     96     67     70    119
D324V7, multiclass
        clus
vv       OR51E1 MUTATED OR51E1 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              5               67
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51E1 MUTATED        3      2      6      1      1
  OR51E1 WILD-TYPE     56     73     68    118     37
D324V8, multiclass
        clus
vv       OR51E1 MUTATED OR51E1 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              2               73
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51E1 MUTATED        1      5      2      3      2
  OR51E1 WILD-TYPE     50     71     59     68     93
D324V9, multiclass
        clus
vv       OR51E1 MUTATED OR51E1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              3               68
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51E1 MUTATED        2      0      0      2      6      0      1      2
  OR51E1 WILD-TYPE     67     48     39     14     47     20     20     36
                  vv
clus               CLUS_9
  OR51E1 MUTATED        0
  OR51E1 WILD-TYPE     50
D324V10, multiclass
        clus
vv       OR51E1 MUTATED OR51E1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              6               47
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR51E1 MUTATED        1      0      1      0      0      1
  OR51E1 WILD-TYPE     12     16     13     11     11      8
D324V11, multiclass
        clus
vv       OR51E1 MUTATED OR51E1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51E1 MUTATED        0      0      0      1      1      0      0      1
  OR51E1 WILD-TYPE     11      7      7      8      7      7     11      8
                  vv
clus               CLUS_9
  OR51E1 MUTATED        0
  OR51E1 WILD-TYPE      5
D324V12, multiclass
        clus
vv       OR51E1 MUTATED OR51E1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(325) Variable = AGFG1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGFG1 MUTATED        0      0      2      2      0
  AGFG1 WILD-TYPE     32     18     44     25     23
D325V1, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             0              32
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGFG1 MUTATED        1      1      2
  AGFG1 WILD-TYPE     42     66     34
D325V2, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGFG1 MUTATED        3      4      8
  AGFG1 WILD-TYPE     39    169    139
D325V3, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             4             169
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGFG1 MUTATED        4      2      5
  AGFG1 WILD-TYPE     58     71     70
D325V4, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGFG1 MUTATED        3      8      3
  AGFG1 WILD-TYPE     67    112     97
D325V5, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             8             112
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGFG1 MUTATED        0      3      1      4      2      3      1      0
  AGFG1 WILD-TYPE     41     23     29     25     37     66     19     14
                 vv
clus              CLUS_9
  AGFG1 MUTATED        0
  AGFG1 WILD-TYPE     22
D325V6, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AGFG1 MUTATED        2      4      4      5
  AGFG1 WILD-TYPE     98     68     68    116
D325V7, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGFG1 MUTATED        1      3      6      4      1
  AGFG1 WILD-TYPE     58     72     68    115     37
D325V8, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             6              68
  CLUS_4             4             115
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGFG1 MUTATED        1      7      1      2      3
  AGFG1 WILD-TYPE     50     69     60     69     92
D325V9, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGFG1 MUTATED        2      3      0      2      0      3      0      0
  AGFG1 WILD-TYPE     67     45     39     14     53     17     21     38
                 vv
clus              CLUS_9
  AGFG1 MUTATED        4
  AGFG1 WILD-TYPE     46
D325V10, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             4              46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AGFG1 MUTATED        0      1      0      0      2      0
  AGFG1 WILD-TYPE     13     15     14     11      9      9
D325V11, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGFG1 MUTATED        1      0      0      1      0      0      1      0
  AGFG1 WILD-TYPE     10      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  AGFG1 MUTATED        0
  AGFG1 WILD-TYPE      5
D325V12, multiclass
        clus
vv       AGFG1 MUTATED AGFG1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(326) Variable = NRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        0      1      5      5      3
  NRAS WILD-TYPE     32     17     41     22     20
D326V1, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             32
  CLUS_2            1             17
  CLUS_3            5             41
  CLUS_4            5             22
  CLUS_5            3             20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        2      9      3
  NRAS WILD-TYPE     41     58     33
D326V2, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            2             41
  CLUS_2            9             58
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        5     19      9
  NRAS WILD-TYPE     37    154    138
D326V3, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            5             37
  CLUS_2           19            154
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        5      8      5
  NRAS WILD-TYPE     57     65     70
D326V4, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            5             57
  CLUS_2            8             65
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        7     14      9
  NRAS WILD-TYPE     63    106     91
D326V5, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            7             63
  CLUS_2           14            106
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NRAS MUTATED        3      3      5      6      3      4      2      2      2
  NRAS WILD-TYPE     38     23     25     23     36     65     18     12     20
D326V6, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            3             38
  CLUS_2            3             23
  CLUS_3            5             25
  CLUS_4            6             23
  CLUS_5            3             36
  CLUS_6            4             65
  CLUS_7            2             18
  CLUS_8            2             12
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED       10      7      5     10
  NRAS WILD-TYPE     90     65     67    111
D326V7, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1           10             90
  CLUS_2            7             65
  CLUS_3            5             67
  CLUS_4           10            111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        4      8      6     12      2
  NRAS WILD-TYPE     55     67     68    107     36
D326V8, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            4             55
  CLUS_2            8             67
  CLUS_3            6             68
  CLUS_4           12            107
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        6      8      4      5      8
  NRAS WILD-TYPE     45     68     57     66     87
D326V9, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            6             45
  CLUS_2            8             68
  CLUS_3            4             57
  CLUS_4            5             66
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NRAS MUTATED        5      4      3      1      7      2      1      2      6
  NRAS WILD-TYPE     64     44     36     15     46     18     20     36     44
D326V10, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            5             64
  CLUS_2            4             44
  CLUS_3            3             36
  CLUS_4            1             15
  CLUS_5            7             46
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            6             44
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NRAS MUTATED        2      1      1      1      0      0
  NRAS WILD-TYPE     11     15     13     10     11      9
D326V11, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            2             11
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NRAS MUTATED        0      1      1      1      0      0      1      1      0
  NRAS WILD-TYPE     11      6      6      8      8      7     10      8      5
D326V12, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(327) Variable = MPO MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPO MUTATED        3      0      0      0      0
  MPO WILD-TYPE     29     18     46     27     23
D327V1, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           3            29
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           0            27
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MPO MUTATED        2      0      1
  MPO WILD-TYPE     41     67     35
D327V2, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           2            41
  CLUS_2           0            67
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MPO MUTATED        0      3      8
  MPO WILD-TYPE     42    170    139
D327V3, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           0            42
  CLUS_2           3           170
  CLUS_3           8           139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MPO MUTATED        6      0      2
  MPO WILD-TYPE     56     73     73
D327V4, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           6            56
  CLUS_2           0            73
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MPO MUTATED        3      0      6
  MPO WILD-TYPE     67    120     94
D327V5, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           3            67
  CLUS_2           0           120
  CLUS_3           6            94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MPO MUTATED        2      0      0      0      0      4      1      0      2
  MPO WILD-TYPE     39     26     30     29     39     65     19     14     20
D327V6, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           2            39
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           0            39
  CLUS_6           4            65
  CLUS_7           1            19
  CLUS_8           0            14
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MPO MUTATED        2      3      4      3
  MPO WILD-TYPE     98     69     68    118
D327V7, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           2            98
  CLUS_2           3            69
  CLUS_3           4            68
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPO MUTATED        5      3      1      1      2
  MPO WILD-TYPE     54     72     73    118     36
D327V8, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           5            54
  CLUS_2           3            72
  CLUS_3           1            73
  CLUS_4           1           118
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPO MUTATED        0      3      4      1      4
  MPO WILD-TYPE     51     73     57     70     91
D327V9, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           0            51
  CLUS_2           3            73
  CLUS_3           4            57
  CLUS_4           1            70
  CLUS_5           4            91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MPO MUTATED        0      3      0      1      5      0      1      1      1
  MPO WILD-TYPE     69     45     39     15     48     20     20     37     49
D327V10, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           0            69
  CLUS_2           3            45
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           5            48
  CLUS_6           0            20
  CLUS_7           1            20
  CLUS_8           1            37
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MPO MUTATED        0      3      0      0      0      0
  MPO WILD-TYPE     13     13     14     11     11      9
D327V11, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           0            13
  CLUS_2           3            13
  CLUS_3           0            14
  CLUS_4           0            11
  CLUS_5           0            11
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MPO MUTATED        0      3      0      0      0      0      0      0      0
  MPO WILD-TYPE     11      4      7      9      8      7     11      9      5
D327V12, multiclass
        clus
vv       MPO MUTATED MPO WILD-TYPE
  CLUS_1           0            11
  CLUS_2           3             4
  CLUS_3           0             7
  CLUS_4           0             9
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           0            11
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(328) Variable = TRRAP MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRRAP MUTATED        8      0      1      2      1
  TRRAP WILD-TYPE     24     18     45     25     22
D328V1, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1             8              24
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRRAP MUTATED        7      2      3
  TRRAP WILD-TYPE     36     65     33
D328V2, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1             7              36
  CLUS_2             2              65
  CLUS_3             3              33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRRAP MUTATED        3     16     29
  TRRAP WILD-TYPE     39    157    118
D328V3, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1             3              39
  CLUS_2            16             157
  CLUS_3            29             118
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRRAP MUTATED        8      8     18
  TRRAP WILD-TYPE     54     65     57
D328V4, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1             8              54
  CLUS_2             8              65
  CLUS_3            18              57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRRAP MUTATED        6     16     19
  TRRAP WILD-TYPE     64    104     81
D328V5, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1             6              64
  CLUS_2            16             104
  CLUS_3            19              81
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRRAP MUTATED        2      2      5      5      5     16      3      2
  TRRAP WILD-TYPE     39     24     25     24     34     53     17     12
                 vv
clus              CLUS_9
  TRRAP MUTATED        1
  TRRAP WILD-TYPE     21
D328V6, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             5              25
  CLUS_4             5              24
  CLUS_5             5              34
  CLUS_6            16              53
  CLUS_7             3              17
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRRAP MUTATED        7     14     11     17
  TRRAP WILD-TYPE     93     58     61    104
D328V7, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1             7              93
  CLUS_2            14              58
  CLUS_3            11              61
  CLUS_4            17             104
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRRAP MUTATED        5      9     18     10      7
  TRRAP WILD-TYPE     54     66     56    109     31
D328V8, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1             5              54
  CLUS_2             9              66
  CLUS_3            18              56
  CLUS_4            10             109
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRRAP MUTATED        9     13      6      5     15
  TRRAP WILD-TYPE     42     63     55     66     80
D328V9, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1             9              42
  CLUS_2            13              63
  CLUS_3             6              55
  CLUS_4             5              66
  CLUS_5            15              80
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRRAP MUTATED       10      7      3      5      7      3      2      7
  TRRAP WILD-TYPE     59     41     36     11     46     17     19     31
                 vv
clus              CLUS_9
  TRRAP MUTATED        4
  TRRAP WILD-TYPE     46
D328V10, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1            10              59
  CLUS_2             7              41
  CLUS_3             3              36
  CLUS_4             5              11
  CLUS_5             7              46
  CLUS_6             3              17
  CLUS_7             2              19
  CLUS_8             7              31
  CLUS_9             4              46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRRAP MUTATED        2      1      2      0      4      2
  TRRAP WILD-TYPE     11     15     12     11      7      7
D328V11, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1             2              11
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRRAP MUTATED        2      1      0      2      1      1      3      0
  TRRAP WILD-TYPE      9      6      7      7      7      6      8      9
                 vv
clus              CLUS_9
  TRRAP MUTATED        1
  TRRAP WILD-TYPE      4
D328V12, multiclass
        clus
vv       TRRAP MUTATED TRRAP WILD-TYPE
  CLUS_1             2               9
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(329) Variable = OR11G2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR11G2 MUTATED        0      0      0      1      0
  OR11G2 WILD-TYPE     32     18     46     26     23
D329V1, multiclass
[1] "Remove cluster labels:" "OR11G2 MUTATED"        
clus
  OR11G2 MUTATED OR11G2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AY-4071 
"OR11G2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR11G2 MUTATED        1      0      0
  OR11G2 WILD-TYPE     42     67     36
D329V2, multiclass
[1] "Remove cluster labels:" "OR11G2 MUTATED"        
clus
  OR11G2 MUTATED OR11G2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AY-4071 
"OR11G2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR11G2 MUTATED        1      3      1
  OR11G2 WILD-TYPE     41    170    146
D329V3, multiclass
        clus
vv       OR11G2 MUTATED OR11G2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              1              146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR11G2 MUTATED        1      3      0
  OR11G2 WILD-TYPE     61     70     75
D329V4, multiclass
        clus
vv       OR11G2 MUTATED OR11G2 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              3               70
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR11G2 MUTATED        0      2      3
  OR11G2 WILD-TYPE     70    118     97
D329V5, multiclass
        clus
vv       OR11G2 MUTATED OR11G2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR11G2 MUTATED        0      0      0      1      1      2      0      0
  OR11G2 WILD-TYPE     41     26     30     28     38     67     20     14
                  vv
clus               CLUS_9
  OR11G2 MUTATED        1
  OR11G2 WILD-TYPE     21
D329V6, multiclass
        clus
vv       OR11G2 MUTATED OR11G2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR11G2 MUTATED        2      0      2      1
  OR11G2 WILD-TYPE     98     72     70    120
D329V7, multiclass
        clus
vv       OR11G2 MUTATED OR11G2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              0               72
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR11G2 MUTATED        2      2      0      0      1
  OR11G2 WILD-TYPE     57     73     74    119     37
D329V8, multiclass
        clus
vv       OR11G2 MUTATED OR11G2 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              0               74
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR11G2 MUTATED        1      1      1      1      0
  OR11G2 WILD-TYPE     50     75     60     70     95
D329V9, multiclass
        clus
vv       OR11G2 MUTATED OR11G2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR11G2 MUTATED        2      0      0      0      2      0      0      0
  OR11G2 WILD-TYPE     67     48     39     16     51     20     21     38
                  vv
clus               CLUS_9
  OR11G2 MUTATED        0
  OR11G2 WILD-TYPE     50
D329V10, multiclass
        clus
vv       OR11G2 MUTATED OR11G2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR11G2 MUTATED        0      1      0      0      0      0
  OR11G2 WILD-TYPE     13     15     14     11     11      9
D329V11, multiclass
[1] "Remove cluster labels:" "OR11G2 MUTATED"        
clus
  OR11G2 MUTATED OR11G2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3511 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-G4-6628 
"OR11G2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR11G2 MUTATED        1      0      0      0      0      0      0      0
  OR11G2 WILD-TYPE     10      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  OR11G2 MUTATED        0
  OR11G2 WILD-TYPE      5
D329V12, multiclass
[1] "Remove cluster labels:" "OR11G2 MUTATED"        
clus
  OR11G2 MUTATED OR11G2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3511 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" "OR11G2 WILD-TYPE" 
      TCGA-G4-6628 
"OR11G2 WILD-TYPE" 

Clustering(330) Variable = TRIM23 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM23 MUTATED        3      0      0      0      0
  TRIM23 WILD-TYPE     29     18     46     27     23
D330V1, multiclass
        clus
vv       TRIM23 MUTATED TRIM23 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM23 MUTATED        2      0      1
  TRIM23 WILD-TYPE     41     67     35
D330V2, multiclass
        clus
vv       TRIM23 MUTATED TRIM23 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM23 MUTATED        1      4      6
  TRIM23 WILD-TYPE     41    169    141
D330V3, multiclass
        clus
vv       TRIM23 MUTATED TRIM23 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM23 MUTATED        0      4      4
  TRIM23 WILD-TYPE     62     69     71
D330V4, multiclass
        clus
vv       TRIM23 MUTATED TRIM23 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              4               69
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM23 MUTATED        0      5      3
  TRIM23 WILD-TYPE     70    115     97
D330V5, multiclass
        clus
vv       TRIM23 MUTATED TRIM23 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              115
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM23 MUTATED        1      0      0      3      0      2      1      0
  TRIM23 WILD-TYPE     40     26     30     26     39     67     19     14
                  vv
clus               CLUS_9
  TRIM23 MUTATED        1
  TRIM23 WILD-TYPE     21
D330V6, multiclass
        clus
vv       TRIM23 MUTATED TRIM23 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              3               26
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM23 MUTATED        2      4      2      3
  TRIM23 WILD-TYPE     98     68     70    118
D330V7, multiclass
        clus
vv       TRIM23 MUTATED TRIM23 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM23 MUTATED        0      4      4      1      2
  TRIM23 WILD-TYPE     59     71     70    118     36
D330V8, multiclass
        clus
vv       TRIM23 MUTATED TRIM23 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              4               71
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM23 MUTATED        3      3      0      3      2
  TRIM23 WILD-TYPE     48     73     61     68     93
D330V9, multiclass
        clus
vv       TRIM23 MUTATED TRIM23 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              3               73
  CLUS_3              0               61
  CLUS_4              3               68
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM23 MUTATED        2      0      1      2      3      1      1      1
  TRIM23 WILD-TYPE     67     48     38     14     50     19     20     37
                  vv
clus               CLUS_9
  TRIM23 MUTATED        0
  TRIM23 WILD-TYPE     50
D330V10, multiclass
        clus
vv       TRIM23 MUTATED TRIM23 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM23 MUTATED        0      0      1      0      1      0
  TRIM23 WILD-TYPE     13     16     13     11     10      9
D330V11, multiclass
[1] "Remove cluster labels:" "TRIM23 MUTATED"        
clus
  TRIM23 MUTATED TRIM23 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6303 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM23 MUTATED        0      0      0      1      1      0      0      0
  TRIM23 WILD-TYPE     11      7      7      8      7      7     11      9
                  vv
clus               CLUS_9
  TRIM23 MUTATED        0
  TRIM23 WILD-TYPE      5
D330V12, multiclass
[1] "Remove cluster labels:" "TRIM23 MUTATED"        
clus
  TRIM23 MUTATED TRIM23 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6303 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" "TRIM23 WILD-TYPE" 

Clustering(331) Variable = BRAF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRAF MUTATED       17      1      0      1      1
  BRAF WILD-TYPE     15     17     46     26     22
D331V1, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           17             15
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED       18      2      0
  BRAF WILD-TYPE     25     65     36
D331V2, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           18             25
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        7     23     65
  BRAF WILD-TYPE     35    150     82
D331V3, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            7             35
  CLUS_2           23            150
  CLUS_3           65             82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED       24     12     39
  BRAF WILD-TYPE     38     61     36
D331V4, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           24             38
  CLUS_2           12             61
  CLUS_3           39             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED       16     27     36
  BRAF WILD-TYPE     54     93     64
D331V5, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           16             54
  CLUS_2           27             93
  CLUS_3           36             64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRAF MUTATED       12      7      3     14      8     22      8      3      2
  BRAF WILD-TYPE     29     19     27     15     31     47     12     11     20
D331V6, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           12             29
  CLUS_2            7             19
  CLUS_3            3             27
  CLUS_4           14             15
  CLUS_5            8             31
  CLUS_6           22             47
  CLUS_7            8             12
  CLUS_8            3             11
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED       15     33     28     20
  BRAF WILD-TYPE     85     39     44    101
D331V7, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           15             85
  CLUS_2           33             39
  CLUS_3           28             44
  CLUS_4           20            101
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRAF MUTATED       17     15     43      3     18
  BRAF WILD-TYPE     42     60     31    116     20
D331V8, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           17             42
  CLUS_2           15             60
  CLUS_3           43             31
  CLUS_4            3            116
  CLUS_5           18             20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRAF MUTATED        8     38     18     10     22
  BRAF WILD-TYPE     43     38     43     61     73
D331V9, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            8             43
  CLUS_2           38             38
  CLUS_3           18             43
  CLUS_4           10             61
  CLUS_5           22             73
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRAF MUTATED       23     21      4     13      8      4      5     18      0
  BRAF WILD-TYPE     46     27     35      3     45     16     16     20     50
D331V10, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           23             46
  CLUS_2           21             27
  CLUS_3            4             35
  CLUS_4           13              3
  CLUS_5            8             45
  CLUS_6            4             16
  CLUS_7            5             16
  CLUS_8           18             20
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRAF MUTATED        2      4      7      4      5      4
  BRAF WILD-TYPE     11     12      7      7      6      5
D331V11, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            2             11
  CLUS_2            4             12
  CLUS_3            7              7
  CLUS_4            4              7
  CLUS_5            5              6
  CLUS_6            4              5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRAF MUTATED        2      1      2      4      5      3      6      2      1
  BRAF WILD-TYPE      9      6      5      5      3      4      5      7      4
D331V12, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            2              9
  CLUS_2            1              6
  CLUS_3            2              5
  CLUS_4            4              5
  CLUS_5            5              3
  CLUS_6            3              4
  CLUS_7            6              5
  CLUS_8            2              7
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(332) Variable = GTF2B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF2B MUTATED        1      0      0      0      0
  GTF2B WILD-TYPE     31     18     46     27     23
D332V1, multiclass
[1] "Remove cluster labels:" "GTF2B MUTATED"         
clus
  GTF2B MUTATED GTF2B WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3930      TCGA-AA-3939 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AY-4071 
"GTF2B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GTF2B MUTATED        1      0      0
  GTF2B WILD-TYPE     42     67     36
D332V2, multiclass
[1] "Remove cluster labels:" "GTF2B MUTATED"         
clus
  GTF2B MUTATED GTF2B WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3930      TCGA-AA-3939 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" "GTF2B WILD-TYPE" 
     TCGA-AY-4071 
"GTF2B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GTF2B MUTATED        0      3      8
  GTF2B WILD-TYPE     42    170    139
D332V3, multiclass
        clus
vv       GTF2B MUTATED GTF2B WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GTF2B MUTATED        3      2      5
  GTF2B WILD-TYPE     59     71     70
D332V4, multiclass
        clus
vv       GTF2B MUTATED GTF2B WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GTF2B MUTATED        2      3      3
  GTF2B WILD-TYPE     68    117     97
D332V5, multiclass
        clus
vv       GTF2B MUTATED GTF2B WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTF2B MUTATED        0      1      0      1      2      3      0      1
  GTF2B WILD-TYPE     41     25     30     28     37     66     20     13
                 vv
clus              CLUS_9
  GTF2B MUTATED        0
  GTF2B WILD-TYPE     22
D332V6, multiclass
        clus
vv       GTF2B MUTATED GTF2B WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GTF2B MUTATED        2      6      0      3
  GTF2B WILD-TYPE     98     66     72    118
D332V7, multiclass
        clus
vv       GTF2B MUTATED GTF2B WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             0              72
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF2B MUTATED        1      2      5      2      1
  GTF2B WILD-TYPE     58     73     69    117     37
D332V8, multiclass
        clus
vv       GTF2B MUTATED GTF2B WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF2B MUTATED        1      6      0      0      4
  GTF2B WILD-TYPE     50     70     61     71     91
D332V9, multiclass
        clus
vv       GTF2B MUTATED GTF2B WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTF2B MUTATED        2      1      0      2      1      1      1      0
  GTF2B WILD-TYPE     67     47     39     14     52     19     20     38
                 vv
clus              CLUS_9
  GTF2B MUTATED        3
  GTF2B WILD-TYPE     47
D332V10, multiclass
        clus
vv       GTF2B MUTATED GTF2B WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GTF2B MUTATED        0      0      0      0      0      0
  GTF2B WILD-TYPE     13     16     14     11     11      9
D332V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTF2B MUTATED        0      0      0      0      0      0      0      0
  GTF2B WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  GTF2B MUTATED        0
  GTF2B WILD-TYPE      5
D332V12, multiclass

Clustering(333) Variable = DDB1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDB1 MUTATED        3      0      0      0      0
  DDB1 WILD-TYPE     29     18     46     27     23
D333V1, multiclass
        clus
vv       DDB1 MUTATED DDB1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DDB1 MUTATED        3      0      0
  DDB1 WILD-TYPE     40     67     36
D333V2, multiclass
        clus
vv       DDB1 MUTATED DDB1 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DDB1 MUTATED        0      3     10
  DDB1 WILD-TYPE     42    170    137
D333V3, multiclass
        clus
vv       DDB1 MUTATED DDB1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DDB1 MUTATED        2      3      5
  DDB1 WILD-TYPE     60     70     70
D333V4, multiclass
        clus
vv       DDB1 MUTATED DDB1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            3             70
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DDB1 MUTATED        0      4      5
  DDB1 WILD-TYPE     70    116     95
D333V5, multiclass
        clus
vv       DDB1 MUTATED DDB1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DDB1 MUTATED        0      0      0      0      0      5      2      1      1
  DDB1 WILD-TYPE     41     26     30     29     39     64     18     13     21
D333V6, multiclass
        clus
vv       DDB1 MUTATED DDB1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDB1 MUTATED        3      4      3      3
  DDB1 WILD-TYPE     97     68     69    118
D333V7, multiclass
        clus
vv       DDB1 MUTATED DDB1 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            4             68
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDB1 MUTATED        2      3      5      0      3
  DDB1 WILD-TYPE     57     72     69    119     35
D333V8, multiclass
        clus
vv       DDB1 MUTATED DDB1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            5             69
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDB1 MUTATED        3      5      2      0      2
  DDB1 WILD-TYPE     48     71     59     71     93
D333V9, multiclass
        clus
vv       DDB1 MUTATED DDB1 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            5             71
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DDB1 MUTATED        1      1      1      2      5      0      1      1      0
  DDB1 WILD-TYPE     68     47     38     14     48     20     20     37     50
D333V10, multiclass
        clus
vv       DDB1 MUTATED DDB1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            5             48
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDB1 MUTATED        0      0      1      1      0      0
  DDB1 WILD-TYPE     13     16     13     10     11      9
D333V11, multiclass
[1] "Remove cluster labels:" "DDB1 MUTATED"          
clus
  DDB1 MUTATED DDB1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6569 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DDB1 MUTATED        0      0      0      0      1      0      1      0      0
  DDB1 WILD-TYPE     11      7      7      9      7      7     10      9      5
D333V12, multiclass
[1] "Remove cluster labels:" "DDB1 MUTATED"          
clus
  DDB1 MUTATED DDB1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6569 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" "DDB1 WILD-TYPE" 

Clustering(334) Variable = EZH2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EZH2 MUTATED        3      0      0      2      0
  EZH2 WILD-TYPE     29     18     46     25     23
D334V1, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EZH2 MUTATED        4      1      0
  EZH2 WILD-TYPE     39     66     36
D334V2, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EZH2 MUTATED        2     14     28
  EZH2 WILD-TYPE     40    159    119
D334V3, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1            2             40
  CLUS_2           14            159
  CLUS_3           28            119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EZH2 MUTATED       13     13     14
  EZH2 WILD-TYPE     49     60     61
D334V4, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1           13             49
  CLUS_2           13             60
  CLUS_3           14             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EZH2 MUTATED        4     17     20
  EZH2 WILD-TYPE     66    103     80
D334V5, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1            4             66
  CLUS_2           17            103
  CLUS_3           20             80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EZH2 MUTATED        2      3      3      3      3     19      4      1      3
  EZH2 WILD-TYPE     39     23     27     26     36     50     16     13     19
D334V6, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            3             23
  CLUS_3            3             27
  CLUS_4            3             26
  CLUS_5            3             36
  CLUS_6           19             50
  CLUS_7            4             16
  CLUS_8            1             13
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EZH2 MUTATED       14     15      9      6
  EZH2 WILD-TYPE     86     57     63    115
D334V7, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1           14             86
  CLUS_2           15             57
  CLUS_3            9             63
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EZH2 MUTATED        5     14     19      3      3
  EZH2 WILD-TYPE     54     61     55    116     35
D334V8, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1            5             54
  CLUS_2           14             61
  CLUS_3           19             55
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EZH2 MUTATED        8     22      4      4      5
  EZH2 WILD-TYPE     43     54     57     67     90
D334V9, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1            8             43
  CLUS_2           22             54
  CLUS_3            4             57
  CLUS_4            4             67
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EZH2 MUTATED       16      5      2      6      6      4      1      2      1
  EZH2 WILD-TYPE     53     43     37     10     47     16     20     36     49
D334V10, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1           16             53
  CLUS_2            5             43
  CLUS_3            2             37
  CLUS_4            6             10
  CLUS_5            6             47
  CLUS_6            4             16
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EZH2 MUTATED        3      1      3      2      3      0
  EZH2 WILD-TYPE     10     15     11      9      8      9
D334V11, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1            3             10
  CLUS_2            1             15
  CLUS_3            3             11
  CLUS_4            2              9
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EZH2 MUTATED        1      0      1      3      2      1      3      0      1
  EZH2 WILD-TYPE     10      7      6      6      6      6      8      9      4
D334V12, multiclass
        clus
vv       EZH2 MUTATED EZH2 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            3              6
  CLUS_5            2              6
  CLUS_6            1              6
  CLUS_7            3              8
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(335) Variable = PRDM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRDM1 MUTATED        1      0      1      1      0
  PRDM1 WILD-TYPE     31     18     45     26     23
D335V1, multiclass
        clus
vv       PRDM1 MUTATED PRDM1 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRDM1 MUTATED        2      0      1
  PRDM1 WILD-TYPE     41     67     35
D335V2, multiclass
        clus
vv       PRDM1 MUTATED PRDM1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRDM1 MUTATED        1      6     13
  PRDM1 WILD-TYPE     41    167    134
D335V3, multiclass
        clus
vv       PRDM1 MUTATED PRDM1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             6             167
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRDM1 MUTATED        2      4     11
  PRDM1 WILD-TYPE     60     69     64
D335V4, multiclass
        clus
vv       PRDM1 MUTATED PRDM1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             4              69
  CLUS_3            11              64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRDM1 MUTATED        3      8      6
  PRDM1 WILD-TYPE     67    112     94
D335V5, multiclass
        clus
vv       PRDM1 MUTATED PRDM1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             8             112
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRDM1 MUTATED        2      1      0      2      1      5      4      0
  PRDM1 WILD-TYPE     39     25     30     27     38     64     16     14
                 vv
clus              CLUS_9
  PRDM1 MUTATED        2
  PRDM1 WILD-TYPE     20
D335V6, multiclass
        clus
vv       PRDM1 MUTATED PRDM1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             4              16
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRDM1 MUTATED        4     10      3      3
  PRDM1 WILD-TYPE     96     62     69    118
D335V7, multiclass
        clus
vv       PRDM1 MUTATED PRDM1 WILD-TYPE
  CLUS_1             4              96
  CLUS_2            10              62
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRDM1 MUTATED        2      4     10      2      2
  PRDM1 WILD-TYPE     57     71     64    117     36
D335V8, multiclass
        clus
vv       PRDM1 MUTATED PRDM1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3            10              64
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRDM1 MUTATED        5     10      0      2      2
  PRDM1 WILD-TYPE     46     66     61     69     93
D335V9, multiclass
        clus
vv       PRDM1 MUTATED PRDM1 WILD-TYPE
  CLUS_1             5              46
  CLUS_2            10              66
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRDM1 MUTATED        2      1      0      5      7      1      0      2
  PRDM1 WILD-TYPE     67     47     39     11     46     19     21     36
                 vv
clus              CLUS_9
  PRDM1 MUTATED        1
  PRDM1 WILD-TYPE     49
D335V10, multiclass
        clus
vv       PRDM1 MUTATED PRDM1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             5              11
  CLUS_5             7              46
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRDM1 MUTATED        0      0      0      0      1      0
  PRDM1 WILD-TYPE     13     16     14     11     10      9
D335V11, multiclass
[1] "Remove cluster labels:" "PRDM1 MUTATED"         
clus
  PRDM1 MUTATED PRDM1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-G4-6628 
"PRDM1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRDM1 MUTATED        0      0      0      0      1      0      0      0
  PRDM1 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  PRDM1 MUTATED        0
  PRDM1 WILD-TYPE      5
D335V12, multiclass
[1] "Remove cluster labels:" "PRDM1 MUTATED"         
clus
  PRDM1 MUTATED PRDM1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" "PRDM1 WILD-TYPE" 
     TCGA-G4-6628 
"PRDM1 WILD-TYPE" 

Clustering(336) Variable = USP26 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP26 MUTATED        5      0      0      2      0
  USP26 WILD-TYPE     27     18     46     25     23
D336V1, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP26 MUTATED        5      1      1
  USP26 WILD-TYPE     38     66     35
D336V2, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP26 MUTATED        0      1     22
  USP26 WILD-TYPE     42    172    125
D336V3, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            22             125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP26 MUTATED        7      1      8
  USP26 WILD-TYPE     55     72     67
D336V4, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             1              72
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP26 MUTATED        1      9     11
  USP26 WILD-TYPE     69    111     89
D336V5, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             9             111
  CLUS_3            11              89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP26 MUTATED        1      2      2      2      3      8      3      0
  USP26 WILD-TYPE     40     24     28     27     36     61     17     14
                 vv
clus              CLUS_9
  USP26 MUTATED        0
  USP26 WILD-TYPE     22
D336V6, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6             8              61
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP26 MUTATED        0      9      6      8
  USP26 WILD-TYPE    100     63     66    113
D336V7, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             9              63
  CLUS_3             6              66
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP26 MUTATED        2      1     12      3      5
  USP26 WILD-TYPE     57     74     62    116     33
D336V8, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3            12              62
  CLUS_4             3             116
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP26 MUTATED        1      9      3      2      7
  USP26 WILD-TYPE     50     67     58     69     88
D336V9, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             9              67
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP26 MUTATED        4      4      0      4      3      1      0      4
  USP26 WILD-TYPE     65     44     39     12     50     19     21     34
                 vv
clus              CLUS_9
  USP26 MUTATED        2
  USP26 WILD-TYPE     48
D336V10, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USP26 MUTATED        0      0      0      0      3      0
  USP26 WILD-TYPE     13     16     14     11      8      9
D336V11, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP26 MUTATED        0      0      0      1      1      1      0      0
  USP26 WILD-TYPE     11      7      7      8      7      6     11      9
                 vv
clus              CLUS_9
  USP26 MUTATED        0
  USP26 WILD-TYPE      5
D336V12, multiclass
        clus
vv       USP26 MUTATED USP26 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(337) Variable = TXNDC15 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC15 MUTATED        1      0      0      1      0
  TXNDC15 WILD-TYPE     31     18     46     26     23
D337V1, multiclass
[1] "Remove cluster labels:" "TXNDC15 MUTATED"       
clus
  TXNDC15 MUTATED TXNDC15 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TXNDC15 MUTATED        2      0      0
  TXNDC15 WILD-TYPE     41     67     36
D337V2, multiclass
[1] "Remove cluster labels:" "TXNDC15 MUTATED"       
clus
  TXNDC15 MUTATED TXNDC15 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TXNDC15 MUTATED        0      3      3
  TXNDC15 WILD-TYPE     42    170    144
D337V3, multiclass
        clus
vv       TXNDC15 MUTATED TXNDC15 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TXNDC15 MUTATED        1      1      2
  TXNDC15 WILD-TYPE     61     72     73
D337V4, multiclass
        clus
vv       TXNDC15 MUTATED TXNDC15 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TXNDC15 MUTATED        0      1      4
  TXNDC15 WILD-TYPE     70    119     96
D337V5, multiclass
        clus
vv       TXNDC15 MUTATED TXNDC15 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               1               119
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC15 MUTATED        0      1      0      0      0      4      0      0
  TXNDC15 WILD-TYPE     41     25     30     29     39     65     20     14
                   vv
clus                CLUS_9
  TXNDC15 MUTATED        0
  TXNDC15 WILD-TYPE     22
D337V6, multiclass
        clus
vv       TXNDC15 MUTATED TXNDC15 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TXNDC15 MUTATED        3      1      0      2
  TXNDC15 WILD-TYPE     97     71     72    119
D337V7, multiclass
        clus
vv       TXNDC15 MUTATED TXNDC15 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               1                71
  CLUS_3               0                72
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC15 MUTATED        1      2      0      1      2
  TXNDC15 WILD-TYPE     58     73     74    118     36
D337V8, multiclass
        clus
vv       TXNDC15 MUTATED TXNDC15 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               0                74
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC15 MUTATED        0      1      2      0      2
  TXNDC15 WILD-TYPE     51     75     59     71     93
D337V9, multiclass
        clus
vv       TXNDC15 MUTATED TXNDC15 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               1                75
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC15 MUTATED        1      0      0      0      2      0      0      2
  TXNDC15 WILD-TYPE     68     48     39     16     51     20     21     36
                   vv
clus                CLUS_9
  TXNDC15 MUTATED        0
  TXNDC15 WILD-TYPE     50
D337V10, multiclass
        clus
vv       TXNDC15 MUTATED TXNDC15 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TXNDC15 MUTATED        0      0      0      0      0      1
  TXNDC15 WILD-TYPE     13     16     14     11     11      8
D337V11, multiclass
[1] "Remove cluster labels:" "TXNDC15 MUTATED"       
clus
  TXNDC15 MUTATED TXNDC15 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-G4-6628 
"TXNDC15 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC15 MUTATED        0      0      0      0      0      1      0      0
  TXNDC15 WILD-TYPE     11      7      7      9      8      6     11      9
                   vv
clus                CLUS_9
  TXNDC15 MUTATED        0
  TXNDC15 WILD-TYPE      5
D337V12, multiclass
[1] "Remove cluster labels:" "TXNDC15 MUTATED"       
clus
  TXNDC15 MUTATED TXNDC15 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" "TXNDC15 WILD-TYPE" 
       TCGA-G4-6628 
"TXNDC15 WILD-TYPE" 

Clustering(338) Variable = OR1I1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR1I1 MUTATED        0      0      0      1      0
  OR1I1 WILD-TYPE     32     18     46     26     23
D338V1, multiclass
[1] "Remove cluster labels:" "OR1I1 MUTATED"         
clus
  OR1I1 MUTATED OR1I1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AY-4071 
"OR1I1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR1I1 MUTATED        1      0      0
  OR1I1 WILD-TYPE     42     67     36
D338V2, multiclass
[1] "Remove cluster labels:" "OR1I1 MUTATED"         
clus
  OR1I1 MUTATED OR1I1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" "OR1I1 WILD-TYPE" 
     TCGA-AY-4071 
"OR1I1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR1I1 MUTATED        0      3      7
  OR1I1 WILD-TYPE     42    170    140
D338V3, multiclass
        clus
vv       OR1I1 MUTATED OR1I1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR1I1 MUTATED        5      1      3
  OR1I1 WILD-TYPE     57     72     72
D338V4, multiclass
        clus
vv       OR1I1 MUTATED OR1I1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR1I1 MUTATED        2      3      4
  OR1I1 WILD-TYPE     68    117     96
D338V5, multiclass
        clus
vv       OR1I1 MUTATED OR1I1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR1I1 MUTATED        3      0      0      1      1      3      1      0
  OR1I1 WILD-TYPE     38     26     30     28     38     66     19     14
                 vv
clus              CLUS_9
  OR1I1 MUTATED        0
  OR1I1 WILD-TYPE     22
D338V6, multiclass
        clus
vv       OR1I1 MUTATED OR1I1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR1I1 MUTATED        2      2      5      1
  OR1I1 WILD-TYPE     98     70     67    120
D338V7, multiclass
        clus
vv       OR1I1 MUTATED OR1I1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             5              67
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR1I1 MUTATED        3      2      4      0      1
  OR1I1 WILD-TYPE     56     73     70    119     37
D338V8, multiclass
        clus
vv       OR1I1 MUTATED OR1I1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR1I1 MUTATED        3      2      3      1      1
  OR1I1 WILD-TYPE     48     74     58     70     94
D338V9, multiclass
        clus
vv       OR1I1 MUTATED OR1I1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             2              74
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR1I1 MUTATED        2      6      0      0      0      1      0      1
  OR1I1 WILD-TYPE     67     42     39     16     53     19     21     37
                 vv
clus              CLUS_9
  OR1I1 MUTATED        0
  OR1I1 WILD-TYPE     50
D338V10, multiclass
        clus
vv       OR1I1 MUTATED OR1I1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             6              42
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR1I1 MUTATED        0      1      1      0      1      0
  OR1I1 WILD-TYPE     13     15     13     11     10      9
D338V11, multiclass
        clus
vv       OR1I1 MUTATED OR1I1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR1I1 MUTATED        1      0      0      0      1      0      1      0
  OR1I1 WILD-TYPE     10      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  OR1I1 MUTATED        0
  OR1I1 WILD-TYPE      5
D338V12, multiclass
        clus
vv       OR1I1 MUTATED OR1I1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(339) Variable = CUL2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUL2 MUTATED        3      0      0      1      0
  CUL2 WILD-TYPE     29     18     46     26     23
D339V1, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL2 MUTATED        3      1      0
  CUL2 WILD-TYPE     40     66     36
D339V2, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL2 MUTATED        1      2     11
  CUL2 WILD-TYPE     41    171    136
D339V3, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL2 MUTATED        5      1      4
  CUL2 WILD-TYPE     57     72     71
D339V4, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL2 MUTATED        0      7      6
  CUL2 WILD-TYPE     70    113     94
D339V5, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            7            113
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUL2 MUTATED        1      1      1      4      0      5      0      0      1
  CUL2 WILD-TYPE     40     25     29     25     39     64     20     14     21
D339V6, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            4             25
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CUL2 MUTATED        2      5      3      4
  CUL2 WILD-TYPE     98     67     69    117
D339V7, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            3             69
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUL2 MUTATED        1      3      6      1      3
  CUL2 WILD-TYPE     58     72     68    118     35
D339V8, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            6             68
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUL2 MUTATED        2      5      2      0      4
  CUL2 WILD-TYPE     49     71     59     71     91
D339V9, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            5             71
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUL2 MUTATED        2      2      1      4      0      1      0      2      1
  CUL2 WILD-TYPE     67     46     38     12     53     19     21     36     49
D339V10, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            4             12
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CUL2 MUTATED        0      0      1      0      2      0
  CUL2 WILD-TYPE     13     16     13     11      9      9
D339V11, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUL2 MUTATED        0      0      0      2      0      0      1      0      0
  CUL2 WILD-TYPE     11      7      7      7      8      7     10      9      5
D339V12, multiclass
        clus
vv       CUL2 MUTATED CUL2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(340) Variable = TMEM169 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM169 MUTATED        0      0      0      0      0
  TMEM169 WILD-TYPE     32     18     46     27     23
D340V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM169 MUTATED        0      0      0
  TMEM169 WILD-TYPE     43     67     36
D340V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM169 MUTATED        2      4      7
  TMEM169 WILD-TYPE     40    169    140
D340V3, multiclass
        clus
vv       TMEM169 MUTATED TMEM169 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               4               169
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM169 MUTATED        4      3      6
  TMEM169 WILD-TYPE     58     70     69
D340V4, multiclass
        clus
vv       TMEM169 MUTATED TMEM169 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               3                70
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM169 MUTATED        2      4      6
  TMEM169 WILD-TYPE     68    116     94
D340V5, multiclass
        clus
vv       TMEM169 MUTATED TMEM169 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               4               116
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM169 MUTATED        1      2      0      1      2      5      1      0
  TMEM169 WILD-TYPE     40     24     30     28     37     64     19     14
                   vv
clus                CLUS_9
  TMEM169 MUTATED        0
  TMEM169 WILD-TYPE     22
D340V6, multiclass
        clus
vv       TMEM169 MUTATED TMEM169 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               2                24
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               5                64
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM169 MUTATED        3      4      5      1
  TMEM169 WILD-TYPE     97     68     67    120
D340V7, multiclass
        clus
vv       TMEM169 MUTATED TMEM169 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               4                68
  CLUS_3               5                67
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM169 MUTATED        2      4      6      1      0
  TMEM169 WILD-TYPE     57     71     68    118     38
D340V8, multiclass
        clus
vv       TMEM169 MUTATED TMEM169 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               4                71
  CLUS_3               6                68
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM169 MUTATED        0      8      2      2      1
  TMEM169 WILD-TYPE     51     68     59     69     94
D340V9, multiclass
        clus
vv       TMEM169 MUTATED TMEM169 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               8                68
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM169 MUTATED        7      2      0      2      1      0      0      0
  TMEM169 WILD-TYPE     62     46     39     14     52     20     21     38
                   vv
clus                CLUS_9
  TMEM169 MUTATED        1
  TMEM169 WILD-TYPE     49
D340V10, multiclass
        clus
vv       TMEM169 MUTATED TMEM169 WILD-TYPE
  CLUS_1               7                62
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM169 MUTATED        1      1      0      1      3      1
  TMEM169 WILD-TYPE     12     15     14     10      8      8
D340V11, multiclass
        clus
vv       TMEM169 MUTATED TMEM169 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               3                 8
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM169 MUTATED        1      0      1      2      1      0      1      1
  TMEM169 WILD-TYPE     10      7      6      7      7      7     10      8
                   vv
clus                CLUS_9
  TMEM169 MUTATED        0
  TMEM169 WILD-TYPE      5
D340V12, multiclass
        clus
vv       TMEM169 MUTATED TMEM169 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               2                 7
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(341) Variable = PIK3C2A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3C2A MUTATED        2      0      0      0      0
  PIK3C2A WILD-TYPE     30     18     46     27     23
D341V1, multiclass
[1] "Remove cluster labels:" "PIK3C2A MUTATED"       
clus
  PIK3C2A MUTATED PIK3C2A WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3930        TCGA-AA-3939 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979        TCGA-AA-3980 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2A MUTATED        2      0      0
  PIK3C2A WILD-TYPE     41     67     36
D341V2, multiclass
[1] "Remove cluster labels:" "PIK3C2A MUTATED"       
clus
  PIK3C2A MUTATED PIK3C2A WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3930        TCGA-AA-3939 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979        TCGA-AA-3980 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" "PIK3C2A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2A MUTATED        1      4      9
  PIK3C2A WILD-TYPE     41    169    138
D341V3, multiclass
        clus
vv       PIK3C2A MUTATED PIK3C2A WILD-TYPE
  CLUS_1               1                41
  CLUS_2               4               169
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2A MUTATED        4      4      4
  PIK3C2A WILD-TYPE     58     69     71
D341V4, multiclass
        clus
vv       PIK3C2A MUTATED PIK3C2A WILD-TYPE
  CLUS_1               4                58
  CLUS_2               4                69
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2A MUTATED        1      5      4
  PIK3C2A WILD-TYPE     69    115     96
D341V5, multiclass
        clus
vv       PIK3C2A MUTATED PIK3C2A WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               115
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3C2A MUTATED        1      0      0      3      0      3      0      2
  PIK3C2A WILD-TYPE     40     26     30     26     39     66     20     12
                   vv
clus                CLUS_9
  PIK3C2A MUTATED        1
  PIK3C2A WILD-TYPE     21
D341V6, multiclass
        clus
vv       PIK3C2A MUTATED PIK3C2A WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               3                26
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               2                12
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3C2A MUTATED        3      6      3      2
  PIK3C2A WILD-TYPE     97     66     69    119
D341V7, multiclass
        clus
vv       PIK3C2A MUTATED PIK3C2A WILD-TYPE
  CLUS_1               3                97
  CLUS_2               6                66
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3C2A MUTATED        1      4      7      0      2
  PIK3C2A WILD-TYPE     58     71     67    119     36
D341V8, multiclass
        clus
vv       PIK3C2A MUTATED PIK3C2A WILD-TYPE
  CLUS_1               1                58
  CLUS_2               4                71
  CLUS_3               7                67
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3C2A MUTATED        3      7      2      0      2
  PIK3C2A WILD-TYPE     48     69     59     71     93
D341V9, multiclass
        clus
vv       PIK3C2A MUTATED PIK3C2A WILD-TYPE
  CLUS_1               3                48
  CLUS_2               7                69
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3C2A MUTATED        2      3      2      3      1      1      1      1
  PIK3C2A WILD-TYPE     67     45     37     13     52     19     20     37
                   vv
clus                CLUS_9
  PIK3C2A MUTATED        0
  PIK3C2A WILD-TYPE     50
D341V10, multiclass
        clus
vv       PIK3C2A MUTATED PIK3C2A WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               2                37
  CLUS_4               3                13
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3C2A MUTATED        0      0      2      0      2      0
  PIK3C2A WILD-TYPE     13     16     12     11      9      9
D341V11, multiclass
        clus
vv       PIK3C2A MUTATED PIK3C2A WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               2                12
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3C2A MUTATED        0      0      0      2      1      1      0      0
  PIK3C2A WILD-TYPE     11      7      7      7      7      6     11      9
                   vv
clus                CLUS_9
  PIK3C2A MUTATED        0
  PIK3C2A WILD-TYPE      5
D341V12, multiclass
        clus
vv       PIK3C2A MUTATED PIK3C2A WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               1                 7
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(342) Variable = MSH6 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSH6 MUTATED        7      0      1      2      0
  MSH6 WILD-TYPE     25     18     45     25     23
D342V1, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            7             25
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH6 MUTATED        8      1      1
  MSH6 WILD-TYPE     35     66     35
D342V2, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            8             35
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH6 MUTATED        3     12     24
  MSH6 WILD-TYPE     39    161    123
D342V3, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            3             39
  CLUS_2           12            161
  CLUS_3           24            123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH6 MUTATED       13      7     10
  MSH6 WILD-TYPE     49     66     65
D342V4, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1           13             49
  CLUS_2            7             66
  CLUS_3           10             65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH6 MUTATED        2      9     16
  MSH6 WILD-TYPE     68    111     84
D342V5, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            9            111
  CLUS_3           16             84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MSH6 MUTATED        3      0      1      1      7     11      1      2      1
  MSH6 WILD-TYPE     38     26     29     28     32     58     19     12     21
D342V6, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            7             32
  CLUS_6           11             58
  CLUS_7            1             19
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSH6 MUTATED       13     12      5      9
  MSH6 WILD-TYPE     87     60     67    112
D342V7, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1           13             87
  CLUS_2           12             60
  CLUS_3            5             67
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSH6 MUTATED        6     12     11      2      8
  MSH6 WILD-TYPE     53     63     63    117     30
D342V8, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            6             53
  CLUS_2           12             63
  CLUS_3           11             63
  CLUS_4            2            117
  CLUS_5            8             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSH6 MUTATED        6     18      4      1      9
  MSH6 WILD-TYPE     45     58     57     70     86
D342V9, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            6             45
  CLUS_2           18             58
  CLUS_3            4             57
  CLUS_4            1             70
  CLUS_5            9             86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MSH6 MUTATED       10      7      2      3      4      3      1      6      2
  MSH6 WILD-TYPE     59     41     37     13     49     17     20     32     48
D342V10, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1           10             59
  CLUS_2            7             41
  CLUS_3            2             37
  CLUS_4            3             13
  CLUS_5            4             49
  CLUS_6            3             17
  CLUS_7            1             20
  CLUS_8            6             32
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MSH6 MUTATED        1      2      1      0      2      0
  MSH6 WILD-TYPE     12     14     13     11      9      9
D342V11, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MSH6 MUTATED        2      0      0      1      1      0      1      1      0
  MSH6 WILD-TYPE      9      7      7      8      7      7     10      8      5
D342V12, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(343) Variable = KRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRAS MUTATED        7      6     12     20      5
  KRAS WILD-TYPE     25     12     34      7     18
D343V1, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            7             25
  CLUS_2            6             12
  CLUS_3           12             34
  CLUS_4           20              7
  CLUS_5            5             18
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       16     29      5
  KRAS WILD-TYPE     27     38     31
D343V2, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           16             27
  CLUS_2           29             38
  CLUS_3            5             31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       24     69     72
  KRAS WILD-TYPE     18    104     75
D343V3, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           24             18
  CLUS_2           69            104
  CLUS_3           72             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       33     29     47
  KRAS WILD-TYPE     29     44     28
D343V4, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           33             29
  CLUS_2           29             44
  CLUS_3           47             28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       29     64     47
  KRAS WILD-TYPE     41     56     53
D343V5, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           29             41
  CLUS_2           64             56
  CLUS_3           47             53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KRAS MUTATED       14      9     17     17     15     39      9      7     13
  KRAS WILD-TYPE     27     17     13     12     24     30     11      7      9
D343V6, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           14             27
  CLUS_2            9             17
  CLUS_3           17             13
  CLUS_4           17             12
  CLUS_5           15             24
  CLUS_6           39             30
  CLUS_7            9             11
  CLUS_8            7              7
  CLUS_9           13              9
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED       43     49     34     40
  KRAS WILD-TYPE     57     23     38     81
D343V7, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           43             57
  CLUS_2           49             23
  CLUS_3           34             38
  CLUS_4           40             81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRAS MUTATED       28     40     44     41     13
  KRAS WILD-TYPE     31     35     30     78     25
D343V8, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           28             31
  CLUS_2           40             35
  CLUS_3           44             30
  CLUS_4           41             78
  CLUS_5           13             25
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRAS MUTATED       24     41     30     28     39
  KRAS WILD-TYPE     27     35     31     43     56
D343V9, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           24             27
  CLUS_2           41             35
  CLUS_3           30             31
  CLUS_4           28             43
  CLUS_5           39             56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KRAS MUTATED       44     21     14      7     23     11      7     17     18
  KRAS WILD-TYPE     25     27     25      9     30      9     14     21     32
D343V10, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           44             25
  CLUS_2           21             27
  CLUS_3           14             25
  CLUS_4            7              9
  CLUS_5           23             30
  CLUS_6           11              9
  CLUS_7            7             14
  CLUS_8           17             21
  CLUS_9           18             32
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRAS MUTATED        7      7      8      3      7      5
  KRAS WILD-TYPE      6      9      6      8      4      4
D343V11, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            7              6
  CLUS_2            7              9
  CLUS_3            8              6
  CLUS_4            3              8
  CLUS_5            7              4
  CLUS_6            5              4
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KRAS MUTATED        4      5      2      5      5      3      4      5      4
  KRAS WILD-TYPE      7      2      5      4      3      4      7      4      1
D343V12, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            4              7
  CLUS_2            5              2
  CLUS_3            2              5
  CLUS_4            5              4
  CLUS_5            5              3
  CLUS_6            3              4
  CLUS_7            4              7
  CLUS_8            5              4
  CLUS_9            4              1
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(344) Variable = NEXN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEXN MUTATED        0      0      1      3      0
  NEXN WILD-TYPE     32     18     45     24     23
D344V1, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            0             32
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEXN MUTATED        1      3      0
  NEXN WILD-TYPE     42     64     36
D344V2, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            1             42
  CLUS_2            3             64
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEXN MUTATED        1      6     10
  NEXN WILD-TYPE     41    167    137
D344V3, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            1             41
  CLUS_2            6            167
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEXN MUTATED        4      3      6
  NEXN WILD-TYPE     58     70     69
D344V4, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEXN MUTATED        1      8      6
  NEXN WILD-TYPE     69    112     94
D344V5, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            1             69
  CLUS_2            8            112
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEXN MUTATED        3      3      4      0      0      3      2      0      0
  NEXN WILD-TYPE     38     23     26     29     39     66     18     14     22
D344V6, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            3             38
  CLUS_2            3             23
  CLUS_3            4             26
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEXN MUTATED        4      5      5      3
  NEXN WILD-TYPE     96     67     67    118
D344V7, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            4             96
  CLUS_2            5             67
  CLUS_3            5             67
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEXN MUTATED        6      3      3      4      1
  NEXN WILD-TYPE     53     72     71    115     37
D344V8, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            6             53
  CLUS_2            3             72
  CLUS_3            3             71
  CLUS_4            4            115
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEXN MUTATED        3      3      6      1      2
  NEXN WILD-TYPE     48     73     55     70     93
D344V9, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            3             48
  CLUS_2            3             73
  CLUS_3            6             55
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEXN MUTATED        3      5      1      2      1      2      0      0      1
  NEXN WILD-TYPE     66     43     38     14     52     18     21     38     49
D344V10, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            3             66
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NEXN MUTATED        1      2      0      1      0      2
  NEXN WILD-TYPE     12     14     14     10     11      7
D344V11, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            1             12
  CLUS_2            2             14
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEXN MUTATED        1      1      3      0      0      1      0      0      0
  NEXN WILD-TYPE     10      6      4      9      8      6     11      9      5
D344V12, multiclass
        clus
vv       NEXN MUTATED NEXN WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            3              4
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(345) Variable = SP110 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SP110 MUTATED        1      0      0      0      0
  SP110 WILD-TYPE     31     18     46     27     23
D345V1, multiclass
[1] "Remove cluster labels:" "SP110 MUTATED"         
clus
  SP110 MUTATED SP110 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AY-4071 
"SP110 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SP110 MUTATED        1      0      0
  SP110 WILD-TYPE     42     67     36
D345V2, multiclass
[1] "Remove cluster labels:" "SP110 MUTATED"         
clus
  SP110 MUTATED SP110 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AY-4071 
"SP110 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SP110 MUTATED        2      5      3
  SP110 WILD-TYPE     40    168    144
D345V3, multiclass
        clus
vv       SP110 MUTATED SP110 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SP110 MUTATED        2      4      3
  SP110 WILD-TYPE     60     69     72
D345V4, multiclass
        clus
vv       SP110 MUTATED SP110 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             4              69
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SP110 MUTATED        0      6      3
  SP110 WILD-TYPE     70    114     97
D345V5, multiclass
        clus
vv       SP110 MUTATED SP110 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             6             114
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SP110 MUTATED        1      1      0      2      1      2      0      2
  SP110 WILD-TYPE     40     25     30     27     38     67     20     12
                 vv
clus              CLUS_9
  SP110 MUTATED        0
  SP110 WILD-TYPE     22
D345V6, multiclass
        clus
vv       SP110 MUTATED SP110 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SP110 MUTATED        3      4      2      1
  SP110 WILD-TYPE     97     68     70    120
D345V7, multiclass
        clus
vv       SP110 MUTATED SP110 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SP110 MUTATED        2      3      4      0      1
  SP110 WILD-TYPE     57     72     70    119     37
D345V8, multiclass
        clus
vv       SP110 MUTATED SP110 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SP110 MUTATED        4      3      1      1      1
  SP110 WILD-TYPE     47     73     60     70     94
D345V9, multiclass
        clus
vv       SP110 MUTATED SP110 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SP110 MUTATED        3      3      1      1      0      1      0      1
  SP110 WILD-TYPE     66     45     38     15     53     19     21     37
                 vv
clus              CLUS_9
  SP110 MUTATED        0
  SP110 WILD-TYPE     50
D345V10, multiclass
        clus
vv       SP110 MUTATED SP110 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SP110 MUTATED        1      0      0      1      0      0
  SP110 WILD-TYPE     12     16     14     10     11      9
D345V11, multiclass
[1] "Remove cluster labels:" "SP110 MUTATED"         
clus
  SP110 MUTATED SP110 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SP110 MUTATED        0      0      0      1      0      0      0      1
  SP110 WILD-TYPE     11      7      7      8      8      7     11      8
                 vv
clus              CLUS_9
  SP110 MUTATED        0
  SP110 WILD-TYPE      5
D345V12, multiclass
[1] "Remove cluster labels:" "SP110 MUTATED"         
clus
  SP110 MUTATED SP110 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" "SP110 WILD-TYPE" 

Clustering(346) Variable = MYST4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYST4 MUTATED        5      0      0      1      0
  MYST4 WILD-TYPE     27     18     46     26     23
D346V1, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYST4 MUTATED        6      0      0
  MYST4 WILD-TYPE     37     67     36
D346V2, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYST4 MUTATED        2      3     18
  MYST4 WILD-TYPE     40    170    129
D346V3, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3            18             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYST4 MUTATED        9      1      7
  MYST4 WILD-TYPE     53     72     68
D346V4, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             9              53
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYST4 MUTATED        3      7     10
  MYST4 WILD-TYPE     67    113     90
D346V5, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             7             113
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYST4 MUTATED        2      0      0      1      5      8      1      2
  MYST4 WILD-TYPE     39     26     30     28     34     61     19     12
                 vv
clus              CLUS_9
  MYST4 MUTATED        1
  MYST4 WILD-TYPE     21
D346V6, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             5              34
  CLUS_6             8              61
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYST4 MUTATED        3      8      6      6
  MYST4 WILD-TYPE     97     64     66    115
D346V7, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             8              64
  CLUS_3             6              66
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYST4 MUTATED        3      3     11      0      6
  MYST4 WILD-TYPE     56     72     63    119     32
D346V8, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3            11              63
  CLUS_4             0             119
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYST4 MUTATED        2      8      3      0     10
  MYST4 WILD-TYPE     49     68     58     71     85
D346V9, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             8              68
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5            10              85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYST4 MUTATED        3      6      0      1      2      2      0      8
  MYST4 WILD-TYPE     66     42     39     15     51     18     21     30
                 vv
clus              CLUS_9
  MYST4 MUTATED        1
  MYST4 WILD-TYPE     49
D346V10, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             6              42
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             8              30
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MYST4 MUTATED        0      0      0      0      3      0
  MYST4 WILD-TYPE     13     16     14     11      8      9
D346V11, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYST4 MUTATED        0      0      0      1      0      0      2      0
  MYST4 WILD-TYPE     11      7      7      8      8      7      9      9
                 vv
clus              CLUS_9
  MYST4 MUTATED        0
  MYST4 WILD-TYPE      5
D346V12, multiclass
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(347) Variable = PPARGC1A MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPARGC1A MUTATED        4      0      0      1      0
  PPARGC1A WILD-TYPE     28     18     46     26     23
D347V1, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPARGC1A MUTATED        5      0      0
  PPARGC1A WILD-TYPE     38     67     36
D347V2, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                5                 38
  CLUS_2                0                 67
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPARGC1A MUTATED        2      6     15
  PPARGC1A WILD-TYPE     40    167    132
D347V3, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                6                167
  CLUS_3               15                132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPARGC1A MUTATED        3      6      9
  PPARGC1A WILD-TYPE     59     67     66
D347V4, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                6                 67
  CLUS_3                9                 66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPARGC1A MUTATED        4     10      8
  PPARGC1A WILD-TYPE     66    110     92
D347V5, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                4                 66
  CLUS_2               10                110
  CLUS_3                8                 92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPARGC1A MUTATED        1      1      1      4      6      5      1      1
  PPARGC1A WILD-TYPE     40     25     29     25     33     64     19     13
                    vv
clus                 CLUS_9
  PPARGC1A MUTATED        2
  PPARGC1A WILD-TYPE     20
D347V6, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                4                 25
  CLUS_5                6                 33
  CLUS_6                5                 64
  CLUS_7                1                 19
  CLUS_8                1                 13
  CLUS_9                2                 20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPARGC1A MUTATED        5      7      5      6
  PPARGC1A WILD-TYPE     95     65     67    115
D347V7, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                5                 95
  CLUS_2                7                 65
  CLUS_3                5                 67
  CLUS_4                6                115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPARGC1A MUTATED        3      7      7      0      6
  PPARGC1A WILD-TYPE     56     68     67    119     32
D347V8, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                7                 68
  CLUS_3                7                 67
  CLUS_4                0                119
  CLUS_5                6                 32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPARGC1A MUTATED        4     10      2      1      6
  PPARGC1A WILD-TYPE     47     66     59     70     89
D347V9, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                4                 47
  CLUS_2               10                 66
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                6                 89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPARGC1A MUTATED        8      3      0      2      3      1      0      6
  PPARGC1A WILD-TYPE     61     45     39     14     50     19     21     32
                    vv
clus                 CLUS_9
  PPARGC1A MUTATED        0
  PPARGC1A WILD-TYPE     50
D347V10, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                8                 61
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                3                 50
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                6                 32
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPARGC1A MUTATED        0      0      0      0      3      1
  PPARGC1A WILD-TYPE     13     16     14     11      8      8
D347V11, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                0                 16
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                3                  8
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPARGC1A MUTATED        1      0      0      2      0      0      1      0
  PPARGC1A WILD-TYPE     10      7      7      7      8      7     10      9
                    vv
clus                 CLUS_9
  PPARGC1A MUTATED        0
  PPARGC1A WILD-TYPE      5
D347V12, multiclass
        clus
vv       PPARGC1A MUTATED PPARGC1A WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                2                  7
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(348) Variable = CLIP4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLIP4 MUTATED        4      0      0      1      0
  CLIP4 WILD-TYPE     28     18     46     26     23
D348V1, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLIP4 MUTATED        4      0      1
  CLIP4 WILD-TYPE     39     67     35
D348V2, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLIP4 MUTATED        2      3      8
  CLIP4 WILD-TYPE     40    170    139
D348V3, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLIP4 MUTATED        2      0      5
  CLIP4 WILD-TYPE     60     73     70
D348V4, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLIP4 MUTATED        1      5      4
  CLIP4 WILD-TYPE     69    115     96
D348V5, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLIP4 MUTATED        1      1      1      2      0      2      1      1
  CLIP4 WILD-TYPE     40     25     29     27     39     67     19     13
                 vv
clus              CLUS_9
  CLIP4 MUTATED        1
  CLIP4 WILD-TYPE     21
D348V6, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLIP4 MUTATED        2      3      2      7
  CLIP4 WILD-TYPE     98     69     70    114
D348V7, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLIP4 MUTATED        0      4      2      4      4
  CLIP4 WILD-TYPE     59     71     72    115     34
D348V8, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             4              71
  CLUS_3             2              72
  CLUS_4             4             115
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLIP4 MUTATED        1      2      1      4      5
  CLIP4 WILD-TYPE     50     74     60     67     90
D348V9, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             4              67
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLIP4 MUTATED        3      0      0      1      3      0      0      4
  CLIP4 WILD-TYPE     66     48     39     15     50     20     21     34
                 vv
clus              CLUS_9
  CLIP4 MUTATED        2
  CLIP4 WILD-TYPE     48
D348V10, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLIP4 MUTATED        0      0      2      0      1      0
  CLIP4 WILD-TYPE     13     16     12     11     10      9
D348V11, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLIP4 MUTATED        1      0      0      1      1      0      0      0
  CLIP4 WILD-TYPE     10      7      7      8      7      7     11      9
                 vv
clus              CLUS_9
  CLIP4 MUTATED        0
  CLIP4 WILD-TYPE      5
D348V12, multiclass
        clus
vv       CLIP4 MUTATED CLIP4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(349) Variable = PAK3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK3 MUTATED        2      0      0      1      0
  PAK3 WILD-TYPE     30     18     46     26     23
D349V1, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK3 MUTATED        2      1      0
  PAK3 WILD-TYPE     41     66     36
D349V2, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK3 MUTATED        0      5     12
  PAK3 WILD-TYPE     42    168    135
D349V3, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            5            168
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK3 MUTATED        7      2      5
  PAK3 WILD-TYPE     55     71     70
D349V4, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK3 MUTATED        2      3      9
  PAK3 WILD-TYPE     68    117     91
D349V5, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK3 MUTATED        1      1      0      1      1      7      1      1      1
  PAK3 WILD-TYPE     40     25     30     28     38     62     19     13     21
D349V6, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            7             62
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAK3 MUTATED        2      6      5      4
  PAK3 WILD-TYPE     98     66     67    117
D349V7, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            6             66
  CLUS_3            5             67
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK3 MUTATED        4      2      7      1      3
  PAK3 WILD-TYPE     55     73     67    118     35
D349V8, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            2             73
  CLUS_3            7             67
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK3 MUTATED        0     10      1      2      4
  PAK3 WILD-TYPE     51     66     60     69     91
D349V9, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2           10             66
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK3 MUTATED        5      3      0      3      1      1      0      3      1
  PAK3 WILD-TYPE     64     45     39     13     52     19     21     35     49
D349V10, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAK3 MUTATED        0      1      1      2      1      0
  PAK3 WILD-TYPE     13     15     13      9     10      9
D349V11, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            2              9
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK3 MUTATED        1      0      0      0      1      0      2      1      0
  PAK3 WILD-TYPE     10      7      7      9      7      7      9      8      5
D349V12, multiclass
        clus
vv       PAK3 MUTATED PAK3 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(350) Variable = KCNS3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNS3 MUTATED        1      1      0      1      0
  KCNS3 WILD-TYPE     31     17     46     26     23
D350V1, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNS3 MUTATED        1      1      1
  KCNS3 WILD-TYPE     42     66     35
D350V2, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNS3 MUTATED        2      5     12
  KCNS3 WILD-TYPE     40    168    135
D350V3, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNS3 MUTATED        2      7      8
  KCNS3 WILD-TYPE     60     66     67
D350V4, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             7              66
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNS3 MUTATED        2     11      6
  KCNS3 WILD-TYPE     68    109     94
D350V5, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2            11             109
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNS3 MUTATED        2      1      2      4      1      5      2      0
  KCNS3 WILD-TYPE     39     25     28     25     38     64     18     14
                 vv
clus              CLUS_9
  KCNS3 MUTATED        2
  KCNS3 WILD-TYPE     20
D350V6, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             4              25
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCNS3 MUTATED        5      6      4      4
  KCNS3 WILD-TYPE     95     66     68    117
D350V7, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             6              66
  CLUS_3             4              68
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNS3 MUTATED        2      6      6      4      1
  KCNS3 WILD-TYPE     57     69     68    115     37
D350V8, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             6              69
  CLUS_3             6              68
  CLUS_4             4             115
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNS3 MUTATED        6      6      0      4      3
  KCNS3 WILD-TYPE     45     70     61     67     92
D350V9, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             6              45
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             4              67
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNS3 MUTATED        3      1      2      1      8      2      0      2
  KCNS3 WILD-TYPE     66     47     37     15     45     18     21     36
                 vv
clus              CLUS_9
  KCNS3 MUTATED        0
  KCNS3 WILD-TYPE     50
D350V10, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             8              45
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KCNS3 MUTATED        1      1      2      1      1      0
  KCNS3 WILD-TYPE     12     15     12     10     10      9
D350V11, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNS3 MUTATED        0      0      0      1      1      0      3      1
  KCNS3 WILD-TYPE     11      7      7      8      7      7      8      8
                 vv
clus              CLUS_9
  KCNS3 MUTATED        0
  KCNS3 WILD-TYPE      5
D350V12, multiclass
        clus
vv       KCNS3 MUTATED KCNS3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(351) Variable = TRPM7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRPM7 MUTATED        4      0      0      2      0
  TRPM7 WILD-TYPE     28     18     46     25     23
D351V1, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPM7 MUTATED        4      1      1
  TRPM7 WILD-TYPE     39     66     35
D351V2, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPM7 MUTATED        2      7     19
  TRPM7 WILD-TYPE     40    166    128
D351V3, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             7             166
  CLUS_3            19             128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPM7 MUTATED       10      4      7
  TRPM7 WILD-TYPE     52     69     68
D351V4, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1            10              52
  CLUS_2             4              69
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPM7 MUTATED        4      6     12
  TRPM7 WILD-TYPE     66    114     88
D351V5, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             6             114
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRPM7 MUTATED        6      1      1      2      1      8      1      0
  TRPM7 WILD-TYPE     35     25     29     27     38     61     19     14
                 vv
clus              CLUS_9
  TRPM7 MUTATED        2
  TRPM7 WILD-TYPE     20
D351V6, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1             6              35
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             8              61
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRPM7 MUTATED        5      5     10      8
  TRPM7 WILD-TYPE     95     67     62    113
D351V7, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             5              67
  CLUS_3            10              62
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRPM7 MUTATED        3      6     11      5      3
  TRPM7 WILD-TYPE     56     69     63    114     35
D351V8, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             6              69
  CLUS_3            11              63
  CLUS_4             5             114
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRPM7 MUTATED        4      9      6      2      6
  TRPM7 WILD-TYPE     47     67     55     69     89
D351V9, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             9              67
  CLUS_3             6              55
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRPM7 MUTATED        3      8      1      3      6      2      1      2
  TRPM7 WILD-TYPE     66     40     38     13     47     18     20     36
                 vv
clus              CLUS_9
  TRPM7 MUTATED        1
  TRPM7 WILD-TYPE     49
D351V10, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             8              40
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             6              47
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRPM7 MUTATED        0      5      1      2      2      0
  TRPM7 WILD-TYPE     13     11     13      9      9      9
D351V11, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             5              11
  CLUS_3             1              13
  CLUS_4             2               9
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRPM7 MUTATED        2      0      0      1      1      2      4      0
  TRPM7 WILD-TYPE      9      7      7      8      7      5      7      9
                 vv
clus              CLUS_9
  TRPM7 MUTATED        0
  TRPM7 WILD-TYPE      5
D351V12, multiclass
        clus
vv       TRPM7 MUTATED TRPM7 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             2               5
  CLUS_7             4               7
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(352) Variable = DSG1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DSG1 MUTATED        3      0      1      2      0
  DSG1 WILD-TYPE     29     18     45     25     23
D352V1, multiclass
        clus
vv       DSG1 MUTATED DSG1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG1 MUTATED        4      2      0
  DSG1 WILD-TYPE     39     65     36
D352V2, multiclass
        clus
vv       DSG1 MUTATED DSG1 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG1 MUTATED        1      3     14
  DSG1 WILD-TYPE     41    170    133
D352V3, multiclass
        clus
vv       DSG1 MUTATED DSG1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3           14            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG1 MUTATED        7      1      3
  DSG1 WILD-TYPE     55     72     72
D352V4, multiclass
        clus
vv       DSG1 MUTATED DSG1 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG1 MUTATED        0      5     11
  DSG1 WILD-TYPE     70    115     89
D352V5, multiclass
        clus
vv       DSG1 MUTATED DSG1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            5            115
  CLUS_3           11             89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DSG1 MUTATED        2      1      3      1      0      9      0      0      0
  DSG1 WILD-TYPE     39     25     27     28     39     60     20     14     22
D352V6, multiclass
        clus
vv       DSG1 MUTATED DSG1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            3             27
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            9             60
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DSG1 MUTATED        1      4      5      8
  DSG1 WILD-TYPE     99     68     67    113
D352V7, multiclass
        clus
vv       DSG1 MUTATED DSG1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            4             68
  CLUS_3            5             67
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DSG1 MUTATED        2      3      5      3      5
  DSG1 WILD-TYPE     57     72     69    116     33
D352V8, multiclass
        clus
vv       DSG1 MUTATED DSG1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            5             69
  CLUS_4            3            116
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DSG1 MUTATED        1      7      1      1      7
  DSG1 WILD-TYPE     50     69     60     70     88
D352V9, multiclass
        clus
vv       DSG1 MUTATED DSG1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            7             69
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DSG1 MUTATED        3      4      0      0      2      1      1      3      3
  DSG1 WILD-TYPE     66     44     39     16     51     19     20     35     47
D352V10, multiclass
        clus
vv       DSG1 MUTATED DSG1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DSG1 MUTATED        0      0      0      0      1      0
  DSG1 WILD-TYPE     13     16     14     11     10      9
D352V11, multiclass
[1] "Remove cluster labels:" "DSG1 MUTATED"          
clus
  DSG1 MUTATED DSG1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-G4-6628 
"DSG1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DSG1 MUTATED        0      0      0      0      0      0      1      0      0
  DSG1 WILD-TYPE     11      7      7      9      8      7     10      9      5
D352V12, multiclass
[1] "Remove cluster labels:" "DSG1 MUTATED"          
clus
  DSG1 MUTATED DSG1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" "DSG1 WILD-TYPE" 
    TCGA-G4-6628 
"DSG1 WILD-TYPE" 

Clustering(353) Variable = ZNF585A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF585A MUTATED        5      0      0      2      0
  ZNF585A WILD-TYPE     27     18     46     25     23
D353V1, multiclass
        clus
vv       ZNF585A MUTATED ZNF585A WILD-TYPE
  CLUS_1               5                27
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF585A MUTATED        5      1      1
  ZNF585A WILD-TYPE     38     66     35
D353V2, multiclass
        clus
vv       ZNF585A MUTATED ZNF585A WILD-TYPE
  CLUS_1               5                38
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF585A MUTATED        1      1     14
  ZNF585A WILD-TYPE     41    172    133
D353V3, multiclass
        clus
vv       ZNF585A MUTATED ZNF585A WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3              14               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF585A MUTATED        3      2      4
  ZNF585A WILD-TYPE     59     71     71
D353V4, multiclass
        clus
vv       ZNF585A MUTATED ZNF585A WILD-TYPE
  CLUS_1               3                59
  CLUS_2               2                71
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF585A MUTATED        1      6      4
  ZNF585A WILD-TYPE     69    114     96
D353V5, multiclass
        clus
vv       ZNF585A MUTATED ZNF585A WILD-TYPE
  CLUS_1               1                69
  CLUS_2               6               114
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF585A MUTATED        1      1      1      0      2      3      2      0
  ZNF585A WILD-TYPE     40     25     29     29     37     66     18     14
                   vv
clus                CLUS_9
  ZNF585A MUTATED        1
  ZNF585A WILD-TYPE     21
D353V6, multiclass
        clus
vv       ZNF585A MUTATED ZNF585A WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               2                37
  CLUS_6               3                66
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF585A MUTATED        1      4      4      7
  ZNF585A WILD-TYPE     99     68     68    114
D353V7, multiclass
        clus
vv       ZNF585A MUTATED ZNF585A WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               4                68
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF585A MUTATED        1      3      4      3      5
  ZNF585A WILD-TYPE     58     72     70    116     33
D353V8, multiclass
        clus
vv       ZNF585A MUTATED ZNF585A WILD-TYPE
  CLUS_1               1                58
  CLUS_2               3                72
  CLUS_3               4                70
  CLUS_4               3               116
  CLUS_5               5                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF585A MUTATED        2      3      2      2      6
  ZNF585A WILD-TYPE     49     73     59     69     89
D353V9, multiclass
        clus
vv       ZNF585A MUTATED ZNF585A WILD-TYPE
  CLUS_1               2                49
  CLUS_2               3                73
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF585A MUTATED        2      3      0      1      2      2      0      4
  ZNF585A WILD-TYPE     67     45     39     15     51     18     21     34
                   vv
clus                CLUS_9
  ZNF585A MUTATED        1
  ZNF585A WILD-TYPE     49
D353V10, multiclass
        clus
vv       ZNF585A MUTATED ZNF585A WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               4                34
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF585A MUTATED        0      1      0      0      1      0
  ZNF585A WILD-TYPE     13     15     14     11     10      9
D353V11, multiclass
[1] "Remove cluster labels:" "ZNF585A MUTATED"       
clus
  ZNF585A MUTATED ZNF585A WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6536 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF585A MUTATED        0      0      0      0      0      1      1      0
  ZNF585A WILD-TYPE     11      7      7      9      8      6     10      9
                   vv
clus                CLUS_9
  ZNF585A MUTATED        0
  ZNF585A WILD-TYPE      5
D353V12, multiclass
[1] "Remove cluster labels:" "ZNF585A MUTATED"       
clus
  ZNF585A MUTATED ZNF585A WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6536 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" "ZNF585A WILD-TYPE" 

Clustering(354) Variable = KPNA5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KPNA5 MUTATED        0      1      1      1      0
  KPNA5 WILD-TYPE     32     17     45     26     23
D354V1, multiclass
        clus
vv       KPNA5 MUTATED KPNA5 WILD-TYPE
  CLUS_1             0              32
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KPNA5 MUTATED        1      2      0
  KPNA5 WILD-TYPE     42     65     36
D354V2, multiclass
        clus
vv       KPNA5 MUTATED KPNA5 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KPNA5 MUTATED        1      5      5
  KPNA5 WILD-TYPE     41    168    142
D354V3, multiclass
        clus
vv       KPNA5 MUTATED KPNA5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KPNA5 MUTATED        1      4      3
  KPNA5 WILD-TYPE     61     69     72
D354V4, multiclass
        clus
vv       KPNA5 MUTATED KPNA5 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             4              69
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KPNA5 MUTATED        1      5      3
  KPNA5 WILD-TYPE     69    115     97
D354V5, multiclass
        clus
vv       KPNA5 MUTATED KPNA5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KPNA5 MUTATED        0      0      1      3      1      3      0      1
  KPNA5 WILD-TYPE     41     26     29     26     38     66     20     13
                 vv
clus              CLUS_9
  KPNA5 MUTATED        0
  KPNA5 WILD-TYPE     22
D354V6, multiclass
        clus
vv       KPNA5 MUTATED KPNA5 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KPNA5 MUTATED        5      3      1      2
  KPNA5 WILD-TYPE     95     69     71    119
D354V7, multiclass
        clus
vv       KPNA5 MUTATED KPNA5 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KPNA5 MUTATED        0      4      4      2      1
  KPNA5 WILD-TYPE     59     71     70    117     37
D354V8, multiclass
        clus
vv       KPNA5 MUTATED KPNA5 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             4              71
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KPNA5 MUTATED        0      4      2      3      1
  KPNA5 WILD-TYPE     51     72     59     68     94
D354V9, multiclass
        clus
vv       KPNA5 MUTATED KPNA5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KPNA5 MUTATED        4      1      1      2      0      0      1      0
  KPNA5 WILD-TYPE     65     47     38     14     53     20     20     38
                 vv
clus              CLUS_9
  KPNA5 MUTATED        1
  KPNA5 WILD-TYPE     49
D354V10, multiclass
        clus
vv       KPNA5 MUTATED KPNA5 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KPNA5 MUTATED        0      0      0      0      0      0
  KPNA5 WILD-TYPE     13     16     14     11     11      9
D354V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KPNA5 MUTATED        0      0      0      0      0      0      0      0
  KPNA5 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  KPNA5 MUTATED        0
  KPNA5 WILD-TYPE      5
D354V12, multiclass

Clustering(355) Variable = CDC42BPA MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDC42BPA MUTATED        6      0      1      2      0
  CDC42BPA WILD-TYPE     26     18     45     25     23
D355V1, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                6                 26
  CLUS_2                0                 18
  CLUS_3                1                 45
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CDC42BPA MUTATED        8      1      0
  CDC42BPA WILD-TYPE     35     66     36
D355V2, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                8                 35
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CDC42BPA MUTATED        2      6     21
  CDC42BPA WILD-TYPE     40    167    126
D355V3, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                6                167
  CLUS_3               21                126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CDC42BPA MUTATED        8      5      7
  CDC42BPA WILD-TYPE     54     68     68
D355V4, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                8                 54
  CLUS_2                5                 68
  CLUS_3                7                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CDC42BPA MUTATED        4      7     14
  CDC42BPA WILD-TYPE     66    113     86
D355V5, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                4                 66
  CLUS_2                7                113
  CLUS_3               14                 86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDC42BPA MUTATED        2      2      1      0      7     10      2      0
  CDC42BPA WILD-TYPE     39     24     29     29     32     59     18     14
                    vv
clus                 CLUS_9
  CDC42BPA MUTATED        1
  CDC42BPA WILD-TYPE     21
D355V6, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                2                 24
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                7                 32
  CLUS_6               10                 59
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDC42BPA MUTATED        7      8      6      8
  CDC42BPA WILD-TYPE     93     64     66    113
D355V7, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                7                 93
  CLUS_2                8                 64
  CLUS_3                6                 66
  CLUS_4                8                113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDC42BPA MUTATED        3      8      9      1      8
  CDC42BPA WILD-TYPE     56     67     65    118     30
D355V8, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                8                 67
  CLUS_3                9                 65
  CLUS_4                1                118
  CLUS_5                8                 30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDC42BPA MUTATED        2     11      3      3      9
  CDC42BPA WILD-TYPE     49     65     58     68     86
D355V9, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                2                 49
  CLUS_2               11                 65
  CLUS_3                3                 58
  CLUS_4                3                 68
  CLUS_5                9                 86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDC42BPA MUTATED        8      5      2      3      0      1      0      8
  CDC42BPA WILD-TYPE     61     43     37     13     53     19     21     30
                    vv
clus                 CLUS_9
  CDC42BPA MUTATED        1
  CDC42BPA WILD-TYPE     49
D355V10, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                8                 61
  CLUS_2                5                 43
  CLUS_3                2                 37
  CLUS_4                3                 13
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                8                 30
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDC42BPA MUTATED        0      1      1      0      2      0
  CDC42BPA WILD-TYPE     13     15     13     11      9      9
D355V11, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDC42BPA MUTATED        0      1      0      1      1      0      1      0
  CDC42BPA WILD-TYPE     11      6      7      8      7      7     10      9
                    vv
clus                 CLUS_9
  CDC42BPA MUTATED        0
  CDC42BPA WILD-TYPE      5
D355V12, multiclass
        clus
vv       CDC42BPA MUTATED CDC42BPA WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  6
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(356) Variable = KIR2DL3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIR2DL3 MUTATED        2      0      0      0      0
  KIR2DL3 WILD-TYPE     30     18     46     27     23
D356V1, multiclass
[1] "Remove cluster labels:" "KIR2DL3 MUTATED"       
clus
  KIR2DL3 MUTATED KIR2DL3 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  KIR2DL3 MUTATED        1      0      1
  KIR2DL3 WILD-TYPE     42     67     35
D356V2, multiclass
[1] "Remove cluster labels:" "KIR2DL3 MUTATED"       
clus
  KIR2DL3 MUTATED KIR2DL3 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" "KIR2DL3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  KIR2DL3 MUTATED        2      8      8
  KIR2DL3 WILD-TYPE     40    165    139
D356V3, multiclass
        clus
vv       KIR2DL3 MUTATED KIR2DL3 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               8               165
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  KIR2DL3 MUTATED        7      6      4
  KIR2DL3 WILD-TYPE     55     67     71
D356V4, multiclass
        clus
vv       KIR2DL3 MUTATED KIR2DL3 WILD-TYPE
  CLUS_1               7                55
  CLUS_2               6                67
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  KIR2DL3 MUTATED        3      4      8
  KIR2DL3 WILD-TYPE     67    116     92
D356V5, multiclass
        clus
vv       KIR2DL3 MUTATED KIR2DL3 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               4               116
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIR2DL3 MUTATED        1      1      1      1      1      7      1      0
  KIR2DL3 WILD-TYPE     40     25     29     28     38     62     19     14
                   vv
clus                CLUS_9
  KIR2DL3 MUTATED        2
  KIR2DL3 WILD-TYPE     20
D356V6, multiclass
        clus
vv       KIR2DL3 MUTATED KIR2DL3 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               7                62
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               2                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIR2DL3 MUTATED        8      2      5      4
  KIR2DL3 WILD-TYPE     92     70     67    117
D356V7, multiclass
        clus
vv       KIR2DL3 MUTATED KIR2DL3 WILD-TYPE
  CLUS_1               8                92
  CLUS_2               2                70
  CLUS_3               5                67
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIR2DL3 MUTATED        5      7      3      3      1
  KIR2DL3 WILD-TYPE     54     68     71    116     37
D356V8, multiclass
        clus
vv       KIR2DL3 MUTATED KIR2DL3 WILD-TYPE
  CLUS_1               5                54
  CLUS_2               7                68
  CLUS_3               3                71
  CLUS_4               3               116
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIR2DL3 MUTATED        3      6      6      3      1
  KIR2DL3 WILD-TYPE     48     70     55     68     94
D356V9, multiclass
        clus
vv       KIR2DL3 MUTATED KIR2DL3 WILD-TYPE
  CLUS_1               3                48
  CLUS_2               6                70
  CLUS_3               6                55
  CLUS_4               3                68
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIR2DL3 MUTATED        5      4      1      0      4      1      0      1
  KIR2DL3 WILD-TYPE     64     44     38     16     49     19     21     37
                   vv
clus                CLUS_9
  KIR2DL3 MUTATED        3
  KIR2DL3 WILD-TYPE     47
D356V10, multiclass
        clus
vv       KIR2DL3 MUTATED KIR2DL3 WILD-TYPE
  CLUS_1               5                64
  CLUS_2               4                44
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               4                49
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               3                47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIR2DL3 MUTATED        0      2      0      0      1      0
  KIR2DL3 WILD-TYPE     13     14     14     11     10      9
D356V11, multiclass
        clus
vv       KIR2DL3 MUTATED KIR2DL3 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               2                14
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIR2DL3 MUTATED        1      1      0      0      0      0      1      0
  KIR2DL3 WILD-TYPE     10      6      7      9      8      7     10      9
                   vv
clus                CLUS_9
  KIR2DL3 MUTATED        0
  KIR2DL3 WILD-TYPE      5
D356V12, multiclass
        clus
vv       KIR2DL3 MUTATED KIR2DL3 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(357) Variable = C5ORF22 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5ORF22 MUTATED        1      0      0      0      1
  C5ORF22 WILD-TYPE     31     18     46     27     22
D357V1, multiclass
[1] "Remove cluster labels:" "C5ORF22 MUTATED"       
clus
  C5ORF22 MUTATED C5ORF22 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF22 MUTATED        1      0      1
  C5ORF22 WILD-TYPE     42     67     35
D357V2, multiclass
[1] "Remove cluster labels:" "C5ORF22 MUTATED"       
clus
  C5ORF22 MUTATED C5ORF22 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF22 MUTATED        1      3      7
  C5ORF22 WILD-TYPE     41    170    140
D357V3, multiclass
        clus
vv       C5ORF22 MUTATED C5ORF22 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF22 MUTATED        2      4      3
  C5ORF22 WILD-TYPE     60     69     72
D357V4, multiclass
        clus
vv       C5ORF22 MUTATED C5ORF22 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               4                69
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF22 MUTATED        1      3      5
  C5ORF22 WILD-TYPE     69    117     95
D357V5, multiclass
        clus
vv       C5ORF22 MUTATED C5ORF22 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C5ORF22 MUTATED        0      0      0      2      1      4      1      1
  C5ORF22 WILD-TYPE     41     26     30     27     38     65     19     13
                   vv
clus                CLUS_9
  C5ORF22 MUTATED        0
  C5ORF22 WILD-TYPE     22
D357V6, multiclass
        clus
vv       C5ORF22 MUTATED C5ORF22 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C5ORF22 MUTATED        4      4      1      2
  C5ORF22 WILD-TYPE     96     68     71    119
D357V7, multiclass
        clus
vv       C5ORF22 MUTATED C5ORF22 WILD-TYPE
  CLUS_1               4                96
  CLUS_2               4                68
  CLUS_3               1                71
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5ORF22 MUTATED        1      5      3      2      0
  C5ORF22 WILD-TYPE     58     70     71    117     38
D357V8, multiclass
        clus
vv       C5ORF22 MUTATED C5ORF22 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               5                70
  CLUS_3               3                71
  CLUS_4               2               117
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5ORF22 MUTATED        2      5      1      1      2
  C5ORF22 WILD-TYPE     49     71     60     70     93
D357V9, multiclass
        clus
vv       C5ORF22 MUTATED C5ORF22 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               5                71
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C5ORF22 MUTATED        2      1      2      3      0      1      1      0
  C5ORF22 WILD-TYPE     67     47     37     13     53     19     20     38
                   vv
clus                CLUS_9
  C5ORF22 MUTATED        1
  C5ORF22 WILD-TYPE     49
D357V10, multiclass
        clus
vv       C5ORF22 MUTATED C5ORF22 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               2                37
  CLUS_4               3                13
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C5ORF22 MUTATED        0      1      0      0      1      0
  C5ORF22 WILD-TYPE     13     15     14     11     10      9
D357V11, multiclass
[1] "Remove cluster labels:" "C5ORF22 MUTATED"       
clus
  C5ORF22 MUTATED C5ORF22 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625        TCGA-G4-6628 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C5ORF22 MUTATED        0      1      0      1      0      0      0      0
  C5ORF22 WILD-TYPE     11      6      7      8      8      7     11      9
                   vv
clus                CLUS_9
  C5ORF22 MUTATED        0
  C5ORF22 WILD-TYPE      5
D357V12, multiclass
[1] "Remove cluster labels:" "C5ORF22 MUTATED"       
clus
  C5ORF22 MUTATED C5ORF22 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625        TCGA-G4-6628 
"C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" "C5ORF22 WILD-TYPE" 

Clustering(358) Variable = CSNK1D MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSNK1D MUTATED        2      0      0      1      0
  CSNK1D WILD-TYPE     30     18     46     26     23
D358V1, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CSNK1D MUTATED        3      0      0
  CSNK1D WILD-TYPE     40     67     36
D358V2, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CSNK1D MUTATED        0      5      9
  CSNK1D WILD-TYPE     42    168    138
D358V3, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              0               42
  CLUS_2              5              168
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CSNK1D MUTATED        5      4      2
  CSNK1D WILD-TYPE     57     69     73
D358V4, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              5               57
  CLUS_2              4               69
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CSNK1D MUTATED        1      4      8
  CSNK1D WILD-TYPE     69    116     92
D358V5, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSNK1D MUTATED        1      0      2      1      1      6      1      1
  CSNK1D WILD-TYPE     40     26     28     28     38     63     19     13
                  vv
clus               CLUS_9
  CSNK1D MUTATED        0
  CSNK1D WILD-TYPE     22
D358V6, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              6               63
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSNK1D MUTATED        2      4      5      3
  CSNK1D WILD-TYPE     98     68     67    118
D358V7, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              5               67
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSNK1D MUTATED        4      3      4      0      3
  CSNK1D WILD-TYPE     55     72     70    119     35
D358V8, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              4               55
  CLUS_2              3               72
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSNK1D MUTATED        1      4      5      1      2
  CSNK1D WILD-TYPE     50     72     56     70     93
D358V9, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              5               56
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSNK1D MUTATED        3      4      1      1      0      1      0      2
  CSNK1D WILD-TYPE     66     44     38     15     53     19     21     36
                  vv
clus               CLUS_9
  CSNK1D MUTATED        1
  CSNK1D WILD-TYPE     49
D358V10, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CSNK1D MUTATED        1      0      2      0      0      1
  CSNK1D WILD-TYPE     12     16     12     11     11      8
D358V11, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSNK1D MUTATED        2      0      0      0      0      0      1      1
  CSNK1D WILD-TYPE      9      7      7      9      8      7     10      8
                  vv
clus               CLUS_9
  CSNK1D MUTATED        0
  CSNK1D WILD-TYPE      5
D358V12, multiclass
        clus
vv       CSNK1D MUTATED CSNK1D WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(359) Variable = IQSEC2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IQSEC2 MUTATED        3      0      1      0      0
  IQSEC2 WILD-TYPE     29     18     45     27     23
D359V1, multiclass
        clus
vv       IQSEC2 MUTATED IQSEC2 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IQSEC2 MUTATED        3      1      0
  IQSEC2 WILD-TYPE     40     66     36
D359V2, multiclass
        clus
vv       IQSEC2 MUTATED IQSEC2 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IQSEC2 MUTATED        1      4     11
  IQSEC2 WILD-TYPE     41    169    136
D359V3, multiclass
        clus
vv       IQSEC2 MUTATED IQSEC2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IQSEC2 MUTATED        2      1      9
  IQSEC2 WILD-TYPE     60     72     66
D359V4, multiclass
        clus
vv       IQSEC2 MUTATED IQSEC2 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              9               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IQSEC2 MUTATED        1      5      6
  IQSEC2 WILD-TYPE     69    115     94
D359V5, multiclass
        clus
vv       IQSEC2 MUTATED IQSEC2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IQSEC2 MUTATED        0      0      2      3      2      5      0      0
  IQSEC2 WILD-TYPE     41     26     28     26     37     64     20     14
                  vv
clus               CLUS_9
  IQSEC2 MUTATED        0
  IQSEC2 WILD-TYPE     22
D359V6, multiclass
        clus
vv       IQSEC2 MUTATED IQSEC2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IQSEC2 MUTATED        1     11      0      4
  IQSEC2 WILD-TYPE     99     61     72    117
D359V7, multiclass
        clus
vv       IQSEC2 MUTATED IQSEC2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2             11               61
  CLUS_3              0               72
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IQSEC2 MUTATED        0      3      9      1      3
  IQSEC2 WILD-TYPE     59     72     65    118     35
D359V8, multiclass
        clus
vv       IQSEC2 MUTATED IQSEC2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              9               65
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IQSEC2 MUTATED        2     10      0      1      3
  IQSEC2 WILD-TYPE     49     66     61     70     92
D359V9, multiclass
        clus
vv       IQSEC2 MUTATED IQSEC2 WILD-TYPE
  CLUS_1              2               49
  CLUS_2             10               66
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IQSEC2 MUTATED        3      0      0      7      1      1      1      3
  IQSEC2 WILD-TYPE     66     48     39      9     52     19     20     35
                  vv
clus               CLUS_9
  IQSEC2 MUTATED        0
  IQSEC2 WILD-TYPE     50
D359V10, multiclass
        clus
vv       IQSEC2 MUTATED IQSEC2 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              7                9
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IQSEC2 MUTATED        0      0      0      0      1      0
  IQSEC2 WILD-TYPE     13     16     14     11     10      9
D359V11, multiclass
[1] "Remove cluster labels:" "IQSEC2 MUTATED"        
clus
  IQSEC2 MUTATED IQSEC2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-G4-6628 
"IQSEC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IQSEC2 MUTATED        0      0      0      1      0      0      0      0
  IQSEC2 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  IQSEC2 MUTATED        0
  IQSEC2 WILD-TYPE      5
D359V12, multiclass
[1] "Remove cluster labels:" "IQSEC2 MUTATED"        
clus
  IQSEC2 MUTATED IQSEC2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" "IQSEC2 WILD-TYPE" 
      TCGA-G4-6628 
"IQSEC2 WILD-TYPE" 

Clustering(360) Variable = RAB6C MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB6C MUTATED        0      0      0      0      0
  RAB6C WILD-TYPE     32     18     46     27     23
D360V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB6C MUTATED        0      0      0
  RAB6C WILD-TYPE     43     67     36
D360V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB6C MUTATED        0      2      3
  RAB6C WILD-TYPE     42    171    144
D360V3, multiclass
        clus
vv       RAB6C MUTATED RAB6C WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB6C MUTATED        2      1      2
  RAB6C WILD-TYPE     60     72     73
D360V4, multiclass
        clus
vv       RAB6C MUTATED RAB6C WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB6C MUTATED        0      0      2
  RAB6C WILD-TYPE     70    120     98
D360V5, multiclass
[1] "Remove cluster labels:" "RAB6C MUTATED"         
clus
  RAB6C MUTATED RAB6C WILD-TYPE 
              2             288 
     TCGA-A6-2671      TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-A6-5656      TCGA-A6-5657 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-5659      TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-5664      TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3489      TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3510      TCGA-AA-3511      TCGA-AA-3514      TCGA-AA-3517 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3525      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3548      TCGA-AA-3552 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3558 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3655 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3681 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696      TCGA-AA-3697 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3712      TCGA-AA-3713      TCGA-AA-3715 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3950 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982      TCGA-AA-3986 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00E 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01I      TCGA-AA-A01K 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02K      TCGA-AA-A02O      TCGA-AA-A02W 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A02Y      TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AD-5900 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6899      TCGA-AD-6965 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AZ-4682      TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AZ-6606      TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CA-5255      TCGA-CA-5796      TCGA-CA-5797      TCGA-CA-6715 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CA-6716      TCGA-CA-6719      TCGA-CK-5914      TCGA-CK-5916 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748      TCGA-CK-6751 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746      TCGA-CM-4747 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344      TCGA-CM-5348 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861      TCGA-CM-5862 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868      TCGA-CM-6161 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164      TCGA-CM-6165 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168      TCGA-CM-6169 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172      TCGA-CM-6674 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5538      TCGA-D5-5539 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-5540      TCGA-D5-5541      TCGA-D5-6529      TCGA-D5-6532 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6535      TCGA-D5-6536 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6537      TCGA-D5-6538      TCGA-D5-6539      TCGA-D5-6540 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6541      TCGA-D5-6898      TCGA-D5-6920      TCGA-D5-6922 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6923      TCGA-D5-6924      TCGA-D5-6926      TCGA-D5-6927 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6928      TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A0X9      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D4 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA      TCGA-DM-A1HB 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A28C      TCGA-DM-A28E      TCGA-DM-A28F 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A28G      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704      TCGA-F4-6805 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856      TCGA-G4-6293 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304      TCGA-G4-6306 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310      TCGA-G4-6315 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323      TCGA-G4-6586 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB6C MUTATED        1      0      0      0      0      1      0      0
  RAB6C WILD-TYPE     40     26     30     29     39     68     20     14
                 vv
clus              CLUS_9
  RAB6C MUTATED        0
  RAB6C WILD-TYPE     22
D360V6, multiclass
[1] "Remove cluster labels:" "RAB6C MUTATED"         
clus
  RAB6C MUTATED RAB6C WILD-TYPE 
              2             288 
     TCGA-A6-2671      TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-A6-5656      TCGA-A6-5657 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-5659      TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-5664      TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3489      TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3510      TCGA-AA-3511      TCGA-AA-3514      TCGA-AA-3517 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3525      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3548      TCGA-AA-3552 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3558 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3655 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3681 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696      TCGA-AA-3697 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3712      TCGA-AA-3713      TCGA-AA-3715 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3950 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982      TCGA-AA-3986 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00E 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01I      TCGA-AA-A01K 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02K      TCGA-AA-A02O      TCGA-AA-A02W 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-A02Y      TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AD-5900 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6899      TCGA-AD-6965 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AZ-4682      TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AZ-6606      TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CA-5255      TCGA-CA-5796      TCGA-CA-5797      TCGA-CA-6715 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CA-6716      TCGA-CA-6719      TCGA-CK-5914      TCGA-CK-5916 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748      TCGA-CK-6751 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746      TCGA-CM-4747 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344      TCGA-CM-5348 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861      TCGA-CM-5862 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868      TCGA-CM-6161 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164      TCGA-CM-6165 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168      TCGA-CM-6169 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172      TCGA-CM-6674 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5538      TCGA-D5-5539 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-5540      TCGA-D5-5541      TCGA-D5-6529      TCGA-D5-6532 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6535      TCGA-D5-6536 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6537      TCGA-D5-6538      TCGA-D5-6539      TCGA-D5-6540 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6541      TCGA-D5-6898      TCGA-D5-6920      TCGA-D5-6922 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6923      TCGA-D5-6924      TCGA-D5-6926      TCGA-D5-6927 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6928      TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A0X9      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D4 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA      TCGA-DM-A1HB 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A28C      TCGA-DM-A28E      TCGA-DM-A28F 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A28G      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704      TCGA-F4-6805 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856      TCGA-G4-6293 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304      TCGA-G4-6306 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310      TCGA-G4-6315 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323      TCGA-G4-6586 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAB6C MUTATED        2      1      2      0
  RAB6C WILD-TYPE     98     71     70    121
D360V7, multiclass
        clus
vv       RAB6C MUTATED RAB6C WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB6C MUTATED        1      2      2      0      0
  RAB6C WILD-TYPE     58     73     72    119     38
D360V8, multiclass
        clus
vv       RAB6C MUTATED RAB6C WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB6C MUTATED        2      2      1      0      0
  RAB6C WILD-TYPE     49     74     60     71     95
D360V9, multiclass
        clus
vv       RAB6C MUTATED RAB6C WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB6C MUTATED        1      2      0      1      0      1      0      0
  RAB6C WILD-TYPE     68     46     39     15     53     19     21     38
                 vv
clus              CLUS_9
  RAB6C MUTATED        0
  RAB6C WILD-TYPE     50
D360V10, multiclass
        clus
vv       RAB6C MUTATED RAB6C WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAB6C MUTATED        1      0      0      0      1      0
  RAB6C WILD-TYPE     12     16     14     11     10      9
D360V11, multiclass
[1] "Remove cluster labels:" "RAB6C MUTATED"         
clus
  RAB6C MUTATED RAB6C WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB6C MUTATED        0      0      0      0      0      0      1      0
  RAB6C WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  RAB6C MUTATED        1
  RAB6C WILD-TYPE      4
D360V12, multiclass
[1] "Remove cluster labels:" "RAB6C MUTATED"         
clus
  RAB6C MUTATED RAB6C WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" "RAB6C WILD-TYPE" 

Clustering(361) Variable = C9ORF131 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF131 MUTATED        2      0      0      2      0
  C9ORF131 WILD-TYPE     30     18     46     25     23
D361V1, multiclass
        clus
vv       C9ORF131 MUTATED C9ORF131 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF131 MUTATED        2      1      1
  C9ORF131 WILD-TYPE     41     66     35
D361V2, multiclass
        clus
vv       C9ORF131 MUTATED C9ORF131 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF131 MUTATED        1      0     12
  C9ORF131 WILD-TYPE     41    173    135
D361V3, multiclass
        clus
vv       C9ORF131 MUTATED C9ORF131 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                173
  CLUS_3               12                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF131 MUTATED        3      0      6
  C9ORF131 WILD-TYPE     59     73     69
D361V4, multiclass
        clus
vv       C9ORF131 MUTATED C9ORF131 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                0                 73
  CLUS_3                6                 69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF131 MUTATED        0      5      5
  C9ORF131 WILD-TYPE     70    115     95
D361V5, multiclass
        clus
vv       C9ORF131 MUTATED C9ORF131 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                5                115
  CLUS_3                5                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF131 MUTATED        1      0      1      3      0      4      0      0
  C9ORF131 WILD-TYPE     40     26     29     26     39     65     20     14
                    vv
clus                 CLUS_9
  C9ORF131 MUTATED        1
  C9ORF131 WILD-TYPE     21
D361V6, multiclass
        clus
vv       C9ORF131 MUTATED C9ORF131 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                3                 26
  CLUS_5                0                 39
  CLUS_6                4                 65
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C9ORF131 MUTATED        0      5      4      4
  C9ORF131 WILD-TYPE    100     67     68    117
D361V7, multiclass
        clus
vv       C9ORF131 MUTATED C9ORF131 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                5                 67
  CLUS_3                4                 68
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF131 MUTATED        1      0      8      2      2
  C9ORF131 WILD-TYPE     58     75     66    117     36
D361V8, multiclass
        clus
vv       C9ORF131 MUTATED C9ORF131 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                0                 75
  CLUS_3                8                 66
  CLUS_4                2                117
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF131 MUTATED        0      7      2      1      2
  C9ORF131 WILD-TYPE     51     69     59     70     93
D361V9, multiclass
        clus
vv       C9ORF131 MUTATED C9ORF131 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                7                 69
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF131 MUTATED        2      3      0      4      1      1      0      1
  C9ORF131 WILD-TYPE     67     45     39     12     52     19     21     37
                    vv
clus                 CLUS_9
  C9ORF131 MUTATED        0
  C9ORF131 WILD-TYPE     50
D361V10, multiclass
        clus
vv       C9ORF131 MUTATED C9ORF131 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                4                 12
  CLUS_5                1                 52
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C9ORF131 MUTATED        0      0      1      0      1      0
  C9ORF131 WILD-TYPE     13     16     13     11     10      9
D361V11, multiclass
[1] "Remove cluster labels:" "C9ORF131 MUTATED"      
clus
  C9ORF131 MUTATED C9ORF131 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF131 MUTATED        0      0      0      1      0      0      1      0
  C9ORF131 WILD-TYPE     11      7      7      8      8      7     10      9
                    vv
clus                 CLUS_9
  C9ORF131 MUTATED        0
  C9ORF131 WILD-TYPE      5
D361V12, multiclass
[1] "Remove cluster labels:" "C9ORF131 MUTATED"      
clus
  C9ORF131 MUTATED C9ORF131 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" "C9ORF131 WILD-TYPE" 

Clustering(362) Variable = C12ORF10 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF10 MUTATED        0      0      0      0      0
  C12ORF10 WILD-TYPE     32     18     46     27     23
D362V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF10 MUTATED        0      0      0
  C12ORF10 WILD-TYPE     43     67     36
D362V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF10 MUTATED        0      1      3
  C12ORF10 WILD-TYPE     42    172    144
D362V3, multiclass
        clus
vv       C12ORF10 MUTATED C12ORF10 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                1                172
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF10 MUTATED        0      0      4
  C12ORF10 WILD-TYPE     62     73     71
D362V4, multiclass
        clus
vv       C12ORF10 MUTATED C12ORF10 WILD-TYPE
  CLUS_1                0                 62
  CLUS_2                0                 73
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF10 MUTATED        1      2      0
  C12ORF10 WILD-TYPE     69    118    100
D362V5, multiclass
        clus
vv       C12ORF10 MUTATED C12ORF10 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                2                118
  CLUS_3                0                100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF10 MUTATED        0      0      0      1      0      0      2      0
  C12ORF10 WILD-TYPE     41     26     30     28     39     69     18     14
                    vv
clus                 CLUS_9
  C12ORF10 MUTATED        0
  C12ORF10 WILD-TYPE     22
D362V6, multiclass
        clus
vv       C12ORF10 MUTATED C12ORF10 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                0                 69
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C12ORF10 MUTATED        1      2      1      0
  C12ORF10 WILD-TYPE     99     70     71    121
D362V7, multiclass
        clus
vv       C12ORF10 MUTATED C12ORF10 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                2                 70
  CLUS_3                1                 71
  CLUS_4                0                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF10 MUTATED        0      2      2      0      0
  C12ORF10 WILD-TYPE     59     73     72    119     38
D362V8, multiclass
        clus
vv       C12ORF10 MUTATED C12ORF10 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                2                 73
  CLUS_3                2                 72
  CLUS_4                0                119
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF10 MUTATED        1      3      0      0      0
  C12ORF10 WILD-TYPE     50     73     61     71     95
D362V9, multiclass
        clus
vv       C12ORF10 MUTATED C12ORF10 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                3                 73
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                0                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF10 MUTATED        1      1      0      1      0      1      0      0
  C12ORF10 WILD-TYPE     68     47     39     15     53     19     21     38
                    vv
clus                 CLUS_9
  C12ORF10 MUTATED        0
  C12ORF10 WILD-TYPE     50
D362V10, multiclass
        clus
vv       C12ORF10 MUTATED C12ORF10 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C12ORF10 MUTATED        0      0      0      0      1      0
  C12ORF10 WILD-TYPE     13     16     14     11     10      9
D362V11, multiclass
[1] "Remove cluster labels:" "C12ORF10 MUTATED"      
clus
  C12ORF10 MUTATED C12ORF10 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6676         TCGA-CM-6677 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-D5-5537         TCGA-D5-6533         TCGA-D5-6534 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-D5-6536         TCGA-D5-6922         TCGA-D5-6924 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-DM-A0XD         TCGA-DM-A0XF         TCGA-DM-A1D0 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-DM-A1D7         TCGA-DM-A1D8         TCGA-DM-A1D9 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-DM-A1DA         TCGA-DM-A1HA         TCGA-DM-A282 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-DM-A285         TCGA-DM-A28F         TCGA-F4-6459 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6704 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-G4-6628 
"C12ORF10 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF10 MUTATED        0      0      0      0      1      0      0      0
  C12ORF10 WILD-TYPE     11      7      7      9      7      7     11      9
                    vv
clus                 CLUS_9
  C12ORF10 MUTATED        0
  C12ORF10 WILD-TYPE      5
D362V12, multiclass
[1] "Remove cluster labels:" "C12ORF10 MUTATED"      
clus
  C12ORF10 MUTATED C12ORF10 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6676         TCGA-CM-6677 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-D5-5537         TCGA-D5-6533         TCGA-D5-6534 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-D5-6536         TCGA-D5-6922         TCGA-D5-6924 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-DM-A0XD         TCGA-DM-A0XF         TCGA-DM-A1D0 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-DM-A1D7         TCGA-DM-A1D8         TCGA-DM-A1D9 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-DM-A1DA         TCGA-DM-A1HA         TCGA-DM-A282 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-DM-A285         TCGA-DM-A28F         TCGA-F4-6459 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6704 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" "C12ORF10 WILD-TYPE" 
        TCGA-G4-6628 
"C12ORF10 WILD-TYPE" 

Clustering(363) Variable = NUP54 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP54 MUTATED        0      0      0      1      0
  NUP54 WILD-TYPE     32     18     46     26     23
D363V1, multiclass
[1] "Remove cluster labels:" "NUP54 MUTATED"         
clus
  NUP54 MUTATED NUP54 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AY-4071 
"NUP54 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUP54 MUTATED        0      1      0
  NUP54 WILD-TYPE     43     66     36
D363V2, multiclass
[1] "Remove cluster labels:" "NUP54 MUTATED"         
clus
  NUP54 MUTATED NUP54 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" "NUP54 WILD-TYPE" 
     TCGA-AY-4071 
"NUP54 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUP54 MUTATED        2      1      5
  NUP54 WILD-TYPE     40    172    142
D363V3, multiclass
        clus
vv       NUP54 MUTATED NUP54 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUP54 MUTATED        3      2      2
  NUP54 WILD-TYPE     59     71     73
D363V4, multiclass
        clus
vv       NUP54 MUTATED NUP54 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUP54 MUTATED        1      4      3
  NUP54 WILD-TYPE     69    116     97
D363V5, multiclass
        clus
vv       NUP54 MUTATED NUP54 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP54 MUTATED        1      1      1      2      0      2      0      1
  NUP54 WILD-TYPE     40     25     29     27     39     67     20     13
                 vv
clus              CLUS_9
  NUP54 MUTATED        0
  NUP54 WILD-TYPE     22
D363V6, multiclass
        clus
vv       NUP54 MUTATED NUP54 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUP54 MUTATED        3      3      0      2
  NUP54 WILD-TYPE     97     69     72    119
D363V7, multiclass
        clus
vv       NUP54 MUTATED NUP54 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP54 MUTATED        1      2      3      2      0
  NUP54 WILD-TYPE     58     73     71    117     38
D363V8, multiclass
        clus
vv       NUP54 MUTATED NUP54 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP54 MUTATED        1      2      1      2      2
  NUP54 WILD-TYPE     50     74     60     69     93
D363V9, multiclass
        clus
vv       NUP54 MUTATED NUP54 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP54 MUTATED        5      0      0      0      1      1      0      0
  NUP54 WILD-TYPE     64     48     39     16     52     19     21     38
                 vv
clus              CLUS_9
  NUP54 MUTATED        1
  NUP54 WILD-TYPE     49
D363V10, multiclass
        clus
vv       NUP54 MUTATED NUP54 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUP54 MUTATED        0      1      1      1      0      0
  NUP54 WILD-TYPE     13     15     13     10     11      9
D363V11, multiclass
        clus
vv       NUP54 MUTATED NUP54 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP54 MUTATED        1      0      0      0      1      0      1      0
  NUP54 WILD-TYPE     10      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  NUP54 MUTATED        0
  NUP54 WILD-TYPE      5
D363V12, multiclass
        clus
vv       NUP54 MUTATED NUP54 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(364) Variable = PLEKHA6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHA6 MUTATED        6      0      1      0      0
  PLEKHA6 WILD-TYPE     26     18     45     27     23
D364V1, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               6                26
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHA6 MUTATED        6      1      0
  PLEKHA6 WILD-TYPE     37     66     36
D364V2, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               6                37
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHA6 MUTATED        1      0     17
  PLEKHA6 WILD-TYPE     41    173    130
D364V3, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               0               173
  CLUS_3              17               130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHA6 MUTATED        4      0      8
  PLEKHA6 WILD-TYPE     58     73     67
D364V4, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               0                73
  CLUS_3               8                67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHA6 MUTATED        1      5      9
  PLEKHA6 WILD-TYPE     69    115     91
D364V5, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               115
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHA6 MUTATED        0      1      0      2      2      8      2      0
  PLEKHA6 WILD-TYPE     41     25     30     27     37     61     18     14
                   vv
clus                CLUS_9
  PLEKHA6 MUTATED        0
  PLEKHA6 WILD-TYPE     22
D364V6, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               2                37
  CLUS_6               8                61
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLEKHA6 MUTATED        0      9      3      7
  PLEKHA6 WILD-TYPE    100     63     69    114
D364V7, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               9                63
  CLUS_3               3                69
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHA6 MUTATED        0      0     12      3      4
  PLEKHA6 WILD-TYPE     59     75     62    116     34
D364V8, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3              12                62
  CLUS_4               3               116
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHA6 MUTATED        0     11      1      1      5
  PLEKHA6 WILD-TYPE     51     65     60     70     90
D364V9, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               0                51
  CLUS_2              11                65
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHA6 MUTATED        3      3      0      5      1      0      2      4
  PLEKHA6 WILD-TYPE     66     45     39     11     52     20     19     34
                   vv
clus                CLUS_9
  PLEKHA6 MUTATED        0
  PLEKHA6 WILD-TYPE     50
D364V10, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               5                11
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               2                19
  CLUS_8               4                34
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLEKHA6 MUTATED        0      0      0      0      4      0
  PLEKHA6 WILD-TYPE     13     16     14     11      7      9
D364V11, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               4                 7
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHA6 MUTATED        0      0      0      3      0      1      0      0
  PLEKHA6 WILD-TYPE     11      7      7      6      8      6     11      9
                   vv
clus                CLUS_9
  PLEKHA6 MUTATED        0
  PLEKHA6 WILD-TYPE      5
D364V12, multiclass
        clus
vv       PLEKHA6 MUTATED PLEKHA6 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               3                 6
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(365) Variable = CYP4X1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP4X1 MUTATED        0      0      0      0      0
  CYP4X1 WILD-TYPE     32     18     46     27     23
D365V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP4X1 MUTATED        0      0      0
  CYP4X1 WILD-TYPE     43     67     36
D365V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP4X1 MUTATED        0      1      4
  CYP4X1 WILD-TYPE     42    172    143
D365V3, multiclass
        clus
vv       CYP4X1 MUTATED CYP4X1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP4X1 MUTATED        3      0      2
  CYP4X1 WILD-TYPE     59     73     73
D365V4, multiclass
        clus
vv       CYP4X1 MUTATED CYP4X1 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP4X1 MUTATED        1      2      1
  CYP4X1 WILD-TYPE     69    118     99
D365V5, multiclass
        clus
vv       CYP4X1 MUTATED CYP4X1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP4X1 MUTATED        1      0      0      0      0      0      0      2
  CYP4X1 WILD-TYPE     40     26     30     29     39     69     20     12
                  vv
clus               CLUS_9
  CYP4X1 MUTATED        1
  CYP4X1 WILD-TYPE     21
D365V6, multiclass
        clus
vv       CYP4X1 MUTATED CYP4X1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              0               69
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYP4X1 MUTATED        0      3      2      0
  CYP4X1 WILD-TYPE    100     69     70    121
D365V7, multiclass
        clus
vv       CYP4X1 MUTATED CYP4X1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP4X1 MUTATED        2      1      2      0      0
  CYP4X1 WILD-TYPE     57     74     72    119     38
D365V8, multiclass
        clus
vv       CYP4X1 MUTATED CYP4X1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP4X1 MUTATED        1      2      2      0      0
  CYP4X1 WILD-TYPE     50     74     59     71     95
D365V9, multiclass
        clus
vv       CYP4X1 MUTATED CYP4X1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP4X1 MUTATED        1      2      0      1      0      1      0      0
  CYP4X1 WILD-TYPE     68     46     39     15     53     19     21     38
                  vv
clus               CLUS_9
  CYP4X1 MUTATED        0
  CYP4X1 WILD-TYPE     50
D365V10, multiclass
        clus
vv       CYP4X1 MUTATED CYP4X1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CYP4X1 MUTATED        0      1      0      0      1      0
  CYP4X1 WILD-TYPE     13     15     14     11     10      9
D365V11, multiclass
[1] "Remove cluster labels:" "CYP4X1 MUTATED"        
clus
  CYP4X1 MUTATED CYP4X1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-G4-6299 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6625       TCGA-G4-6628 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP4X1 MUTATED        0      1      0      1      0      0      0      0
  CYP4X1 WILD-TYPE     11      6      7      8      8      7     11      9
                  vv
clus               CLUS_9
  CYP4X1 MUTATED        0
  CYP4X1 WILD-TYPE      5
D365V12, multiclass
[1] "Remove cluster labels:" "CYP4X1 MUTATED"        
clus
  CYP4X1 MUTATED CYP4X1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-G4-6299 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6625       TCGA-G4-6628 
"CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" "CYP4X1 WILD-TYPE" 

Clustering(366) Variable = DAXX MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DAXX MUTATED        0      0      0      0      0
  DAXX WILD-TYPE     32     18     46     27     23
D366V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DAXX MUTATED        0      0      0
  DAXX WILD-TYPE     43     67     36
D366V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DAXX MUTATED        0      6      6
  DAXX WILD-TYPE     42    167    141
D366V3, multiclass
        clus
vv       DAXX MUTATED DAXX WILD-TYPE
  CLUS_1            0             42
  CLUS_2            6            167
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DAXX MUTATED        4      5      3
  DAXX WILD-TYPE     58     68     72
D366V4, multiclass
        clus
vv       DAXX MUTATED DAXX WILD-TYPE
  CLUS_1            4             58
  CLUS_2            5             68
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DAXX MUTATED        0      3      9
  DAXX WILD-TYPE     70    117     91
D366V5, multiclass
        clus
vv       DAXX MUTATED DAXX WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DAXX MUTATED        2      1      0      0      0      6      2      1      0
  DAXX WILD-TYPE     39     25     30     29     39     63     18     13     22
D366V6, multiclass
        clus
vv       DAXX MUTATED DAXX WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            6             63
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DAXX MUTATED        5      3      4      0
  DAXX WILD-TYPE     95     69     68    121
D366V7, multiclass
        clus
vv       DAXX MUTATED DAXX WILD-TYPE
  CLUS_1            5             95
  CLUS_2            3             69
  CLUS_3            4             68
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DAXX MUTATED        4      3      5      0      0
  DAXX WILD-TYPE     55     72     69    119     38
D366V8, multiclass
        clus
vv       DAXX MUTATED DAXX WILD-TYPE
  CLUS_1            4             55
  CLUS_2            3             72
  CLUS_3            5             69
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DAXX MUTATED        3      7      2      0      0
  DAXX WILD-TYPE     48     69     59     71     95
D366V9, multiclass
        clus
vv       DAXX MUTATED DAXX WILD-TYPE
  CLUS_1            3             48
  CLUS_2            7             69
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DAXX MUTATED        2      5      1      2      1      1      0      0      0
  DAXX WILD-TYPE     67     43     38     14     52     19     21     38     50
D366V10, multiclass
        clus
vv       DAXX MUTATED DAXX WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DAXX MUTATED        0      1      0      1      2      0
  DAXX WILD-TYPE     13     15     14     10      9      9
D366V11, multiclass
        clus
vv       DAXX MUTATED DAXX WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DAXX MUTATED        0      1      0      1      0      0      2      0      0
  DAXX WILD-TYPE     11      6      7      8      8      7      9      9      5
D366V12, multiclass
        clus
vv       DAXX MUTATED DAXX WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(367) Variable = CDK17 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK17 MUTATED        0      0      0      4      0
  CDK17 WILD-TYPE     32     18     46     23     23
D367V1, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             0              32
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             4              23
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK17 MUTATED        2      2      0
  CDK17 WILD-TYPE     41     65     36
D367V2, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK17 MUTATED        3      1      7
  CDK17 WILD-TYPE     39    172    140
D367V3, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             1             172
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK17 MUTATED        2      1      4
  CDK17 WILD-TYPE     60     72     71
D367V4, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK17 MUTATED        1      3      4
  CDK17 WILD-TYPE     69    117     96
D367V5, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK17 MUTATED        0      0      1      2      0      4      0      1
  CDK17 WILD-TYPE     41     26     29     27     39     65     20     13
                 vv
clus              CLUS_9
  CDK17 MUTATED        0
  CDK17 WILD-TYPE     22
D367V6, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDK17 MUTATED        2      4      1      3
  CDK17 WILD-TYPE     98     68     71    118
D367V7, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK17 MUTATED        0      2      5      1      2
  CDK17 WILD-TYPE     59     73     69    118     36
D367V8, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK17 MUTATED        0      6      1      1      2
  CDK17 WILD-TYPE     51     70     60     70     93
D367V9, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK17 MUTATED        3      1      0      2      1      1      1      0
  CDK17 WILD-TYPE     66     47     39     14     52     19     20     38
                 vv
clus              CLUS_9
  CDK17 MUTATED        1
  CDK17 WILD-TYPE     49
D367V10, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDK17 MUTATED        0      0      1      0      2      0
  CDK17 WILD-TYPE     13     16     13     11      9      9
D367V11, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK17 MUTATED        0      0      0      1      1      0      1      0
  CDK17 WILD-TYPE     11      7      7      8      7      7     10      9
                 vv
clus              CLUS_9
  CDK17 MUTATED        0
  CDK17 WILD-TYPE      5
D367V12, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(368) Variable = SYNCRIP MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNCRIP MUTATED        0      0      1      1      0
  SYNCRIP WILD-TYPE     32     18     45     26     23
D368V1, multiclass
[1] "Remove cluster labels:" "SYNCRIP MUTATED"       
clus
  SYNCRIP MUTATED SYNCRIP WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A01D        TCGA-AA-A01F 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SYNCRIP MUTATED        0      2      0
  SYNCRIP WILD-TYPE     43     65     36
D368V2, multiclass
[1] "Remove cluster labels:" "SYNCRIP MUTATED"       
clus
  SYNCRIP MUTATED SYNCRIP WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A01D        TCGA-AA-A01F 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" "SYNCRIP WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SYNCRIP MUTATED        1      4      5
  SYNCRIP WILD-TYPE     41    169    142
D368V3, multiclass
        clus
vv       SYNCRIP MUTATED SYNCRIP WILD-TYPE
  CLUS_1               1                41
  CLUS_2               4               169
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SYNCRIP MUTATED        5      0      3
  SYNCRIP WILD-TYPE     57     73     72
D368V4, multiclass
        clus
vv       SYNCRIP MUTATED SYNCRIP WILD-TYPE
  CLUS_1               5                57
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SYNCRIP MUTATED        2      4      4
  SYNCRIP WILD-TYPE     68    116     96
D368V5, multiclass
        clus
vv       SYNCRIP MUTATED SYNCRIP WILD-TYPE
  CLUS_1               2                68
  CLUS_2               4               116
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNCRIP MUTATED        1      1      2      0      1      2      2      1
  SYNCRIP WILD-TYPE     40     25     28     29     38     67     18     13
                   vv
clus                CLUS_9
  SYNCRIP MUTATED        0
  SYNCRIP WILD-TYPE     22
D368V6, multiclass
        clus
vv       SYNCRIP MUTATED SYNCRIP WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               2                18
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SYNCRIP MUTATED        1      3      4      2
  SYNCRIP WILD-TYPE     99     69     68    119
D368V7, multiclass
        clus
vv       SYNCRIP MUTATED SYNCRIP WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               4                68
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNCRIP MUTATED        4      1      3      2      0
  SYNCRIP WILD-TYPE     55     74     71    117     38
D368V8, multiclass
        clus
vv       SYNCRIP MUTATED SYNCRIP WILD-TYPE
  CLUS_1               4                55
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               2               117
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNCRIP MUTATED        1      4      3      0      1
  SYNCRIP WILD-TYPE     50     72     58     71     94
D368V9, multiclass
        clus
vv       SYNCRIP MUTATED SYNCRIP WILD-TYPE
  CLUS_1               1                50
  CLUS_2               4                72
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNCRIP MUTATED        1      3      1      1      2      1      0      0
  SYNCRIP WILD-TYPE     68     45     38     15     51     19     21     38
                   vv
clus                CLUS_9
  SYNCRIP MUTATED        0
  SYNCRIP WILD-TYPE     50
D368V10, multiclass
        clus
vv       SYNCRIP MUTATED SYNCRIP WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SYNCRIP MUTATED        0      0      0      2      1      0
  SYNCRIP WILD-TYPE     13     16     14      9     10      9
D368V11, multiclass
        clus
vv       SYNCRIP MUTATED SYNCRIP WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               2                 9
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNCRIP MUTATED        0      0      0      0      0      0      3      0
  SYNCRIP WILD-TYPE     11      7      7      9      8      7      8      9
                   vv
clus                CLUS_9
  SYNCRIP MUTATED        0
  SYNCRIP WILD-TYPE      5
D368V12, multiclass
        clus
vv       SYNCRIP MUTATED SYNCRIP WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               3                 8
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(369) Variable = ENPEP MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENPEP MUTATED        3      0      0      3      0
  ENPEP WILD-TYPE     29     18     46     24     23
D369V1, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPEP MUTATED        3      3      0
  ENPEP WILD-TYPE     40     64     36
D369V2, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             3              40
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPEP MUTATED        1      5     15
  ENPEP WILD-TYPE     41    168    132
D369V3, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPEP MUTATED        8      2      5
  ENPEP WILD-TYPE     54     71     70
D369V4, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             8              54
  CLUS_2             2              71
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPEP MUTATED        5      7      5
  ENPEP WILD-TYPE     65    113     95
D369V5, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             5              65
  CLUS_2             7             113
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENPEP MUTATED        2      2      2      1      3      1      3      1
  ENPEP WILD-TYPE     39     24     28     28     36     68     17     13
                 vv
clus              CLUS_9
  ENPEP MUTATED        2
  ENPEP WILD-TYPE     20
D369V6, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             1              68
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ENPEP MUTATED        2      6      6      7
  ENPEP WILD-TYPE     98     66     66    114
D369V7, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             6              66
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENPEP MUTATED        3      3      8      3      4
  ENPEP WILD-TYPE     56     72     66    116     34
D369V8, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             8              66
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENPEP MUTATED        3      5      4      2      7
  ENPEP WILD-TYPE     48     71     57     69     88
D369V9, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             3              48
  CLUS_2             5              71
  CLUS_3             4              57
  CLUS_4             2              69
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENPEP MUTATED        5      4      1      1      3      1      0      5
  ENPEP WILD-TYPE     64     44     38     15     50     19     21     33
                 vv
clus              CLUS_9
  ENPEP MUTATED        1
  ENPEP WILD-TYPE     49
D369V10, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             5              64
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             5              33
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ENPEP MUTATED        0      2      2      1      1      1
  ENPEP WILD-TYPE     13     14     12     10     10      8
D369V11, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENPEP MUTATED        1      1      0      0      2      0      2      1
  ENPEP WILD-TYPE     10      6      7      9      6      7      9      8
                 vv
clus              CLUS_9
  ENPEP MUTATED        0
  ENPEP WILD-TYPE      5
D369V12, multiclass
        clus
vv       ENPEP MUTATED ENPEP WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(370) Variable = C6ORF89 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF89 MUTATED        3      0      0      0      0
  C6ORF89 WILD-TYPE     29     18     46     27     23
D370V1, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C6ORF89 MUTATED        2      0      1
  C6ORF89 WILD-TYPE     41     67     35
D370V2, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C6ORF89 MUTATED        1      1      4
  C6ORF89 WILD-TYPE     41    172    143
D370V3, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C6ORF89 MUTATED        2      1      0
  C6ORF89 WILD-TYPE     60     72     75
D370V4, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               0                75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C6ORF89 MUTATED        2      1      1
  C6ORF89 WILD-TYPE     68    119     99
D370V5, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               1               119
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF89 MUTATED        0      0      0      0      1      2      0      0
  C6ORF89 WILD-TYPE     41     26     30     29     38     67     20     14
                   vv
clus                CLUS_9
  C6ORF89 MUTATED        1
  C6ORF89 WILD-TYPE     21
D370V6, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C6ORF89 MUTATED        1      0      2      3
  C6ORF89 WILD-TYPE     99     72     70    118
D370V7, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               0                72
  CLUS_3               2                70
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF89 MUTATED        2      0      1      1      2
  C6ORF89 WILD-TYPE     57     75     73    118     36
D370V8, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               0                75
  CLUS_3               1                73
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF89 MUTATED        0      1      1      3      1
  C6ORF89 WILD-TYPE     51     75     60     68     94
D370V9, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               1                75
  CLUS_3               1                60
  CLUS_4               3                68
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF89 MUTATED        2      1      0      0      2      0      0      1
  C6ORF89 WILD-TYPE     67     47     39     16     51     20     21     37
                   vv
clus                CLUS_9
  C6ORF89 MUTATED        0
  C6ORF89 WILD-TYPE     50
D370V10, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C6ORF89 MUTATED        0      2      0      1      0      0
  C6ORF89 WILD-TYPE     13     14     14     10     11      9
D370V11, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               2                14
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF89 MUTATED        1      1      0      0      0      0      1      0
  C6ORF89 WILD-TYPE     10      6      7      9      8      7     10      9
                   vv
clus                CLUS_9
  C6ORF89 MUTATED        0
  C6ORF89 WILD-TYPE      5
D370V12, multiclass
        clus
vv       C6ORF89 MUTATED C6ORF89 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(371) Variable = USP7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP7 MUTATED        3      0      0      2      0
  USP7 WILD-TYPE     29     18     46     25     23
D371V1, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USP7 MUTATED        3      1      1
  USP7 WILD-TYPE     40     66     35
D371V2, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USP7 MUTATED        1      4     19
  USP7 WILD-TYPE     41    169    128
D371V3, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3           19            128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USP7 MUTATED        7      3      7
  USP7 WILD-TYPE     55     70     68
D371V4, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            3             70
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USP7 MUTATED        1      9     10
  USP7 WILD-TYPE     69    111     90
D371V5, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            9            111
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  USP7 MUTATED        1      4      3      2      1      9      0      0      0
  USP7 WILD-TYPE     40     22     27     27     38     60     20     14     22
D371V6, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            4             22
  CLUS_3            3             27
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            9             60
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP7 MUTATED        2     10      5      7
  USP7 WILD-TYPE     98     62     67    114
D371V7, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            2             98
  CLUS_2           10             62
  CLUS_3            5             67
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP7 MUTATED        1      6     10      3      4
  USP7 WILD-TYPE     58     69     64    116     34
D371V8, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            6             69
  CLUS_3           10             64
  CLUS_4            3            116
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP7 MUTATED        3     11      1      1      7
  USP7 WILD-TYPE     48     65     60     70     88
D371V9, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            3             48
  CLUS_2           11             65
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  USP7 MUTATED        4      3      0      5      1      5      1      2      2
  USP7 WILD-TYPE     65     45     39     11     52     15     20     36     48
D371V10, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            5             11
  CLUS_5            1             52
  CLUS_6            5             15
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USP7 MUTATED        0      0      0      0      3      0
  USP7 WILD-TYPE     13     16     14     11      8      9
D371V11, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  USP7 MUTATED        0      0      0      2      0      0      1      0      0
  USP7 WILD-TYPE     11      7      7      7      8      7     10      9      5
D371V12, multiclass
        clus
vv       USP7 MUTATED USP7 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(372) Variable = CCAR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCAR1 MUTATED        3      0      0      0      1
  CCAR1 WILD-TYPE     29     18     46     27     22
D372V1, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCAR1 MUTATED        2      0      2
  CCAR1 WILD-TYPE     41     67     34
D372V2, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCAR1 MUTATED        2      4     12
  CCAR1 WILD-TYPE     40    169    135
D372V3, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4             169
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCAR1 MUTATED        8      1      5
  CCAR1 WILD-TYPE     54     72     70
D372V4, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCAR1 MUTATED        1      6      7
  CCAR1 WILD-TYPE     69    114     93
D372V5, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCAR1 MUTATED        3      2      0      3      0      4      2      0
  CCAR1 WILD-TYPE     38     24     30     26     39     65     18     14
                 vv
clus              CLUS_9
  CCAR1 MUTATED        0
  CCAR1 WILD-TYPE     22
D372V6, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCAR1 MUTATED        3      5      5      5
  CCAR1 WILD-TYPE     97     67     67    116
D372V7, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             5              67
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCAR1 MUTATED        2      4      7      3      2
  CCAR1 WILD-TYPE     57     71     67    116     36
D372V8, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCAR1 MUTATED        2      7      1      4      4
  CCAR1 WILD-TYPE     49     69     60     67     91
D372V9, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             4              67
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCAR1 MUTATED        6      2      2      1      1      1      0      2
  CCAR1 WILD-TYPE     63     46     37     15     52     19     21     36
                 vv
clus              CLUS_9
  CCAR1 MUTATED        3
  CCAR1 WILD-TYPE     47
D372V10, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCAR1 MUTATED        0      2      2      0      2      0
  CCAR1 WILD-TYPE     13     14     12     11      9      9
D372V11, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCAR1 MUTATED        0      1      1      1      0      1      2      0
  CCAR1 WILD-TYPE     11      6      6      8      8      6      9      9
                 vv
clus              CLUS_9
  CCAR1 MUTATED        0
  CCAR1 WILD-TYPE      5
D372V12, multiclass
        clus
vv       CCAR1 MUTATED CCAR1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(373) Variable = SLC7A10 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC7A10 MUTATED        1      0      0      1      0
  SLC7A10 WILD-TYPE     31     18     46     26     23
D373V1, multiclass
[1] "Remove cluster labels:" "SLC7A10 MUTATED"       
clus
  SLC7A10 MUTATED SLC7A10 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3666        TCGA-AA-3667 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3821 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC7A10 MUTATED        1      1      0
  SLC7A10 WILD-TYPE     42     66     36
D373V2, multiclass
[1] "Remove cluster labels:" "SLC7A10 MUTATED"       
clus
  SLC7A10 MUTATED SLC7A10 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3666        TCGA-AA-3667 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3821 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" "SLC7A10 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC7A10 MUTATED        1      0      7
  SLC7A10 WILD-TYPE     41    173    140
D373V3, multiclass
        clus
vv       SLC7A10 MUTATED SLC7A10 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               0               173
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC7A10 MUTATED        3      0      3
  SLC7A10 WILD-TYPE     59     73     72
D373V4, multiclass
        clus
vv       SLC7A10 MUTATED SLC7A10 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC7A10 MUTATED        0      5      3
  SLC7A10 WILD-TYPE     70    115     97
D373V5, multiclass
        clus
vv       SLC7A10 MUTATED SLC7A10 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               5               115
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC7A10 MUTATED        0      1      0      2      2      3      0      0
  SLC7A10 WILD-TYPE     41     25     30     27     37     66     20     14
                   vv
clus                CLUS_9
  SLC7A10 MUTATED        0
  SLC7A10 WILD-TYPE     22
D373V6, multiclass
        clus
vv       SLC7A10 MUTATED SLC7A10 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               2                37
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC7A10 MUTATED        0      3      3      2
  SLC7A10 WILD-TYPE    100     69     69    119
D373V7, multiclass
        clus
vv       SLC7A10 MUTATED SLC7A10 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC7A10 MUTATED        0      0      6      0      2
  SLC7A10 WILD-TYPE     59     75     68    119     36
D373V8, multiclass
        clus
vv       SLC7A10 MUTATED SLC7A10 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               6                68
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC7A10 MUTATED        0      5      1      0      2
  SLC7A10 WILD-TYPE     51     71     60     71     93
D373V9, multiclass
        clus
vv       SLC7A10 MUTATED SLC7A10 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               5                71
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC7A10 MUTATED        0      3      0      3      0      0      0      2
  SLC7A10 WILD-TYPE     69     45     39     13     53     20     21     36
                   vv
clus                CLUS_9
  SLC7A10 MUTATED        0
  SLC7A10 WILD-TYPE     50
D373V10, multiclass
        clus
vv       SLC7A10 MUTATED SLC7A10 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC7A10 MUTATED        0      0      1      0      2      0
  SLC7A10 WILD-TYPE     13     16     13     11      9      9
D373V11, multiclass
        clus
vv       SLC7A10 MUTATED SLC7A10 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC7A10 MUTATED        0      0      0      2      0      1      0      0
  SLC7A10 WILD-TYPE     11      7      7      7      8      6     11      9
                   vv
clus                CLUS_9
  SLC7A10 MUTATED        0
  SLC7A10 WILD-TYPE      5
D373V12, multiclass
        clus
vv       SLC7A10 MUTATED SLC7A10 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(374) Variable = GTF2IRD2 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF2IRD2 MUTATED        0      0      0      0      0
  GTF2IRD2 WILD-TYPE     32     18     46     27     23
D374V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  GTF2IRD2 MUTATED        0      0      0
  GTF2IRD2 WILD-TYPE     43     67     36
D374V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  GTF2IRD2 MUTATED        2      1      3
  GTF2IRD2 WILD-TYPE     40    172    144
D374V3, multiclass
        clus
vv       GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                1                172
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  GTF2IRD2 MUTATED        3      1      2
  GTF2IRD2 WILD-TYPE     59     72     73
D374V4, multiclass
        clus
vv       GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                1                 72
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  GTF2IRD2 MUTATED        0      0      6
  GTF2IRD2 WILD-TYPE     70    120     94
D374V5, multiclass
        clus
vv       GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                0                120
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTF2IRD2 MUTATED        3      0      0      0      0      2      0      0
  GTF2IRD2 WILD-TYPE     38     26     30     29     39     67     20     14
                    vv
clus                 CLUS_9
  GTF2IRD2 MUTATED        1
  GTF2IRD2 WILD-TYPE     21
D374V6, multiclass
        clus
vv       GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                2                 67
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GTF2IRD2 MUTATED        1      2      3      0
  GTF2IRD2 WILD-TYPE     99     70     69    121
D374V7, multiclass
        clus
vv       GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                2                 70
  CLUS_3                3                 69
  CLUS_4                0                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF2IRD2 MUTATED        4      0      2      0      0
  GTF2IRD2 WILD-TYPE     55     75     72    119     38
D374V8, multiclass
        clus
vv       GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE
  CLUS_1                4                 55
  CLUS_2                0                 75
  CLUS_3                2                 72
  CLUS_4                0                119
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF2IRD2 MUTATED        2      2      2      0      0
  GTF2IRD2 WILD-TYPE     49     74     59     71     95
D374V9, multiclass
        clus
vv       GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                2                 74
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                0                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTF2IRD2 MUTATED        2      2      0      1      1      0      0      0
  GTF2IRD2 WILD-TYPE     67     46     39     15     52     20     21     38
                    vv
clus                 CLUS_9
  GTF2IRD2 MUTATED        0
  GTF2IRD2 WILD-TYPE     50
D374V10, multiclass
        clus
vv       GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GTF2IRD2 MUTATED        0      0      0      0      0      1
  GTF2IRD2 WILD-TYPE     13     16     14     11     11      8
D374V11, multiclass
[1] "Remove cluster labels:" "GTF2IRD2 MUTATED"      
clus
  GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-6167         TCGA-CM-6674 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-G4-6628 
"GTF2IRD2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTF2IRD2 MUTATED        1      0      0      0      0      0      0      0
  GTF2IRD2 WILD-TYPE     10      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  GTF2IRD2 MUTATED        0
  GTF2IRD2 WILD-TYPE      5
D374V12, multiclass
[1] "Remove cluster labels:" "GTF2IRD2 MUTATED"      
clus
  GTF2IRD2 MUTATED GTF2IRD2 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-6167         TCGA-CM-6674 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" "GTF2IRD2 WILD-TYPE" 
        TCGA-G4-6628 
"GTF2IRD2 WILD-TYPE" 

Clustering(375) Variable = TIFA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIFA MUTATED        1      0      0      0      0
  TIFA WILD-TYPE     31     18     46     27     23
D375V1, multiclass
[1] "Remove cluster labels:" "TIFA MUTATED"          
clus
  TIFA MUTATED TIFA WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AY-4071 
"TIFA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TIFA MUTATED        0      0      1
  TIFA WILD-TYPE     43     67     35
D375V2, multiclass
[1] "Remove cluster labels:" "TIFA MUTATED"          
clus
  TIFA MUTATED TIFA WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" "TIFA WILD-TYPE" 
    TCGA-AY-4071 
"TIFA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TIFA MUTATED        1      3      2
  TIFA WILD-TYPE     41    170    145
D375V3, multiclass
        clus
vv       TIFA MUTATED TIFA WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TIFA MUTATED        1      3      1
  TIFA WILD-TYPE     61     70     74
D375V4, multiclass
        clus
vv       TIFA MUTATED TIFA WILD-TYPE
  CLUS_1            1             61
  CLUS_2            3             70
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TIFA MUTATED        1      2      1
  TIFA WILD-TYPE     69    118     99
D375V5, multiclass
        clus
vv       TIFA MUTATED TIFA WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TIFA MUTATED        0      0      0      1      1      1      0      0      1
  TIFA WILD-TYPE     41     26     30     28     38     68     20     14     21
D375V6, multiclass
        clus
vv       TIFA MUTATED TIFA WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TIFA MUTATED        2      1      2      1
  TIFA WILD-TYPE     98     71     70    120
D375V7, multiclass
        clus
vv       TIFA MUTATED TIFA WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIFA MUTATED        2      2      1      1      0
  TIFA WILD-TYPE     57     73     73    118     38
D375V8, multiclass
        clus
vv       TIFA MUTATED TIFA WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            1             73
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIFA MUTATED        2      2      1      1      0
  TIFA WILD-TYPE     49     74     60     70     95
D375V9, multiclass
        clus
vv       TIFA MUTATED TIFA WILD-TYPE
  CLUS_1            2             49
  CLUS_2            2             74
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TIFA MUTATED        1      0      1      1      3      0      0      0      0
  TIFA WILD-TYPE     68     48     38     15     50     20     21     38     50
D375V10, multiclass
        clus
vv       TIFA MUTATED TIFA WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TIFA MUTATED        0      0      0      0      0      0
  TIFA WILD-TYPE     13     16     14     11     11      9
D375V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TIFA MUTATED        0      0      0      0      0      0      0      0      0
  TIFA WILD-TYPE     11      7      7      9      8      7     11      9      5
D375V12, multiclass

Clustering(376) Variable = MFN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFN1 MUTATED        1      0      0      0      0
  MFN1 WILD-TYPE     31     18     46     27     23
D376V1, multiclass
[1] "Remove cluster labels:" "MFN1 MUTATED"          
clus
  MFN1 MUTATED MFN1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3517 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AY-4071 
"MFN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MFN1 MUTATED        1      0      0
  MFN1 WILD-TYPE     42     67     36
D376V2, multiclass
[1] "Remove cluster labels:" "MFN1 MUTATED"          
clus
  MFN1 MUTATED MFN1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3517 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" "MFN1 WILD-TYPE" 
    TCGA-AY-4071 
"MFN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MFN1 MUTATED        1      4      8
  MFN1 WILD-TYPE     41    169    139
D376V3, multiclass
        clus
vv       MFN1 MUTATED MFN1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MFN1 MUTATED        2      4      6
  MFN1 WILD-TYPE     60     69     69
D376V4, multiclass
        clus
vv       MFN1 MUTATED MFN1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            4             69
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MFN1 MUTATED        0      4      7
  MFN1 WILD-TYPE     70    116     93
D376V5, multiclass
        clus
vv       MFN1 MUTATED MFN1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MFN1 MUTATED        1      0      0      5      0      5      0      0      0
  MFN1 WILD-TYPE     40     26     30     24     39     64     20     14     22
D376V6, multiclass
        clus
vv       MFN1 MUTATED MFN1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            5             24
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MFN1 MUTATED        3      3      6      1
  MFN1 WILD-TYPE     97     69     66    120
D376V7, multiclass
        clus
vv       MFN1 MUTATED MFN1 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            3             69
  CLUS_3            6             66
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFN1 MUTATED        1      4      7      0      1
  MFN1 WILD-TYPE     58     71     67    119     37
D376V8, multiclass
        clus
vv       MFN1 MUTATED MFN1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            4             71
  CLUS_3            7             67
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFN1 MUTATED        2      6      3      1      1
  MFN1 WILD-TYPE     49     70     58     70     94
D376V9, multiclass
        clus
vv       MFN1 MUTATED MFN1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MFN1 MUTATED        2      5      1      1      2      1      0      1      0
  MFN1 WILD-TYPE     67     43     38     15     51     19     21     37     50
D376V10, multiclass
        clus
vv       MFN1 MUTATED MFN1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MFN1 MUTATED        2      0      1      1      2      0
  MFN1 WILD-TYPE     11     16     13     10      9      9
D376V11, multiclass
        clus
vv       MFN1 MUTATED MFN1 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MFN1 MUTATED        0      0      1      1      1      0      2      0      1
  MFN1 WILD-TYPE     11      7      6      8      7      7      9      9      4
D376V12, multiclass
        clus
vv       MFN1 MUTATED MFN1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(377) Variable = AMOT MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMOT MUTATED        2      0      0      0      0
  AMOT WILD-TYPE     30     18     46     27     23
D377V1, multiclass
[1] "Remove cluster labels:" "AMOT MUTATED"          
clus
  AMOT MUTATED AMOT WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2677     TCGA-A6-2678 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AMOT MUTATED        2      0      0
  AMOT WILD-TYPE     41     67     36
D377V2, multiclass
[1] "Remove cluster labels:" "AMOT MUTATED"          
clus
  AMOT MUTATED AMOT WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2677     TCGA-A6-2678 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AMOT MUTATED        2      0     11
  AMOT WILD-TYPE     40    173    136
D377V3, multiclass
        clus
vv       AMOT MUTATED AMOT WILD-TYPE
  CLUS_1            2             40
  CLUS_2            0            173
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AMOT MUTATED        4      1      5
  AMOT WILD-TYPE     58     72     70
D377V4, multiclass
        clus
vv       AMOT MUTATED AMOT WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AMOT MUTATED        3      4      5
  AMOT WILD-TYPE     67    116     95
D377V5, multiclass
        clus
vv       AMOT MUTATED AMOT WILD-TYPE
  CLUS_1            3             67
  CLUS_2            4            116
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AMOT MUTATED        1      1      0      2      2      3      3      0      0
  AMOT WILD-TYPE     40     25     30     27     37     66     17     14     22
D377V6, multiclass
        clus
vv       AMOT MUTATED AMOT WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMOT MUTATED        2      5      4      2
  AMOT WILD-TYPE     98     67     68    119
D377V7, multiclass
        clus
vv       AMOT MUTATED AMOT WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMOT MUTATED        1      3      7      0      2
  AMOT WILD-TYPE     58     72     67    119     36
D377V8, multiclass
        clus
vv       AMOT MUTATED AMOT WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            7             67
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMOT MUTATED        1      5      1      1      4
  AMOT WILD-TYPE     50     71     60     70     91
D377V9, multiclass
        clus
vv       AMOT MUTATED AMOT WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AMOT MUTATED        3      2      1      1      1      0      1      2      1
  AMOT WILD-TYPE     66     46     38     15     52     20     20     36     49
D377V10, multiclass
        clus
vv       AMOT MUTATED AMOT WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMOT MUTATED        1      0      0      0      1      0
  AMOT WILD-TYPE     12     16     14     11     10      9
D377V11, multiclass
[1] "Remove cluster labels:" "AMOT MUTATED"          
clus
  AMOT MUTATED AMOT WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D9 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AMOT MUTATED        0      0      0      0      0      1      0      1      0
  AMOT WILD-TYPE     11      7      7      9      8      6     11      8      5
D377V12, multiclass
[1] "Remove cluster labels:" "AMOT MUTATED"          
clus
  AMOT MUTATED AMOT WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D9 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" "AMOT WILD-TYPE" 

Clustering(378) Variable = ZNF449 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF449 MUTATED        1      0      0      0      0
  ZNF449 WILD-TYPE     31     18     46     27     23
D378V1, multiclass
[1] "Remove cluster labels:" "ZNF449 MUTATED"        
clus
  ZNF449 MUTATED ZNF449 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A01K       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF449 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF449 MUTATED        1      0      0
  ZNF449 WILD-TYPE     42     67     36
D378V2, multiclass
[1] "Remove cluster labels:" "ZNF449 MUTATED"        
clus
  ZNF449 MUTATED ZNF449 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A01K       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF449 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF449 MUTATED        1      0      9
  ZNF449 WILD-TYPE     41    173    138
D378V3, multiclass
        clus
vv       ZNF449 MUTATED ZNF449 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF449 MUTATED        2      0      7
  ZNF449 WILD-TYPE     60     73     68
D378V4, multiclass
        clus
vv       ZNF449 MUTATED ZNF449 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF449 MUTATED        1      3      5
  ZNF449 WILD-TYPE     69    117     95
D378V5, multiclass
        clus
vv       ZNF449 MUTATED ZNF449 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF449 MUTATED        1      0      0      2      0      4      1      1
  ZNF449 WILD-TYPE     40     26     30     27     39     65     19     13
                  vv
clus               CLUS_9
  ZNF449 MUTATED        0
  ZNF449 WILD-TYPE     22
D378V6, multiclass
        clus
vv       ZNF449 MUTATED ZNF449 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF449 MUTATED        1      5      3      1
  ZNF449 WILD-TYPE     99     67     69    120
D378V7, multiclass
        clus
vv       ZNF449 MUTATED ZNF449 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              5               67
  CLUS_3              3               69
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF449 MUTATED        1      1      7      0      1
  ZNF449 WILD-TYPE     58     74     67    119     37
D378V8, multiclass
        clus
vv       ZNF449 MUTATED ZNF449 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              7               67
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF449 MUTATED        0      7      2      0      0
  ZNF449 WILD-TYPE     51     69     59     71     95
D378V9, multiclass
        clus
vv       ZNF449 MUTATED ZNF449 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              7               69
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF449 MUTATED        1      3      1      3      1      0      0      0
  ZNF449 WILD-TYPE     68     45     38     13     52     20     21     38
                  vv
clus               CLUS_9
  ZNF449 MUTATED        0
  ZNF449 WILD-TYPE     50
D378V10, multiclass
        clus
vv       ZNF449 MUTATED ZNF449 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF449 MUTATED        0      2      0      0      0      0
  ZNF449 WILD-TYPE     13     14     14     11     11      9
D378V11, multiclass
[1] "Remove cluster labels:" "ZNF449 MUTATED"        
clus
  ZNF449 MUTATED ZNF449 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6807 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF449 MUTATED        0      1      0      0      0      0      1      0
  ZNF449 WILD-TYPE     11      6      7      9      8      7     10      9
                  vv
clus               CLUS_9
  ZNF449 MUTATED        0
  ZNF449 WILD-TYPE      5
D378V12, multiclass
[1] "Remove cluster labels:" "ZNF449 MUTATED"        
clus
  ZNF449 MUTATED ZNF449 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6807 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" "ZNF449 WILD-TYPE" 

Clustering(379) Variable = SMARCA4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMARCA4 MUTATED        3      0      1      2      1
  SMARCA4 WILD-TYPE     29     18     45     25     22
D379V1, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               2                25
  CLUS_5               1                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        3      4      0
  SMARCA4 WILD-TYPE     40     63     36
D379V2, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               4                63
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        4      6     19
  SMARCA4 WILD-TYPE     38    167    128
D379V3, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               4                38
  CLUS_2               6               167
  CLUS_3              19               128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED       11      3      9
  SMARCA4 WILD-TYPE     51     70     66
D379V4, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1              11                51
  CLUS_2               3                70
  CLUS_3               9                66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        4      9     11
  SMARCA4 WILD-TYPE     66    111     89
D379V5, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               4                66
  CLUS_2               9               111
  CLUS_3              11                89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMARCA4 MUTATED        4      3      1      2      3      7      3      1
  SMARCA4 WILD-TYPE     37     23     29     27     36     62     17     13
                   vv
clus                CLUS_9
  SMARCA4 MUTATED        0
  SMARCA4 WILD-TYPE     22
D379V6, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               4                37
  CLUS_2               3                23
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               3                36
  CLUS_6               7                62
  CLUS_7               3                17
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCA4 MUTATED        4      9      9      7
  SMARCA4 WILD-TYPE     96     63     63    114
D379V7, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               4                96
  CLUS_2               9                63
  CLUS_3               9                63
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMARCA4 MUTATED        6      2     13      5      3
  SMARCA4 WILD-TYPE     53     73     61    114     35
D379V8, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               6                53
  CLUS_2               2                73
  CLUS_3              13                61
  CLUS_4               5               114
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMARCA4 MUTATED        2     13      6      0      9
  SMARCA4 WILD-TYPE     49     63     55     71     86
D379V9, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               2                49
  CLUS_2              13                63
  CLUS_3               6                55
  CLUS_4               0                71
  CLUS_5               9                86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMARCA4 MUTATED        2      8      1      5      5      3      0      4
  SMARCA4 WILD-TYPE     67     40     38     11     48     17     21     34
                   vv
clus                CLUS_9
  SMARCA4 MUTATED        2
  SMARCA4 WILD-TYPE     48
D379V10, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               8                40
  CLUS_3               1                38
  CLUS_4               5                11
  CLUS_5               5                48
  CLUS_6               3                17
  CLUS_7               0                21
  CLUS_8               4                34
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMARCA4 MUTATED        0      1      2      1      5      0
  SMARCA4 WILD-TYPE     13     15     12     10      6      9
D379V11, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               2                12
  CLUS_4               1                10
  CLUS_5               5                 6
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMARCA4 MUTATED        0      0      0      3      1      3      2      0
  SMARCA4 WILD-TYPE     11      7      7      6      7      4      9      9
                   vv
clus                CLUS_9
  SMARCA4 MUTATED        0
  SMARCA4 WILD-TYPE      5
D379V12, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               3                 6
  CLUS_5               1                 7
  CLUS_6               3                 4
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(380) Variable = IGFBP7 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGFBP7 MUTATED        1      0      0      0      0
  IGFBP7 WILD-TYPE     31     18     46     27     23
D380V1, multiclass
[1] "Remove cluster labels:" "IGFBP7 MUTATED"        
clus
  IGFBP7 MUTATED IGFBP7 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AY-4071 
"IGFBP7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGFBP7 MUTATED        1      0      0
  IGFBP7 WILD-TYPE     42     67     36
D380V2, multiclass
[1] "Remove cluster labels:" "IGFBP7 MUTATED"        
clus
  IGFBP7 MUTATED IGFBP7 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AY-4071 
"IGFBP7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGFBP7 MUTATED        0      2      1
  IGFBP7 WILD-TYPE     42    171    146
D380V3, multiclass
        clus
vv       IGFBP7 MUTATED IGFBP7 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              1              146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGFBP7 MUTATED        1      2      0
  IGFBP7 WILD-TYPE     61     71     75
D380V4, multiclass
        clus
vv       IGFBP7 MUTATED IGFBP7 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGFBP7 MUTATED        0      1      3
  IGFBP7 WILD-TYPE     70    119     97
D380V5, multiclass
        clus
vv       IGFBP7 MUTATED IGFBP7 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGFBP7 MUTATED        0      0      0      0      0      2      1      0
  IGFBP7 WILD-TYPE     41     26     30     29     39     67     19     14
                  vv
clus               CLUS_9
  IGFBP7 MUTATED        1
  IGFBP7 WILD-TYPE     21
D380V6, multiclass
        clus
vv       IGFBP7 MUTATED IGFBP7 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IGFBP7 MUTATED        1      0      2      1
  IGFBP7 WILD-TYPE     99     72     70    120
D380V7, multiclass
        clus
vv       IGFBP7 MUTATED IGFBP7 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              0               72
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGFBP7 MUTATED        2      1      0      0      1
  IGFBP7 WILD-TYPE     57     74     74    119     37
D380V8, multiclass
        clus
vv       IGFBP7 MUTATED IGFBP7 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              0               74
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGFBP7 MUTATED        2      0      1      0      1
  IGFBP7 WILD-TYPE     49     76     60     71     94
D380V9, multiclass
        clus
vv       IGFBP7 MUTATED IGFBP7 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              0               76
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGFBP7 MUTATED        0      1      0      0      1      1      0      1
  IGFBP7 WILD-TYPE     69     47     39     16     52     19     21     37
                  vv
clus               CLUS_9
  IGFBP7 MUTATED        0
  IGFBP7 WILD-TYPE     50
D380V10, multiclass
        clus
vv       IGFBP7 MUTATED IGFBP7 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IGFBP7 MUTATED        1      1      0      0      0      0
  IGFBP7 WILD-TYPE     12     15     14     11     11      9
D380V11, multiclass
[1] "Remove cluster labels:" "IGFBP7 MUTATED"        
clus
  IGFBP7 MUTATED IGFBP7 WILD-TYPE 
               2               72 
      TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGFBP7 MUTATED        0      1      0      0      0      0      0      0
  IGFBP7 WILD-TYPE     11      6      7      9      8      7     11      9
                  vv
clus               CLUS_9
  IGFBP7 MUTATED        1
  IGFBP7 WILD-TYPE      4
D380V12, multiclass
[1] "Remove cluster labels:" "IGFBP7 MUTATED"        
clus
  IGFBP7 MUTATED IGFBP7 WILD-TYPE 
               2               72 
      TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" "IGFBP7 WILD-TYPE" 

Clustering(381) Variable = MARK1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MARK1 MUTATED        5      0      0      1      0
  MARK1 WILD-TYPE     27     18     46     26     23
D381V1, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MARK1 MUTATED        4      1      1
  MARK1 WILD-TYPE     39     66     35
D381V2, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MARK1 MUTATED        3      6     16
  MARK1 WILD-TYPE     39    167    131
D381V3, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             6             167
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MARK1 MUTATED        7      4      8
  MARK1 WILD-TYPE     55     69     67
D381V4, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             4              69
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MARK1 MUTATED        2      8      7
  MARK1 WILD-TYPE     68    112     93
D381V5, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             8             112
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MARK1 MUTATED        4      2      0      2      1      3      1      1
  MARK1 WILD-TYPE     37     24     30     27     38     66     19     13
                 vv
clus              CLUS_9
  MARK1 MUTATED        3
  MARK1 WILD-TYPE     19
D381V6, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MARK1 MUTATED        6      8      4      7
  MARK1 WILD-TYPE     94     64     68    114
D381V7, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             6              94
  CLUS_2             8              64
  CLUS_3             4              68
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MARK1 MUTATED        5      6      6      4      4
  MARK1 WILD-TYPE     54     69     68    115     34
D381V8, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             6              69
  CLUS_3             6              68
  CLUS_4             4             115
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MARK1 MUTATED        6      6      3      3      7
  MARK1 WILD-TYPE     45     70     58     68     88
D381V9, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             6              45
  CLUS_2             6              70
  CLUS_3             3              58
  CLUS_4             3              68
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MARK1 MUTATED        7      3      1      1      4      0      0      4
  MARK1 WILD-TYPE     62     45     38     15     49     20     21     34
                 vv
clus              CLUS_9
  MARK1 MUTATED        5
  MARK1 WILD-TYPE     45
D381V10, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             7              62
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             4              49
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             5              45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MARK1 MUTATED        1      2      1      0      1      0
  MARK1 WILD-TYPE     12     14     13     11     10      9
D381V11, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MARK1 MUTATED        1      1      0      1      1      0      0      0
  MARK1 WILD-TYPE     10      6      7      8      7      7     11      9
                 vv
clus              CLUS_9
  MARK1 MUTATED        1
  MARK1 WILD-TYPE      4
D381V12, multiclass
        clus
vv       MARK1 MUTATED MARK1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(382) Variable = CCR2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCR2 MUTATED        0      0      0      0      0
  CCR2 WILD-TYPE     32     18     46     27     23
D382V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCR2 MUTATED        0      0      0
  CCR2 WILD-TYPE     43     67     36
D382V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCR2 MUTATED        0      2      5
  CCR2 WILD-TYPE     42    171    142
D382V3, multiclass
        clus
vv       CCR2 MUTATED CCR2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCR2 MUTATED        2      2      3
  CCR2 WILD-TYPE     60     71     72
D382V4, multiclass
        clus
vv       CCR2 MUTATED CCR2 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCR2 MUTATED        0      2      4
  CCR2 WILD-TYPE     70    118     96
D382V5, multiclass
        clus
vv       CCR2 MUTATED CCR2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCR2 MUTATED        1      0      0      1      0      3      0      0      1
  CCR2 WILD-TYPE     40     26     30     28     39     66     20     14     21
D382V6, multiclass
        clus
vv       CCR2 MUTATED CCR2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCR2 MUTATED        1      2      4      0
  CCR2 WILD-TYPE     99     70     68    121
D382V7, multiclass
        clus
vv       CCR2 MUTATED CCR2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            4             68
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCR2 MUTATED        2      2      3      0      0
  CCR2 WILD-TYPE     57     73     71    119     38
D382V8, multiclass
        clus
vv       CCR2 MUTATED CCR2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCR2 MUTATED        2      4      1      0      0
  CCR2 WILD-TYPE     49     72     60     71     95
D382V9, multiclass
        clus
vv       CCR2 MUTATED CCR2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCR2 MUTATED        2      1      0      1      3      0      0      0      0
  CCR2 WILD-TYPE     67     47     39     15     50     20     21     38     50
D382V10, multiclass
        clus
vv       CCR2 MUTATED CCR2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCR2 MUTATED        0      0      0      0      2      0
  CCR2 WILD-TYPE     13     16     14     11      9      9
D382V11, multiclass
[1] "Remove cluster labels:" "CCR2 MUTATED"          
clus
  CCR2 MUTATED CCR2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6889     TCGA-AD-6901     TCGA-AD-6963 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCR2 MUTATED        0      0      1      0      0      1      0      0      0
  CCR2 WILD-TYPE     11      7      6      9      8      6     11      9      5
D382V12, multiclass
[1] "Remove cluster labels:" "CCR2 MUTATED"          
clus
  CCR2 MUTATED CCR2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6889     TCGA-AD-6901     TCGA-AD-6963 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" "CCR2 WILD-TYPE" 

Clustering(383) Variable = NUP160 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP160 MUTATED        3      0      0      0      0
  NUP160 WILD-TYPE     29     18     46     27     23
D383V1, multiclass
        clus
vv       NUP160 MUTATED NUP160 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP160 MUTATED        2      1      0
  NUP160 WILD-TYPE     41     66     36
D383V2, multiclass
        clus
vv       NUP160 MUTATED NUP160 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP160 MUTATED        1      1      8
  NUP160 WILD-TYPE     41    172    139
D383V3, multiclass
        clus
vv       NUP160 MUTATED NUP160 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP160 MUTATED        3      2      2
  NUP160 WILD-TYPE     59     71     73
D383V4, multiclass
        clus
vv       NUP160 MUTATED NUP160 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP160 MUTATED        3      4      2
  NUP160 WILD-TYPE     67    116     98
D383V5, multiclass
        clus
vv       NUP160 MUTATED NUP160 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              4              116
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP160 MUTATED        1      0      1      1      0      3      0      2
  NUP160 WILD-TYPE     40     26     29     28     39     66     20     12
                  vv
clus               CLUS_9
  NUP160 MUTATED        1
  NUP160 WILD-TYPE     21
D383V6, multiclass
        clus
vv       NUP160 MUTATED NUP160 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUP160 MUTATED        1      4      2      4
  NUP160 WILD-TYPE     99     68     70    117
D383V7, multiclass
        clus
vv       NUP160 MUTATED NUP160 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP160 MUTATED        1      1      5      1      3
  NUP160 WILD-TYPE     58     74     69    118     35
D383V8, multiclass
        clus
vv       NUP160 MUTATED NUP160 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP160 MUTATED        1      5      1      1      3
  NUP160 WILD-TYPE     50     71     60     70     92
D383V9, multiclass
        clus
vv       NUP160 MUTATED NUP160 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP160 MUTATED        2      1      0      3      1      0      0      3
  NUP160 WILD-TYPE     67     47     39     13     52     20     21     35
                  vv
clus               CLUS_9
  NUP160 MUTATED        1
  NUP160 WILD-TYPE     49
D383V10, multiclass
        clus
vv       NUP160 MUTATED NUP160 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUP160 MUTATED        1      0      0      0      1      0
  NUP160 WILD-TYPE     12     16     14     11     10      9
D383V11, multiclass
[1] "Remove cluster labels:" "NUP160 MUTATED"        
clus
  NUP160 MUTATED NUP160 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1HA       TCGA-DM-A282 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6625       TCGA-G4-6628 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP160 MUTATED        0      0      0      2      0      0      0      0
  NUP160 WILD-TYPE     11      7      7      7      8      7     11      9
                  vv
clus               CLUS_9
  NUP160 MUTATED        0
  NUP160 WILD-TYPE      5
D383V12, multiclass
[1] "Remove cluster labels:" "NUP160 MUTATED"        
clus
  NUP160 MUTATED NUP160 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1HA       TCGA-DM-A282 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6625       TCGA-G4-6628 
"NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" "NUP160 WILD-TYPE" 

Clustering(384) Variable = CYLC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYLC1 MUTATED        1      0      0      1      0
  CYLC1 WILD-TYPE     31     18     46     26     23
D384V1, multiclass
[1] "Remove cluster labels:" "CYLC1 MUTATED"         
clus
  CYLC1 MUTATED CYLC1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYLC1 MUTATED        1      1      0
  CYLC1 WILD-TYPE     42     66     36
D384V2, multiclass
[1] "Remove cluster labels:" "CYLC1 MUTATED"         
clus
  CYLC1 MUTATED CYLC1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" "CYLC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYLC1 MUTATED        2      9     16
  CYLC1 WILD-TYPE     40    164    131
D384V3, multiclass
        clus
vv       CYLC1 MUTATED CYLC1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             9             164
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYLC1 MUTATED        6      5     14
  CYLC1 WILD-TYPE     56     68     61
D384V4, multiclass
        clus
vv       CYLC1 MUTATED CYLC1 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             5              68
  CLUS_3            14              61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYLC1 MUTATED        3     12     10
  CYLC1 WILD-TYPE     67    108     90
D384V5, multiclass
        clus
vv       CYLC1 MUTATED CYLC1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2            12             108
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYLC1 MUTATED        3      3      1      6      1      8      2      0
  CYLC1 WILD-TYPE     38     23     29     23     38     61     18     14
                 vv
clus              CLUS_9
  CYLC1 MUTATED        1
  CYLC1 WILD-TYPE     21
D384V6, multiclass
        clus
vv       CYLC1 MUTATED CYLC1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             6              23
  CLUS_5             1              38
  CLUS_6             8              61
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYLC1 MUTATED        7      8     10      2
  CYLC1 WILD-TYPE     93     64     62    119
D384V7, multiclass
        clus
vv       CYLC1 MUTATED CYLC1 WILD-TYPE
  CLUS_1             7              93
  CLUS_2             8              64
  CLUS_3            10              62
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYLC1 MUTATED        7      8     10      1      1
  CYLC1 WILD-TYPE     52     67     64    118     37
D384V8, multiclass
        clus
vv       CYLC1 MUTATED CYLC1 WILD-TYPE
  CLUS_1             7              52
  CLUS_2             8              67
  CLUS_3            10              64
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYLC1 MUTATED        7     10      3      3      4
  CYLC1 WILD-TYPE     44     66     58     68     91
D384V9, multiclass
        clus
vv       CYLC1 MUTATED CYLC1 WILD-TYPE
  CLUS_1             7              44
  CLUS_2            10              66
  CLUS_3             3              58
  CLUS_4             3              68
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYLC1 MUTATED        7      4      3      6      2      2      1      1
  CYLC1 WILD-TYPE     62     44     36     10     51     18     20     37
                 vv
clus              CLUS_9
  CYLC1 MUTATED        1
  CYLC1 WILD-TYPE     49
D384V10, multiclass
        clus
vv       CYLC1 MUTATED CYLC1 WILD-TYPE
  CLUS_1             7              62
  CLUS_2             4              44
  CLUS_3             3              36
  CLUS_4             6              10
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CYLC1 MUTATED        2      2      2      0      4      2
  CYLC1 WILD-TYPE     11     14     12     11      7      7
D384V11, multiclass
        clus
vv       CYLC1 MUTATED CYLC1 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYLC1 MUTATED        1      2      1      3      3      0      0      1
  CYLC1 WILD-TYPE     10      5      6      6      5      7     11      8
                 vv
clus              CLUS_9
  CYLC1 MUTATED        1
  CYLC1 WILD-TYPE      4
D384V12, multiclass
        clus
vv       CYLC1 MUTATED CYLC1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             2               5
  CLUS_3             1               6
  CLUS_4             3               6
  CLUS_5             3               5
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(385) Variable = PRAMEF12 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRAMEF12 MUTATED        1      0      0      0      0
  PRAMEF12 WILD-TYPE     31     18     46     27     23
D385V1, multiclass
[1] "Remove cluster labels:" "PRAMEF12 MUTATED"      
clus
  PRAMEF12 MUTATED PRAMEF12 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3811         TCGA-AA-3812 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AY-4071 
"PRAMEF12 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PRAMEF12 MUTATED        1      0      0
  PRAMEF12 WILD-TYPE     42     67     36
D385V2, multiclass
[1] "Remove cluster labels:" "PRAMEF12 MUTATED"      
clus
  PRAMEF12 MUTATED PRAMEF12 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3811         TCGA-AA-3812 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" "PRAMEF12 WILD-TYPE" 
        TCGA-AY-4071 
"PRAMEF12 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PRAMEF12 MUTATED        0      2      3
  PRAMEF12 WILD-TYPE     42    171    144
D385V3, multiclass
        clus
vv       PRAMEF12 MUTATED PRAMEF12 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                2                171
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PRAMEF12 MUTATED        1      2      1
  PRAMEF12 WILD-TYPE     61     71     74
D385V4, multiclass
        clus
vv       PRAMEF12 MUTATED PRAMEF12 WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                2                 71
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PRAMEF12 MUTATED        0      4      1
  PRAMEF12 WILD-TYPE     70    116     99
D385V5, multiclass
        clus
vv       PRAMEF12 MUTATED PRAMEF12 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                4                116
  CLUS_3                1                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRAMEF12 MUTATED        0      0      1      0      1      2      0      1
  PRAMEF12 WILD-TYPE     41     26     29     29     38     67     20     13
                    vv
clus                 CLUS_9
  PRAMEF12 MUTATED        0
  PRAMEF12 WILD-TYPE     22
D385V6, multiclass
        clus
vv       PRAMEF12 MUTATED PRAMEF12 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                2                 67
  CLUS_7                0                 20
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRAMEF12 MUTATED        2      2      0      1
  PRAMEF12 WILD-TYPE     98     70     72    120
D385V7, multiclass
        clus
vv       PRAMEF12 MUTATED PRAMEF12 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                2                 70
  CLUS_3                0                 72
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRAMEF12 MUTATED        1      1      2      0      1
  PRAMEF12 WILD-TYPE     58     74     72    119     37
D385V8, multiclass
        clus
vv       PRAMEF12 MUTATED PRAMEF12 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                1                 74
  CLUS_3                2                 72
  CLUS_4                0                119
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRAMEF12 MUTATED        0      2      1      1      1
  PRAMEF12 WILD-TYPE     51     74     60     70     94
D385V9, multiclass
        clus
vv       PRAMEF12 MUTATED PRAMEF12 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                2                 74
  CLUS_3                1                 60
  CLUS_4                1                 70
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRAMEF12 MUTATED        0      1      0      2      1      0      0      1
  PRAMEF12 WILD-TYPE     69     47     39     14     52     20     21     37
                    vv
clus                 CLUS_9
  PRAMEF12 MUTATED        0
  PRAMEF12 WILD-TYPE     50
D385V10, multiclass
        clus
vv       PRAMEF12 MUTATED PRAMEF12 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRAMEF12 MUTATED        2      0      0      0      1      0
  PRAMEF12 WILD-TYPE     11     16     14     11     10      9
D385V11, multiclass
        clus
vv       PRAMEF12 MUTATED PRAMEF12 WILD-TYPE
  CLUS_1                2                 11
  CLUS_2                0                 16
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRAMEF12 MUTATED        0      0      1      2      0      0      0      0
  PRAMEF12 WILD-TYPE     11      7      6      7      8      7     11      9
                    vv
clus                 CLUS_9
  PRAMEF12 MUTATED        0
  PRAMEF12 WILD-TYPE      5
D385V12, multiclass
        clus
vv       PRAMEF12 MUTATED PRAMEF12 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                1                  6
  CLUS_4                2                  7
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                0                 11
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(386) Variable = C1ORF59 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF59 MUTATED        0      0      0      1      0
  C1ORF59 WILD-TYPE     32     18     46     26     23
D386V1, multiclass
[1] "Remove cluster labels:" "C1ORF59 MUTATED"       
clus
  C1ORF59 MUTATED C1ORF59 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AY-4071 
"C1ORF59 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF59 MUTATED        1      0      0
  C1ORF59 WILD-TYPE     42     67     36
D386V2, multiclass
[1] "Remove cluster labels:" "C1ORF59 MUTATED"       
clus
  C1ORF59 MUTATED C1ORF59 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" "C1ORF59 WILD-TYPE" 
       TCGA-AY-4071 
"C1ORF59 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF59 MUTATED        1      5      4
  C1ORF59 WILD-TYPE     41    168    143
D386V3, multiclass
        clus
vv       C1ORF59 MUTATED C1ORF59 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               5               168
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF59 MUTATED        5      2      2
  C1ORF59 WILD-TYPE     57     71     73
D386V4, multiclass
        clus
vv       C1ORF59 MUTATED C1ORF59 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               2                71
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF59 MUTATED        1      2      5
  C1ORF59 WILD-TYPE     69    118     95
D386V5, multiclass
        clus
vv       C1ORF59 MUTATED C1ORF59 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF59 MUTATED        1      0      0      0      1      5      0      0
  C1ORF59 WILD-TYPE     40     26     30     29     38     64     20     14
                   vv
clus                CLUS_9
  C1ORF59 MUTATED        1
  C1ORF59 WILD-TYPE     21
D386V6, multiclass
        clus
vv       C1ORF59 MUTATED C1ORF59 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF59 MUTATED        3      2      3      2
  C1ORF59 WILD-TYPE     97     70     69    119
D386V7, multiclass
        clus
vv       C1ORF59 MUTATED C1ORF59 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF59 MUTATED        4      2      2      1      1
  C1ORF59 WILD-TYPE     55     73     72    118     37
D386V8, multiclass
        clus
vv       C1ORF59 MUTATED C1ORF59 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               2                73
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF59 MUTATED        4      1      2      1      1
  C1ORF59 WILD-TYPE     47     75     59     70     94
D386V9, multiclass
        clus
vv       C1ORF59 MUTATED C1ORF59 WILD-TYPE
  CLUS_1               4                47
  CLUS_2               1                75
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF59 MUTATED        1      2      2      0      2      1      0      0
  C1ORF59 WILD-TYPE     68     46     37     16     51     19     21     38
                   vv
clus                CLUS_9
  C1ORF59 MUTATED        1
  C1ORF59 WILD-TYPE     49
D386V10, multiclass
        clus
vv       C1ORF59 MUTATED C1ORF59 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               2                37
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C1ORF59 MUTATED        0      2      1      0      1      0
  C1ORF59 WILD-TYPE     13     14     13     11     10      9
D386V11, multiclass
        clus
vv       C1ORF59 MUTATED C1ORF59 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               2                14
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF59 MUTATED        1      0      1      0      0      1      0      0
  C1ORF59 WILD-TYPE     10      7      6      9      8      6     11      9
                   vv
clus                CLUS_9
  C1ORF59 MUTATED        1
  C1ORF59 WILD-TYPE      4
D386V12, multiclass
        clus
vv       C1ORF59 MUTATED C1ORF59 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(387) Variable = MEPE MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MEPE MUTATED        1      0      0      1      0
  MEPE WILD-TYPE     31     18     46     26     23
D387V1, multiclass
[1] "Remove cluster labels:" "MEPE MUTATED"          
clus
  MEPE MUTATED MEPE WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEPE MUTATED        2      0      0
  MEPE WILD-TYPE     41     67     36
D387V2, multiclass
[1] "Remove cluster labels:" "MEPE MUTATED"          
clus
  MEPE MUTATED MEPE WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" "MEPE WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEPE MUTATED        0      4     11
  MEPE WILD-TYPE     42    169    136
D387V3, multiclass
        clus
vv       MEPE MUTATED MEPE WILD-TYPE
  CLUS_1            0             42
  CLUS_2            4            169
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEPE MUTATED        7      3      2
  MEPE WILD-TYPE     55     70     73
D387V4, multiclass
        clus
vv       MEPE MUTATED MEPE WILD-TYPE
  CLUS_1            7             55
  CLUS_2            3             70
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEPE MUTATED        2      4      9
  MEPE WILD-TYPE     68    116     91
D387V5, multiclass
        clus
vv       MEPE MUTATED MEPE WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4            116
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MEPE MUTATED        2      2      0      1      1      6      0      1      2
  MEPE WILD-TYPE     39     24     30     28     38     63     20     13     20
D387V6, multiclass
        clus
vv       MEPE MUTATED MEPE WILD-TYPE
  CLUS_1            2             39
  CLUS_2            2             24
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MEPE MUTATED        2      3      8      2
  MEPE WILD-TYPE     98     69     64    119
D387V7, multiclass
        clus
vv       MEPE MUTATED MEPE WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            8             64
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MEPE MUTATED        4      1      8      0      2
  MEPE WILD-TYPE     55     74     66    119     36
D387V8, multiclass
        clus
vv       MEPE MUTATED MEPE WILD-TYPE
  CLUS_1            4             55
  CLUS_2            1             74
  CLUS_3            8             66
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MEPE MUTATED        1      5      6      0      2
  MEPE WILD-TYPE     50     71     55     71     93
D387V9, multiclass
        clus
vv       MEPE MUTATED MEPE WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            6             55
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MEPE MUTATED        4      6      1      1      0      0      1      1      0
  MEPE WILD-TYPE     65     42     38     15     53     20     20     37     50
D387V10, multiclass
        clus
vv       MEPE MUTATED MEPE WILD-TYPE
  CLUS_1            4             65
  CLUS_2            6             42
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MEPE MUTATED        0      0      2      1      2      0
  MEPE WILD-TYPE     13     16     12     10      9      9
D387V11, multiclass
        clus
vv       MEPE MUTATED MEPE WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MEPE MUTATED        1      0      0      1      1      0      1      1      0
  MEPE WILD-TYPE     10      7      7      8      7      7     10      8      5
D387V12, multiclass
        clus
vv       MEPE MUTATED MEPE WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(388) Variable = ZNF384 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF384 MUTATED        1      0      0      0      0
  ZNF384 WILD-TYPE     31     18     46     27     23
D388V1, multiclass
[1] "Remove cluster labels:" "ZNF384 MUTATED"        
clus
  ZNF384 MUTATED ZNF384 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF384 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF384 MUTATED        1      0      0
  ZNF384 WILD-TYPE     42     67     36
D388V2, multiclass
[1] "Remove cluster labels:" "ZNF384 MUTATED"        
clus
  ZNF384 MUTATED ZNF384 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" "ZNF384 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF384 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF384 MUTATED        1      2      5
  ZNF384 WILD-TYPE     41    171    142
D388V3, multiclass
        clus
vv       ZNF384 MUTATED ZNF384 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF384 MUTATED        3      1      4
  ZNF384 WILD-TYPE     59     72     71
D388V4, multiclass
        clus
vv       ZNF384 MUTATED ZNF384 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF384 MUTATED        0      2      6
  ZNF384 WILD-TYPE     70    118     94
D388V5, multiclass
        clus
vv       ZNF384 MUTATED ZNF384 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF384 MUTATED        0      1      0      1      0      5      1      0
  ZNF384 WILD-TYPE     41     25     30     28     39     64     19     14
                  vv
clus               CLUS_9
  ZNF384 MUTATED        0
  ZNF384 WILD-TYPE     22
D388V6, multiclass
        clus
vv       ZNF384 MUTATED ZNF384 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF384 MUTATED        2      5      1      1
  ZNF384 WILD-TYPE     98     67     71    120
D388V7, multiclass
        clus
vv       ZNF384 MUTATED ZNF384 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              5               67
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF384 MUTATED        1      2      5      0      1
  ZNF384 WILD-TYPE     58     73     69    119     37
D388V8, multiclass
        clus
vv       ZNF384 MUTATED ZNF384 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF384 MUTATED        1      4      2      0      2
  ZNF384 WILD-TYPE     50     72     59     71     93
D388V9, multiclass
        clus
vv       ZNF384 MUTATED ZNF384 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF384 MUTATED        0      3      0      3      1      0      0      1
  ZNF384 WILD-TYPE     69     45     39     13     52     20     21     37
                  vv
clus               CLUS_9
  ZNF384 MUTATED        1
  ZNF384 WILD-TYPE     49
D388V10, multiclass
        clus
vv       ZNF384 MUTATED ZNF384 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF384 MUTATED        0      1      1      0      1      0
  ZNF384 WILD-TYPE     13     15     13     11     10      9
D388V11, multiclass
        clus
vv       ZNF384 MUTATED ZNF384 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF384 MUTATED        1      0      0      1      0      1      0      0
  ZNF384 WILD-TYPE     10      7      7      8      8      6     11      9
                  vv
clus               CLUS_9
  ZNF384 MUTATED        0
  ZNF384 WILD-TYPE      5
D388V12, multiclass
        clus
vv       ZNF384 MUTATED ZNF384 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(389) Variable = MOBKL2B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOBKL2B MUTATED        0      0      0      0      0
  MOBKL2B WILD-TYPE     32     18     46     27     23
D389V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MOBKL2B MUTATED        0      0      0
  MOBKL2B WILD-TYPE     43     67     36
D389V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MOBKL2B MUTATED        0      3      3
  MOBKL2B WILD-TYPE     42    170    144
D389V3, multiclass
        clus
vv       MOBKL2B MUTATED MOBKL2B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MOBKL2B MUTATED        2      1      3
  MOBKL2B WILD-TYPE     60     72     72
D389V4, multiclass
        clus
vv       MOBKL2B MUTATED MOBKL2B WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MOBKL2B MUTATED        2      3      1
  MOBKL2B WILD-TYPE     68    117     99
D389V5, multiclass
        clus
vv       MOBKL2B MUTATED MOBKL2B WILD-TYPE
  CLUS_1               2                68
  CLUS_2               3               117
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOBKL2B MUTATED        0      1      0      2      0      1      1      1
  MOBKL2B WILD-TYPE     41     25     30     27     39     68     19     13
                   vv
clus                CLUS_9
  MOBKL2B MUTATED        0
  MOBKL2B WILD-TYPE     22
D389V6, multiclass
        clus
vv       MOBKL2B MUTATED MOBKL2B WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MOBKL2B MUTATED        4      2      1      0
  MOBKL2B WILD-TYPE     96     70     71    121
D389V7, multiclass
        clus
vv       MOBKL2B MUTATED MOBKL2B WILD-TYPE
  CLUS_1               4                96
  CLUS_2               2                70
  CLUS_3               1                71
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOBKL2B MUTATED        0      5      2      0      0
  MOBKL2B WILD-TYPE     59     70     72    119     38
D389V8, multiclass
        clus
vv       MOBKL2B MUTATED MOBKL2B WILD-TYPE
  CLUS_1               0                59
  CLUS_2               5                70
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOBKL2B MUTATED        2      4      0      0      1
  MOBKL2B WILD-TYPE     49     72     61     71     94
D389V9, multiclass
        clus
vv       MOBKL2B MUTATED MOBKL2B WILD-TYPE
  CLUS_1               2                49
  CLUS_2               4                72
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOBKL2B MUTATED        4      0      1      0      2      0      0      0
  MOBKL2B WILD-TYPE     65     48     38     16     51     20     21     38
                   vv
clus                CLUS_9
  MOBKL2B MUTATED        0
  MOBKL2B WILD-TYPE     50
D389V10, multiclass
        clus
vv       MOBKL2B MUTATED MOBKL2B WILD-TYPE
  CLUS_1               4                65
  CLUS_2               0                48
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MOBKL2B MUTATED        0      0      1      0      2      0
  MOBKL2B WILD-TYPE     13     16     13     11      9      9
D389V11, multiclass
        clus
vv       MOBKL2B MUTATED MOBKL2B WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOBKL2B MUTATED        0      0      0      1      1      1      0      0
  MOBKL2B WILD-TYPE     11      7      7      8      7      6     11      9
                   vv
clus                CLUS_9
  MOBKL2B MUTATED        0
  MOBKL2B WILD-TYPE      5
D389V12, multiclass
        clus
vv       MOBKL2B MUTATED MOBKL2B WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(390) Variable = GPR112 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR112 MUTATED        7      0      2      2      0
  GPR112 WILD-TYPE     25     18     44     25     23
D390V1, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              7               25
  CLUS_2              0               18
  CLUS_3              2               44
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR112 MUTATED        8      2      1
  GPR112 WILD-TYPE     35     65     35
D390V2, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              8               35
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR112 MUTATED        3      9     18
  GPR112 WILD-TYPE     39    164    129
D390V3, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              9              164
  CLUS_3             18              129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR112 MUTATED        7      7      6
  GPR112 WILD-TYPE     55     66     69
D390V4, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              7               66
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR112 MUTATED        2     13     12
  GPR112 WILD-TYPE     68    107     88
D390V5, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              2               68
  CLUS_2             13              107
  CLUS_3             12               88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR112 MUTATED        3      2      3      2      5      8      1      2
  GPR112 WILD-TYPE     38     24     27     27     34     61     19     12
                  vv
clus               CLUS_9
  GPR112 MUTATED        1
  GPR112 WILD-TYPE     21
D390V6, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              2               24
  CLUS_3              3               27
  CLUS_4              2               27
  CLUS_5              5               34
  CLUS_6              8               61
  CLUS_7              1               19
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR112 MUTATED        8      4      7     11
  GPR112 WILD-TYPE     92     68     65    110
D390V7, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              8               92
  CLUS_2              4               68
  CLUS_3              7               65
  CLUS_4             11              110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR112 MUTATED        6      6      6      4      8
  GPR112 WILD-TYPE     53     69     68    115     30
D390V8, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              6               53
  CLUS_2              6               69
  CLUS_3              6               68
  CLUS_4              4              115
  CLUS_5              8               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR112 MUTATED        5      6      4      5      9
  GPR112 WILD-TYPE     46     70     57     66     86
D390V9, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              5               46
  CLUS_2              6               70
  CLUS_3              4               57
  CLUS_4              5               66
  CLUS_5              9               86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR112 MUTATED        4      7      3      1      5      1      0      6
  GPR112 WILD-TYPE     65     41     36     15     48     19     21     32
                  vv
clus               CLUS_9
  GPR112 MUTATED        2
  GPR112 WILD-TYPE     48
D390V10, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              7               41
  CLUS_3              3               36
  CLUS_4              1               15
  CLUS_5              5               48
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              6               32
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR112 MUTATED        2      0      0      2      4      1
  GPR112 WILD-TYPE     11     16     14      9      7      8
D390V11, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              2                9
  CLUS_5              4                7
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR112 MUTATED        0      0      2      2      0      2      3      0
  GPR112 WILD-TYPE     11      7      5      7      8      5      8      9
                  vv
clus               CLUS_9
  GPR112 MUTATED        0
  GPR112 WILD-TYPE      5
D390V12, multiclass
        clus
vv       GPR112 MUTATED GPR112 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              2                5
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              2                5
  CLUS_7              3                8
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(391) Variable = MET MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MET MUTATED        2      0      0      2      0
  MET WILD-TYPE     30     18     46     25     23
D391V1, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        2      1      1
  MET WILD-TYPE     41     66     35
D391V2, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           2            41
  CLUS_2           1            66
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        6     15     20
  MET WILD-TYPE     36    158    127
D391V3, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           6            36
  CLUS_2          15           158
  CLUS_3          20           127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        9     13     15
  MET WILD-TYPE     53     60     60
D391V4, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           9            53
  CLUS_2          13            60
  CLUS_3          15            60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        7     15     12
  MET WILD-TYPE     63    105     88
D391V5, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           7            63
  CLUS_2          15           105
  CLUS_3          12            88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MET MUTATED        5      1      2      6      2      8      6      2      2
  MET WILD-TYPE     36     25     28     23     37     61     14     12     20
D391V6, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           5            36
  CLUS_2           1            25
  CLUS_3           2            28
  CLUS_4           6            23
  CLUS_5           2            37
  CLUS_6           8            61
  CLUS_7           6            14
  CLUS_8           2            12
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MET MUTATED       18     13      6      5
  MET WILD-TYPE     82     59     66    116
D391V7, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1          18            82
  CLUS_2          13            59
  CLUS_3           6            66
  CLUS_4           5           116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MET MUTATED        8     14     15      3      2
  MET WILD-TYPE     51     61     59    116     36
D391V8, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           8            51
  CLUS_2          14            61
  CLUS_3          15            59
  CLUS_4           3           116
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MET MUTATED       10     18      7      3      3
  MET WILD-TYPE     41     58     54     68     92
D391V9, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1          10            41
  CLUS_2          18            58
  CLUS_3           7            54
  CLUS_4           3            68
  CLUS_5           3            92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MET MUTATED       11      7      4      5      8      4      0      1      1
  MET WILD-TYPE     58     41     35     11     45     16     21     37     49
D391V10, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1          11            58
  CLUS_2           7            41
  CLUS_3           4            35
  CLUS_4           5            11
  CLUS_5           8            45
  CLUS_6           4            16
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MET MUTATED        4      3      3      3      3      1
  MET WILD-TYPE      9     13     11      8      8      8
D391V11, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           4             9
  CLUS_2           3            13
  CLUS_3           3            11
  CLUS_4           3             8
  CLUS_5           3             8
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MET MUTATED        1      1      3      3      1      2      3      3      0
  MET WILD-TYPE     10      6      4      6      7      5      8      6      5
D391V12, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           1            10
  CLUS_2           1             6
  CLUS_3           3             4
  CLUS_4           3             6
  CLUS_5           1             7
  CLUS_6           2             5
  CLUS_7           3             8
  CLUS_8           3             6
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(392) Variable = FUT10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FUT10 MUTATED        1      0      0      0      0
  FUT10 WILD-TYPE     31     18     46     27     23
D392V1, multiclass
[1] "Remove cluster labels:" "FUT10 MUTATED"         
clus
  FUT10 MUTATED FUT10 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AY-4071 
"FUT10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUT10 MUTATED        0      0      1
  FUT10 WILD-TYPE     43     67     35
D392V2, multiclass
[1] "Remove cluster labels:" "FUT10 MUTATED"         
clus
  FUT10 MUTATED FUT10 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AY-4071 
"FUT10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUT10 MUTATED        0      2      4
  FUT10 WILD-TYPE     42    171    143
D392V3, multiclass
        clus
vv       FUT10 MUTATED FUT10 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUT10 MUTATED        2      1      2
  FUT10 WILD-TYPE     60     72     73
D392V4, multiclass
        clus
vv       FUT10 MUTATED FUT10 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUT10 MUTATED        1      1      2
  FUT10 WILD-TYPE     69    119     98
D392V5, multiclass
        clus
vv       FUT10 MUTATED FUT10 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FUT10 MUTATED        1      0      0      0      0      1      1      1
  FUT10 WILD-TYPE     40     26     30     29     39     68     19     13
                 vv
clus              CLUS_9
  FUT10 MUTATED        0
  FUT10 WILD-TYPE     22
D392V6, multiclass
        clus
vv       FUT10 MUTATED FUT10 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FUT10 MUTATED        2      3      0      1
  FUT10 WILD-TYPE     98     69     72    120
D392V7, multiclass
        clus
vv       FUT10 MUTATED FUT10 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FUT10 MUTATED        1      1      3      1      0
  FUT10 WILD-TYPE     58     74     71    118     38
D392V8, multiclass
        clus
vv       FUT10 MUTATED FUT10 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FUT10 MUTATED        0      3      2      1      0
  FUT10 WILD-TYPE     51     73     59     70     95
D392V9, multiclass
        clus
vv       FUT10 MUTATED FUT10 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FUT10 MUTATED        2      2      0      1      1      0      0      0
  FUT10 WILD-TYPE     67     46     39     15     52     20     21     38
                 vv
clus              CLUS_9
  FUT10 MUTATED        0
  FUT10 WILD-TYPE     50
D392V10, multiclass
        clus
vv       FUT10 MUTATED FUT10 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FUT10 MUTATED        0      0      1      1      0      0
  FUT10 WILD-TYPE     13     16     13     10     11      9
D392V11, multiclass
[1] "Remove cluster labels:" "FUT10 MUTATED"         
clus
  FUT10 MUTATED FUT10 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FUT10 MUTATED        0      0      0      0      1      0      1      0
  FUT10 WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  FUT10 MUTATED        0
  FUT10 WILD-TYPE      5
D392V12, multiclass
[1] "Remove cluster labels:" "FUT10 MUTATED"         
clus
  FUT10 MUTATED FUT10 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" "FUT10 WILD-TYPE" 

Clustering(393) Variable = BAG4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAG4 MUTATED        2      0      0      0      0
  BAG4 WILD-TYPE     30     18     46     27     23
D393V1, multiclass
[1] "Remove cluster labels:" "BAG4 MUTATED"          
clus
  BAG4 MUTATED BAG4 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAG4 MUTATED        2      0      0
  BAG4 WILD-TYPE     41     67     36
D393V2, multiclass
[1] "Remove cluster labels:" "BAG4 MUTATED"          
clus
  BAG4 MUTATED BAG4 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" "BAG4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAG4 MUTATED        1      0      7
  BAG4 WILD-TYPE     41    173    140
D393V3, multiclass
        clus
vv       BAG4 MUTATED BAG4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAG4 MUTATED        1      1      4
  BAG4 WILD-TYPE     61     72     71
D393V4, multiclass
        clus
vv       BAG4 MUTATED BAG4 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAG4 MUTATED        1      2      2
  BAG4 WILD-TYPE     69    118     98
D393V5, multiclass
        clus
vv       BAG4 MUTATED BAG4 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BAG4 MUTATED        1      0      0      1      0      1      0      1      1
  BAG4 WILD-TYPE     40     26     30     28     39     68     20     13     21
D393V6, multiclass
        clus
vv       BAG4 MUTATED BAG4 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BAG4 MUTATED        1      4      1      2
  BAG4 WILD-TYPE     99     68     71    119
D393V7, multiclass
        clus
vv       BAG4 MUTATED BAG4 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAG4 MUTATED        1      1      4      0      2
  BAG4 WILD-TYPE     58     74     70    119     36
D393V8, multiclass
        clus
vv       BAG4 MUTATED BAG4 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAG4 MUTATED        1      3      1      0      3
  BAG4 WILD-TYPE     50     73     60     71     92
D393V9, multiclass
        clus
vv       BAG4 MUTATED BAG4 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BAG4 MUTATED        2      1      0      1      1      0      0      3      0
  BAG4 WILD-TYPE     67     47     39     15     52     20     21     35     50
D393V10, multiclass
        clus
vv       BAG4 MUTATED BAG4 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BAG4 MUTATED        0      0      0      0      0      0
  BAG4 WILD-TYPE     13     16     14     11     11      9
D393V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BAG4 MUTATED        0      0      0      0      0      0      0      0      0
  BAG4 WILD-TYPE     11      7      7      9      8      7     11      9      5
D393V12, multiclass

Clustering(394) Variable = GPR87 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR87 MUTATED        2      0      0      0      1
  GPR87 WILD-TYPE     30     18     46     27     22
D394V1, multiclass
        clus
vv       GPR87 MUTATED GPR87 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR87 MUTATED        3      0      0
  GPR87 WILD-TYPE     40     67     36
D394V2, multiclass
        clus
vv       GPR87 MUTATED GPR87 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR87 MUTATED        0      2      8
  GPR87 WILD-TYPE     42    171    139
D394V3, multiclass
        clus
vv       GPR87 MUTATED GPR87 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR87 MUTATED        3      1      2
  GPR87 WILD-TYPE     59     72     73
D394V4, multiclass
        clus
vv       GPR87 MUTATED GPR87 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR87 MUTATED        0      2      5
  GPR87 WILD-TYPE     70    118     95
D394V5, multiclass
        clus
vv       GPR87 MUTATED GPR87 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR87 MUTATED        1      1      0      0      0      4      0      0
  GPR87 WILD-TYPE     40     25     30     29     39     65     20     14
                 vv
clus              CLUS_9
  GPR87 MUTATED        1
  GPR87 WILD-TYPE     21
D394V6, multiclass
        clus
vv       GPR87 MUTATED GPR87 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR87 MUTATED        1      3      3      3
  GPR87 WILD-TYPE     99     69     69    118
D394V7, multiclass
        clus
vv       GPR87 MUTATED GPR87 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR87 MUTATED        2      1      4      1      2
  GPR87 WILD-TYPE     57     74     70    118     36
D394V8, multiclass
        clus
vv       GPR87 MUTATED GPR87 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR87 MUTATED        1      3      1      2      3
  GPR87 WILD-TYPE     50     73     60     69     92
D394V9, multiclass
        clus
vv       GPR87 MUTATED GPR87 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR87 MUTATED        2      3      0      1      1      0      1      2
  GPR87 WILD-TYPE     67     45     39     15     52     20     20     36
                 vv
clus              CLUS_9
  GPR87 MUTATED        0
  GPR87 WILD-TYPE     50
D394V10, multiclass
        clus
vv       GPR87 MUTATED GPR87 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR87 MUTATED        0      0      1      0      0      0
  GPR87 WILD-TYPE     13     16     13     11     11      9
D394V11, multiclass
[1] "Remove cluster labels:" "GPR87 MUTATED"         
clus
  GPR87 MUTATED GPR87 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-G4-6628 
"GPR87 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR87 MUTATED        0      0      0      0      0      1      0      0
  GPR87 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  GPR87 MUTATED        0
  GPR87 WILD-TYPE      5
D394V12, multiclass
[1] "Remove cluster labels:" "GPR87 MUTATED"         
clus
  GPR87 MUTATED GPR87 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" "GPR87 WILD-TYPE" 
     TCGA-G4-6628 
"GPR87 WILD-TYPE" 

Clustering(395) Variable = RASA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASA2 MUTATED        0      0      0      1      0
  RASA2 WILD-TYPE     32     18     46     26     23
D395V1, multiclass
[1] "Remove cluster labels:" "RASA2 MUTATED"         
clus
  RASA2 MUTATED RASA2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AY-4071 
"RASA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RASA2 MUTATED        0      1      0
  RASA2 WILD-TYPE     43     66     36
D395V2, multiclass
[1] "Remove cluster labels:" "RASA2 MUTATED"         
clus
  RASA2 MUTATED RASA2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" "RASA2 WILD-TYPE" 
     TCGA-AY-4071 
"RASA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RASA2 MUTATED        0      4     11
  RASA2 WILD-TYPE     42    169    136
D395V3, multiclass
        clus
vv       RASA2 MUTATED RASA2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RASA2 MUTATED        6      4      4
  RASA2 WILD-TYPE     56     69     71
D395V4, multiclass
        clus
vv       RASA2 MUTATED RASA2 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             4              69
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RASA2 MUTATED        3      6      5
  RASA2 WILD-TYPE     67    114     95
D395V5, multiclass
        clus
vv       RASA2 MUTATED RASA2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             6             114
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RASA2 MUTATED        3      2      1      0      3      4      0      1
  RASA2 WILD-TYPE     38     24     29     29     36     65     20     13
                 vv
clus              CLUS_9
  RASA2 MUTATED        0
  RASA2 WILD-TYPE     22
D395V6, multiclass
        clus
vv       RASA2 MUTATED RASA2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             3              36
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RASA2 MUTATED        2      7      4      2
  RASA2 WILD-TYPE     98     65     68    119
D395V7, multiclass
        clus
vv       RASA2 MUTATED RASA2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             7              65
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASA2 MUTATED        2      3      8      2      0
  RASA2 WILD-TYPE     57     72     66    117     38
D395V8, multiclass
        clus
vv       RASA2 MUTATED RASA2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             8              66
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASA2 MUTATED        0      7      4      1      3
  RASA2 WILD-TYPE     51     69     57     70     92
D395V9, multiclass
        clus
vv       RASA2 MUTATED RASA2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RASA2 MUTATED        6      4      0      1      1      1      0      0
  RASA2 WILD-TYPE     63     44     39     15     52     19     21     38
                 vv
clus              CLUS_9
  RASA2 MUTATED        2
  RASA2 WILD-TYPE     48
D395V10, multiclass
        clus
vv       RASA2 MUTATED RASA2 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RASA2 MUTATED        0      1      2      0      1      0
  RASA2 WILD-TYPE     13     15     12     11     10      9
D395V11, multiclass
        clus
vv       RASA2 MUTATED RASA2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RASA2 MUTATED        0      0      0      1      2      0      1      0
  RASA2 WILD-TYPE     11      7      7      8      6      7     10      9
                 vv
clus              CLUS_9
  RASA2 MUTATED        0
  RASA2 WILD-TYPE      5
D395V12, multiclass
        clus
vv       RASA2 MUTATED RASA2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(396) Variable = TNNI3K MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNNI3K MUTATED        6      0      1      2      0
  TNNI3K WILD-TYPE     26     18     45     25     23
D396V1, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              6               26
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TNNI3K MUTATED        7      1      1
  TNNI3K WILD-TYPE     36     66     35
D396V2, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              7               36
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TNNI3K MUTATED        3      6     15
  TNNI3K WILD-TYPE     39    167    132
D396V3, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              3               39
  CLUS_2              6              167
  CLUS_3             15              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TNNI3K MUTATED        6      5      4
  TNNI3K WILD-TYPE     56     68     71
D396V4, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              6               56
  CLUS_2              5               68
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TNNI3K MUTATED        2      9     11
  TNNI3K WILD-TYPE     68    111     89
D396V5, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              2               68
  CLUS_2              9              111
  CLUS_3             11               89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNNI3K MUTATED        0      1      0      3      4     13      0      1
  TNNI3K WILD-TYPE     41     25     30     26     35     56     20     13
                  vv
clus               CLUS_9
  TNNI3K MUTATED        0
  TNNI3K WILD-TYPE     22
D396V6, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              3               26
  CLUS_5              4               35
  CLUS_6             13               56
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNNI3K MUTATED        7      4      3      9
  TNNI3K WILD-TYPE     93     68     69    112
D396V7, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              7               93
  CLUS_2              4               68
  CLUS_3              3               69
  CLUS_4              9              112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNNI3K MUTATED        1      9      3      4      6
  TNNI3K WILD-TYPE     58     66     71    115     32
D396V8, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              1               58
  CLUS_2              9               66
  CLUS_3              3               71
  CLUS_4              4              115
  CLUS_5              6               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNNI3K MUTATED        3      7      2      2      8
  TNNI3K WILD-TYPE     48     69     59     69     87
D396V9, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              3               48
  CLUS_2              7               69
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNNI3K MUTATED        3      1      4      1      3      2      2      3
  TNNI3K WILD-TYPE     66     47     35     15     50     18     19     35
                  vv
clus               CLUS_9
  TNNI3K MUTATED        3
  TNNI3K WILD-TYPE     47
D396V10, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              4               35
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              2               19
  CLUS_8              3               35
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TNNI3K MUTATED        3      1      0      0      0      0
  TNNI3K WILD-TYPE     10     15     14     11     11      9
D396V11, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              3               10
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNNI3K MUTATED        1      0      0      2      0      0      0      1
  TNNI3K WILD-TYPE     10      7      7      7      8      7     11      8
                  vv
clus               CLUS_9
  TNNI3K MUTATED        0
  TNNI3K WILD-TYPE      5
D396V12, multiclass
        clus
vv       TNNI3K MUTATED TNNI3K WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(397) Variable = RELN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RELN MUTATED       11      1      0      6      1
  RELN WILD-TYPE     21     17     46     21     22
D397V1, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1           11             21
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            6             21
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RELN MUTATED       11      6      2
  RELN WILD-TYPE     32     61     34
D397V2, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1           11             32
  CLUS_2            6             61
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RELN MUTATED        7     17     41
  RELN WILD-TYPE     35    156    106
D397V3, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1            7             35
  CLUS_2           17            156
  CLUS_3           41            106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RELN MUTATED       19     13     14
  RELN WILD-TYPE     43     60     61
D397V4, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1           19             43
  CLUS_2           13             60
  CLUS_3           14             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RELN MUTATED        9     22     26
  RELN WILD-TYPE     61     98     74
D397V5, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1            9             61
  CLUS_2           22             98
  CLUS_3           26             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RELN MUTATED        4      2      1      9      8     22      3      3      5
  RELN WILD-TYPE     37     24     29     20     31     47     17     11     17
D397V6, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1            4             37
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            9             20
  CLUS_5            8             31
  CLUS_6           22             47
  CLUS_7            3             17
  CLUS_8            3             11
  CLUS_9            5             17
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RELN MUTATED       14     19     14     17
  RELN WILD-TYPE     86     53     58    104
D397V7, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1           14             86
  CLUS_2           19             53
  CLUS_3           14             58
  CLUS_4           17            104
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RELN MUTATED        8     13     24      8     11
  RELN WILD-TYPE     51     62     50    111     27
D397V8, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1            8             51
  CLUS_2           13             62
  CLUS_3           24             50
  CLUS_4            8            111
  CLUS_5           11             27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RELN MUTATED        8     22     11      5     18
  RELN WILD-TYPE     43     54     50     66     77
D397V9, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1            8             43
  CLUS_2           22             54
  CLUS_3           11             50
  CLUS_4            5             66
  CLUS_5           18             77
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RELN MUTATED       17      9      3      7      9      3      3     10      3
  RELN WILD-TYPE     52     39     36      9     44     17     18     28     47
D397V10, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1           17             52
  CLUS_2            9             39
  CLUS_3            3             36
  CLUS_4            7              9
  CLUS_5            9             44
  CLUS_6            3             17
  CLUS_7            3             18
  CLUS_8           10             28
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RELN MUTATED        1      1      4      0      4      2
  RELN WILD-TYPE     12     15     10     11      7      7
D397V11, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            4             10
  CLUS_4            0             11
  CLUS_5            4              7
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RELN MUTATED        2      0      0      3      2      1      3      1      0
  RELN WILD-TYPE      9      7      7      6      6      6      8      8      5
D397V12, multiclass
        clus
vv       RELN MUTATED RELN WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            3              6
  CLUS_5            2              6
  CLUS_6            1              6
  CLUS_7            3              8
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(398) Variable = USP25 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP25 MUTATED        1      0      0      1      0
  USP25 WILD-TYPE     31     18     46     26     23
D398V1, multiclass
[1] "Remove cluster labels:" "USP25 MUTATED"         
clus
  USP25 MUTATED USP25 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP25 MUTATED        2      0      0
  USP25 WILD-TYPE     41     67     36
D398V2, multiclass
[1] "Remove cluster labels:" "USP25 MUTATED"         
clus
  USP25 MUTATED USP25 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" "USP25 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP25 MUTATED        1      9      9
  USP25 WILD-TYPE     41    164    138
D398V3, multiclass
        clus
vv       USP25 MUTATED USP25 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             9             164
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP25 MUTATED        6      5      6
  USP25 WILD-TYPE     56     68     69
D398V4, multiclass
        clus
vv       USP25 MUTATED USP25 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             5              68
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP25 MUTATED        2      7      7
  USP25 WILD-TYPE     68    113     93
D398V5, multiclass
        clus
vv       USP25 MUTATED USP25 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             7             113
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP25 MUTATED        4      3      1      1      1      4      0      1
  USP25 WILD-TYPE     37     23     29     28     38     65     20     13
                 vv
clus              CLUS_9
  USP25 MUTATED        1
  USP25 WILD-TYPE     21
D398V6, multiclass
        clus
vv       USP25 MUTATED USP25 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP25 MUTATED        5      6      6      2
  USP25 WILD-TYPE     95     66     66    119
D398V7, multiclass
        clus
vv       USP25 MUTATED USP25 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             6              66
  CLUS_3             6              66
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP25 MUTATED        7      5      5      0      2
  USP25 WILD-TYPE     52     70     69    119     36
D398V8, multiclass
        clus
vv       USP25 MUTATED USP25 WILD-TYPE
  CLUS_1             7              52
  CLUS_2             5              70
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP25 MUTATED        5      6      5      0      2
  USP25 WILD-TYPE     46     70     56     71     93
D398V9, multiclass
        clus
vv       USP25 MUTATED USP25 WILD-TYPE
  CLUS_1             5              46
  CLUS_2             6              70
  CLUS_3             5              56
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP25 MUTATED        5      5      1      2      2      1      0      1
  USP25 WILD-TYPE     64     43     38     14     51     19     21     37
                 vv
clus              CLUS_9
  USP25 MUTATED        1
  USP25 WILD-TYPE     49
D398V10, multiclass
        clus
vv       USP25 MUTATED USP25 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USP25 MUTATED        1      2      0      0      1      1
  USP25 WILD-TYPE     12     14     14     11     10      8
D398V11, multiclass
        clus
vv       USP25 MUTATED USP25 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP25 MUTATED        1      1      2      1      0      0      0      0
  USP25 WILD-TYPE     10      6      5      8      8      7     11      9
                 vv
clus              CLUS_9
  USP25 MUTATED        0
  USP25 WILD-TYPE      5
D398V12, multiclass
        clus
vv       USP25 MUTATED USP25 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             2               5
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(399) Variable = NCOA7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCOA7 MUTATED        3      0      0      0      0
  NCOA7 WILD-TYPE     29     18     46     27     23
D399V1, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA7 MUTATED        3      0      0
  NCOA7 WILD-TYPE     40     67     36
D399V2, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA7 MUTATED        1      4     10
  NCOA7 WILD-TYPE     41    169    137
D399V3, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA7 MUTATED        4      4      4
  NCOA7 WILD-TYPE     58     69     71
D399V4, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             4              69
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA7 MUTATED        3      3      7
  NCOA7 WILD-TYPE     67    117     93
D399V5, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCOA7 MUTATED        2      1      0      1      1      6      1      0
  NCOA7 WILD-TYPE     39     25     30     28     38     63     19     14
                 vv
clus              CLUS_9
  NCOA7 MUTATED        1
  NCOA7 WILD-TYPE     21
D399V6, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NCOA7 MUTATED        2      4      6      3
  NCOA7 WILD-TYPE     98     68     66    118
D399V7, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             6              66
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCOA7 MUTATED        2      3      7      0      3
  NCOA7 WILD-TYPE     57     72     67    119     35
D399V8, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             7              67
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCOA7 MUTATED        3      7      2      0      3
  NCOA7 WILD-TYPE     48     69     59     71     92
D399V9, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             7              69
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCOA7 MUTATED        4      5      0      2      1      1      0      2
  NCOA7 WILD-TYPE     65     43     39     14     52     19     21     36
                 vv
clus              CLUS_9
  NCOA7 MUTATED        0
  NCOA7 WILD-TYPE     50
D399V10, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NCOA7 MUTATED        0      2      1      0      1      0
  NCOA7 WILD-TYPE     13     14     13     11     10      9
D399V11, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCOA7 MUTATED        0      1      0      1      1      0      1      0
  NCOA7 WILD-TYPE     11      6      7      8      7      7     10      9
                 vv
clus              CLUS_9
  NCOA7 MUTATED        0
  NCOA7 WILD-TYPE      5
D399V12, multiclass
        clus
vv       NCOA7 MUTATED NCOA7 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(400) Variable = DDX23 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX23 MUTATED        3      0      1      1      0
  DDX23 WILD-TYPE     29     18     45     26     23
D400V1, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX23 MUTATED        3      1      1
  DDX23 WILD-TYPE     40     66     35
D400V2, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX23 MUTATED        2      5     10
  DDX23 WILD-TYPE     40    168    137
D400V3, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX23 MUTATED        4      3      6
  DDX23 WILD-TYPE     58     70     69
D400V4, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX23 MUTATED        2      4      9
  DDX23 WILD-TYPE     68    116     91
D400V5, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX23 MUTATED        2      1      0      3      1      5      3      0
  DDX23 WILD-TYPE     39     25     30     26     38     64     17     14
                 vv
clus              CLUS_9
  DDX23 MUTATED        0
  DDX23 WILD-TYPE     22
D400V6, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDX23 MUTATED        4      5      4      5
  DDX23 WILD-TYPE     96     67     68    116
D400V7, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX23 MUTATED        3      5      5      2      3
  DDX23 WILD-TYPE     56     70     69    117     35
D400V8, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             5              70
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX23 MUTATED        1      8      2      2      2
  DDX23 WILD-TYPE     50     68     59     69     93
D400V9, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             8              68
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX23 MUTATED        3      3      1      2      3      1      0      1
  DDX23 WILD-TYPE     66     45     38     14     50     19     21     37
                 vv
clus              CLUS_9
  DDX23 MUTATED        1
  DDX23 WILD-TYPE     49
D400V10, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDX23 MUTATED        0      0      0      0      3      0
  DDX23 WILD-TYPE     13     16     14     11      8      9
D400V11, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX23 MUTATED        0      0      1      1      0      1      0      0
  DDX23 WILD-TYPE     11      7      6      8      8      6     11      9
                 vv
clus              CLUS_9
  DDX23 MUTATED        0
  DDX23 WILD-TYPE      5
D400V12, multiclass
        clus
vv       DDX23 MUTATED DDX23 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(401) Variable = IGF2R MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGF2R MUTATED        8      0      1      3      0
  IGF2R WILD-TYPE     24     18     45     24     23
D401V1, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             8              24
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGF2R MUTATED        9      1      2
  IGF2R WILD-TYPE     34     66     34
D401V2, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             9              34
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGF2R MUTATED        1      4     32
  IGF2R WILD-TYPE     41    169    115
D401V3, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            32             115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGF2R MUTATED        7      3     15
  IGF2R WILD-TYPE     55     70     60
D401V4, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             7              55
  CLUS_2             3              70
  CLUS_3            15              60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGF2R MUTATED        1     10     17
  IGF2R WILD-TYPE     69    110     83
D401V5, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             1              69
  CLUS_2            10             110
  CLUS_3            17              83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGF2R MUTATED        1      2      2      2      4     15      1      1
  IGF2R WILD-TYPE     40     24     28     27     35     54     19     13
                 vv
clus              CLUS_9
  IGF2R MUTATED        0
  IGF2R WILD-TYPE     22
D401V6, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             4              35
  CLUS_6            15              54
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IGF2R MUTATED        4     14      7     12
  IGF2R WILD-TYPE     96     58     65    109
D401V7, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             4              96
  CLUS_2            14              58
  CLUS_3             7              65
  CLUS_4            12             109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGF2R MUTATED        1      6     16      6      8
  IGF2R WILD-TYPE     58     69     58    113     30
D401V8, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             1              58
  CLUS_2             6              69
  CLUS_3            16              58
  CLUS_4             6             113
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGF2R MUTATED        2     14      4      3     12
  IGF2R WILD-TYPE     49     62     57     68     83
D401V9, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             2              49
  CLUS_2            14              62
  CLUS_3             4              57
  CLUS_4             3              68
  CLUS_5            12              83
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGF2R MUTATED        3      6      0      7      4      3      1      9
  IGF2R WILD-TYPE     66     42     39      9     49     17     20     29
                 vv
clus              CLUS_9
  IGF2R MUTATED        2
  IGF2R WILD-TYPE     48
D401V10, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             3              66
  CLUS_2             6              42
  CLUS_3             0              39
  CLUS_4             7               9
  CLUS_5             4              49
  CLUS_6             3              17
  CLUS_7             1              20
  CLUS_8             9              29
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IGF2R MUTATED        1      0      0      0      5      0
  IGF2R WILD-TYPE     12     16     14     11      6      9
D401V11, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             5               6
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGF2R MUTATED        0      0      0      3      0      1      2      0
  IGF2R WILD-TYPE     11      7      7      6      8      6      9      9
                 vv
clus              CLUS_9
  IGF2R MUTATED        0
  IGF2R WILD-TYPE      5
D401V12, multiclass
        clus
vv       IGF2R MUTATED IGF2R WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(402) Variable = TMEM92 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM92 MUTATED        1      0      0      0      0
  TMEM92 WILD-TYPE     31     18     46     27     23
D402V1, multiclass
[1] "Remove cluster labels:" "TMEM92 MUTATED"        
clus
  TMEM92 MUTATED TMEM92 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AY-4071 
"TMEM92 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM92 MUTATED        1      0      0
  TMEM92 WILD-TYPE     42     67     36
D402V2, multiclass
[1] "Remove cluster labels:" "TMEM92 MUTATED"        
clus
  TMEM92 MUTATED TMEM92 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AY-4071 
"TMEM92 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM92 MUTATED        0      0      3
  TMEM92 WILD-TYPE     42    173    144
D402V3, multiclass
        clus
vv       TMEM92 MUTATED TMEM92 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM92 MUTATED        0      0      2
  TMEM92 WILD-TYPE     62     73     73
D402V4, multiclass
[1] "Remove cluster labels:" "TMEM92 MUTATED"        
clus
  TMEM92 MUTATED TMEM92 WILD-TYPE 
               2              208 
      TCGA-A6-2671       TCGA-A6-2677       TCGA-A6-3809       TCGA-A6-3810 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-4105       TCGA-A6-5656       TCGA-A6-5657       TCGA-A6-5659 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662       TCGA-A6-5664 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137       TCGA-A6-6138 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648       TCGA-A6-6649 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653       TCGA-A6-6654 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502       TCGA-AA-3510 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AA-3655       TCGA-AA-3660       TCGA-AA-3662 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3663       TCGA-AA-3697       TCGA-AA-3712       TCGA-AA-3713 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6888       TCGA-AD-6890 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AD-6895       TCGA-AD-6899       TCGA-AD-6901       TCGA-AD-6963 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AU-3779       TCGA-AU-6004 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4681 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-4682       TCGA-AZ-5403       TCGA-AZ-5407       TCGA-AZ-6598 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6599       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6606       TCGA-AZ-6607       TCGA-AZ-6608 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796       TCGA-CA-5797 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6717       TCGA-CA-6718 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CA-6719       TCGA-CK-4947       TCGA-CK-4948       TCGA-CK-4950 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CK-4952       TCGA-CK-5912       TCGA-CK-5914       TCGA-CK-5915 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747       TCGA-CK-6748 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744       TCGA-CM-4746 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341       TCGA-CM-5344 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-5538       TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6529       TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6535       TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6539       TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6920       TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6926       TCGA-D5-6927       TCGA-D5-6928       TCGA-D5-6929 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932       TCGA-D5-7000 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A1D4       TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A1HB       TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28C 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A28E       TCGA-DM-A28F       TCGA-DM-A28G       TCGA-DM-A28H 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A28K       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM92 MUTATED        0      1      1
  TMEM92 WILD-TYPE     70    119     99
D402V5, multiclass
[1] "Remove cluster labels:" "TMEM92 MUTATED"        
clus
  TMEM92 MUTATED TMEM92 WILD-TYPE 
               2              288 
      TCGA-A6-2671       TCGA-A6-2672       TCGA-A6-2676       TCGA-A6-2677 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-A6-5656       TCGA-A6-5657 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-5659       TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-5664       TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3489       TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3510       TCGA-AA-3511       TCGA-AA-3514       TCGA-AA-3517 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521       TCGA-AA-3522 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3525       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3548       TCGA-AA-3552 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3558 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3655 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3697 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3712       TCGA-AA-3713       TCGA-AA-3715 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3930       TCGA-AA-3950       TCGA-AA-3955 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00E       TCGA-AA-A00F 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01P 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S       TCGA-AA-A01T 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022       TCGA-AA-A024 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H       TCGA-AA-A02J 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A02K       TCGA-AA-A02O       TCGA-AA-A02W       TCGA-AA-A02Y 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AD-5900       TCGA-AD-6548 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AD-6899       TCGA-AD-6965       TCGA-AU-6004       TCGA-AY-5543 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386       TCGA-AZ-4315 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4682       TCGA-AZ-5407 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6599       TCGA-AZ-6600       TCGA-AZ-6601 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6606       TCGA-AZ-6607 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6608       TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CA-5797       TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6717 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5914       TCGA-CK-5916 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CK-6746       TCGA-CK-6747       TCGA-CK-6748       TCGA-CK-6751 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-4743       TCGA-CM-4744       TCGA-CM-4746       TCGA-CM-4747 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-4752       TCGA-CM-5341       TCGA-CM-5344       TCGA-CM-5348 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861       TCGA-CM-5862 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868       TCGA-CM-6161 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164       TCGA-CM-6165 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168       TCGA-CM-6169 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172       TCGA-CM-6674 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5538       TCGA-D5-5539 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-5540       TCGA-D5-5541       TCGA-D5-6529       TCGA-D5-6532 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6535       TCGA-D5-6536 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6537       TCGA-D5-6538       TCGA-D5-6539       TCGA-D5-6540 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6541       TCGA-D5-6898       TCGA-D5-6920       TCGA-D5-6922 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6923       TCGA-D5-6924       TCGA-D5-6926       TCGA-D5-6927 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6928       TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D4 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA       TCGA-DM-A1HB 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A28C       TCGA-DM-A28E       TCGA-DM-A28F 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A28G       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM92 MUTATED        0      1      0      0      1      0      0      0
  TMEM92 WILD-TYPE     41     25     30     29     38     69     20     14
                  vv
clus               CLUS_9
  TMEM92 MUTATED        0
  TMEM92 WILD-TYPE     22
D402V6, multiclass
[1] "Remove cluster labels:" "TMEM92 MUTATED"        
clus
  TMEM92 MUTATED TMEM92 WILD-TYPE 
               2              288 
      TCGA-A6-2671       TCGA-A6-2672       TCGA-A6-2676       TCGA-A6-2677 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-A6-5656       TCGA-A6-5657 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-5659       TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-5664       TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3489       TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3510       TCGA-AA-3511       TCGA-AA-3514       TCGA-AA-3517 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521       TCGA-AA-3522 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3525       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3548       TCGA-AA-3552 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3558 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3655 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3697 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3712       TCGA-AA-3713       TCGA-AA-3715 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3930       TCGA-AA-3950       TCGA-AA-3955 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00E       TCGA-AA-A00F 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01P 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S       TCGA-AA-A01T 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022       TCGA-AA-A024 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H       TCGA-AA-A02J 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A02K       TCGA-AA-A02O       TCGA-AA-A02W       TCGA-AA-A02Y 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AD-5900       TCGA-AD-6548 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AD-6899       TCGA-AD-6965       TCGA-AU-6004       TCGA-AY-5543 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386       TCGA-AZ-4315 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4682       TCGA-AZ-5407 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6599       TCGA-AZ-6600       TCGA-AZ-6601 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6606       TCGA-AZ-6607 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6608       TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CA-5797       TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6717 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5914       TCGA-CK-5916 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CK-6746       TCGA-CK-6747       TCGA-CK-6748       TCGA-CK-6751 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-4743       TCGA-CM-4744       TCGA-CM-4746       TCGA-CM-4747 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-4752       TCGA-CM-5341       TCGA-CM-5344       TCGA-CM-5348 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861       TCGA-CM-5862 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868       TCGA-CM-6161 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164       TCGA-CM-6165 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168       TCGA-CM-6169 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172       TCGA-CM-6674 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5538       TCGA-D5-5539 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-5540       TCGA-D5-5541       TCGA-D5-6529       TCGA-D5-6532 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6535       TCGA-D5-6536 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6537       TCGA-D5-6538       TCGA-D5-6539       TCGA-D5-6540 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6541       TCGA-D5-6898       TCGA-D5-6920       TCGA-D5-6922 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6923       TCGA-D5-6924       TCGA-D5-6926       TCGA-D5-6927 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6928       TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D4 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA       TCGA-DM-A1HB 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A28C       TCGA-DM-A28E       TCGA-DM-A28F 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A28G       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM92 MUTATED        0      2      0      1
  TMEM92 WILD-TYPE    100     70     72    120
D402V7, multiclass
        clus
vv       TMEM92 MUTATED TMEM92 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              0               72
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM92 MUTATED        0      0      2      0      1
  TMEM92 WILD-TYPE     59     75     72    119     37
D402V8, multiclass
        clus
vv       TMEM92 MUTATED TMEM92 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM92 MUTATED        0      2      0      0      1
  TMEM92 WILD-TYPE     51     74     61     71     94
D402V9, multiclass
        clus
vv       TMEM92 MUTATED TMEM92 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM92 MUTATED        0      0      0      2      0      0      0      1
  TMEM92 WILD-TYPE     69     48     39     14     53     20     21     37
                  vv
clus               CLUS_9
  TMEM92 MUTATED        0
  TMEM92 WILD-TYPE     50
D402V10, multiclass
        clus
vv       TMEM92 MUTATED TMEM92 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM92 MUTATED        0      0      0      0      1      0
  TMEM92 WILD-TYPE     13     16     14     11     10      9
D402V11, multiclass
[1] "Remove cluster labels:" "TMEM92 MUTATED"        
clus
  TMEM92 MUTATED TMEM92 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6628 
"TMEM92 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM92 MUTATED        0      0      0      1      0      0      0      0
  TMEM92 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  TMEM92 MUTATED        0
  TMEM92 WILD-TYPE      5
D402V12, multiclass
[1] "Remove cluster labels:" "TMEM92 MUTATED"        
clus
  TMEM92 MUTATED TMEM92 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" "TMEM92 WILD-TYPE" 
      TCGA-G4-6628 
"TMEM92 WILD-TYPE" 

Clustering(403) Variable = ODZ1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ODZ1 MUTATED       10      0      3      2      1
  ODZ1 WILD-TYPE     22     18     43     25     22
D403V1, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1           10             22
  CLUS_2            0             18
  CLUS_3            3             43
  CLUS_4            2             25
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ODZ1 MUTATED        8      5      3
  ODZ1 WILD-TYPE     35     62     33
D403V2, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1            8             35
  CLUS_2            5             62
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ODZ1 MUTATED        5     15     39
  ODZ1 WILD-TYPE     37    158    108
D403V3, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1            5             37
  CLUS_2           15            158
  CLUS_3           39            108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ODZ1 MUTATED       11     10     22
  ODZ1 WILD-TYPE     51     63     53
D403V4, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1           11             51
  CLUS_2           10             63
  CLUS_3           22             53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ODZ1 MUTATED       12     16     22
  ODZ1 WILD-TYPE     58    104     78
D403V5, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1           12             58
  CLUS_2           16            104
  CLUS_3           22             78
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ODZ1 MUTATED        6      3      1      4      8     14      6      3      5
  ODZ1 WILD-TYPE     35     23     29     25     31     55     14     11     17
D403V6, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1            6             35
  CLUS_2            3             23
  CLUS_3            1             29
  CLUS_4            4             25
  CLUS_5            8             31
  CLUS_6           14             55
  CLUS_7            6             14
  CLUS_8            3             11
  CLUS_9            5             17
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ODZ1 MUTATED       11     20     13     17
  ODZ1 WILD-TYPE     89     52     59    104
D403V7, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1           11             89
  CLUS_2           20             52
  CLUS_3           13             59
  CLUS_4           17            104
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ODZ1 MUTATED        7     15     21     10      8
  ODZ1 WILD-TYPE     52     60     53    109     30
D403V8, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1            7             52
  CLUS_2           15             60
  CLUS_3           21             53
  CLUS_4           10            109
  CLUS_5            8             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ODZ1 MUTATED       10     22      7      8     14
  ODZ1 WILD-TYPE     41     54     54     63     81
D403V9, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1           10             41
  CLUS_2           22             54
  CLUS_3            7             54
  CLUS_4            8             63
  CLUS_5           14             81
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ODZ1 MUTATED       12      9      2      8      9      5      2      8      6
  ODZ1 WILD-TYPE     57     39     37      8     44     15     19     30     44
D403V10, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1           12             57
  CLUS_2            9             39
  CLUS_3            2             37
  CLUS_4            8              8
  CLUS_5            9             44
  CLUS_6            5             15
  CLUS_7            2             19
  CLUS_8            8             30
  CLUS_9            6             44
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ODZ1 MUTATED        2      3      2      1      3      0
  ODZ1 WILD-TYPE     11     13     12     10      8      9
D403V11, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            3             13
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ODZ1 MUTATED        2      2      0      1      1      1      2      1      1
  ODZ1 WILD-TYPE      9      5      7      8      7      6      9      8      4
D403V12, multiclass
        clus
vv       ODZ1 MUTATED ODZ1 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            2              5
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(404) Variable = FLG2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLG2 MUTATED        6      0      0      2      2
  FLG2 WILD-TYPE     26     18     46     25     21
D404V1, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            2             21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLG2 MUTATED        6      1      3
  FLG2 WILD-TYPE     37     66     33
D404V2, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            1             66
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLG2 MUTATED        2      6     20
  FLG2 WILD-TYPE     40    167    127
D404V3, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            6            167
  CLUS_3           20            127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLG2 MUTATED        8      2      8
  FLG2 WILD-TYPE     54     71     67
D404V4, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            8             54
  CLUS_2            2             71
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLG2 MUTATED        4     10     10
  FLG2 WILD-TYPE     66    110     90
D404V5, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            4             66
  CLUS_2           10            110
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLG2 MUTATED        2      1      0      5      3      7      2      1      3
  FLG2 WILD-TYPE     39     25     30     24     36     62     18     13     19
D404V6, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            5             24
  CLUS_5            3             36
  CLUS_6            7             62
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLG2 MUTATED        3      8      7     10
  FLG2 WILD-TYPE     97     64     65    111
D404V7, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            8             64
  CLUS_3            7             65
  CLUS_4           10            111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLG2 MUTATED        4      4      9      6      5
  FLG2 WILD-TYPE     55     71     65    113     33
D404V8, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            4             71
  CLUS_3            9             65
  CLUS_4            6            113
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLG2 MUTATED        3      9      3      3      9
  FLG2 WILD-TYPE     48     67     58     68     86
D404V9, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            9             67
  CLUS_3            3             58
  CLUS_4            3             68
  CLUS_5            9             86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLG2 MUTATED        3      4      2      5      3      1      1      4      4
  FLG2 WILD-TYPE     66     44     37     11     50     19     20     34     46
D404V10, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            4             44
  CLUS_3            2             37
  CLUS_4            5             11
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            4             46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FLG2 MUTATED        0      1      0      0      4      0
  FLG2 WILD-TYPE     13     15     14     11      7      9
D404V11, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLG2 MUTATED        0      1      0      2      1      0      1      0      0
  FLG2 WILD-TYPE     11      6      7      7      7      7     10      9      5
D404V12, multiclass
        clus
vv       FLG2 MUTATED FLG2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(405) Variable = TRMT5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRMT5 MUTATED        0      0      0      1      0
  TRMT5 WILD-TYPE     32     18     46     26     23
D405V1, multiclass
[1] "Remove cluster labels:" "TRMT5 MUTATED"         
clus
  TRMT5 MUTATED TRMT5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AY-4071 
"TRMT5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRMT5 MUTATED        1      0      0
  TRMT5 WILD-TYPE     42     67     36
D405V2, multiclass
[1] "Remove cluster labels:" "TRMT5 MUTATED"         
clus
  TRMT5 MUTATED TRMT5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AY-4071 
"TRMT5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRMT5 MUTATED        2      1      3
  TRMT5 WILD-TYPE     40    172    144
D405V3, multiclass
        clus
vv       TRMT5 MUTATED TRMT5 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRMT5 MUTATED        2      2      1
  TRMT5 WILD-TYPE     60     71     74
D405V4, multiclass
        clus
vv       TRMT5 MUTATED TRMT5 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRMT5 MUTATED        0      3      3
  TRMT5 WILD-TYPE     70    117     97
D405V5, multiclass
        clus
vv       TRMT5 MUTATED TRMT5 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRMT5 MUTATED        1      0      0      1      1      2      0      1
  TRMT5 WILD-TYPE     40     26     30     28     38     67     20     13
                 vv
clus              CLUS_9
  TRMT5 MUTATED        0
  TRMT5 WILD-TYPE     22
D405V6, multiclass
        clus
vv       TRMT5 MUTATED TRMT5 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRMT5 MUTATED        2      2      1      1
  TRMT5 WILD-TYPE     98     70     71    120
D405V7, multiclass
        clus
vv       TRMT5 MUTATED TRMT5 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRMT5 MUTATED        0      2      3      0      1
  TRMT5 WILD-TYPE     59     73     71    119     37
D405V8, multiclass
        clus
vv       TRMT5 MUTATED TRMT5 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRMT5 MUTATED        1      4      0      0      0
  TRMT5 WILD-TYPE     50     72     61     71     95
D405V9, multiclass
        clus
vv       TRMT5 MUTATED TRMT5 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRMT5 MUTATED        2      2      1      0      0      0      0      0
  TRMT5 WILD-TYPE     67     46     38     16     53     20     21     38
                 vv
clus              CLUS_9
  TRMT5 MUTATED        0
  TRMT5 WILD-TYPE     50
D405V10, multiclass
        clus
vv       TRMT5 MUTATED TRMT5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRMT5 MUTATED        0      1      0      0      0      0
  TRMT5 WILD-TYPE     13     15     14     11     11      9
D405V11, multiclass
[1] "Remove cluster labels:" "TRMT5 MUTATED"         
clus
  TRMT5 MUTATED TRMT5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-G4-6628 
"TRMT5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRMT5 MUTATED        1      0      0      0      0      0      0      0
  TRMT5 WILD-TYPE     10      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  TRMT5 MUTATED        0
  TRMT5 WILD-TYPE      5
D405V12, multiclass
[1] "Remove cluster labels:" "TRMT5 MUTATED"         
clus
  TRMT5 MUTATED TRMT5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" "TRMT5 WILD-TYPE" 
     TCGA-G4-6628 
"TRMT5 WILD-TYPE" 

Clustering(406) Variable = CHML MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHML MUTATED        4      0      0      0      0
  CHML WILD-TYPE     28     18     46     27     23
D406V1, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHML MUTATED        4      0      0
  CHML WILD-TYPE     39     67     36
D406V2, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHML MUTATED        1      7     12
  CHML WILD-TYPE     41    166    135
D406V3, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1            1             41
  CLUS_2            7            166
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHML MUTATED       10      1      6
  CHML WILD-TYPE     52     72     69
D406V4, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1           10             52
  CLUS_2            1             72
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHML MUTATED        5      5      6
  CHML WILD-TYPE     65    115     94
D406V5, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1            5             65
  CLUS_2            5            115
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHML MUTATED        2      0      0      0      4      4      2      3      1
  CHML WILD-TYPE     39     26     30     29     35     65     18     11     21
D406V6, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            4             35
  CLUS_6            4             65
  CLUS_7            2             18
  CLUS_8            3             11
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHML MUTATED        4      4      9      3
  CHML WILD-TYPE     96     68     63    118
D406V7, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1            4             96
  CLUS_2            4             68
  CLUS_3            9             63
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHML MUTATED        5      3      8      1      3
  CHML WILD-TYPE     54     72     66    118     35
D406V8, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1            5             54
  CLUS_2            3             72
  CLUS_3            8             66
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHML MUTATED        4      4      6      1      5
  CHML WILD-TYPE     47     72     55     70     90
D406V9, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1            4             47
  CLUS_2            4             72
  CLUS_3            6             55
  CLUS_4            1             70
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHML MUTATED        5      4      2      0      4      0      1      4      0
  CHML WILD-TYPE     64     44     37     16     49     20     20     34     50
D406V10, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1            5             64
  CLUS_2            4             44
  CLUS_3            2             37
  CLUS_4            0             16
  CLUS_5            4             49
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHML MUTATED        1      0      4      1      1      0
  CHML WILD-TYPE     12     16     10     10     10      9
D406V11, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            4             10
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHML MUTATED        0      0      0      0      4      0      2      0      1
  CHML WILD-TYPE     11      7      7      9      4      7      9      9      4
D406V12, multiclass
        clus
vv       CHML MUTATED CHML WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            4              4
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(407) Variable = AURKA MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AURKA MUTATED        1      0      0      1      0
  AURKA WILD-TYPE     31     18     46     26     23
D407V1, multiclass
[1] "Remove cluster labels:" "AURKA MUTATED"         
clus
  AURKA MUTATED AURKA WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AURKA MUTATED        2      0      0
  AURKA WILD-TYPE     41     67     36
D407V2, multiclass
[1] "Remove cluster labels:" "AURKA MUTATED"         
clus
  AURKA MUTATED AURKA WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" "AURKA WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AURKA MUTATED        2      2      3
  AURKA WILD-TYPE     40    171    144
D407V3, multiclass
        clus
vv       AURKA MUTATED AURKA WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AURKA MUTATED        2      2      1
  AURKA WILD-TYPE     60     71     74
D407V4, multiclass
        clus
vv       AURKA MUTATED AURKA WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AURKA MUTATED        1      2      4
  AURKA WILD-TYPE     69    118     96
D407V5, multiclass
        clus
vv       AURKA MUTATED AURKA WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AURKA MUTATED        2      0      1      0      1      3      0      0
  AURKA WILD-TYPE     39     26     29     29     38     66     20     14
                 vv
clus              CLUS_9
  AURKA MUTATED        0
  AURKA WILD-TYPE     22
D407V6, multiclass
        clus
vv       AURKA MUTATED AURKA WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AURKA MUTATED        2      0      3      2
  AURKA WILD-TYPE     98     72     69    119
D407V7, multiclass
        clus
vv       AURKA MUTATED AURKA WILD-TYPE
  CLUS_1             2              98
  CLUS_2             0              72
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AURKA MUTATED        1      3      1      0      2
  AURKA WILD-TYPE     58     72     73    119     36
D407V8, multiclass
        clus
vv       AURKA MUTATED AURKA WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AURKA MUTATED        0      1      1      3      2
  AURKA WILD-TYPE     51     75     60     68     93
D407V9, multiclass
        clus
vv       AURKA MUTATED AURKA WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             1              60
  CLUS_4             3              68
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AURKA MUTATED        4      1      0      0      0      0      0      2
  AURKA WILD-TYPE     65     47     39     16     53     20     21     36
                 vv
clus              CLUS_9
  AURKA MUTATED        0
  AURKA WILD-TYPE     50
D407V10, multiclass
        clus
vv       AURKA MUTATED AURKA WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AURKA MUTATED        0      0      3      0      0      0
  AURKA WILD-TYPE     13     16     11     11     11      9
D407V11, multiclass
        clus
vv       AURKA MUTATED AURKA WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             3              11
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AURKA MUTATED        2      0      0      0      0      1      0      0
  AURKA WILD-TYPE      9      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  AURKA MUTATED        0
  AURKA WILD-TYPE      5
D407V12, multiclass
        clus
vv       AURKA MUTATED AURKA WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(408) Variable = LRRC23 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC23 MUTATED        0      0      0      0      0
  LRRC23 WILD-TYPE     32     18     46     27     23
D408V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRC23 MUTATED        0      0      0
  LRRC23 WILD-TYPE     43     67     36
D408V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRC23 MUTATED        2      3      4
  LRRC23 WILD-TYPE     40    170    143
D408V3, multiclass
        clus
vv       LRRC23 MUTATED LRRC23 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3              170
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRC23 MUTATED        4      2      3
  LRRC23 WILD-TYPE     58     71     72
D408V4, multiclass
        clus
vv       LRRC23 MUTATED LRRC23 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRC23 MUTATED        0      4      4
  LRRC23 WILD-TYPE     70    116     96
D408V5, multiclass
        clus
vv       LRRC23 MUTATED LRRC23 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC23 MUTATED        2      2      0      1      0      2      0      0
  LRRC23 WILD-TYPE     39     24     30     28     39     67     20     14
                  vv
clus               CLUS_9
  LRRC23 MUTATED        1
  LRRC23 WILD-TYPE     21
D408V6, multiclass
        clus
vv       LRRC23 MUTATED LRRC23 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRRC23 MUTATED        3      2      4      0
  LRRC23 WILD-TYPE     97     70     68    121
D408V7, multiclass
        clus
vv       LRRC23 MUTATED LRRC23 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              2               70
  CLUS_3              4               68
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC23 MUTATED        4      2      3      0      0
  LRRC23 WILD-TYPE     55     73     71    119     38
D408V8, multiclass
        clus
vv       LRRC23 MUTATED LRRC23 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC23 MUTATED        2      3      3      1      0
  LRRC23 WILD-TYPE     49     73     58     70     95
D408V9, multiclass
        clus
vv       LRRC23 MUTATED LRRC23 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC23 MUTATED        4      3      0      1      1      0      0      0
  LRRC23 WILD-TYPE     65     45     39     15     52     20     21     38
                  vv
clus               CLUS_9
  LRRC23 MUTATED        0
  LRRC23 WILD-TYPE     50
D408V10, multiclass
        clus
vv       LRRC23 MUTATED LRRC23 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LRRC23 MUTATED        0      1      2      0      1      0
  LRRC23 WILD-TYPE     13     15     12     11     10      9
D408V11, multiclass
        clus
vv       LRRC23 MUTATED LRRC23 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC23 MUTATED        2      0      0      1      0      0      1      0
  LRRC23 WILD-TYPE      9      7      7      8      8      7     10      9
                  vv
clus               CLUS_9
  LRRC23 MUTATED        0
  LRRC23 WILD-TYPE      5
D408V12, multiclass
        clus
vv       LRRC23 MUTATED LRRC23 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(409) Variable = PHF3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHF3 MUTATED        4      0      0      2      0
  PHF3 WILD-TYPE     28     18     46     25     23
D409V1, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHF3 MUTATED        5      1      0
  PHF3 WILD-TYPE     38     66     36
D409V2, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHF3 MUTATED        2      6     15
  PHF3 WILD-TYPE     40    167    132
D409V3, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            6            167
  CLUS_3           15            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHF3 MUTATED        9      3      3
  PHF3 WILD-TYPE     53     70     72
D409V4, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            9             53
  CLUS_2            3             70
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHF3 MUTATED        3      5     13
  PHF3 WILD-TYPE     67    115     87
D409V5, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            5            115
  CLUS_3           13             87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PHF3 MUTATED        4      2      2      0      3      9      1      0      0
  PHF3 WILD-TYPE     37     24     28     29     36     60     19     14     22
D409V6, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            4             37
  CLUS_2            2             24
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            3             36
  CLUS_6            9             60
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PHF3 MUTATED        5      1      8      8
  PHF3 WILD-TYPE     95     71     64    113
D409V7, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            5             95
  CLUS_2            1             71
  CLUS_3            8             64
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHF3 MUTATED        4      5      5      3      5
  PHF3 WILD-TYPE     55     70     69    116     33
D409V8, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            5             70
  CLUS_3            5             69
  CLUS_4            3            116
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHF3 MUTATED        3      8      2      2      6
  PHF3 WILD-TYPE     48     68     59     69     89
D409V9, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            8             68
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PHF3 MUTATED        2      5      2      0      5      2      0      4      1
  PHF3 WILD-TYPE     67     43     37     16     48     18     21     34     49
D409V10, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             43
  CLUS_3            2             37
  CLUS_4            0             16
  CLUS_5            5             48
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            4             34
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PHF3 MUTATED        1      1      0      1      2      0
  PHF3 WILD-TYPE     12     15     14     10      9      9
D409V11, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PHF3 MUTATED        0      0      0      1      0      2      2      0      0
  PHF3 WILD-TYPE     11      7      7      8      8      5      9      9      5
D409V12, multiclass
        clus
vv       PHF3 MUTATED PHF3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            2              5
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(410) Variable = CNTNAP5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNTNAP5 MUTATED        3      0      0      2      0
  CNTNAP5 WILD-TYPE     29     18     46     25     23
D410V1, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CNTNAP5 MUTATED        3      1      1
  CNTNAP5 WILD-TYPE     40     66     35
D410V2, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CNTNAP5 MUTATED        3     13     24
  CNTNAP5 WILD-TYPE     39    160    123
D410V3, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1               3                39
  CLUS_2              13               160
  CLUS_3              24               123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CNTNAP5 MUTATED       12     11     10
  CNTNAP5 WILD-TYPE     50     62     65
D410V4, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1              12                50
  CLUS_2              11                62
  CLUS_3              10                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CNTNAP5 MUTATED        6     15     12
  CNTNAP5 WILD-TYPE     64    105     88
D410V5, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1               6                64
  CLUS_2              15               105
  CLUS_3              12                88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNTNAP5 MUTATED        5      3      3      5      2      8      2      4
  CNTNAP5 WILD-TYPE     36     23     27     24     37     61     18     10
                   vv
clus                CLUS_9
  CNTNAP5 MUTATED        1
  CNTNAP5 WILD-TYPE     21
D410V6, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1               5                36
  CLUS_2               3                23
  CLUS_3               3                27
  CLUS_4               5                24
  CLUS_5               2                37
  CLUS_6               8                61
  CLUS_7               2                18
  CLUS_8               4                10
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CNTNAP5 MUTATED        9     12     11      8
  CNTNAP5 WILD-TYPE     91     60     61    113
D410V7, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1               9                91
  CLUS_2              12                60
  CLUS_3              11                61
  CLUS_4               8               113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNTNAP5 MUTATED        4     11     16      5      4
  CNTNAP5 WILD-TYPE     55     64     58    114     34
D410V8, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1               4                55
  CLUS_2              11                64
  CLUS_3              16                58
  CLUS_4               5               114
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNTNAP5 MUTATED        5     14      9      5      6
  CNTNAP5 WILD-TYPE     46     62     52     66     89
D410V9, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1               5                46
  CLUS_2              14                62
  CLUS_3               9                52
  CLUS_4               5                66
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNTNAP5 MUTATED        8      8      4      5      5      2      1      4
  CNTNAP5 WILD-TYPE     61     40     35     11     48     18     20     34
                   vv
clus                CLUS_9
  CNTNAP5 MUTATED        2
  CNTNAP5 WILD-TYPE     48
D410V10, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1               8                61
  CLUS_2               8                40
  CLUS_3               4                35
  CLUS_4               5                11
  CLUS_5               5                48
  CLUS_6               2                18
  CLUS_7               1                20
  CLUS_8               4                34
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CNTNAP5 MUTATED        1      4      3      0      5      1
  CNTNAP5 WILD-TYPE     12     12     11     11      6      8
D410V11, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               4                12
  CLUS_3               3                11
  CLUS_4               0                11
  CLUS_5               5                 6
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNTNAP5 MUTATED        3      1      0      3      3      0      3      0
  CNTNAP5 WILD-TYPE      8      6      7      6      5      7      8      9
                   vv
clus                CLUS_9
  CNTNAP5 MUTATED        1
  CNTNAP5 WILD-TYPE      4
D410V12, multiclass
        clus
vv       CNTNAP5 MUTATED CNTNAP5 WILD-TYPE
  CLUS_1               3                 8
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               3                 6
  CLUS_5               3                 5
  CLUS_6               0                 7
  CLUS_7               3                 8
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(411) Variable = KRT14 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT14 MUTATED        0      0      0      0      0
  KRT14 WILD-TYPE     32     18     46     27     23
D411V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT14 MUTATED        0      0      0
  KRT14 WILD-TYPE     43     67     36
D411V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT14 MUTATED        0      3      5
  KRT14 WILD-TYPE     42    170    142
D411V3, multiclass
        clus
vv       KRT14 MUTATED KRT14 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT14 MUTATED        2      2      4
  KRT14 WILD-TYPE     60     71     71
D411V4, multiclass
        clus
vv       KRT14 MUTATED KRT14 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT14 MUTATED        1      3      2
  KRT14 WILD-TYPE     69    117     98
D411V5, multiclass
        clus
vv       KRT14 MUTATED KRT14 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT14 MUTATED        0      1      0      2      0      2      1      0
  KRT14 WILD-TYPE     41     25     30     27     39     67     19     14
                 vv
clus              CLUS_9
  KRT14 MUTATED        0
  KRT14 WILD-TYPE     22
D411V6, multiclass
        clus
vv       KRT14 MUTATED KRT14 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRT14 MUTATED        3      3      2      0
  KRT14 WILD-TYPE     97     69     70    121
D411V7, multiclass
        clus
vv       KRT14 MUTATED KRT14 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT14 MUTATED        0      3      5      0      0
  KRT14 WILD-TYPE     59     72     69    119     38
D411V8, multiclass
        clus
vv       KRT14 MUTATED KRT14 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT14 MUTATED        2      3      1      2      0
  KRT14 WILD-TYPE     49     73     60     69     95
D411V9, multiclass
        clus
vv       KRT14 MUTATED KRT14 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT14 MUTATED        2      1      0      1      3      0      0      0
  KRT14 WILD-TYPE     67     47     39     15     50     20     21     38
                 vv
clus              CLUS_9
  KRT14 MUTATED        1
  KRT14 WILD-TYPE     49
D411V10, multiclass
        clus
vv       KRT14 MUTATED KRT14 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRT14 MUTATED        0      0      2      0      0      0
  KRT14 WILD-TYPE     13     16     12     11     11      9
D411V11, multiclass
[1] "Remove cluster labels:" "KRT14 MUTATED"         
clus
  KRT14 MUTATED KRT14 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6676 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT14 MUTATED        0      0      0      0      1      1      0      0
  KRT14 WILD-TYPE     11      7      7      9      7      6     11      9
                 vv
clus              CLUS_9
  KRT14 MUTATED        0
  KRT14 WILD-TYPE      5
D411V12, multiclass
[1] "Remove cluster labels:" "KRT14 MUTATED"         
clus
  KRT14 MUTATED KRT14 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6676 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" "KRT14 WILD-TYPE" 

Clustering(412) Variable = JAK2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JAK2 MUTATED        4      0      0      2      0
  JAK2 WILD-TYPE     28     18     46     25     23
D412V1, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK2 MUTATED        4      1      1
  JAK2 WILD-TYPE     39     66     35
D412V2, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK2 MUTATED        4     17     17
  JAK2 WILD-TYPE     38    156    130
D412V3, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1            4             38
  CLUS_2           17            156
  CLUS_3           17            130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK2 MUTATED       12     10     11
  JAK2 WILD-TYPE     50     63     64
D412V4, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1           12             50
  CLUS_2           10             63
  CLUS_3           11             64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK2 MUTATED        4     13     17
  JAK2 WILD-TYPE     66    107     83
D412V5, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1            4             66
  CLUS_2           13            107
  CLUS_3           17             83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  JAK2 MUTATED        7      1      2      5      1     11      4      3      0
  JAK2 WILD-TYPE     34     25     28     24     38     58     16     11     22
D412V6, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1            7             34
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            5             24
  CLUS_5            1             38
  CLUS_6           11             58
  CLUS_7            4             16
  CLUS_8            3             11
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  JAK2 MUTATED       12      9     13      6
  JAK2 WILD-TYPE     88     63     59    115
D412V7, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1           12             88
  CLUS_2            9             63
  CLUS_3           13             59
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JAK2 MUTATED       10     11     12      3      4
  JAK2 WILD-TYPE     49     64     62    116     34
D412V8, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1           10             49
  CLUS_2           11             64
  CLUS_3           12             62
  CLUS_4            3            116
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JAK2 MUTATED       14     10      6      3      6
  JAK2 WILD-TYPE     37     66     55     68     89
D412V9, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1           14             37
  CLUS_2           10             66
  CLUS_3            6             55
  CLUS_4            3             68
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  JAK2 MUTATED        8      9      3      3      6      6      0      4      0
  JAK2 WILD-TYPE     61     39     36     13     47     14     21     34     50
D412V10, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1            8             61
  CLUS_2            9             39
  CLUS_3            3             36
  CLUS_4            3             13
  CLUS_5            6             47
  CLUS_6            6             14
  CLUS_7            0             21
  CLUS_8            4             34
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  JAK2 MUTATED        1      4      3      0      3      2
  JAK2 WILD-TYPE     12     12     11     11      8      7
D412V11, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            4             12
  CLUS_3            3             11
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  JAK2 MUTATED        3      1      1      2      2      1      1      1      1
  JAK2 WILD-TYPE      8      6      6      7      6      6     10      8      4
D412V12, multiclass
        clus
vv       JAK2 MUTATED JAK2 WILD-TYPE
  CLUS_1            3              8
  CLUS_2            1              6
  CLUS_3            1              6
  CLUS_4            2              7
  CLUS_5            2              6
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(413) Variable = ANKHD1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKHD1 MUTATED        3      1      1      2      0
  ANKHD1 WILD-TYPE     29     17     45     25     23
D413V1, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              1               17
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANKHD1 MUTATED        3      3      1
  ANKHD1 WILD-TYPE     40     64     35
D413V2, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              3               64
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANKHD1 MUTATED        3      7     19
  ANKHD1 WILD-TYPE     39    166    128
D413V3, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              7              166
  CLUS_3             19              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANKHD1 MUTATED       11      5      6
  ANKHD1 WILD-TYPE     51     68     69
D413V4, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1             11               51
  CLUS_2              5               68
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANKHD1 MUTATED        4      9     12
  ANKHD1 WILD-TYPE     66    111     88
D413V5, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              9              111
  CLUS_3             12               88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKHD1 MUTATED        2      1      1      3      2      8      4      3
  ANKHD1 WILD-TYPE     39     25     29     26     37     61     16     11
                  vv
clus               CLUS_9
  ANKHD1 MUTATED        1
  ANKHD1 WILD-TYPE     21
D413V6, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              8               61
  CLUS_7              4               16
  CLUS_8              3               11
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKHD1 MUTATED        4      9      8      8
  ANKHD1 WILD-TYPE     96     63     64    113
D413V7, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              9               63
  CLUS_3              8               64
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKHD1 MUTATED        3      6     12      5      3
  ANKHD1 WILD-TYPE     56     69     62    114     35
D413V8, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              6               69
  CLUS_3             12               62
  CLUS_4              5              114
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKHD1 MUTATED        4     11      4      2      7
  ANKHD1 WILD-TYPE     47     65     57     69     88
D413V9, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1              4               47
  CLUS_2             11               65
  CLUS_3              4               57
  CLUS_4              2               69
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKHD1 MUTATED        3      5      1      3      7      3      0      2
  ANKHD1 WILD-TYPE     66     43     38     13     46     17     21     36
                  vv
clus               CLUS_9
  ANKHD1 MUTATED        4
  ANKHD1 WILD-TYPE     46
D413V10, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              5               43
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              7               46
  CLUS_6              3               17
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              4               46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANKHD1 MUTATED        1      2      2      0      3      1
  ANKHD1 WILD-TYPE     12     14     12     11      8      8
D413V11, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKHD1 MUTATED        1      0      0      2      1      1      2      2
  ANKHD1 WILD-TYPE     10      7      7      7      7      6      9      7
                  vv
clus               CLUS_9
  ANKHD1 MUTATED        0
  ANKHD1 WILD-TYPE      5
D413V12, multiclass
        clus
vv       ANKHD1 MUTATED ANKHD1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              2                7
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(414) Variable = GAB2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAB2 MUTATED        1      0      0      1      0
  GAB2 WILD-TYPE     31     18     46     26     23
D414V1, multiclass
[1] "Remove cluster labels:" "GAB2 MUTATED"          
clus
  GAB2 MUTATED GAB2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3864     TCGA-AA-3866 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB2 MUTATED        1      1      0
  GAB2 WILD-TYPE     42     66     36
D414V2, multiclass
[1] "Remove cluster labels:" "GAB2 MUTATED"          
clus
  GAB2 MUTATED GAB2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3864     TCGA-AA-3866 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" "GAB2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB2 MUTATED        0      3      5
  GAB2 WILD-TYPE     42    170    142
D414V3, multiclass
        clus
vv       GAB2 MUTATED GAB2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB2 MUTATED        2      2      3
  GAB2 WILD-TYPE     60     71     72
D414V4, multiclass
        clus
vv       GAB2 MUTATED GAB2 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB2 MUTATED        0      3      6
  GAB2 WILD-TYPE     70    117     94
D414V5, multiclass
        clus
vv       GAB2 MUTATED GAB2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAB2 MUTATED        1      1      0      1      0      5      1      0      0
  GAB2 WILD-TYPE     40     25     30     28     39     64     19     14     22
D414V6, multiclass
        clus
vv       GAB2 MUTATED GAB2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAB2 MUTATED        2      3      2      2
  GAB2 WILD-TYPE     98     69     70    119
D414V7, multiclass
        clus
vv       GAB2 MUTATED GAB2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAB2 MUTATED        1      2      3      2      1
  GAB2 WILD-TYPE     58     73     71    117     37
D414V8, multiclass
        clus
vv       GAB2 MUTATED GAB2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAB2 MUTATED        2      3      0      2      1
  GAB2 WILD-TYPE     49     73     61     69     94
D414V9, multiclass
        clus
vv       GAB2 MUTATED GAB2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAB2 MUTATED        2      2      1      1      1      1      0      0      0
  GAB2 WILD-TYPE     67     46     38     15     52     19     21     38     50
D414V10, multiclass
        clus
vv       GAB2 MUTATED GAB2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GAB2 MUTATED        2      0      0      0      1      0
  GAB2 WILD-TYPE     11     16     14     11     10      9
D414V11, multiclass
        clus
vv       GAB2 MUTATED GAB2 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAB2 MUTATED        0      0      0      1      0      1      0      1      0
  GAB2 WILD-TYPE     11      7      7      8      8      6     11      8      5
D414V12, multiclass
        clus
vv       GAB2 MUTATED GAB2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(415) Variable = ADAM18 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAM18 MUTATED        3      1      0      1      0
  ADAM18 WILD-TYPE     29     17     46     26     23
D415V1, multiclass
        clus
vv       ADAM18 MUTATED ADAM18 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM18 MUTATED        3      1      1
  ADAM18 WILD-TYPE     40     66     35
D415V2, multiclass
        clus
vv       ADAM18 MUTATED ADAM18 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM18 MUTATED        1      5     11
  ADAM18 WILD-TYPE     41    168    136
D415V3, multiclass
        clus
vv       ADAM18 MUTATED ADAM18 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM18 MUTATED        3      5      5
  ADAM18 WILD-TYPE     59     68     70
D415V4, multiclass
        clus
vv       ADAM18 MUTATED ADAM18 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              5               68
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM18 MUTATED        2      7      8
  ADAM18 WILD-TYPE     68    113     92
D415V5, multiclass
        clus
vv       ADAM18 MUTATED ADAM18 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              7              113
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAM18 MUTATED        2      0      1      1      3      4      2      2
  ADAM18 WILD-TYPE     39     26     29     28     36     65     18     12
                  vv
clus               CLUS_9
  ADAM18 MUTATED        2
  ADAM18 WILD-TYPE     20
D415V6, multiclass
        clus
vv       ADAM18 MUTATED ADAM18 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              2               12
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAM18 MUTATED        3      7      3      5
  ADAM18 WILD-TYPE     97     65     69    116
D415V7, multiclass
        clus
vv       ADAM18 MUTATED ADAM18 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              7               65
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAM18 MUTATED        3      5      5      2      3
  ADAM18 WILD-TYPE     56     70     69    117     35
D415V8, multiclass
        clus
vv       ADAM18 MUTATED ADAM18 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              5               70
  CLUS_3              5               69
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAM18 MUTATED        4      6      2      1      5
  ADAM18 WILD-TYPE     47     70     59     70     90
D415V9, multiclass
        clus
vv       ADAM18 MUTATED ADAM18 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              6               70
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAM18 MUTATED        1      2      0      4      4      4      0      2
  ADAM18 WILD-TYPE     68     46     39     12     49     16     21     36
                  vv
clus               CLUS_9
  ADAM18 MUTATED        1
  ADAM18 WILD-TYPE     49
D415V10, multiclass
        clus
vv       ADAM18 MUTATED ADAM18 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              4               12
  CLUS_5              4               49
  CLUS_6              4               16
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADAM18 MUTATED        1      0      0      0      1      0
  ADAM18 WILD-TYPE     12     16     14     11     10      9
D415V11, multiclass
[1] "Remove cluster labels:" "ADAM18 MUTATED"        
clus
  ADAM18 MUTATED ADAM18 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6600 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAM18 MUTATED        0      0      0      2      0      0      0      0
  ADAM18 WILD-TYPE     11      7      7      7      8      7     11      9
                  vv
clus               CLUS_9
  ADAM18 MUTATED        0
  ADAM18 WILD-TYPE      5
D415V12, multiclass
[1] "Remove cluster labels:" "ADAM18 MUTATED"        
clus
  ADAM18 MUTATED ADAM18 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6600 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" "ADAM18 WILD-TYPE" 

Clustering(416) Variable = KIT MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIT MUTATED        2      0      1      3      0
  KIT WILD-TYPE     30     18     45     24     23
D416V1, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           1            45
  CLUS_4           3            24
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KIT MUTATED        2      2      2
  KIT WILD-TYPE     41     65     34
D416V2, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1           2            41
  CLUS_2           2            65
  CLUS_3           2            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KIT MUTATED        7     43     46
  KIT WILD-TYPE     35    130    101
D416V3, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1           7            35
  CLUS_2          43           130
  CLUS_3          46           101
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KIT MUTATED       28     32     31
  KIT WILD-TYPE     34     41     44
D416V4, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1          28            34
  CLUS_2          32            41
  CLUS_3          31            44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KIT MUTATED       15     33     36
  KIT WILD-TYPE     55     87     64
D416V5, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1          15            55
  CLUS_2          33            87
  CLUS_3          36            64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KIT MUTATED       10      4      2     12      6     28      7      9      6
  KIT WILD-TYPE     31     22     28     17     33     41     13      5     16
D416V6, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1          10            31
  CLUS_2           4            22
  CLUS_3           2            28
  CLUS_4          12            17
  CLUS_5           6            33
  CLUS_6          28            41
  CLUS_7           7            13
  CLUS_8           9             5
  CLUS_9           6            16
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIT MUTATED       40     28     23      5
  KIT WILD-TYPE     60     44     49    116
D416V7, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1          40            60
  CLUS_2          28            44
  CLUS_3          23            49
  CLUS_4           5           116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIT MUTATED       21     36     32      5      2
  KIT WILD-TYPE     38     39     42    114     36
D416V8, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1          21            38
  CLUS_2          36            39
  CLUS_3          32            42
  CLUS_4           5           114
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIT MUTATED       27     41     16      6      5
  KIT WILD-TYPE     24     35     45     65     90
D416V9, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1          27            24
  CLUS_2          41            35
  CLUS_3          16            45
  CLUS_4           6            65
  CLUS_5           5            90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KIT MUTATED       28     21      9     10     15      7      1      2      2
  KIT WILD-TYPE     41     27     30      6     38     13     20     36     48
D416V10, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1          28            41
  CLUS_2          21            27
  CLUS_3           9            30
  CLUS_4          10             6
  CLUS_5          15            38
  CLUS_6           7            13
  CLUS_7           1            20
  CLUS_8           2            36
  CLUS_9           2            48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIT MUTATED        4      7      3      3      7      1
  KIT WILD-TYPE      9      9     11      8      4      8
D416V11, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1           4             9
  CLUS_2           7             9
  CLUS_3           3            11
  CLUS_4           3             8
  CLUS_5           7             4
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KIT MUTATED        4      3      2      4      2      2      4      2      2
  KIT WILD-TYPE      7      4      5      5      6      5      7      7      3
D416V12, multiclass
        clus
vv       KIT MUTATED KIT WILD-TYPE
  CLUS_1           4             7
  CLUS_2           3             4
  CLUS_3           2             5
  CLUS_4           4             5
  CLUS_5           2             6
  CLUS_6           2             5
  CLUS_7           4             7
  CLUS_8           2             7
  CLUS_9           2             3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(417) Variable = HUWE1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HUWE1 MUTATED        6      0      1      6      0
  HUWE1 WILD-TYPE     26     18     45     21     23
D417V1, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             6              21
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HUWE1 MUTATED        8      5      0
  HUWE1 WILD-TYPE     35     62     36
D417V2, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1             8              35
  CLUS_2             5              62
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HUWE1 MUTATED        3     11     28
  HUWE1 WILD-TYPE     39    162    119
D417V3, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1             3              39
  CLUS_2            11             162
  CLUS_3            28             119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HUWE1 MUTATED       11      4     13
  HUWE1 WILD-TYPE     51     69     62
D417V4, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1            11              51
  CLUS_2             4              69
  CLUS_3            13              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HUWE1 MUTATED        7      9     16
  HUWE1 WILD-TYPE     63    111     84
D417V5, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1             7              63
  CLUS_2             9             111
  CLUS_3            16              84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HUWE1 MUTATED        4      2      3      4      4     11      2      0
  HUWE1 WILD-TYPE     37     24     27     25     35     58     18     14
                 vv
clus              CLUS_9
  HUWE1 MUTATED        2
  HUWE1 WILD-TYPE     20
D417V6, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             2              24
  CLUS_3             3              27
  CLUS_4             4              25
  CLUS_5             4              35
  CLUS_6            11              58
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HUWE1 MUTATED        8     11     11     12
  HUWE1 WILD-TYPE     92     61     61    109
D417V7, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1             8              92
  CLUS_2            11              61
  CLUS_3            11              61
  CLUS_4            12             109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HUWE1 MUTATED        6      6     16      6      8
  HUWE1 WILD-TYPE     53     69     58    113     30
D417V8, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1             6              53
  CLUS_2             6              69
  CLUS_3            16              58
  CLUS_4             6             113
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HUWE1 MUTATED        5     15      8      2     11
  HUWE1 WILD-TYPE     46     61     53     69     84
D417V9, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1             5              46
  CLUS_2            15              61
  CLUS_3             8              53
  CLUS_4             2              69
  CLUS_5            11              84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HUWE1 MUTATED        4     10      0      7      6      2      3      6
  HUWE1 WILD-TYPE     65     38     39      9     47     18     18     32
                 vv
clus              CLUS_9
  HUWE1 MUTATED        3
  HUWE1 WILD-TYPE     47
D417V10, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2            10              38
  CLUS_3             0              39
  CLUS_4             7               9
  CLUS_5             6              47
  CLUS_6             2              18
  CLUS_7             3              18
  CLUS_8             6              32
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HUWE1 MUTATED        2      2      2      1      2      0
  HUWE1 WILD-TYPE     11     14     12     10      9      9
D417V11, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HUWE1 MUTATED        1      1      2      2      2      1      0      0
  HUWE1 WILD-TYPE     10      6      5      7      6      6     11      9
                 vv
clus              CLUS_9
  HUWE1 MUTATED        0
  HUWE1 WILD-TYPE      5
D417V12, multiclass
        clus
vv       HUWE1 MUTATED HUWE1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             2               5
  CLUS_4             2               7
  CLUS_5             2               6
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(418) Variable = NTRK3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTRK3 MUTATED        3      1      0      3      0
  NTRK3 WILD-TYPE     29     17     46     24     23
D418V1, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTRK3 MUTATED        3      3      1
  NTRK3 WILD-TYPE     40     64     35
D418V2, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             3              64
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTRK3 MUTATED        1      9     14
  NTRK3 WILD-TYPE     41    164    133
D418V3, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             9             164
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTRK3 MUTATED        4      5      8
  NTRK3 WILD-TYPE     58     68     67
D418V4, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             5              68
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTRK3 MUTATED        4     10      9
  NTRK3 WILD-TYPE     66    110     91
D418V5, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             4              66
  CLUS_2            10             110
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTRK3 MUTATED        4      1      4      3      2      5      3      1
  NTRK3 WILD-TYPE     37     25     26     26     37     64     17     13
                 vv
clus              CLUS_9
  NTRK3 MUTATED        0
  NTRK3 WILD-TYPE     22
D418V6, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             1              25
  CLUS_3             4              26
  CLUS_4             3              26
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NTRK3 MUTATED        5      5      7      8
  NTRK3 WILD-TYPE     95     67     65    113
D418V7, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             5              67
  CLUS_3             7              65
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTRK3 MUTATED        4      5      8      3      5
  NTRK3 WILD-TYPE     55     70     66    116     33
D418V8, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             5              70
  CLUS_3             8              66
  CLUS_4             3             116
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTRK3 MUTATED        4      9      3      4      5
  NTRK3 WILD-TYPE     47     67     58     67     90
D418V9, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             9              67
  CLUS_3             3              58
  CLUS_4             4              67
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTRK3 MUTATED        5      6      3      0      2      1      3      3
  NTRK3 WILD-TYPE     64     42     36     16     51     19     18     35
                 vv
clus              CLUS_9
  NTRK3 MUTATED        2
  NTRK3 WILD-TYPE     48
D418V10, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             6              42
  CLUS_3             3              36
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             3              18
  CLUS_8             3              35
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NTRK3 MUTATED        1      2      0      1      2      1
  NTRK3 WILD-TYPE     12     14     14     10      9      8
D418V11, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTRK3 MUTATED        1      1      1      0      0      1      2      1
  NTRK3 WILD-TYPE     10      6      6      9      8      6      9      8
                 vv
clus              CLUS_9
  NTRK3 MUTATED        0
  NTRK3 WILD-TYPE      5
D418V12, multiclass
        clus
vv       NTRK3 MUTATED NTRK3 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(419) Variable = EGFR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EGFR MUTATED        6      0      2      1      1
  EGFR WILD-TYPE     26     18     44     26     22
D419V1, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            2             44
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        7      0      3
  EGFR WILD-TYPE     36     67     33
D419V2, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            7             36
  CLUS_2            0             67
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        8     37     29
  EGFR WILD-TYPE     34    136    118
D419V3, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            8             34
  CLUS_2           37            136
  CLUS_3           29            118
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED       17     27     20
  EGFR WILD-TYPE     45     46     55
D419V4, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           17             45
  CLUS_2           27             46
  CLUS_3           20             55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        7     27     30
  EGFR WILD-TYPE     63     93     70
D419V5, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            7             63
  CLUS_2           27             93
  CLUS_3           30             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EGFR MUTATED       11      3      5      5      6     21      6      3      4
  EGFR WILD-TYPE     30     23     25     24     33     48     14     11     18
D419V6, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           11             30
  CLUS_2            3             23
  CLUS_3            5             25
  CLUS_4            5             24
  CLUS_5            6             33
  CLUS_6           21             48
  CLUS_7            6             14
  CLUS_8            3             11
  CLUS_9            4             18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EGFR MUTATED       29     15     20     11
  EGFR WILD-TYPE     71     57     52    110
D419V7, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           29             71
  CLUS_2           15             57
  CLUS_3           20             52
  CLUS_4           11            110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EGFR MUTATED       19     23     22      3      8
  EGFR WILD-TYPE     40     52     52    116     30
D419V8, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           19             40
  CLUS_2           23             52
  CLUS_3           22             52
  CLUS_4            3            116
  CLUS_5            8             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EGFR MUTATED       17     24     14      9      8
  EGFR WILD-TYPE     34     52     47     62     87
D419V9, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           17             34
  CLUS_2           24             52
  CLUS_3           14             47
  CLUS_4            9             62
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EGFR MUTATED       18     18      9      5     10      7      0      3      2
  EGFR WILD-TYPE     51     30     30     11     43     13     21     35     48
D419V10, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           18             51
  CLUS_2           18             30
  CLUS_3            9             30
  CLUS_4            5             11
  CLUS_5           10             43
  CLUS_6            7             13
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EGFR MUTATED        6      6      4      5      2      3
  EGFR WILD-TYPE      7     10     10      6      9      6
D419V11, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            6              7
  CLUS_2            6             10
  CLUS_3            4             10
  CLUS_4            5              6
  CLUS_5            2              9
  CLUS_6            3              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EGFR MUTATED        6      1      3      3      2      2      5      3      1
  EGFR WILD-TYPE      5      6      4      6      6      5      6      6      4
D419V12, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            6              5
  CLUS_2            1              6
  CLUS_3            3              4
  CLUS_4            3              6
  CLUS_5            2              6
  CLUS_6            2              5
  CLUS_7            5              6
  CLUS_8            3              6
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(420) Variable = GATA3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATA3 MUTATED        2      0      1      0      0
  GATA3 WILD-TYPE     30     18     45     27     23
D420V1, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA3 MUTATED        2      1      0
  GATA3 WILD-TYPE     41     66     36
D420V2, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA3 MUTATED        2      5      9
  GATA3 WILD-TYPE     40    168    138
D420V3, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA3 MUTATED        2      4      7
  GATA3 WILD-TYPE     60     69     68
D420V4, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             4              69
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA3 MUTATED        2      8      2
  GATA3 WILD-TYPE     68    112     98
D420V5, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             8             112
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATA3 MUTATED        0      1      1      4      1      2      2      1
  GATA3 WILD-TYPE     41     25     29     25     38     67     18     13
                 vv
clus              CLUS_9
  GATA3 MUTATED        0
  GATA3 WILD-TYPE     22
D420V6, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GATA3 MUTATED        3      7      3      3
  GATA3 WILD-TYPE     97     65     69    118
D420V7, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             7              65
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATA3 MUTATED        1      5      7      2      1
  GATA3 WILD-TYPE     58     70     67    117     37
D420V8, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             5              70
  CLUS_3             7              67
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATA3 MUTATED        4      6      3      2      1
  GATA3 WILD-TYPE     47     70     58     69     94
D420V9, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             6              70
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATA3 MUTATED        3      2      1      1      2      3      0      3
  GATA3 WILD-TYPE     66     46     38     15     51     17     21     35
                 vv
clus              CLUS_9
  GATA3 MUTATED        1
  GATA3 WILD-TYPE     49
D420V10, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GATA3 MUTATED        0      0      1      0      1      1
  GATA3 WILD-TYPE     13     16     13     11     10      8
D420V11, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATA3 MUTATED        1      0      0      0      1      0      1      0
  GATA3 WILD-TYPE     10      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  GATA3 MUTATED        0
  GATA3 WILD-TYPE      5
D420V12, multiclass
        clus
vv       GATA3 MUTATED GATA3 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(421) Variable = ATP13A5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP13A5 MUTATED        2      0      0      1      0
  ATP13A5 WILD-TYPE     30     18     46     26     23
D421V1, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ATP13A5 MUTATED        2      1      0
  ATP13A5 WILD-TYPE     41     66     36
D421V2, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ATP13A5 MUTATED        0      3     19
  ATP13A5 WILD-TYPE     42    170    128
D421V3, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3              19               128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ATP13A5 MUTATED        9      0     10
  ATP13A5 WILD-TYPE     53     73     65
D421V4, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               9                53
  CLUS_2               0                73
  CLUS_3              10                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ATP13A5 MUTATED        4      5      9
  ATP13A5 WILD-TYPE     66    115     91
D421V5, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               4                66
  CLUS_2               5               115
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP13A5 MUTATED        4      2      1      1      1      6      3      0
  ATP13A5 WILD-TYPE     37     24     29     28     38     63     17     14
                   vv
clus                CLUS_9
  ATP13A5 MUTATED        0
  ATP13A5 WILD-TYPE     22
D421V6, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               4                37
  CLUS_2               2                24
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               6                63
  CLUS_7               3                17
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP13A5 MUTATED        2      8      8      4
  ATP13A5 WILD-TYPE     98     64     64    117
D421V7, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               8                64
  CLUS_3               8                64
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP13A5 MUTATED        5      5      8      2      2
  ATP13A5 WILD-TYPE     54     70     66    117     36
D421V8, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               5                54
  CLUS_2               5                70
  CLUS_3               8                66
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP13A5 MUTATED        3      9      5      0      5
  ATP13A5 WILD-TYPE     48     67     56     71     90
D421V9, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               3                48
  CLUS_2               9                67
  CLUS_3               5                56
  CLUS_4               0                71
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP13A5 MUTATED        3      5      1      4      3      2      0      2
  ATP13A5 WILD-TYPE     66     43     38     12     50     18     21     36
                   vv
clus                CLUS_9
  ATP13A5 MUTATED        2
  ATP13A5 WILD-TYPE     48
D421V10, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               5                43
  CLUS_3               1                38
  CLUS_4               4                12
  CLUS_5               3                50
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP13A5 MUTATED        0      3      1      1      3      0
  ATP13A5 WILD-TYPE     13     13     13     10      8      9
D421V11, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               3                13
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP13A5 MUTATED        0      2      0      1      2      1      2      0
  ATP13A5 WILD-TYPE     11      5      7      8      6      6      9      9
                   vv
clus                CLUS_9
  ATP13A5 MUTATED        0
  ATP13A5 WILD-TYPE      5
D421V12, multiclass
        clus
vv       ATP13A5 MUTATED ATP13A5 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               2                 5
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               2                 6
  CLUS_6               1                 6
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(422) Variable = DKK2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DKK2 MUTATED        4      0      0      0      1
  DKK2 WILD-TYPE     28     18     46     27     22
D422V1, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DKK2 MUTATED        4      0      1
  DKK2 WILD-TYPE     39     67     35
D422V2, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DKK2 MUTATED        1      8     14
  DKK2 WILD-TYPE     41    165    133
D422V3, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            8            165
  CLUS_3           14            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DKK2 MUTATED        7      7      4
  DKK2 WILD-TYPE     55     66     71
D422V4, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            7             66
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DKK2 MUTATED        4      5     12
  DKK2 WILD-TYPE     66    115     88
D422V5, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            4             66
  CLUS_2            5            115
  CLUS_3           12             88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DKK2 MUTATED        2      0      1      2      3      9      1      1      2
  DKK2 WILD-TYPE     39     26     29     27     36     60     19     13     20
D422V6, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            3             36
  CLUS_6            9             60
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DKK2 MUTATED        4      6      8      5
  DKK2 WILD-TYPE     96     66     64    116
D422V7, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            6             66
  CLUS_3            8             64
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DKK2 MUTATED        6      5      7      2      3
  DKK2 WILD-TYPE     53     70     67    117     35
D422V8, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            6             53
  CLUS_2            5             70
  CLUS_3            7             67
  CLUS_4            2            117
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DKK2 MUTATED        2      7      7      2      5
  DKK2 WILD-TYPE     49     69     54     69     90
D422V9, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            7             69
  CLUS_3            7             54
  CLUS_4            2             69
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DKK2 MUTATED        5      6      0      4      1      1      1      3      2
  DKK2 WILD-TYPE     64     42     39     12     52     19     20     35     48
D422V10, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            6             42
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DKK2 MUTATED        0      2      1      0      1      1
  DKK2 WILD-TYPE     13     14     13     11     10      8
D422V11, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DKK2 MUTATED        2      1      0      1      1      0      0      0      0
  DKK2 WILD-TYPE      9      6      7      8      7      7     11      9      5
D422V12, multiclass
        clus
vv       DKK2 MUTATED DKK2 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(423) Variable = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED        7      4      1      9      4
  PIK3CA WILD-TYPE     25     14     45     18     19
D423V1, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              7               25
  CLUS_2              4               14
  CLUS_3              1               45
  CLUS_4              9               18
  CLUS_5              4               19
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       11     10      4
  PIK3CA WILD-TYPE     32     57     32
D423V2, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             11               32
  CLUS_2             10               57
  CLUS_3              4               32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       15     74     83
  PIK3CA WILD-TYPE     27     99     64
D423V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             15               27
  CLUS_2             74               99
  CLUS_3             83               64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       43     47     56
  PIK3CA WILD-TYPE     19     26     19
D423V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             43               19
  CLUS_2             47               26
  CLUS_3             56               19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       25     65     61
  PIK3CA WILD-TYPE     45     55     39
D423V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             25               45
  CLUS_2             65               55
  CLUS_3             61               39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3CA MUTATED       21     11     10     17     14     42     12      9
  PIK3CA WILD-TYPE     20     15     20     12     25     27      8      5
                  vv
clus               CLUS_9
  PIK3CA MUTATED       15
  PIK3CA WILD-TYPE      7
D423V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             21               20
  CLUS_2             11               15
  CLUS_3             10               20
  CLUS_4             17               12
  CLUS_5             14               25
  CLUS_6             42               27
  CLUS_7             12                8
  CLUS_8              9                5
  CLUS_9             15                7
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED       58     46     45     26
  PIK3CA WILD-TYPE     42     26     27     95
D423V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             58               42
  CLUS_2             46               26
  CLUS_3             45               27
  CLUS_4             26               95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED       38     56     49     21     11
  PIK3CA WILD-TYPE     21     19     25     98     27
D423V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             38               21
  CLUS_2             56               19
  CLUS_3             49               25
  CLUS_4             21               98
  CLUS_5             11               27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED       40     56     32     20     24
  PIK3CA WILD-TYPE     11     20     29     51     71
D423V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             40               11
  CLUS_2             56               20
  CLUS_3             32               29
  CLUS_4             20               51
  CLUS_5             24               71
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3CA MUTATED       42     36     11     11     30     16      5     11
  PIK3CA WILD-TYPE     27     12     28      5     23      4     16     27
                  vv
clus               CLUS_9
  PIK3CA MUTATED       10
  PIK3CA WILD-TYPE     40
D423V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             42               27
  CLUS_2             36               12
  CLUS_3             11               28
  CLUS_4             11                5
  CLUS_5             30               23
  CLUS_6             16                4
  CLUS_7              5               16
  CLUS_8             11               27
  CLUS_9             10               40
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3CA MUTATED        6     11     10      7      7      6
  PIK3CA WILD-TYPE      7      5      4      4      4      3
D423V11, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              6                7
  CLUS_2             11                5
  CLUS_3             10                4
  CLUS_4              7                4
  CLUS_5              7                4
  CLUS_6              6                3
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3CA MUTATED        5      5      4      4      7      3     10      6
  PIK3CA WILD-TYPE      6      2      3      5      1      4      1      3
                  vv
clus               CLUS_9
  PIK3CA MUTATED        3
  PIK3CA WILD-TYPE      2
D423V12, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              5                6
  CLUS_2              5                2
  CLUS_3              4                3
  CLUS_4              4                5
  CLUS_5              7                1
  CLUS_6              3                4
  CLUS_7             10                1
  CLUS_8              6                3
  CLUS_9              3                2
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(424) Variable = CLVS2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLVS2 MUTATED        1      0      0      1      0
  CLVS2 WILD-TYPE     31     18     46     26     23
D424V1, multiclass
[1] "Remove cluster labels:" "CLVS2 MUTATED"         
clus
  CLVS2 MUTATED CLVS2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLVS2 MUTATED        2      0      0
  CLVS2 WILD-TYPE     41     67     36
D424V2, multiclass
[1] "Remove cluster labels:" "CLVS2 MUTATED"         
clus
  CLVS2 MUTATED CLVS2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLVS2 MUTATED        2      2      5
  CLVS2 WILD-TYPE     40    171    142
D424V3, multiclass
        clus
vv       CLVS2 MUTATED CLVS2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLVS2 MUTATED        1      3      3
  CLVS2 WILD-TYPE     61     70     72
D424V4, multiclass
        clus
vv       CLVS2 MUTATED CLVS2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLVS2 MUTATED        2      3      3
  CLVS2 WILD-TYPE     68    117     97
D424V5, multiclass
        clus
vv       CLVS2 MUTATED CLVS2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLVS2 MUTATED        0      1      0      1      3      3      0      0
  CLVS2 WILD-TYPE     41     25     30     28     36     66     20     14
                 vv
clus              CLUS_9
  CLVS2 MUTATED        0
  CLVS2 WILD-TYPE     22
D424V6, multiclass
        clus
vv       CLVS2 MUTATED CLVS2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLVS2 MUTATED        3      3      1      2
  CLVS2 WILD-TYPE     97     69     71    119
D424V7, multiclass
        clus
vv       CLVS2 MUTATED CLVS2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLVS2 MUTATED        1      3      3      0      2
  CLVS2 WILD-TYPE     58     72     71    119     36
D424V8, multiclass
        clus
vv       CLVS2 MUTATED CLVS2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLVS2 MUTATED        2      4      1      0      1
  CLVS2 WILD-TYPE     49     72     60     71     94
D424V9, multiclass
        clus
vv       CLVS2 MUTATED CLVS2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLVS2 MUTATED        2      0      2      2      1      0      0      1
  CLVS2 WILD-TYPE     67     48     37     14     52     20     21     37
                 vv
clus              CLUS_9
  CLVS2 MUTATED        0
  CLVS2 WILD-TYPE     50
D424V10, multiclass
        clus
vv       CLVS2 MUTATED CLVS2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             2              37
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLVS2 MUTATED        1      0      0      0      1      0
  CLVS2 WILD-TYPE     12     16     14     11     10      9
D424V11, multiclass
[1] "Remove cluster labels:" "CLVS2 MUTATED"         
clus
  CLVS2 MUTATED CLVS2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLVS2 MUTATED        0      0      0      1      0      0      0      1
  CLVS2 WILD-TYPE     11      7      7      8      8      7     11      8
                 vv
clus              CLUS_9
  CLVS2 MUTATED        0
  CLVS2 WILD-TYPE      5
D424V12, multiclass
[1] "Remove cluster labels:" "CLVS2 MUTATED"         
clus
  CLVS2 MUTATED CLVS2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 

Clustering(425) Variable = EP300 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EP300 MUTATED        6      0      1      4      0
  EP300 WILD-TYPE     26     18     45     23     23
D425V1, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             4              23
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP300 MUTATED        8      3      0
  EP300 WILD-TYPE     35     64     36
D425V2, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             8              35
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP300 MUTATED        2      7     27
  EP300 WILD-TYPE     40    166    120
D425V3, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             7             166
  CLUS_3            27             120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP300 MUTATED       10      4     11
  EP300 WILD-TYPE     52     69     64
D425V4, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1            10              52
  CLUS_2             4              69
  CLUS_3            11              64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP300 MUTATED        7      9     15
  EP300 WILD-TYPE     63    111     85
D425V5, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             7              63
  CLUS_2             9             111
  CLUS_3            15              85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EP300 MUTATED        4      3      1      2      3     11      1      3
  EP300 WILD-TYPE     37     23     29     27     36     58     19     11
                 vv
clus              CLUS_9
  EP300 MUTATED        3
  EP300 WILD-TYPE     19
D425V6, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6            11              58
  CLUS_7             1              19
  CLUS_8             3              11
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EP300 MUTATED        5     14      5     12
  EP300 WILD-TYPE     95     58     67    109
D425V7, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             5              95
  CLUS_2            14              58
  CLUS_3             5              67
  CLUS_4            12             109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EP300 MUTATED        4      5     15      4      8
  EP300 WILD-TYPE     55     70     59    115     30
D425V8, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             5              70
  CLUS_3            15              59
  CLUS_4             4             115
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EP300 MUTATED        5     17      3      0      9
  EP300 WILD-TYPE     46     59     58     71     86
D425V9, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             5              46
  CLUS_2            17              59
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EP300 MUTATED        8      5      1      5      6      1      2      5
  EP300 WILD-TYPE     61     43     38     11     47     19     19     33
                 vv
clus              CLUS_9
  EP300 MUTATED        1
  EP300 WILD-TYPE     49
D425V10, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             8              61
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             5              11
  CLUS_5             6              47
  CLUS_6             1              19
  CLUS_7             2              19
  CLUS_8             5              33
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EP300 MUTATED        2      0      2      0      3      0
  EP300 WILD-TYPE     11     16     12     11      8      9
D425V11, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EP300 MUTATED        0      0      0      3      1      1      1      0
  EP300 WILD-TYPE     11      7      7      6      7      6     10      9
                 vv
clus              CLUS_9
  EP300 MUTATED        1
  EP300 WILD-TYPE      4
D425V12, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(426) Variable = ITGAV MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITGAV MUTATED        1      0      1      0      0
  ITGAV WILD-TYPE     31     18     45     27     23
D426V1, multiclass
[1] "Remove cluster labels:" "ITGAV MUTATED"         
clus
  ITGAV MUTATED ITGAV WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4071 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGAV MUTATED        1      1      0
  ITGAV WILD-TYPE     42     66     36
D426V2, multiclass
[1] "Remove cluster labels:" "ITGAV MUTATED"         
clus
  ITGAV MUTATED ITGAV WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4071 
"ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" "ITGAV WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGAV MUTATED        0      4     11
  ITGAV WILD-TYPE     42    169    136
D426V3, multiclass
        clus
vv       ITGAV MUTATED ITGAV WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGAV MUTATED        7      3      3
  ITGAV WILD-TYPE     55     70     72
D426V4, multiclass
        clus
vv       ITGAV MUTATED ITGAV WILD-TYPE
  CLUS_1             7              55
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGAV MUTATED        1      3      8
  ITGAV WILD-TYPE     69    117     92
D426V5, multiclass
        clus
vv       ITGAV MUTATED ITGAV WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITGAV MUTATED        1      0      0      1      1      7      1      0
  ITGAV WILD-TYPE     40     26     30     28     38     62     19     14
                 vv
clus              CLUS_9
  ITGAV MUTATED        1
  ITGAV WILD-TYPE     21
D426V6, multiclass
        clus
vv       ITGAV MUTATED ITGAV WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITGAV MUTATED        2      6      5      2
  ITGAV WILD-TYPE     98     66     67    119
D426V7, multiclass
        clus
vv       ITGAV MUTATED ITGAV WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             5              67
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITGAV MUTATED        2      4      7      1      1
  ITGAV WILD-TYPE     57     71     67    118     37
D426V8, multiclass
        clus
vv       ITGAV MUTATED ITGAV WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             7              67
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITGAV MUTATED        1      9      1      1      3
  ITGAV WILD-TYPE     50     67     60     70     92
D426V9, multiclass
        clus
vv       ITGAV MUTATED ITGAV WILD-TYPE
  CLUS_1             1              50
  CLUS_2             9              67
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITGAV MUTATED        5      4      0      1      3      0      0      1
  ITGAV WILD-TYPE     64     44     39     15     50     20     21     37
                 vv
clus              CLUS_9
  ITGAV MUTATED        1
  ITGAV WILD-TYPE     49
D426V10, multiclass
        clus
vv       ITGAV MUTATED ITGAV WILD-TYPE
  CLUS_1             5              64
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ITGAV MUTATED        1      0      2      0      1      0
  ITGAV WILD-TYPE     12     16     12     11     10      9
D426V11, multiclass
        clus
vv       ITGAV MUTATED ITGAV WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITGAV MUTATED        0      0      0      1      0      1      2      0
  ITGAV WILD-TYPE     11      7      7      8      8      6      9      9
                 vv
clus              CLUS_9
  ITGAV MUTATED        0
  ITGAV WILD-TYPE      5
D426V12, multiclass
        clus
vv       ITGAV MUTATED ITGAV WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(427) Variable = PPP1R3A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP1R3A MUTATED        4      0      1      3      0
  PPP1R3A WILD-TYPE     28     18     45     24     23
D427V1, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               3                24
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP1R3A MUTATED        5      2      1
  PPP1R3A WILD-TYPE     38     65     35
D427V2, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1               5                38
  CLUS_2               2                65
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP1R3A MUTATED        0     12     20
  PPP1R3A WILD-TYPE     42    161    127
D427V3, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1               0                42
  CLUS_2              12               161
  CLUS_3              20               127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP1R3A MUTATED        8      7      9
  PPP1R3A WILD-TYPE     54     66     66
D427V4, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1               8                54
  CLUS_2               7                66
  CLUS_3               9                66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP1R3A MUTATED        4     12      9
  PPP1R3A WILD-TYPE     66    108     91
D427V5, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1               4                66
  CLUS_2              12               108
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP1R3A MUTATED        1      1      3      5      4      8      0      0
  PPP1R3A WILD-TYPE     40     25     27     24     35     61     20     14
                   vv
clus                CLUS_9
  PPP1R3A MUTATED        3
  PPP1R3A WILD-TYPE     19
D427V6, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               3                27
  CLUS_4               5                24
  CLUS_5               4                35
  CLUS_6               8                61
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               3                19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP1R3A MUTATED       11      8      4      9
  PPP1R3A WILD-TYPE     89     64     68    112
D427V7, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1              11                89
  CLUS_2               8                64
  CLUS_3               4                68
  CLUS_4               9               112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP1R3A MUTATED        3     10     10      5      4
  PPP1R3A WILD-TYPE     56     65     64    114     34
D427V8, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1               3                56
  CLUS_2              10                65
  CLUS_3              10                64
  CLUS_4               5               114
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP1R3A MUTATED        6      9      5      2      8
  PPP1R3A WILD-TYPE     45     67     56     69     87
D427V9, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1               6                45
  CLUS_2               9                67
  CLUS_3               5                56
  CLUS_4               2                69
  CLUS_5               8                87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP1R3A MUTATED        8      4      2      1      5      4      1      3
  PPP1R3A WILD-TYPE     61     44     37     15     48     16     20     35
                   vv
clus                CLUS_9
  PPP1R3A MUTATED        2
  PPP1R3A WILD-TYPE     48
D427V10, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1               8                61
  CLUS_2               4                44
  CLUS_3               2                37
  CLUS_4               1                15
  CLUS_5               5                48
  CLUS_6               4                16
  CLUS_7               1                20
  CLUS_8               3                35
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPP1R3A MUTATED        0      0      2      0      2      0
  PPP1R3A WILD-TYPE     13     16     12     11      9      9
D427V11, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               2                12
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP1R3A MUTATED        0      0      0      1      2      0      1      0
  PPP1R3A WILD-TYPE     11      7      7      8      6      7     10      9
                   vv
clus                CLUS_9
  PPP1R3A MUTATED        0
  PPP1R3A WILD-TYPE      5
D427V12, multiclass
        clus
vv       PPP1R3A MUTATED PPP1R3A WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               2                 6
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(428) Variable = PTPN11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN11 MUTATED        2      0      0      0      0
  PTPN11 WILD-TYPE     30     18     46     27     23
D428V1, multiclass
[1] "Remove cluster labels:" "PTPN11 MUTATED"        
clus
  PTPN11 MUTATED PTPN11 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN11 MUTATED        2      0      0
  PTPN11 WILD-TYPE     41     67     36
D428V2, multiclass
[1] "Remove cluster labels:" "PTPN11 MUTATED"        
clus
  PTPN11 MUTATED PTPN11 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" "PTPN11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN11 MUTATED        3     15     12
  PTPN11 WILD-TYPE     39    158    135
D428V3, multiclass
        clus
vv       PTPN11 MUTATED PTPN11 WILD-TYPE
  CLUS_1              3               39
  CLUS_2             15              158
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN11 MUTATED        4     14     10
  PTPN11 WILD-TYPE     58     59     65
D428V4, multiclass
        clus
vv       PTPN11 MUTATED PTPN11 WILD-TYPE
  CLUS_1              4               58
  CLUS_2             14               59
  CLUS_3             10               65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN11 MUTATED        2     15      9
  PTPN11 WILD-TYPE     68    105     91
D428V5, multiclass
        clus
vv       PTPN11 MUTATED PTPN11 WILD-TYPE
  CLUS_1              2               68
  CLUS_2             15              105
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN11 MUTATED        3      2      2      7      2      7      1      1
  PTPN11 WILD-TYPE     38     24     28     22     37     62     19     13
                  vv
clus               CLUS_9
  PTPN11 MUTATED        1
  PTPN11 WILD-TYPE     21
D428V6, multiclass
        clus
vv       PTPN11 MUTATED PTPN11 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              2               24
  CLUS_3              2               28
  CLUS_4              7               22
  CLUS_5              2               37
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPN11 MUTATED       14      8      6      2
  PTPN11 WILD-TYPE     86     64     66    119
D428V7, multiclass
        clus
vv       PTPN11 MUTATED PTPN11 WILD-TYPE
  CLUS_1             14               86
  CLUS_2              8               64
  CLUS_3              6               66
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN11 MUTATED        5     14      9      0      2
  PTPN11 WILD-TYPE     54     61     65    119     36
D428V8, multiclass
        clus
vv       PTPN11 MUTATED PTPN11 WILD-TYPE
  CLUS_1              5               54
  CLUS_2             14               61
  CLUS_3              9               65
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN11 MUTATED        8     11      4      5      2
  PTPN11 WILD-TYPE     43     65     57     66     93
D428V9, multiclass
        clus
vv       PTPN11 MUTATED PTPN11 WILD-TYPE
  CLUS_1              8               43
  CLUS_2             11               65
  CLUS_3              4               57
  CLUS_4              5               66
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN11 MUTATED        8      5      3      2      7      3      0      2
  PTPN11 WILD-TYPE     61     43     36     14     46     17     21     36
                  vv
clus               CLUS_9
  PTPN11 MUTATED        0
  PTPN11 WILD-TYPE     50
D428V10, multiclass
        clus
vv       PTPN11 MUTATED PTPN11 WILD-TYPE
  CLUS_1              8               61
  CLUS_2              5               43
  CLUS_3              3               36
  CLUS_4              2               14
  CLUS_5              7               46
  CLUS_6              3               17
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPN11 MUTATED        2      1      2      2      4      0
  PTPN11 WILD-TYPE     11     15     12      9      7      9
D428V11, multiclass
        clus
vv       PTPN11 MUTATED PTPN11 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              2                9
  CLUS_5              4                7
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN11 MUTATED        0      0      1      4      2      1      2      1
  PTPN11 WILD-TYPE     11      7      6      5      6      6      9      8
                  vv
clus               CLUS_9
  PTPN11 MUTATED        0
  PTPN11 WILD-TYPE      5
D428V12, multiclass
        clus
vv       PTPN11 MUTATED PTPN11 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              4                5
  CLUS_5              2                6
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(429) Variable = KIAA1409 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1409 MUTATED        8      0      0      5      0
  KIAA1409 WILD-TYPE     24     18     46     22     23
D429V1, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1                8                 24
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                5                 22
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1409 MUTATED       11      2      0
  KIAA1409 WILD-TYPE     32     65     36
D429V2, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1               11                 32
  CLUS_2                2                 65
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1409 MUTATED        4      9     25
  KIAA1409 WILD-TYPE     38    164    122
D429V3, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1                4                 38
  CLUS_2                9                164
  CLUS_3               25                122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1409 MUTATED       12      6      7
  KIAA1409 WILD-TYPE     50     67     68
D429V4, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1               12                 50
  CLUS_2                6                 67
  CLUS_3                7                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1409 MUTATED        6     12     16
  KIAA1409 WILD-TYPE     64    108     84
D429V5, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1                6                 64
  CLUS_2               12                108
  CLUS_3               16                 84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1409 MUTATED        6      2      1      2      7      7      5      2
  KIAA1409 WILD-TYPE     35     24     29     27     32     62     15     12
                    vv
clus                 CLUS_9
  KIAA1409 MUTATED        2
  KIAA1409 WILD-TYPE     20
D429V6, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1                6                 35
  CLUS_2                2                 24
  CLUS_3                1                 29
  CLUS_4                2                 27
  CLUS_5                7                 32
  CLUS_6                7                 62
  CLUS_7                5                 15
  CLUS_8                2                 12
  CLUS_9                2                 20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1409 MUTATED        6     11     10     11
  KIAA1409 WILD-TYPE     94     61     62    110
D429V7, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1                6                 94
  CLUS_2               11                 61
  CLUS_3               10                 62
  CLUS_4               11                110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1409 MUTATED        7      4     13      4     10
  KIAA1409 WILD-TYPE     52     71     61    115     28
D429V8, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1                7                 52
  CLUS_2                4                 71
  CLUS_3               13                 61
  CLUS_4                4                115
  CLUS_5               10                 28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1409 MUTATED        3     12      5      4     14
  KIAA1409 WILD-TYPE     48     64     56     67     81
D429V9, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1                3                 48
  CLUS_2               12                 64
  CLUS_3                5                 56
  CLUS_4                4                 67
  CLUS_5               14                 81
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1409 MUTATED        5     11      1      1      7      3      1      7
  KIAA1409 WILD-TYPE     64     37     38     15     46     17     20     31
                    vv
clus                 CLUS_9
  KIAA1409 MUTATED        2
  KIAA1409 WILD-TYPE     48
D429V10, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1                5                 64
  CLUS_2               11                 37
  CLUS_3                1                 38
  CLUS_4                1                 15
  CLUS_5                7                 46
  CLUS_6                3                 17
  CLUS_7                1                 20
  CLUS_8                7                 31
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA1409 MUTATED        0      2      1      2      1      1
  KIAA1409 WILD-TYPE     13     14     13      9     10      8
D429V11, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                2                 14
  CLUS_3                1                 13
  CLUS_4                2                  9
  CLUS_5                1                 10
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1409 MUTATED        1      0      0      0      0      0      4      2
  KIAA1409 WILD-TYPE     10      7      7      9      8      7      7      7
                    vv
clus                 CLUS_9
  KIAA1409 MUTATED        0
  KIAA1409 WILD-TYPE      5
D429V12, multiclass
        clus
vv       KIAA1409 MUTATED KIAA1409 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                4                  7
  CLUS_8                2                  7
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(430) Variable = EPHA3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA3 MUTATED        9      0      2      4      0
  EPHA3 WILD-TYPE     23     18     44     23     23
D430V1, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1             9              23
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             4              23
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA3 MUTATED        8      5      2
  EPHA3 WILD-TYPE     35     62     34
D430V2, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1             8              35
  CLUS_2             5              62
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA3 MUTATED        3     18     35
  EPHA3 WILD-TYPE     39    155    112
D430V3, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1             3              39
  CLUS_2            18             155
  CLUS_3            35             112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA3 MUTATED       13     10     19
  EPHA3 WILD-TYPE     49     63     56
D430V4, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1            13              49
  CLUS_2            10              63
  CLUS_3            19              56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA3 MUTATED        5     19     25
  EPHA3 WILD-TYPE     65    101     75
D430V5, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1             5              65
  CLUS_2            19             101
  CLUS_3            25              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA3 MUTATED        5      5      5      2      7     18      3      2
  EPHA3 WILD-TYPE     36     21     25     27     32     51     17     12
                 vv
clus              CLUS_9
  EPHA3 MUTATED        2
  EPHA3 WILD-TYPE     20
D430V6, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1             5              36
  CLUS_2             5              21
  CLUS_3             5              25
  CLUS_4             2              27
  CLUS_5             7              32
  CLUS_6            18              51
  CLUS_7             3              17
  CLUS_8             2              12
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPHA3 MUTATED       12     19     12     14
  EPHA3 WILD-TYPE     88     53     60    107
D430V7, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1            12              88
  CLUS_2            19              53
  CLUS_3            12              60
  CLUS_4            14             107
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA3 MUTATED        7     12     22      8      8
  EPHA3 WILD-TYPE     52     63     52    111     30
D430V8, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1             7              52
  CLUS_2            12              63
  CLUS_3            22              52
  CLUS_4             8             111
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA3 MUTATED        7     22      8      6     13
  EPHA3 WILD-TYPE     44     54     53     65     82
D430V9, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1             7              44
  CLUS_2            22              54
  CLUS_3             8              53
  CLUS_4             6              65
  CLUS_5            13              82
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA3 MUTATED        9     12      5     10      6      4      2      5
  EPHA3 WILD-TYPE     60     36     34      6     47     16     19     33
                 vv
clus              CLUS_9
  EPHA3 MUTATED        3
  EPHA3 WILD-TYPE     47
D430V10, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1             9              60
  CLUS_2            12              36
  CLUS_3             5              34
  CLUS_4            10               6
  CLUS_5             6              47
  CLUS_6             4              16
  CLUS_7             2              19
  CLUS_8             5              33
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EPHA3 MUTATED        4      2      2      2      3      1
  EPHA3 WILD-TYPE      9     14     12      9      8      8
D430V11, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1             4               9
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             2               9
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA3 MUTATED        2      0      1      3      0      1      3      2
  EPHA3 WILD-TYPE      9      7      6      6      8      6      8      7
                 vv
clus              CLUS_9
  EPHA3 MUTATED        2
  EPHA3 WILD-TYPE      3
D430V12, multiclass
        clus
vv       EPHA3 MUTATED EPHA3 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             3               6
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             3               8
  CLUS_8             2               7
  CLUS_9             2               3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(431) Variable = HFE2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HFE2 MUTATED        1      0      0      0      0
  HFE2 WILD-TYPE     31     18     46     27     23
D431V1, multiclass
[1] "Remove cluster labels:" "HFE2 MUTATED"          
clus
  HFE2 MUTATED HFE2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AY-4071 
"HFE2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HFE2 MUTATED        1      0      0
  HFE2 WILD-TYPE     42     67     36
D431V2, multiclass
[1] "Remove cluster labels:" "HFE2 MUTATED"          
clus
  HFE2 MUTATED HFE2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AY-4071 
"HFE2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HFE2 MUTATED        1      4      2
  HFE2 WILD-TYPE     41    169    145
D431V3, multiclass
        clus
vv       HFE2 MUTATED HFE2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HFE2 MUTATED        1      4      0
  HFE2 WILD-TYPE     61     69     75
D431V4, multiclass
        clus
vv       HFE2 MUTATED HFE2 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            4             69
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HFE2 MUTATED        1      3      3
  HFE2 WILD-TYPE     69    117     97
D431V5, multiclass
        clus
vv       HFE2 MUTATED HFE2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HFE2 MUTATED        0      0      2      2      0      2      1      0      0
  HFE2 WILD-TYPE     41     26     28     27     39     67     19     14     22
D431V6, multiclass
        clus
vv       HFE2 MUTATED HFE2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HFE2 MUTATED        4      0      1      3
  HFE2 WILD-TYPE     96     72     71    118
D431V7, multiclass
        clus
vv       HFE2 MUTATED HFE2 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            0             72
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HFE2 MUTATED        0      4      1      1      2
  HFE2 WILD-TYPE     59     71     73    118     36
D431V8, multiclass
        clus
vv       HFE2 MUTATED HFE2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            4             71
  CLUS_3            1             73
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HFE2 MUTATED        1      3      0      2      2
  HFE2 WILD-TYPE     50     73     61     69     93
D431V9, multiclass
        clus
vv       HFE2 MUTATED HFE2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HFE2 MUTATED        1      1      3      0      0      0      0      2      1
  HFE2 WILD-TYPE     68     47     36     16     53     20     21     36     49
D431V10, multiclass
        clus
vv       HFE2 MUTATED HFE2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            3             36
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HFE2 MUTATED        1      0      0      0      1      0
  HFE2 WILD-TYPE     12     16     14     11     10      9
D431V11, multiclass
[1] "Remove cluster labels:" "HFE2 MUTATED"          
clus
  HFE2 MUTATED HFE2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HFE2 MUTATED        0      0      0      1      0      0      1      0      0
  HFE2 WILD-TYPE     11      7      7      8      8      7     10      9      5
D431V12, multiclass
[1] "Remove cluster labels:" "HFE2 MUTATED"          
clus
  HFE2 MUTATED HFE2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" "HFE2 WILD-TYPE" 

Clustering(432) Variable = MYH1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYH1 MUTATED        4      0      0      2      0
  MYH1 WILD-TYPE     28     18     46     25     23
D432V1, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH1 MUTATED        3      2      1
  MYH1 WILD-TYPE     40     65     35
D432V2, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH1 MUTATED        3     11     18
  MYH1 WILD-TYPE     39    162    129
D432V3, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1            3             39
  CLUS_2           11            162
  CLUS_3           18            129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH1 MUTATED        9      9      8
  MYH1 WILD-TYPE     53     64     67
D432V4, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1            9             53
  CLUS_2            9             64
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH1 MUTATED        6      8     12
  MYH1 WILD-TYPE     64    112     88
D432V5, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1            6             64
  CLUS_2            8            112
  CLUS_3           12             88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYH1 MUTATED        6      1      2      1      1      9      3      1      2
  MYH1 WILD-TYPE     35     25     28     28     38     60     17     13     20
D432V6, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1            6             35
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            9             60
  CLUS_7            3             17
  CLUS_8            1             13
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYH1 MUTATED       10      9      7      6
  MYH1 WILD-TYPE     90     63     65    115
D432V7, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1           10             90
  CLUS_2            9             63
  CLUS_3            7             65
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYH1 MUTATED        7     10      9      3      3
  MYH1 WILD-TYPE     52     65     65    116     35
D432V8, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1            7             52
  CLUS_2           10             65
  CLUS_3            9             65
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYH1 MUTATED        5     10      5      6      6
  MYH1 WILD-TYPE     46     66     56     65     89
D432V9, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1            5             46
  CLUS_2           10             66
  CLUS_3            5             56
  CLUS_4            6             65
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYH1 MUTATED       10      6      1      4      4      1      1      4      1
  MYH1 WILD-TYPE     59     42     38     12     49     19     20     34     49
D432V10, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1           10             59
  CLUS_2            6             42
  CLUS_3            1             38
  CLUS_4            4             12
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MYH1 MUTATED        3      1      1      2      2      0
  MYH1 WILD-TYPE     10     15     13      9      9      9
D432V11, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1            3             10
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            2              9
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYH1 MUTATED        1      1      1      3      0      0      1      2      0
  MYH1 WILD-TYPE     10      6      6      6      8      7     10      7      5
D432V12, multiclass
        clus
vv       MYH1 MUTATED MYH1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            1              6
  CLUS_4            3              6
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            2              7
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(433) Variable = EEA1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EEA1 MUTATED        2      0      0      1      0
  EEA1 WILD-TYPE     30     18     46     26     23
D433V1, multiclass
        clus
vv       EEA1 MUTATED EEA1 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EEA1 MUTATED        2      1      0
  EEA1 WILD-TYPE     41     66     36
D433V2, multiclass
        clus
vv       EEA1 MUTATED EEA1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EEA1 MUTATED        1      0     12
  EEA1 WILD-TYPE     41    173    135
D433V3, multiclass
        clus
vv       EEA1 MUTATED EEA1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EEA1 MUTATED        5      0      5
  EEA1 WILD-TYPE     57     73     70
D433V4, multiclass
        clus
vv       EEA1 MUTATED EEA1 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            0             73
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EEA1 MUTATED        2      6      5
  EEA1 WILD-TYPE     68    114     95
D433V5, multiclass
        clus
vv       EEA1 MUTATED EEA1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            114
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EEA1 MUTATED        1      2      1      2      3      3      1      0      0
  EEA1 WILD-TYPE     40     24     29     27     36     66     19     14     22
D433V6, multiclass
        clus
vv       EEA1 MUTATED EEA1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            3             36
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EEA1 MUTATED        0      6      3      4
  EEA1 WILD-TYPE    100     66     69    117
D433V7, multiclass
        clus
vv       EEA1 MUTATED EEA1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            6             66
  CLUS_3            3             69
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EEA1 MUTATED        1      1      6      3      2
  EEA1 WILD-TYPE     58     74     68    116     36
D433V8, multiclass
        clus
vv       EEA1 MUTATED EEA1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            6             68
  CLUS_4            3            116
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EEA1 MUTATED        0      6      1      0      6
  EEA1 WILD-TYPE     51     70     60     71     89
D433V9, multiclass
        clus
vv       EEA1 MUTATED EEA1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EEA1 MUTATED        3      2      0      2      0      1      0      3      2
  EEA1 WILD-TYPE     66     46     39     14     53     19     21     35     48
D433V10, multiclass
        clus
vv       EEA1 MUTATED EEA1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EEA1 MUTATED        1      0      0      0      1      0
  EEA1 WILD-TYPE     12     16     14     11     10      9
D433V11, multiclass
[1] "Remove cluster labels:" "EEA1 MUTATED"          
clus
  EEA1 MUTATED EEA1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1HA     TCGA-DM-A282 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EEA1 MUTATED        0      0      0      1      1      0      0      0      0
  EEA1 WILD-TYPE     11      7      7      8      7      7     11      9      5
D433V12, multiclass
[1] "Remove cluster labels:" "EEA1 MUTATED"          
clus
  EEA1 MUTATED EEA1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1HA     TCGA-DM-A282 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" "EEA1 WILD-TYPE" 

Clustering(434) Variable = GRM7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRM7 MUTATED        3      1      2      2      0
  GRM7 WILD-TYPE     29     17     44     25     23
D434V1, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            1             17
  CLUS_3            2             44
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRM7 MUTATED        3      3      2
  GRM7 WILD-TYPE     40     64     34
D434V2, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            3             64
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRM7 MUTATED        2      7     16
  GRM7 WILD-TYPE     40    166    131
D434V3, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            7            166
  CLUS_3           16            131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRM7 MUTATED        7      4      7
  GRM7 WILD-TYPE     55     69     68
D434V4, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            4             69
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRM7 MUTATED        2      8     10
  GRM7 WILD-TYPE     68    112     90
D434V5, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            8            112
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRM7 MUTATED        1      0      1      2      3      6      2      2      3
  GRM7 WILD-TYPE     40     26     29     27     36     63     18     12     19
D434V6, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            3             36
  CLUS_6            6             63
  CLUS_7            2             18
  CLUS_8            2             12
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRM7 MUTATED        5      8      6      6
  GRM7 WILD-TYPE     95     64     66    115
D434V7, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            5             95
  CLUS_2            8             64
  CLUS_3            6             66
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRM7 MUTATED        3      4     10      5      3
  GRM7 WILD-TYPE     56     71     64    114     35
D434V8, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            4             71
  CLUS_3           10             64
  CLUS_4            5            114
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRM7 MUTATED        3      9      5      2      4
  GRM7 WILD-TYPE     48     67     56     69     91
D434V9, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            9             67
  CLUS_3            5             56
  CLUS_4            2             69
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRM7 MUTATED        5      4      1      4      5      0      1      2      1
  GRM7 WILD-TYPE     64     44     38     12     48     20     20     36     49
D434V10, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            4             44
  CLUS_3            1             38
  CLUS_4            4             12
  CLUS_5            5             48
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GRM7 MUTATED        0      1      2      0      2      0
  GRM7 WILD-TYPE     13     15     12     11      9      9
D434V11, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRM7 MUTATED        0      1      0      1      1      0      2      0      0
  GRM7 WILD-TYPE     11      6      7      8      7      7      9      9      5
D434V12, multiclass
        clus
vv       GRM7 MUTATED GRM7 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(435) Variable = GRM8 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRM8 MUTATED        2      0      0      2      0
  GRM8 WILD-TYPE     30     18     46     25     23
D435V1, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRM8 MUTATED        3      1      0
  GRM8 WILD-TYPE     40     66     36
D435V2, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRM8 MUTATED        3      3     15
  GRM8 WILD-TYPE     39    170    132
D435V3, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            3            170
  CLUS_3           15            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRM8 MUTATED       10      1      6
  GRM8 WILD-TYPE     52     72     69
D435V4, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1           10             52
  CLUS_2            1             72
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRM8 MUTATED        1      6     12
  GRM8 WILD-TYPE     69    114     88
D435V5, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            6            114
  CLUS_3           12             88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRM8 MUTATED        4      0      1      3      2      7      1      1      0
  GRM8 WILD-TYPE     37     26     29     26     37     62     19     13     22
D435V6, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1            4             37
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            2             37
  CLUS_6            7             62
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRM8 MUTATED        1      7      9      4
  GRM8 WILD-TYPE     99     65     63    117
D435V7, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            7             65
  CLUS_3            9             63
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRM8 MUTATED        6      2      9      1      3
  GRM8 WILD-TYPE     53     73     65    118     35
D435V8, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1            6             53
  CLUS_2            2             73
  CLUS_3            9             65
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRM8 MUTATED        1      9      5      1      4
  GRM8 WILD-TYPE     50     67     56     70     91
D435V9, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            9             67
  CLUS_3            5             56
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRM8 MUTATED        6      6      0      4      0      1      0      2      1
  GRM8 WILD-TYPE     63     42     39     12     53     19     21     36     49
D435V10, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            6             42
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GRM8 MUTATED        0      4      1      1      3      1
  GRM8 WILD-TYPE     13     12     13     10      8      8
D435V11, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            4             12
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            3              8
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRM8 MUTATED        5      1      1      2      0      0      1      0      0
  GRM8 WILD-TYPE      6      6      6      7      8      7     10      9      5
D435V12, multiclass
        clus
vv       GRM8 MUTATED GRM8 WILD-TYPE
  CLUS_1            5              6
  CLUS_2            1              6
  CLUS_3            1              6
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(436) Variable = TAF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF1 MUTATED        1      0      1      3      0
  TAF1 WILD-TYPE     31     18     45     24     23
D436V1, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF1 MUTATED        3      2      0
  TAF1 WILD-TYPE     40     65     36
D436V2, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF1 MUTATED        1      8     13
  TAF1 WILD-TYPE     41    165    134
D436V3, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            8            165
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF1 MUTATED        7      6      3
  TAF1 WILD-TYPE     55     67     72
D436V4, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            6             67
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF1 MUTATED        1      9     10
  TAF1 WILD-TYPE     69    111     90
D436V5, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            9            111
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF1 MUTATED        3      0      1      3      3      7      1      2      0
  TAF1 WILD-TYPE     38     26     29     26     36     62     19     12     22
D436V6, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            3             36
  CLUS_6            7             62
  CLUS_7            1             19
  CLUS_8            2             12
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAF1 MUTATED        5      6      6      5
  TAF1 WILD-TYPE     95     66     66    116
D436V7, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            5             95
  CLUS_2            6             66
  CLUS_3            6             66
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF1 MUTATED        6      4      6      3      3
  TAF1 WILD-TYPE     53     71     68    116     35
D436V8, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            6             53
  CLUS_2            4             71
  CLUS_3            6             68
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF1 MUTATED        2      6      4      3      6
  TAF1 WILD-TYPE     49     70     57     68     89
D436V9, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            4             57
  CLUS_4            3             68
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF1 MUTATED        4      6      1      2      1      2      0      4      1
  TAF1 WILD-TYPE     65     42     38     14     52     18     21     34     49
D436V10, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            6             42
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            4             34
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAF1 MUTATED        1      1      1      2      2      0
  TAF1 WILD-TYPE     12     15     13      9      9      9
D436V11, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            2              9
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF1 MUTATED        0      1      1      2      0      0      1      1      1
  TAF1 WILD-TYPE     11      6      6      7      8      7     10      8      4
D436V12, multiclass
        clus
vv       TAF1 MUTATED TAF1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            1              6
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(437) Variable = ANKRD30A MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD30A MUTATED        1      0      0      1      0
  ANKRD30A WILD-TYPE     31     18     46     26     23
D437V1, multiclass
[1] "Remove cluster labels:" "ANKRD30A MUTATED"      
clus
  ANKRD30A MUTATED ANKRD30A WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3979 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ANKRD30A MUTATED        1      1      0
  ANKRD30A WILD-TYPE     42     66     36
D437V2, multiclass
[1] "Remove cluster labels:" "ANKRD30A MUTATED"      
clus
  ANKRD30A MUTATED ANKRD30A WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3979 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ANKRD30A MUTATED        0     16     12
  ANKRD30A WILD-TYPE     42    157    135
D437V3, multiclass
        clus
vv       ANKRD30A MUTATED ANKRD30A WILD-TYPE
  CLUS_1                0                 42
  CLUS_2               16                157
  CLUS_3               12                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ANKRD30A MUTATED        8     10      7
  ANKRD30A WILD-TYPE     54     63     68
D437V4, multiclass
        clus
vv       ANKRD30A MUTATED ANKRD30A WILD-TYPE
  CLUS_1                8                 54
  CLUS_2               10                 63
  CLUS_3                7                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ANKRD30A MUTATED        3      7     12
  ANKRD30A WILD-TYPE     67    113     88
D437V5, multiclass
        clus
vv       ANKRD30A MUTATED ANKRD30A WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                7                113
  CLUS_3               12                 88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD30A MUTATED        5      1      1      3      0     10      0      1
  ANKRD30A WILD-TYPE     36     25     29     26     39     59     20     13
                    vv
clus                 CLUS_9
  ANKRD30A MUTATED        1
  ANKRD30A WILD-TYPE     21
D437V6, multiclass
        clus
vv       ANKRD30A MUTATED ANKRD30A WILD-TYPE
  CLUS_1                5                 36
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                3                 26
  CLUS_5                0                 39
  CLUS_6               10                 59
  CLUS_7                0                 20
  CLUS_8                1                 13
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKRD30A MUTATED       12      6      8      2
  ANKRD30A WILD-TYPE     88     66     64    119
D437V7, multiclass
        clus
vv       ANKRD30A MUTATED ANKRD30A WILD-TYPE
  CLUS_1               12                 88
  CLUS_2                6                 66
  CLUS_3                8                 64
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD30A MUTATED        7     12      7      1      1
  ANKRD30A WILD-TYPE     52     63     67    118     37
D437V8, multiclass
        clus
vv       ANKRD30A MUTATED ANKRD30A WILD-TYPE
  CLUS_1                7                 52
  CLUS_2               12                 63
  CLUS_3                7                 67
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD30A MUTATED        5     10      7      3      3
  ANKRD30A WILD-TYPE     46     66     54     68     92
D437V9, multiclass
        clus
vv       ANKRD30A MUTATED ANKRD30A WILD-TYPE
  CLUS_1                5                 46
  CLUS_2               10                 66
  CLUS_3                7                 54
  CLUS_4                3                 68
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD30A MUTATED        9      6      1      1      6      3      0      1
  ANKRD30A WILD-TYPE     60     42     38     15     47     17     21     37
                    vv
clus                 CLUS_9
  ANKRD30A MUTATED        1
  ANKRD30A WILD-TYPE     49
D437V10, multiclass
        clus
vv       ANKRD30A MUTATED ANKRD30A WILD-TYPE
  CLUS_1                9                 60
  CLUS_2                6                 42
  CLUS_3                1                 38
  CLUS_4                1                 15
  CLUS_5                6                 47
  CLUS_6                3                 17
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANKRD30A MUTATED        2      1      2      2      1      0
  ANKRD30A WILD-TYPE     11     15     12      9     10      9
D437V11, multiclass
        clus
vv       ANKRD30A MUTATED ANKRD30A WILD-TYPE
  CLUS_1                2                 11
  CLUS_2                1                 15
  CLUS_3                2                 12
  CLUS_4                2                  9
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD30A MUTATED        0      0      1      1      2      1      2      0
  ANKRD30A WILD-TYPE     11      7      6      8      6      6      9      9
                    vv
clus                 CLUS_9
  ANKRD30A MUTATED        1
  ANKRD30A WILD-TYPE      4
D437V12, multiclass
        clus
vv       ANKRD30A MUTATED ANKRD30A WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                1                  6
  CLUS_4                1                  8
  CLUS_5                2                  6
  CLUS_6                1                  6
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                1                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(438) Variable = PTPRD MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRD MUTATED        5      0      1      2      0
  PTPRD WILD-TYPE     27     18     45     25     23
D438V1, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRD MUTATED        5      2      1
  PTPRD WILD-TYPE     38     65     35
D438V2, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1             5              38
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRD MUTATED        1     13     18
  PTPRD WILD-TYPE     41    160    129
D438V3, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1             1              41
  CLUS_2            13             160
  CLUS_3            18             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRD MUTATED       10      6      8
  PTPRD WILD-TYPE     52     67     67
D438V4, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1            10              52
  CLUS_2             6              67
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRD MUTATED        4      6     14
  PTPRD WILD-TYPE     66    114     86
D438V5, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1             4              66
  CLUS_2             6             114
  CLUS_3            14              86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRD MUTATED        4      1      1      1      3     10      2      1
  PTPRD WILD-TYPE     37     25     29     28     36     59     18     13
                 vv
clus              CLUS_9
  PTPRD MUTATED        1
  PTPRD WILD-TYPE     21
D438V6, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1             4              37
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6            10              59
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRD MUTATED       10      8      6      8
  PTPRD WILD-TYPE     90     64     66    113
D438V7, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1            10              90
  CLUS_2             8              64
  CLUS_3             6              66
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRD MUTATED        7      4     12      4      5
  PTPRD WILD-TYPE     52     71     62    115     33
D438V8, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1             7              52
  CLUS_2             4              71
  CLUS_3            12              62
  CLUS_4             4             115
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRD MUTATED        8     10      4      3      6
  PTPRD WILD-TYPE     43     66     57     68     89
D438V9, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1             8              43
  CLUS_2            10              66
  CLUS_3             4              57
  CLUS_4             3              68
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRD MUTATED        4      7      3      4      3      6      1      3
  PTPRD WILD-TYPE     65     41     36     12     50     14     20     35
                 vv
clus              CLUS_9
  PTPRD MUTATED        0
  PTPRD WILD-TYPE     50
D438V10, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1             4              65
  CLUS_2             7              41
  CLUS_3             3              36
  CLUS_4             4              12
  CLUS_5             3              50
  CLUS_6             6              14
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPRD MUTATED        0      2      1      0      0      1
  PTPRD WILD-TYPE     13     14     13     11     11      8
D438V11, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRD MUTATED        3      0      0      0      0      1      0      0
  PTPRD WILD-TYPE      8      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  PTPRD MUTATED        0
  PTPRD WILD-TYPE      5
D438V12, multiclass
        clus
vv       PTPRD MUTATED PTPRD WILD-TYPE
  CLUS_1             3               8
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(439) Variable = CSMD3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSMD3 MUTATED       15      1      1      3      1
  CSMD3 WILD-TYPE     17     17     45     24     22
D439V1, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            15              17
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             3              24
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSMD3 MUTATED       15      4      2
  CSMD3 WILD-TYPE     28     63     34
D439V2, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            15              28
  CLUS_2             4              63
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSMD3 MUTATED       11     26     48
  CSMD3 WILD-TYPE     31    147     99
D439V3, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            11              31
  CLUS_2            26             147
  CLUS_3            48              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSMD3 MUTATED       20     17     27
  CSMD3 WILD-TYPE     42     56     48
D439V4, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            20              42
  CLUS_2            17              56
  CLUS_3            27              48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSMD3 MUTATED       10     27     33
  CSMD3 WILD-TYPE     60     93     67
D439V5, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            10              60
  CLUS_2            27              93
  CLUS_3            33              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSMD3 MUTATED        7      3      6      5      7     28      5      5
  CSMD3 WILD-TYPE     34     23     24     24     32     41     15      9
                 vv
clus              CLUS_9
  CSMD3 MUTATED        4
  CSMD3 WILD-TYPE     18
D439V6, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1             7              34
  CLUS_2             3              23
  CLUS_3             6              24
  CLUS_4             5              24
  CLUS_5             7              32
  CLUS_6            28              41
  CLUS_7             5              15
  CLUS_8             5               9
  CLUS_9             4              18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSMD3 MUTATED       22     26     17     21
  CSMD3 WILD-TYPE     78     46     55    100
D439V7, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            22              78
  CLUS_2            26              46
  CLUS_3            17              55
  CLUS_4            21             100
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSMD3 MUTATED       12     24     26      8     16
  CSMD3 WILD-TYPE     47     51     48    111     22
D439V8, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            12              47
  CLUS_2            24              51
  CLUS_3            26              48
  CLUS_4             8             111
  CLUS_5            16              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSMD3 MUTATED       14     28     15      7     19
  CSMD3 WILD-TYPE     37     48     46     64     76
D439V9, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            14              37
  CLUS_2            28              48
  CLUS_3            15              46
  CLUS_4             7              64
  CLUS_5            19              76
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSMD3 MUTATED       17     13      5      6     13     10      1     15
  CSMD3 WILD-TYPE     52     35     34     10     40     10     20     23
                 vv
clus              CLUS_9
  CSMD3 MUTATED        3
  CSMD3 WILD-TYPE     47
D439V10, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            17              52
  CLUS_2            13              35
  CLUS_3             5              34
  CLUS_4             6              10
  CLUS_5            13              40
  CLUS_6            10              10
  CLUS_7             1              20
  CLUS_8            15              23
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CSMD3 MUTATED        6      3      3      2      6      3
  CSMD3 WILD-TYPE      7     13     11      9      5      6
D439V11, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1             6               7
  CLUS_2             3              13
  CLUS_3             3              11
  CLUS_4             2               9
  CLUS_5             6               5
  CLUS_6             3               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSMD3 MUTATED        1      3      3      4      1      3      4      3
  CSMD3 WILD-TYPE     10      4      4      5      7      4      7      6
                 vv
clus              CLUS_9
  CSMD3 MUTATED        1
  CSMD3 WILD-TYPE      4
D439V12, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             3               4
  CLUS_3             3               4
  CLUS_4             4               5
  CLUS_5             1               7
  CLUS_6             3               4
  CLUS_7             4               7
  CLUS_8             3               6
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(440) Variable = ZCCHC6 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZCCHC6 MUTATED        3      0      2      1      1
  ZCCHC6 WILD-TYPE     29     18     44     26     22
D440V1, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              2               44
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZCCHC6 MUTATED        3      3      1
  ZCCHC6 WILD-TYPE     40     64     35
D440V2, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              3               64
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZCCHC6 MUTATED        1      4     13
  ZCCHC6 WILD-TYPE     41    169    134
D440V3, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZCCHC6 MUTATED        3      0      8
  ZCCHC6 WILD-TYPE     59     73     67
D440V4, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              8               67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZCCHC6 MUTATED        3      6      4
  ZCCHC6 WILD-TYPE     67    114     96
D440V5, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              6              114
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZCCHC6 MUTATED        1      3      1      1      0      4      1      2
  ZCCHC6 WILD-TYPE     40     23     29     28     39     65     19     12
                  vv
clus               CLUS_9
  ZCCHC6 MUTATED        0
  ZCCHC6 WILD-TYPE     22
D440V6, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              3               23
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZCCHC6 MUTATED        1      9      2      6
  ZCCHC6 WILD-TYPE     99     63     70    115
D440V7, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              9               63
  CLUS_3              2               70
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZCCHC6 MUTATED        1      0     10      3      4
  ZCCHC6 WILD-TYPE     58     75     64    116     34
D440V8, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3             10               64
  CLUS_4              3              116
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZCCHC6 MUTATED        0     10      1      2      4
  ZCCHC6 WILD-TYPE     51     66     60     69     91
D440V9, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              0               51
  CLUS_2             10               66
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZCCHC6 MUTATED        2      1      1      5      2      1      0      4
  ZCCHC6 WILD-TYPE     67     47     38     11     51     19     21     34
                  vv
clus               CLUS_9
  ZCCHC6 MUTATED        1
  ZCCHC6 WILD-TYPE     49
D440V10, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              5               11
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              4               34
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZCCHC6 MUTATED        0      0      2      0      3      0
  ZCCHC6 WILD-TYPE     13     16     12     11      8      9
D440V11, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZCCHC6 MUTATED        0      0      0      3      0      0      2      0
  ZCCHC6 WILD-TYPE     11      7      7      6      8      7      9      9
                  vv
clus               CLUS_9
  ZCCHC6 MUTATED        0
  ZCCHC6 WILD-TYPE      5
D440V12, multiclass
        clus
vv       ZCCHC6 MUTATED ZCCHC6 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              3                6
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(441) Variable = FUBP3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FUBP3 MUTATED        1      0      0      1      0
  FUBP3 WILD-TYPE     31     18     46     26     23
D441V1, multiclass
[1] "Remove cluster labels:" "FUBP3 MUTATED"         
clus
  FUBP3 MUTATED FUBP3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUBP3 MUTATED        1      1      0
  FUBP3 WILD-TYPE     42     66     36
D441V2, multiclass
[1] "Remove cluster labels:" "FUBP3 MUTATED"         
clus
  FUBP3 MUTATED FUBP3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUBP3 MUTATED        0      0      9
  FUBP3 WILD-TYPE     42    173    138
D441V3, multiclass
        clus
vv       FUBP3 MUTATED FUBP3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUBP3 MUTATED        3      0      4
  FUBP3 WILD-TYPE     59     73     71
D441V4, multiclass
        clus
vv       FUBP3 MUTATED FUBP3 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUBP3 MUTATED        2      1      4
  FUBP3 WILD-TYPE     68    119     96
D441V5, multiclass
        clus
vv       FUBP3 MUTATED FUBP3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FUBP3 MUTATED        1      0      1      0      0      3      2      0
  FUBP3 WILD-TYPE     40     26     29     29     39     66     18     14
                 vv
clus              CLUS_9
  FUBP3 MUTATED        0
  FUBP3 WILD-TYPE     22
D441V6, multiclass
        clus
vv       FUBP3 MUTATED FUBP3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FUBP3 MUTATED        0      3      4      2
  FUBP3 WILD-TYPE    100     69     68    119
D441V7, multiclass
        clus
vv       FUBP3 MUTATED FUBP3 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FUBP3 MUTATED        0      1      6      1      1
  FUBP3 WILD-TYPE     59     74     68    118     37
D441V8, multiclass
        clus
vv       FUBP3 MUTATED FUBP3 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FUBP3 MUTATED        0      5      1      0      3
  FUBP3 WILD-TYPE     51     71     60     71     92
D441V9, multiclass
        clus
vv       FUBP3 MUTATED FUBP3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FUBP3 MUTATED        1      3      0      2      0      1      0      1
  FUBP3 WILD-TYPE     68     45     39     14     53     19     21     37
                 vv
clus              CLUS_9
  FUBP3 MUTATED        1
  FUBP3 WILD-TYPE     49
D441V10, multiclass
        clus
vv       FUBP3 MUTATED FUBP3 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FUBP3 MUTATED        0      1      0      0      1      0
  FUBP3 WILD-TYPE     13     15     14     11     10      9
D441V11, multiclass
[1] "Remove cluster labels:" "FUBP3 MUTATED"         
clus
  FUBP3 MUTATED FUBP3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FUBP3 MUTATED        0      0      0      0      1      0      1      0
  FUBP3 WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  FUBP3 MUTATED        0
  FUBP3 WILD-TYPE      5
D441V12, multiclass
[1] "Remove cluster labels:" "FUBP3 MUTATED"         
clus
  FUBP3 MUTATED FUBP3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" "FUBP3 WILD-TYPE" 

Clustering(442) Variable = SYT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYT1 MUTATED        0      0      0      1      0
  SYT1 WILD-TYPE     32     18     46     26     23
D442V1, multiclass
[1] "Remove cluster labels:" "SYT1 MUTATED"          
clus
  SYT1 MUTATED SYT1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AY-4071 
"SYT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SYT1 MUTATED        0      1      0
  SYT1 WILD-TYPE     43     66     36
D442V2, multiclass
[1] "Remove cluster labels:" "SYT1 MUTATED"          
clus
  SYT1 MUTATED SYT1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AY-4071 
"SYT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SYT1 MUTATED        1      2     10
  SYT1 WILD-TYPE     41    171    137
D442V3, multiclass
        clus
vv       SYT1 MUTATED SYT1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SYT1 MUTATED        4      3      5
  SYT1 WILD-TYPE     58     70     70
D442V4, multiclass
        clus
vv       SYT1 MUTATED SYT1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SYT1 MUTATED        1      5      7
  SYT1 WILD-TYPE     69    115     93
D442V5, multiclass
        clus
vv       SYT1 MUTATED SYT1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SYT1 MUTATED        1      2      1      1      1      6      0      1      0
  SYT1 WILD-TYPE     40     24     29     28     38     63     20     13     22
D442V6, multiclass
        clus
vv       SYT1 MUTATED SYT1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SYT1 MUTATED        3      6      2      2
  SYT1 WILD-TYPE     97     66     70    119
D442V7, multiclass
        clus
vv       SYT1 MUTATED SYT1 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            6             66
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYT1 MUTATED        1      4      6      2      0
  SYT1 WILD-TYPE     58     71     68    117     38
D442V8, multiclass
        clus
vv       SYT1 MUTATED SYT1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            4             71
  CLUS_3            6             68
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYT1 MUTATED        1      8      1      1      2
  SYT1 WILD-TYPE     50     68     60     70     93
D442V9, multiclass
        clus
vv       SYT1 MUTATED SYT1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            8             68
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SYT1 MUTATED        6      2      1      1      1      1      0      0      1
  SYT1 WILD-TYPE     63     46     38     15     52     19     21     38     49
D442V10, multiclass
        clus
vv       SYT1 MUTATED SYT1 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SYT1 MUTATED        0      0      1      0      0      0
  SYT1 WILD-TYPE     13     16     13     11     11      9
D442V11, multiclass
[1] "Remove cluster labels:" "SYT1 MUTATED"          
clus
  SYT1 MUTATED SYT1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-G4-6628 
"SYT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SYT1 MUTATED        0      0      0      0      0      0      1      0      0
  SYT1 WILD-TYPE     11      7      7      9      8      7     10      9      5
D442V12, multiclass
[1] "Remove cluster labels:" "SYT1 MUTATED"          
clus
  SYT1 MUTATED SYT1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" "SYT1 WILD-TYPE" 
    TCGA-G4-6628 
"SYT1 WILD-TYPE" 

Clustering(443) Variable = OSBPL11 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSBPL11 MUTATED        4      0      0      1      0
  OSBPL11 WILD-TYPE     28     18     46     26     23
D443V1, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  OSBPL11 MUTATED        5      0      0
  OSBPL11 WILD-TYPE     38     67     36
D443V2, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               5                38
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  OSBPL11 MUTATED        1      4     11
  OSBPL11 WILD-TYPE     41    169    136
D443V3, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               4               169
  CLUS_3              11               136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  OSBPL11 MUTATED        3      3      5
  OSBPL11 WILD-TYPE     59     70     70
D443V4, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               3                70
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  OSBPL11 MUTATED        2      2      7
  OSBPL11 WILD-TYPE     68    118     93
D443V5, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               2               118
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSBPL11 MUTATED        2      0      0      0      1      6      2      0
  OSBPL11 WILD-TYPE     39     26     30     29     38     63     18     14
                   vv
clus                CLUS_9
  OSBPL11 MUTATED        0
  OSBPL11 WILD-TYPE     22
D443V6, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               6                63
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OSBPL11 MUTATED        4      2      5      5
  OSBPL11 WILD-TYPE     96     70     67    116
D443V7, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               4                96
  CLUS_2               2                70
  CLUS_3               5                67
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSBPL11 MUTATED        2      5      4      1      4
  OSBPL11 WILD-TYPE     57     70     70    118     34
D443V8, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               5                70
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSBPL11 MUTATED        3      2      3      3      3
  OSBPL11 WILD-TYPE     48     74     58     68     92
D443V9, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               3                48
  CLUS_2               2                74
  CLUS_3               3                58
  CLUS_4               3                68
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSBPL11 MUTATED        4      2      0      1      2      2      0      3
  OSBPL11 WILD-TYPE     65     46     39     15     51     18     21     35
                   vv
clus                CLUS_9
  OSBPL11 MUTATED        0
  OSBPL11 WILD-TYPE     50
D443V10, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OSBPL11 MUTATED        2      1      2      1      1      0
  OSBPL11 WILD-TYPE     11     15     12     10     10      9
D443V11, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               2                11
  CLUS_2               1                15
  CLUS_3               2                12
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSBPL11 MUTATED        1      0      1      1      2      0      0      0
  OSBPL11 WILD-TYPE     10      7      6      8      6      7     11      9
                   vv
clus                CLUS_9
  OSBPL11 MUTATED        2
  OSBPL11 WILD-TYPE      3
D443V12, multiclass
        clus
vv       OSBPL11 MUTATED OSBPL11 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               1                 8
  CLUS_5               2                 6
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               2                 3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(444) Variable = SFRS18 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS18 MUTATED        3      0      0      1      0
  SFRS18 WILD-TYPE     29     18     46     26     23
D444V1, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SFRS18 MUTATED        2      1      1
  SFRS18 WILD-TYPE     41     66     35
D444V2, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SFRS18 MUTATED        1      0     11
  SFRS18 WILD-TYPE     41    173    136
D444V3, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SFRS18 MUTATED        2      0      6
  SFRS18 WILD-TYPE     60     73     69
D444V4, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SFRS18 MUTATED        1      4      4
  SFRS18 WILD-TYPE     69    116     96
D444V5, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS18 MUTATED        2      1      2      1      1      1      1      0
  SFRS18 WILD-TYPE     39     25     28     28     38     68     19     14
                  vv
clus               CLUS_9
  SFRS18 MUTATED        0
  SFRS18 WILD-TYPE     22
D444V6, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SFRS18 MUTATED        0      5      3      4
  SFRS18 WILD-TYPE    100     67     69    117
D444V7, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              5               67
  CLUS_3              3               69
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS18 MUTATED        1      1      6      2      2
  SFRS18 WILD-TYPE     58     74     68    117     36
D444V8, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              6               68
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS18 MUTATED        0      5      2      1      3
  SFRS18 WILD-TYPE     51     71     59     70     92
D444V9, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS18 MUTATED        0      3      0      4      1      1      0      1
  SFRS18 WILD-TYPE     69     45     39     12     52     19     21     37
                  vv
clus               CLUS_9
  SFRS18 MUTATED        1
  SFRS18 WILD-TYPE     49
D444V10, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              4               12
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SFRS18 MUTATED        0      1      0      0      2      0
  SFRS18 WILD-TYPE     13     15     14     11      9      9
D444V11, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS18 MUTATED        0      0      0      2      0      0      1      0
  SFRS18 WILD-TYPE     11      7      7      7      8      7     10      9
                  vv
clus               CLUS_9
  SFRS18 MUTATED        0
  SFRS18 WILD-TYPE      5
D444V12, multiclass
        clus
vv       SFRS18 MUTATED SFRS18 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(445) Variable = MAP9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP9 MUTATED        2      0      0      1      0
  MAP9 WILD-TYPE     30     18     46     26     23
D445V1, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP9 MUTATED        2      1      0
  MAP9 WILD-TYPE     41     66     36
D445V2, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP9 MUTATED        2      4     10
  MAP9 WILD-TYPE     40    169    137
D445V3, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            4            169
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP9 MUTATED        6      2      5
  MAP9 WILD-TYPE     56     71     70
D445V4, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP9 MUTATED        1      4      7
  MAP9 WILD-TYPE     69    116     93
D445V5, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAP9 MUTATED        2      0      0      3      3      4      0      0      0
  MAP9 WILD-TYPE     39     26     30     26     36     65     20     14     22
D445V6, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            3             26
  CLUS_5            3             36
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP9 MUTATED        4      4      5      3
  MAP9 WILD-TYPE     96     68     67    118
D445V7, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            4             68
  CLUS_3            5             67
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP9 MUTATED        3      4      6      1      2
  MAP9 WILD-TYPE     56     71     68    118     36
D445V8, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            4             71
  CLUS_3            6             68
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP9 MUTATED        3      7      3      0      3
  MAP9 WILD-TYPE     48     69     58     71     92
D445V9, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            7             69
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAP9 MUTATED        2      4      2      3      4      0      0      1      0
  MAP9 WILD-TYPE     67     44     37     13     49     20     21     37     50
D445V10, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            2             37
  CLUS_4            3             13
  CLUS_5            4             49
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAP9 MUTATED        0      0      0      1      2      0
  MAP9 WILD-TYPE     13     16     14     10      9      9
D445V11, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAP9 MUTATED        0      0      1      1      0      0      1      0      0
  MAP9 WILD-TYPE     11      7      6      8      8      7     10      9      5
D445V12, multiclass
        clus
vv       MAP9 MUTATED MAP9 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(446) Variable = TNPO1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNPO1 MUTATED        5      0      0      1      0
  TNPO1 WILD-TYPE     27     18     46     26     23
D446V1, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TNPO1 MUTATED        4      1      1
  TNPO1 WILD-TYPE     39     66     35
D446V2, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TNPO1 MUTATED        1      2     13
  TNPO1 WILD-TYPE     41    171    134
D446V3, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TNPO1 MUTATED        4      2      5
  TNPO1 WILD-TYPE     58     71     70
D446V4, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TNPO1 MUTATED        2      5      4
  TNPO1 WILD-TYPE     68    115     96
D446V5, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNPO1 MUTATED        0      1      1      2      1      4      0      2
  TNPO1 WILD-TYPE     41     25     29     27     38     65     20     12
                 vv
clus              CLUS_9
  TNPO1 MUTATED        0
  TNPO1 WILD-TYPE     22
D446V6, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNPO1 MUTATED        3      4      2      7
  TNPO1 WILD-TYPE     97     68     70    114
D446V7, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNPO1 MUTATED        1      2      6      3      4
  TNPO1 WILD-TYPE     58     73     68    116     34
D446V8, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNPO1 MUTATED        1      6      1      2      6
  TNPO1 WILD-TYPE     50     70     60     69     89
D446V9, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNPO1 MUTATED        3      2      2      1      2      2      0      3
  TNPO1 WILD-TYPE     66     46     37     15     51     18     21     35
                 vv
clus              CLUS_9
  TNPO1 MUTATED        1
  TNPO1 WILD-TYPE     49
D446V10, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TNPO1 MUTATED        0      0      1      1      2      0
  TNPO1 WILD-TYPE     13     16     13     10      9      9
D446V11, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNPO1 MUTATED        0      0      0      1      1      0      2      0
  TNPO1 WILD-TYPE     11      7      7      8      7      7      9      9
                 vv
clus              CLUS_9
  TNPO1 MUTATED        0
  TNPO1 WILD-TYPE      5
D446V12, multiclass
        clus
vv       TNPO1 MUTATED TNPO1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(447) Variable = CLCNKA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLCNKA MUTATED        1      0      0      0      0
  CLCNKA WILD-TYPE     31     18     46     27     23
D447V1, multiclass
[1] "Remove cluster labels:" "CLCNKA MUTATED"        
clus
  CLCNKA MUTATED CLCNKA WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AY-4071 
"CLCNKA WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLCNKA MUTATED        1      0      0
  CLCNKA WILD-TYPE     42     67     36
D447V2, multiclass
[1] "Remove cluster labels:" "CLCNKA MUTATED"        
clus
  CLCNKA MUTATED CLCNKA WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" "CLCNKA WILD-TYPE" 
      TCGA-AY-4071 
"CLCNKA WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLCNKA MUTATED        2      2      6
  CLCNKA WILD-TYPE     40    171    141
D447V3, multiclass
        clus
vv       CLCNKA MUTATED CLCNKA WILD-TYPE
  CLUS_1              2               40
  CLUS_2              2              171
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLCNKA MUTATED        2      2      5
  CLCNKA WILD-TYPE     60     71     70
D447V4, multiclass
        clus
vv       CLCNKA MUTATED CLCNKA WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLCNKA MUTATED        1      4      3
  CLCNKA WILD-TYPE     69    116     97
D447V5, multiclass
        clus
vv       CLCNKA MUTATED CLCNKA WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLCNKA MUTATED        1      0      1      1      1      3      1      0
  CLCNKA WILD-TYPE     40     26     29     28     38     66     19     14
                  vv
clus               CLUS_9
  CLCNKA MUTATED        0
  CLCNKA WILD-TYPE     22
D447V6, multiclass
        clus
vv       CLCNKA MUTATED CLCNKA WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLCNKA MUTATED        2      6      1      1
  CLCNKA WILD-TYPE     98     66     71    120
D447V7, multiclass
        clus
vv       CLCNKA MUTATED CLCNKA WILD-TYPE
  CLUS_1              2               98
  CLUS_2              6               66
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLCNKA MUTATED        0      2      7      1      0
  CLCNKA WILD-TYPE     59     73     67    118     38
D447V8, multiclass
        clus
vv       CLCNKA MUTATED CLCNKA WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              7               67
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLCNKA MUTATED        1      5      0      2      2
  CLCNKA WILD-TYPE     50     71     61     69     93
D447V9, multiclass
        clus
vv       CLCNKA MUTATED CLCNKA WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLCNKA MUTATED        4      0      1      2      1      0      1      1
  CLCNKA WILD-TYPE     65     48     38     14     52     20     20     37
                  vv
clus               CLUS_9
  CLCNKA MUTATED        0
  CLCNKA WILD-TYPE     50
D447V10, multiclass
        clus
vv       CLCNKA MUTATED CLCNKA WILD-TYPE
  CLUS_1              4               65
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLCNKA MUTATED        1      0      1      0      1      0
  CLCNKA WILD-TYPE     12     16     13     11     10      9
D447V11, multiclass
        clus
vv       CLCNKA MUTATED CLCNKA WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLCNKA MUTATED        0      0      0      1      0      0      1      1
  CLCNKA WILD-TYPE     11      7      7      8      8      7     10      8
                  vv
clus               CLUS_9
  CLCNKA MUTATED        0
  CLCNKA WILD-TYPE      5
D447V12, multiclass
        clus
vv       CLCNKA MUTATED CLCNKA WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(448) Variable = CREBBP MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CREBBP MUTATED       12      1      0      4      0
  CREBBP WILD-TYPE     20     17     46     23     23
D448V1, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1             12               20
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              4               23
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED       12      4      1
  CREBBP WILD-TYPE     31     63     35
D448V2, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1             12               31
  CLUS_2              4               63
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED        5     19     35
  CREBBP WILD-TYPE     37    154    112
D448V3, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              5               37
  CLUS_2             19              154
  CLUS_3             35              112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED       16      6     20
  CREBBP WILD-TYPE     46     67     55
D448V4, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1             16               46
  CLUS_2              6               67
  CLUS_3             20               55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED        6     24     19
  CREBBP WILD-TYPE     64     96     81
D448V5, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              6               64
  CLUS_2             24               96
  CLUS_3             19               81
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CREBBP MUTATED        4      2      6      6      6     13      7      2
  CREBBP WILD-TYPE     37     24     24     23     33     56     13     12
                  vv
clus               CLUS_9
  CREBBP MUTATED        3
  CREBBP WILD-TYPE     19
D448V6, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              4               37
  CLUS_2              2               24
  CLUS_3              6               24
  CLUS_4              6               23
  CLUS_5              6               33
  CLUS_6             13               56
  CLUS_7              7               13
  CLUS_8              2               12
  CLUS_9              3               19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CREBBP MUTATED       15     18     10     17
  CREBBP WILD-TYPE     85     54     62    104
D448V7, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1             15               85
  CLUS_2             18               54
  CLUS_3             10               62
  CLUS_4             17              104
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CREBBP MUTATED        8     15     18      7     12
  CREBBP WILD-TYPE     51     60     56    112     26
D448V8, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              8               51
  CLUS_2             15               60
  CLUS_3             18               56
  CLUS_4              7              112
  CLUS_5             12               26
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CREBBP MUTATED       10     24      5      5     15
  CREBBP WILD-TYPE     41     52     56     66     80
D448V9, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1             10               41
  CLUS_2             24               52
  CLUS_3              5               56
  CLUS_4              5               66
  CLUS_5             15               80
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CREBBP MUTATED       13      8      1      6     10      6      4      9
  CREBBP WILD-TYPE     56     40     38     10     43     14     17     29
                  vv
clus               CLUS_9
  CREBBP MUTATED        2
  CREBBP WILD-TYPE     48
D448V10, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1             13               56
  CLUS_2              8               40
  CLUS_3              1               38
  CLUS_4              6               10
  CLUS_5             10               43
  CLUS_6              6               14
  CLUS_7              4               17
  CLUS_8              9               29
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CREBBP MUTATED        4      1      4      1      2      1
  CREBBP WILD-TYPE      9     15     10     10      9      8
D448V11, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              4                9
  CLUS_2              1               15
  CLUS_3              4               10
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CREBBP MUTATED        0      0      0      2      2      0      5      2
  CREBBP WILD-TYPE     11      7      7      7      6      7      6      7
                  vv
clus               CLUS_9
  CREBBP MUTATED        2
  CREBBP WILD-TYPE      3
D448V12, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              5                6
  CLUS_8              2                7
  CLUS_9              2                3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(449) Variable = INTS4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INTS4 MUTATED        2      0      0      0      0
  INTS4 WILD-TYPE     30     18     46     27     23
D449V1, multiclass
[1] "Remove cluster labels:" "INTS4 MUTATED"         
clus
  INTS4 MUTATED INTS4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3526 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INTS4 MUTATED        2      0      0
  INTS4 WILD-TYPE     41     67     36
D449V2, multiclass
[1] "Remove cluster labels:" "INTS4 MUTATED"         
clus
  INTS4 MUTATED INTS4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3526 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" "INTS4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INTS4 MUTATED        2      6     10
  INTS4 WILD-TYPE     40    167    137
D449V3, multiclass
        clus
vv       INTS4 MUTATED INTS4 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             6             167
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INTS4 MUTATED        6      6      4
  INTS4 WILD-TYPE     56     67     71
D449V4, multiclass
        clus
vv       INTS4 MUTATED INTS4 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             6              67
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INTS4 MUTATED        1      4      9
  INTS4 WILD-TYPE     69    116     91
D449V5, multiclass
        clus
vv       INTS4 MUTATED INTS4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INTS4 MUTATED        2      1      0      1      0      9      1      0
  INTS4 WILD-TYPE     39     25     30     28     39     60     19     14
                 vv
clus              CLUS_9
  INTS4 MUTATED        0
  INTS4 WILD-TYPE     22
D449V6, multiclass
        clus
vv       INTS4 MUTATED INTS4 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             9              60
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  INTS4 MUTATED        8      5      4      1
  INTS4 WILD-TYPE     92     67     68    120
D449V7, multiclass
        clus
vv       INTS4 MUTATED INTS4 WILD-TYPE
  CLUS_1             8              92
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INTS4 MUTATED        4      6      6      1      1
  INTS4 WILD-TYPE     55     69     68    118     37
D449V8, multiclass
        clus
vv       INTS4 MUTATED INTS4 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             6              69
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INTS4 MUTATED        3      6      5      1      3
  INTS4 WILD-TYPE     48     70     56     70     92
D449V9, multiclass
        clus
vv       INTS4 MUTATED INTS4 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             6              70
  CLUS_3             5              56
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INTS4 MUTATED        2      6      3      3      1      0      1      1
  INTS4 WILD-TYPE     67     42     36     13     52     20     20     37
                 vv
clus              CLUS_9
  INTS4 MUTATED        1
  INTS4 WILD-TYPE     49
D449V10, multiclass
        clus
vv       INTS4 MUTATED INTS4 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             6              42
  CLUS_3             3              36
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  INTS4 MUTATED        1      1      0      1      3      0
  INTS4 WILD-TYPE     12     15     14     10      8      9
D449V11, multiclass
        clus
vv       INTS4 MUTATED INTS4 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INTS4 MUTATED        1      0      1      2      0      0      2      0
  INTS4 WILD-TYPE     10      7      6      7      8      7      9      9
                 vv
clus              CLUS_9
  INTS4 MUTATED        0
  INTS4 WILD-TYPE      5
D449V12, multiclass
        clus
vv       INTS4 MUTATED INTS4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(450) Variable = PRKAA2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKAA2 MUTATED        2      0      0      2      1
  PRKAA2 WILD-TYPE     30     18     46     25     22
D450V1, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRKAA2 MUTATED        2      1      2
  PRKAA2 WILD-TYPE     41     66     34
D450V2, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRKAA2 MUTATED        1      1     10
  PRKAA2 WILD-TYPE     41    172    137
D450V3, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRKAA2 MUTATED        3      0      4
  PRKAA2 WILD-TYPE     59     73     71
D450V4, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRKAA2 MUTATED        2      1      7
  PRKAA2 WILD-TYPE     68    119     93
D450V5, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1              119
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKAA2 MUTATED        1      0      0      1      2      5      1      0
  PRKAA2 WILD-TYPE     40     26     30     28     37     64     19     14
                  vv
clus               CLUS_9
  PRKAA2 MUTATED        0
  PRKAA2 WILD-TYPE     22
D450V6, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRKAA2 MUTATED        0      4      3      5
  PRKAA2 WILD-TYPE    100     68     69    116
D450V7, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKAA2 MUTATED        1      2      4      4      1
  PRKAA2 WILD-TYPE     58     73     70    115     37
D450V8, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              4               70
  CLUS_4              4              115
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKAA2 MUTATED        0      4      1      2      3
  PRKAA2 WILD-TYPE     51     72     60     69     92
D450V9, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKAA2 MUTATED        0      2      0      2      3      0      0      1
  PRKAA2 WILD-TYPE     69     46     39     14     50     20     21     37
                  vv
clus               CLUS_9
  PRKAA2 MUTATED        2
  PRKAA2 WILD-TYPE     48
D450V10, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRKAA2 MUTATED        0      0      1      0      2      0
  PRKAA2 WILD-TYPE     13     16     13     11      9      9
D450V11, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKAA2 MUTATED        0      0      0      1      1      1      0      0
  PRKAA2 WILD-TYPE     11      7      7      8      7      6     11      9
                  vv
clus               CLUS_9
  PRKAA2 MUTATED        0
  PRKAA2 WILD-TYPE      5
D450V12, multiclass
        clus
vv       PRKAA2 MUTATED PRKAA2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(451) Variable = LNX2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LNX2 MUTATED        4      0      0      2      0
  LNX2 WILD-TYPE     28     18     46     25     23
D451V1, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LNX2 MUTATED        5      1      0
  LNX2 WILD-TYPE     38     66     36
D451V2, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LNX2 MUTATED        3      4      9
  LNX2 WILD-TYPE     39    169    138
D451V3, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            4            169
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LNX2 MUTATED        4      3      2
  LNX2 WILD-TYPE     58     70     73
D451V4, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LNX2 MUTATED        2      6      6
  LNX2 WILD-TYPE     68    114     94
D451V5, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            114
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LNX2 MUTATED        2      0      1      2      2      6      0      0      1
  LNX2 WILD-TYPE     39     26     29     27     37     63     20     14     21
D451V6, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LNX2 MUTATED        3      1      5      7
  LNX2 WILD-TYPE     97     71     67    114
D451V7, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            1             71
  CLUS_3            5             67
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LNX2 MUTATED        2      3      4      1      6
  LNX2 WILD-TYPE     57     72     70    118     32
D451V8, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            6             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LNX2 MUTATED        2      4      3      3      2
  LNX2 WILD-TYPE     49     72     58     68     93
D451V9, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            4             72
  CLUS_3            3             58
  CLUS_4            3             68
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LNX2 MUTATED        2      3      2      0      3      0      2      2      0
  LNX2 WILD-TYPE     67     45     37     16     50     20     19     36     50
D451V10, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            2             37
  CLUS_4            0             16
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            2             19
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LNX2 MUTATED        1      0      0      0      1      0
  LNX2 WILD-TYPE     12     16     14     11     10      9
D451V11, multiclass
[1] "Remove cluster labels:" "LNX2 MUTATED"          
clus
  LNX2 MUTATED LNX2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6534     TCGA-D5-6536 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LNX2 MUTATED        0      0      0      0      0      0      1      1      0
  LNX2 WILD-TYPE     11      7      7      9      8      7     10      8      5
D451V12, multiclass
[1] "Remove cluster labels:" "LNX2 MUTATED"          
clus
  LNX2 MUTATED LNX2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6534     TCGA-D5-6536 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" "LNX2 WILD-TYPE" 

Clustering(452) Variable = ATG2B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATG2B MUTATED        2      0      0      3      1
  ATG2B WILD-TYPE     30     18     46     24     22
D452V1, multiclass
        clus
vv       ATG2B MUTATED ATG2B WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATG2B MUTATED        2      2      2
  ATG2B WILD-TYPE     41     65     34
D452V2, multiclass
        clus
vv       ATG2B MUTATED ATG2B WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATG2B MUTATED        1      3     11
  ATG2B WILD-TYPE     41    170    136
D452V3, multiclass
        clus
vv       ATG2B MUTATED ATG2B WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATG2B MUTATED        3      1      5
  ATG2B WILD-TYPE     59     72     70
D452V4, multiclass
        clus
vv       ATG2B MUTATED ATG2B WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATG2B MUTATED        2      4      7
  ATG2B WILD-TYPE     68    116     93
D452V5, multiclass
        clus
vv       ATG2B MUTATED ATG2B WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATG2B MUTATED        1      0      2      1      2      6      0      1
  ATG2B WILD-TYPE     40     26     28     28     37     63     20     13
                 vv
clus              CLUS_9
  ATG2B MUTATED        0
  ATG2B WILD-TYPE     22
D452V6, multiclass
        clus
vv       ATG2B MUTATED ATG2B WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATG2B MUTATED        1      5      3      6
  ATG2B WILD-TYPE     99     67     69    115
D452V7, multiclass
        clus
vv       ATG2B MUTATED ATG2B WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATG2B MUTATED        1      2      6      3      3
  ATG2B WILD-TYPE     58     73     68    116     35
D452V8, multiclass
        clus
vv       ATG2B MUTATED ATG2B WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATG2B MUTATED        0      6      1      4      3
  ATG2B WILD-TYPE     51     70     60     67     92
D452V9, multiclass
        clus
vv       ATG2B MUTATED ATG2B WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             4              67
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATG2B MUTATED        2      3      1      2      3      1      0      2
  ATG2B WILD-TYPE     67     45     38     14     50     19     21     36
                 vv
clus              CLUS_9
  ATG2B MUTATED        0
  ATG2B WILD-TYPE     50
D452V10, multiclass
        clus
vv       ATG2B MUTATED ATG2B WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATG2B MUTATED        0      0      1      0      1      0
  ATG2B WILD-TYPE     13     16     13     11     10      9
D452V11, multiclass
[1] "Remove cluster labels:" "ATG2B MUTATED"         
clus
  ATG2B MUTATED ATG2B WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATG2B MUTATED        0      0      0      0      0      0      2      0
  ATG2B WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  ATG2B MUTATED        0
  ATG2B WILD-TYPE      5
D452V12, multiclass
[1] "Remove cluster labels:" "ATG2B MUTATED"         
clus
  ATG2B MUTATED ATG2B WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" "ATG2B WILD-TYPE" 

Clustering(453) Variable = CHRM2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHRM2 MUTATED        2      0      1      2      1
  CHRM2 WILD-TYPE     30     18     45     25     22
D453V1, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRM2 MUTATED        4      1      1
  CHRM2 WILD-TYPE     39     66     35
D453V2, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRM2 MUTATED        1      4     18
  CHRM2 WILD-TYPE     41    169    129
D453V3, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            18             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRM2 MUTATED        6      2      7
  CHRM2 WILD-TYPE     56     71     68
D453V4, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             2              71
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRM2 MUTATED        5     11      5
  CHRM2 WILD-TYPE     65    109     95
D453V5, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             5              65
  CLUS_2            11             109
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHRM2 MUTATED        2      3      2      2      6      1      2      2
  CHRM2 WILD-TYPE     39     23     28     27     33     68     18     12
                 vv
clus              CLUS_9
  CHRM2 MUTATED        1
  CHRM2 WILD-TYPE     21
D453V6, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             3              23
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             6              33
  CLUS_6             1              68
  CLUS_7             2              18
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHRM2 MUTATED        2      9      4      7
  CHRM2 WILD-TYPE     98     63     68    114
D453V7, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             9              63
  CLUS_3             4              68
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHRM2 MUTATED        4      2      8      4      4
  CHRM2 WILD-TYPE     55     73     66    115     34
D453V8, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             2              73
  CLUS_3             8              66
  CLUS_4             4             115
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHRM2 MUTATED        4      5      4      2      7
  CHRM2 WILD-TYPE     47     71     57     69     88
D453V9, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             5              71
  CLUS_3             4              57
  CLUS_4             2              69
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHRM2 MUTATED        3      1      3      2      2      4      1      4
  CHRM2 WILD-TYPE     66     47     36     14     51     16     20     34
                 vv
clus              CLUS_9
  CHRM2 MUTATED        2
  CHRM2 WILD-TYPE     48
D453V10, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             3              36
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             4              16
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHRM2 MUTATED        0      1      1      0      2      0
  CHRM2 WILD-TYPE     13     15     13     11      9      9
D453V11, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHRM2 MUTATED        0      1      0      2      1      0      0      0
  CHRM2 WILD-TYPE     11      6      7      7      7      7     11      9
                 vv
clus              CLUS_9
  CHRM2 MUTATED        0
  CHRM2 WILD-TYPE      5
D453V12, multiclass
        clus
vv       CHRM2 MUTATED CHRM2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(454) Variable = NUDCD1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUDCD1 MUTATED        2      0      0      1      0
  NUDCD1 WILD-TYPE     30     18     46     26     23
D454V1, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUDCD1 MUTATED        2      0      1
  NUDCD1 WILD-TYPE     41     67     35
D454V2, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUDCD1 MUTATED        1      3      5
  NUDCD1 WILD-TYPE     41    170    142
D454V3, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUDCD1 MUTATED        2      1      3
  NUDCD1 WILD-TYPE     60     72     72
D454V4, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUDCD1 MUTATED        0      2      6
  NUDCD1 WILD-TYPE     70    118     94
D454V5, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUDCD1 MUTATED        1      1      0      0      1      3      2      0
  NUDCD1 WILD-TYPE     40     25     30     29     38     66     18     14
                  vv
clus               CLUS_9
  NUDCD1 MUTATED        0
  NUDCD1 WILD-TYPE     22
D454V6, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUDCD1 MUTATED        2      2      2      3
  NUDCD1 WILD-TYPE     98     70     70    118
D454V7, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUDCD1 MUTATED        3      1      2      1      2
  NUDCD1 WILD-TYPE     56     74     72    118     36
D454V8, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUDCD1 MUTATED        0      3      2      2      1
  NUDCD1 WILD-TYPE     51     73     59     69     94
D454V9, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUDCD1 MUTATED        1      3      0      2      1      0      0      1
  NUDCD1 WILD-TYPE     68     45     39     14     52     20     21     37
                  vv
clus               CLUS_9
  NUDCD1 MUTATED        0
  NUDCD1 WILD-TYPE     50
D454V10, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUDCD1 MUTATED        1      1      0      1      0      0
  NUDCD1 WILD-TYPE     12     15     14     10     11      9
D454V11, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUDCD1 MUTATED        0      1      0      0      0      0      1      1
  NUDCD1 WILD-TYPE     11      6      7      9      8      7     10      8
                  vv
clus               CLUS_9
  NUDCD1 MUTATED        0
  NUDCD1 WILD-TYPE      5
D454V12, multiclass
        clus
vv       NUDCD1 MUTATED NUDCD1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(455) Variable = INSM2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INSM2 MUTATED        0      0      0      0      0
  INSM2 WILD-TYPE     32     18     46     27     23
D455V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INSM2 MUTATED        0      0      0
  INSM2 WILD-TYPE     43     67     36
D455V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INSM2 MUTATED        2      0      8
  INSM2 WILD-TYPE     40    173    139
D455V3, multiclass
        clus
vv       INSM2 MUTATED INSM2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0             173
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INSM2 MUTATED        4      0      6
  INSM2 WILD-TYPE     58     73     69
D455V4, multiclass
        clus
vv       INSM2 MUTATED INSM2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INSM2 MUTATED        1      1      6
  INSM2 WILD-TYPE     69    119     94
D455V5, multiclass
        clus
vv       INSM2 MUTATED INSM2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INSM2 MUTATED        1      0      0      2      0      4      0      1
  INSM2 WILD-TYPE     40     26     30     27     39     65     20     13
                 vv
clus              CLUS_9
  INSM2 MUTATED        0
  INSM2 WILD-TYPE     22
D455V6, multiclass
        clus
vv       INSM2 MUTATED INSM2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  INSM2 MUTATED        0      5      5      0
  INSM2 WILD-TYPE    100     67     67    121
D455V7, multiclass
        clus
vv       INSM2 MUTATED INSM2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             5              67
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INSM2 MUTATED        1      1      8      0      0
  INSM2 WILD-TYPE     58     74     66    119     38
D455V8, multiclass
        clus
vv       INSM2 MUTATED INSM2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INSM2 MUTATED        0      6      2      1      1
  INSM2 WILD-TYPE     51     70     59     70     94
D455V9, multiclass
        clus
vv       INSM2 MUTATED INSM2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INSM2 MUTATED        3      2      0      3      1      0      0      1
  INSM2 WILD-TYPE     66     46     39     13     52     20     21     37
                 vv
clus              CLUS_9
  INSM2 MUTATED        0
  INSM2 WILD-TYPE     50
D455V10, multiclass
        clus
vv       INSM2 MUTATED INSM2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  INSM2 MUTATED        0      0      2      0      2      0
  INSM2 WILD-TYPE     13     16     12     11      9      9
D455V11, multiclass
        clus
vv       INSM2 MUTATED INSM2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INSM2 MUTATED        0      0      0      1      1      1      1      0
  INSM2 WILD-TYPE     11      7      7      8      7      6     10      9
                 vv
clus              CLUS_9
  INSM2 MUTATED        0
  INSM2 WILD-TYPE      5
D455V12, multiclass
        clus
vv       INSM2 MUTATED INSM2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(456) Variable = GOLGB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLGB1 MUTATED        5      0      0      4      0
  GOLGB1 WILD-TYPE     27     18     46     23     23
D456V1, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              4               23
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGB1 MUTATED        6      2      1
  GOLGB1 WILD-TYPE     37     65     35
D456V2, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1              6               37
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGB1 MUTATED        2     12     24
  GOLGB1 WILD-TYPE     40    161    123
D456V3, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2             12              161
  CLUS_3             24              123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGB1 MUTATED       11      6     12
  GOLGB1 WILD-TYPE     51     67     63
D456V4, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1             11               51
  CLUS_2              6               67
  CLUS_3             12               63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGB1 MUTATED        6     12     17
  GOLGB1 WILD-TYPE     64    108     83
D456V5, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1              6               64
  CLUS_2             12              108
  CLUS_3             17               83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLGB1 MUTATED        4      4      2      3      2     10      4      2
  GOLGB1 WILD-TYPE     37     22     28     26     37     59     16     12
                  vv
clus               CLUS_9
  GOLGB1 MUTATED        4
  GOLGB1 WILD-TYPE     18
D456V6, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1              4               37
  CLUS_2              4               22
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6             10               59
  CLUS_7              4               16
  CLUS_8              2               12
  CLUS_9              4               18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GOLGB1 MUTATED        8     10     10     10
  GOLGB1 WILD-TYPE     92     62     62    111
D456V7, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1              8               92
  CLUS_2             10               62
  CLUS_3             10               62
  CLUS_4             10              111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLGB1 MUTATED        7      9     11      5      6
  GOLGB1 WILD-TYPE     52     66     63    114     32
D456V8, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1              7               52
  CLUS_2              9               66
  CLUS_3             11               63
  CLUS_4              5              114
  CLUS_5              6               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLGB1 MUTATED        5     12      6      3     11
  GOLGB1 WILD-TYPE     46     64     55     68     84
D456V9, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1              5               46
  CLUS_2             12               64
  CLUS_3              6               55
  CLUS_4              3               68
  CLUS_5             11               84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLGB1 MUTATED        6      8      5      4      3      3      0      6
  GOLGB1 WILD-TYPE     63     40     34     12     50     17     21     32
                  vv
clus               CLUS_9
  GOLGB1 MUTATED        2
  GOLGB1 WILD-TYPE     48
D456V10, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              8               40
  CLUS_3              5               34
  CLUS_4              4               12
  CLUS_5              3               50
  CLUS_6              3               17
  CLUS_7              0               21
  CLUS_8              6               32
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GOLGB1 MUTATED        1      1      2      1      3      2
  GOLGB1 WILD-TYPE     12     15     12     10      8      7
D456V11, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              1               10
  CLUS_5              3                8
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLGB1 MUTATED        1      1      0      1      2      0      3      2
  GOLGB1 WILD-TYPE     10      6      7      8      6      7      8      7
                  vv
clus               CLUS_9
  GOLGB1 MUTATED        0
  GOLGB1 WILD-TYPE      5
D456V12, multiclass
        clus
vv       GOLGB1 MUTATED GOLGB1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              3                8
  CLUS_8              2                7
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(457) Variable = KIAA1804 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1804 MUTATED        4      0      1      1      0
  KIAA1804 WILD-TYPE     28     18     45     26     23
D457V1, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                1                 45
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED        4      1      1
  KIAA1804 WILD-TYPE     39     66     35
D457V2, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED        2      3     11
  KIAA1804 WILD-TYPE     40    170    136
D457V3, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                3                170
  CLUS_3               11                136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED        4      1      5
  KIAA1804 WILD-TYPE     58     72     70
D457V4, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                1                 72
  CLUS_3                5                 70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED        0      8      6
  KIAA1804 WILD-TYPE     70    112     94
D457V5, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                8                112
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1804 MUTATED        1      1      1      4      2      4      0      0
  KIAA1804 WILD-TYPE     40     25     29     25     37     65     20     14
                    vv
clus                 CLUS_9
  KIAA1804 MUTATED        1
  KIAA1804 WILD-TYPE     21
D457V6, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                4                 25
  CLUS_5                2                 37
  CLUS_6                4                 65
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1804 MUTATED        3      4      3      6
  KIAA1804 WILD-TYPE     97     68     69    115
D457V7, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                3                 97
  CLUS_2                4                 68
  CLUS_3                3                 69
  CLUS_4                6                115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1804 MUTATED        1      2      6      4      3
  KIAA1804 WILD-TYPE     58     73     68    115     35
D457V8, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                2                 73
  CLUS_3                6                 68
  CLUS_4                4                115
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1804 MUTATED        2      4      2      1      7
  KIAA1804 WILD-TYPE     49     72     59     70     88
D457V9, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                4                 72
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                7                 88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1804 MUTATED        3      2      1      1      2      1      1      3
  KIAA1804 WILD-TYPE     66     46     38     15     51     19     20     35
                    vv
clus                 CLUS_9
  KIAA1804 MUTATED        2
  KIAA1804 WILD-TYPE     48
D457V10, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                2                 46
  CLUS_3                1                 38
  CLUS_4                1                 15
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                1                 20
  CLUS_8                3                 35
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA1804 MUTATED        0      0      2      0      1      0
  KIAA1804 WILD-TYPE     13     16     12     11     10      9
D457V11, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                0                 16
  CLUS_3                2                 12
  CLUS_4                0                 11
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1804 MUTATED        0      0      0      1      1      0      1      0
  KIAA1804 WILD-TYPE     11      7      7      8      7      7     10      9
                    vv
clus                 CLUS_9
  KIAA1804 MUTATED        0
  KIAA1804 WILD-TYPE      5
D457V12, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(458) Variable = C10ORF79 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C10ORF79 MUTATED        2      1      0      3      0
  C10ORF79 WILD-TYPE     30     17     46     24     23
D458V1, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                1                 17
  CLUS_3                0                 46
  CLUS_4                3                 24
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C10ORF79 MUTATED        4      2      0
  C10ORF79 WILD-TYPE     39     65     36
D458V2, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                2                 65
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C10ORF79 MUTATED        0     10     17
  C10ORF79 WILD-TYPE     42    163    130
D458V3, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2               10                163
  CLUS_3               17                130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C10ORF79 MUTATED        9      7      4
  C10ORF79 WILD-TYPE     53     66     71
D458V4, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                9                 53
  CLUS_2                7                 66
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C10ORF79 MUTATED        4      9     10
  C10ORF79 WILD-TYPE     66    111     90
D458V5, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                4                 66
  CLUS_2                9                111
  CLUS_3               10                 90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C10ORF79 MUTATED        3      1      2      3      1      8      1      1
  C10ORF79 WILD-TYPE     38     25     28     26     38     61     19     13
                    vv
clus                 CLUS_9
  C10ORF79 MUTATED        3
  C10ORF79 WILD-TYPE     19
D458V6, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                1                 25
  CLUS_3                2                 28
  CLUS_4                3                 26
  CLUS_5                1                 38
  CLUS_6                8                 61
  CLUS_7                1                 19
  CLUS_8                1                 13
  CLUS_9                3                 19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C10ORF79 MUTATED        7      5      7      8
  C10ORF79 WILD-TYPE     93     67     65    113
D458V7, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                7                 93
  CLUS_2                5                 67
  CLUS_3                7                 65
  CLUS_4                8                113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C10ORF79 MUTATED        4      7      8      4      4
  C10ORF79 WILD-TYPE     55     68     66    115     34
D458V8, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                4                 55
  CLUS_2                7                 68
  CLUS_3                8                 66
  CLUS_4                4                115
  CLUS_5                4                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C10ORF79 MUTATED        5      6      5      2      7
  C10ORF79 WILD-TYPE     46     70     56     69     88
D458V9, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                5                 46
  CLUS_2                6                 70
  CLUS_3                5                 56
  CLUS_4                2                 69
  CLUS_5                7                 88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C10ORF79 MUTATED        7      6      0      1      3      2      1      3
  C10ORF79 WILD-TYPE     62     42     39     15     50     18     20     35
                    vv
clus                 CLUS_9
  C10ORF79 MUTATED        2
  C10ORF79 WILD-TYPE     48
D458V10, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                7                 62
  CLUS_2                6                 42
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                3                 50
  CLUS_6                2                 18
  CLUS_7                1                 20
  CLUS_8                3                 35
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C10ORF79 MUTATED        1      2      3      0      2      0
  C10ORF79 WILD-TYPE     12     14     11     11      9      9
D458V11, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                2                 14
  CLUS_3                3                 11
  CLUS_4                0                 11
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C10ORF79 MUTATED        0      1      0      2      2      1      2      0
  C10ORF79 WILD-TYPE     11      6      7      7      6      6      9      9
                    vv
clus                 CLUS_9
  C10ORF79 MUTATED        0
  C10ORF79 WILD-TYPE      5
D458V12, multiclass
        clus
vv       C10ORF79 MUTATED C10ORF79 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  6
  CLUS_3                0                  7
  CLUS_4                2                  7
  CLUS_5                2                  6
  CLUS_6                1                  6
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(459) Variable = DENND4A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DENND4A MUTATED        5      0      0      3      0
  DENND4A WILD-TYPE     27     18     46     24     23
D459V1, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               5                27
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               3                24
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DENND4A MUTATED        6      1      1
  DENND4A WILD-TYPE     37     66     35
D459V2, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               6                37
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DENND4A MUTATED        1      3     18
  DENND4A WILD-TYPE     41    170    129
D459V3, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3              18               129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DENND4A MUTATED        4      3      7
  DENND4A WILD-TYPE     58     70     68
D459V4, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               4                58
  CLUS_2               3                70
  CLUS_3               7                68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DENND4A MUTATED        1      8     10
  DENND4A WILD-TYPE     69    112     90
D459V5, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               1                69
  CLUS_2               8               112
  CLUS_3              10                90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DENND4A MUTATED        1      2      1      3      3      9      0      0
  DENND4A WILD-TYPE     40     24     29     26     36     60     20     14
                   vv
clus                CLUS_9
  DENND4A MUTATED        0
  DENND4A WILD-TYPE     22
D459V6, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               1                40
  CLUS_2               2                24
  CLUS_3               1                29
  CLUS_4               3                26
  CLUS_5               3                36
  CLUS_6               9                60
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DENND4A MUTATED        2      8      4      8
  DENND4A WILD-TYPE     98     64     68    113
D459V7, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               2                98
  CLUS_2               8                64
  CLUS_3               4                68
  CLUS_4               8               113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DENND4A MUTATED        3      4      7      3      5
  DENND4A WILD-TYPE     56     71     67    116     33
D459V8, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               3                56
  CLUS_2               4                71
  CLUS_3               7                67
  CLUS_4               3               116
  CLUS_5               5                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DENND4A MUTATED        2      8      3      1      7
  DENND4A WILD-TYPE     49     68     58     70     88
D459V9, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               2                49
  CLUS_2               8                68
  CLUS_3               3                58
  CLUS_4               1                70
  CLUS_5               7                88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DENND4A MUTATED        5      2      1      4      2      1      1      4
  DENND4A WILD-TYPE     64     46     38     12     51     19     20     34
                   vv
clus                CLUS_9
  DENND4A MUTATED        1
  DENND4A WILD-TYPE     49
D459V10, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               5                64
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               4                12
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               4                34
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DENND4A MUTATED        0      2      1      1      1      0
  DENND4A WILD-TYPE     13     14     13     10     10      9
D459V11, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               0                13
  CLUS_2               2                14
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DENND4A MUTATED        2      1      1      1      0      0      0      0
  DENND4A WILD-TYPE      9      6      6      8      8      7     11      9
                   vv
clus                CLUS_9
  DENND4A MUTATED        0
  DENND4A WILD-TYPE      5
D459V12, multiclass
        clus
vv       DENND4A MUTATED DENND4A WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               1                 6
  CLUS_3               1                 6
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(460) Variable = RBL2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBL2 MUTATED        5      0      0      3      0
  RBL2 WILD-TYPE     27     18     46     24     23
D460V1, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBL2 MUTATED        6      2      0
  RBL2 WILD-TYPE     37     65     36
D460V2, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBL2 MUTATED        3      3     15
  RBL2 WILD-TYPE     39    170    132
D460V3, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            3            170
  CLUS_3           15            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBL2 MUTATED        4      1      8
  RBL2 WILD-TYPE     58     72     67
D460V4, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBL2 MUTATED        3      8      8
  RBL2 WILD-TYPE     67    112     92
D460V5, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            8            112
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBL2 MUTATED        3      0      2      4      3      6      0      0      1
  RBL2 WILD-TYPE     38     26     28     25     36     63     20     14     21
D460V6, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            4             25
  CLUS_5            3             36
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBL2 MUTATED        1      4      7      8
  RBL2 WILD-TYPE     99     68     65    113
D460V7, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            4             68
  CLUS_3            7             65
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBL2 MUTATED        3      3      6      1      7
  RBL2 WILD-TYPE     56     72     68    118     31
D460V8, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            3             72
  CLUS_3            6             68
  CLUS_4            1            118
  CLUS_5            7             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBL2 MUTATED        3      5      3      1      8
  RBL2 WILD-TYPE     48     71     58     70     87
D460V9, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            5             71
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBL2 MUTATED        2      6      0      1      3      1      0      5      2
  RBL2 WILD-TYPE     67     42     39     15     50     19     21     33     48
D460V10, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            6             42
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            5             33
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBL2 MUTATED        0      1      1      0      1      0
  RBL2 WILD-TYPE     13     15     13     11     10      9
D460V11, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBL2 MUTATED        1      0      0      0      0      0      2      0      0
  RBL2 WILD-TYPE     10      7      7      9      8      7      9      9      5
D460V12, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(461) Variable = DCAF6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCAF6 MUTATED        4      0      0      2      0
  DCAF6 WILD-TYPE     28     18     46     25     23
D461V1, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCAF6 MUTATED        4      1      1
  DCAF6 WILD-TYPE     39     66     35
D461V2, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCAF6 MUTATED        2      1     11
  DCAF6 WILD-TYPE     40    172    136
D461V3, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCAF6 MUTATED        2      0      7
  DCAF6 WILD-TYPE     60     73     68
D461V4, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCAF6 MUTATED        0      5      7
  DCAF6 WILD-TYPE     70    115     93
D461V5, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCAF6 MUTATED        1      1      1      2      0      4      3      0
  DCAF6 WILD-TYPE     40     25     29     27     39     65     17     14
                 vv
clus              CLUS_9
  DCAF6 MUTATED        0
  DCAF6 WILD-TYPE     22
D461V6, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DCAF6 MUTATED        1      5      3      6
  DCAF6 WILD-TYPE     99     67     69    115
D461V7, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCAF6 MUTATED        1      1      7      2      4
  DCAF6 WILD-TYPE     58     74     67    117     34
D461V8, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             7              67
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCAF6 MUTATED        0      6      2      2      4
  DCAF6 WILD-TYPE     51     70     59     69     91
D461V9, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCAF6 MUTATED        3      2      0      3      2      1      0      3
  DCAF6 WILD-TYPE     66     46     39     13     51     19     21     35
                 vv
clus              CLUS_9
  DCAF6 MUTATED        0
  DCAF6 WILD-TYPE     50
D461V10, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DCAF6 MUTATED        0      0      1      0      2      0
  DCAF6 WILD-TYPE     13     16     13     11      9      9
D461V11, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCAF6 MUTATED        1      0      0      1      0      0      1      0
  DCAF6 WILD-TYPE     10      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  DCAF6 MUTATED        0
  DCAF6 WILD-TYPE      5
D461V12, multiclass
        clus
vv       DCAF6 MUTATED DCAF6 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(462) Variable = HIST1H1E MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1E MUTATED        0      0      0      0      0
  HIST1H1E WILD-TYPE     32     18     46     27     23
D462V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1E MUTATED        0      0      0
  HIST1H1E WILD-TYPE     43     67     36
D462V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1E MUTATED        1      1      4
  HIST1H1E WILD-TYPE     41    172    143
D462V3, multiclass
        clus
vv       HIST1H1E MUTATED HIST1H1E WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                1                172
  CLUS_3                4                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1E MUTATED        1      0      5
  HIST1H1E WILD-TYPE     61     73     70
D462V4, multiclass
        clus
vv       HIST1H1E MUTATED HIST1H1E WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                0                 73
  CLUS_3                5                 70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1E MUTATED        0      4      2
  HIST1H1E WILD-TYPE     70    116     98
D462V5, multiclass
        clus
vv       HIST1H1E MUTATED HIST1H1E WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                4                116
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1E MUTATED        2      1      0      3      0      0      0      0
  HIST1H1E WILD-TYPE     39     25     30     26     39     69     20     14
                    vv
clus                 CLUS_9
  HIST1H1E MUTATED        0
  HIST1H1E WILD-TYPE     22
D462V6, multiclass
        clus
vv       HIST1H1E MUTATED HIST1H1E WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                3                 26
  CLUS_5                0                 39
  CLUS_6                0                 69
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST1H1E MUTATED        0      4      2      0
  HIST1H1E WILD-TYPE    100     68     70    121
D462V7, multiclass
        clus
vv       HIST1H1E MUTATED HIST1H1E WILD-TYPE
  CLUS_1                0                100
  CLUS_2                4                 68
  CLUS_3                2                 70
  CLUS_4                0                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1E MUTATED        2      0      3      1      0
  HIST1H1E WILD-TYPE     57     75     71    118     38
D462V8, multiclass
        clus
vv       HIST1H1E MUTATED HIST1H1E WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                0                 75
  CLUS_3                3                 71
  CLUS_4                1                118
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1E MUTATED        1      3      1      0      1
  HIST1H1E WILD-TYPE     50     73     60     71     94
D462V9, multiclass
        clus
vv       HIST1H1E MUTATED HIST1H1E WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                3                 73
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1E MUTATED        1      3      0      1      0      0      0      1
  HIST1H1E WILD-TYPE     68     45     39     15     53     20     21     37
                    vv
clus                 CLUS_9
  HIST1H1E MUTATED        0
  HIST1H1E WILD-TYPE     50
D462V10, multiclass
        clus
vv       HIST1H1E MUTATED HIST1H1E WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIST1H1E MUTATED        0      0      0      0      1      0
  HIST1H1E WILD-TYPE     13     16     14     11     10      9
D462V11, multiclass
[1] "Remove cluster labels:" "HIST1H1E MUTATED"      
clus
  HIST1H1E MUTATED HIST1H1E WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-G4-6628 
"HIST1H1E WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1E MUTATED        0      0      0      1      0      0      0      0
  HIST1H1E WILD-TYPE     11      7      7      8      8      7     11      9
                    vv
clus                 CLUS_9
  HIST1H1E MUTATED        0
  HIST1H1E WILD-TYPE      5
D462V12, multiclass
[1] "Remove cluster labels:" "HIST1H1E MUTATED"      
clus
  HIST1H1E MUTATED HIST1H1E WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" "HIST1H1E WILD-TYPE" 
        TCGA-G4-6628 
"HIST1H1E WILD-TYPE" 

Clustering(463) Variable = ADK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADK MUTATED        0      0      0      1      0
  ADK WILD-TYPE     32     18     46     26     23
D463V1, multiclass
[1] "Remove cluster labels:" "ADK MUTATED"           
clus
  ADK MUTATED ADK WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3982    TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A004    TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A00J    TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A00Q    TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ADK MUTATED        0      1      0
  ADK WILD-TYPE     43     66     36
D463V2, multiclass
[1] "Remove cluster labels:" "ADK MUTATED"           
clus
  ADK MUTATED ADK WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-3982    TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A004    TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A00J    TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A00Q    TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" "ADK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ADK MUTATED        1      1      5
  ADK WILD-TYPE     41    172    142
D463V3, multiclass
        clus
vv       ADK MUTATED ADK WILD-TYPE
  CLUS_1           1            41
  CLUS_2           1           172
  CLUS_3           5           142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ADK MUTATED        2      0      4
  ADK WILD-TYPE     60     73     71
D463V4, multiclass
        clus
vv       ADK MUTATED ADK WILD-TYPE
  CLUS_1           2            60
  CLUS_2           0            73
  CLUS_3           4            71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ADK MUTATED        1      3      3
  ADK WILD-TYPE     69    117     97
D463V5, multiclass
        clus
vv       ADK MUTATED ADK WILD-TYPE
  CLUS_1           1            69
  CLUS_2           3           117
  CLUS_3           3            97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ADK MUTATED        0      0      1      1      0      2      2      1      0
  ADK WILD-TYPE     41     26     29     28     39     67     18     13     22
D463V6, multiclass
        clus
vv       ADK MUTATED ADK WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           1            29
  CLUS_4           1            28
  CLUS_5           0            39
  CLUS_6           2            67
  CLUS_7           2            18
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADK MUTATED        0      5      1      1
  ADK WILD-TYPE    100     67     71    120
D463V7, multiclass
        clus
vv       ADK MUTATED ADK WILD-TYPE
  CLUS_1           0           100
  CLUS_2           5            67
  CLUS_3           1            71
  CLUS_4           1           120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADK MUTATED        1      2      3      1      0
  ADK WILD-TYPE     58     73     71    118     38
D463V8, multiclass
        clus
vv       ADK MUTATED ADK WILD-TYPE
  CLUS_1           1            58
  CLUS_2           2            73
  CLUS_3           3            71
  CLUS_4           1           118
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADK MUTATED        0      5      0      0      2
  ADK WILD-TYPE     51     71     61     71     93
D463V9, multiclass
        clus
vv       ADK MUTATED ADK WILD-TYPE
  CLUS_1           0            51
  CLUS_2           5            71
  CLUS_3           0            61
  CLUS_4           0            71
  CLUS_5           2            93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ADK MUTATED        2      1      0      1      1      1      0      0      1
  ADK WILD-TYPE     67     47     39     15     52     19     21     38     49
D463V10, multiclass
        clus
vv       ADK MUTATED ADK WILD-TYPE
  CLUS_1           2            67
  CLUS_2           1            47
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           1            52
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADK MUTATED        0      0      0      0      0      0
  ADK WILD-TYPE     13     16     14     11     11      9
D463V11, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ADK MUTATED        0      0      0      0      0      0      0      0      0
  ADK WILD-TYPE     11      7      7      9      8      7     11      9      5
D463V12, multiclass

Clustering(464) Variable = RPA3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPA3 MUTATED        0      0      0      0      0
  RPA3 WILD-TYPE     32     18     46     27     23
D464V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPA3 MUTATED        0      0      0
  RPA3 WILD-TYPE     43     67     36
D464V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPA3 MUTATED        0      3      1
  RPA3 WILD-TYPE     42    170    146
D464V3, multiclass
        clus
vv       RPA3 MUTATED RPA3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            1            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPA3 MUTATED        1      3      0
  RPA3 WILD-TYPE     61     70     75
D464V4, multiclass
        clus
vv       RPA3 MUTATED RPA3 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            3             70
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPA3 MUTATED        0      4      0
  RPA3 WILD-TYPE     70    116    100
D464V5, multiclass
        clus
vv       RPA3 MUTATED RPA3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            0            100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RPA3 MUTATED        0      0      0      0      0      1      0      2      1
  RPA3 WILD-TYPE     41     26     30     29     39     68     20     12     21
D464V6, multiclass
        clus
vv       RPA3 MUTATED RPA3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPA3 MUTATED        2      1      1      0
  RPA3 WILD-TYPE     98     71     71    121
D464V7, multiclass
        clus
vv       RPA3 MUTATED RPA3 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPA3 MUTATED        2      1      1      0      0
  RPA3 WILD-TYPE     57     74     73    119     38
D464V8, multiclass
        clus
vv       RPA3 MUTATED RPA3 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPA3 MUTATED        1      1      0      2      0
  RPA3 WILD-TYPE     50     75     61     69     95
D464V9, multiclass
        clus
vv       RPA3 MUTATED RPA3 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            0             61
  CLUS_4            2             69
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RPA3 MUTATED        2      0      0      1      1      0      0      0      0
  RPA3 WILD-TYPE     67     48     39     15     52     20     21     38     50
D464V10, multiclass
        clus
vv       RPA3 MUTATED RPA3 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RPA3 MUTATED        0      0      0      1      1      1
  RPA3 WILD-TYPE     13     16     14     10     10      8
D464V11, multiclass
        clus
vv       RPA3 MUTATED RPA3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RPA3 MUTATED        0      0      0      1      0      0      0      2      0
  RPA3 WILD-TYPE     11      7      7      8      8      7     11      7      5
D464V12, multiclass
        clus
vv       RPA3 MUTATED RPA3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            2              7
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(465) Variable = NFATC3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFATC3 MUTATED        0      0      1      1      0
  NFATC3 WILD-TYPE     32     18     45     26     23
D465V1, multiclass
[1] "Remove cluster labels:" "NFATC3 MUTATED"        
clus
  NFATC3 MUTATED NFATC3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3696 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFATC3 MUTATED        0      1      1
  NFATC3 WILD-TYPE     43     66     35
D465V2, multiclass
[1] "Remove cluster labels:" "NFATC3 MUTATED"        
clus
  NFATC3 MUTATED NFATC3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3696 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFATC3 MUTATED        1      4      7
  NFATC3 WILD-TYPE     41    169    140
D465V3, multiclass
        clus
vv       NFATC3 MUTATED NFATC3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFATC3 MUTATED        2      3      4
  NFATC3 WILD-TYPE     60     70     71
D465V4, multiclass
        clus
vv       NFATC3 MUTATED NFATC3 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3               70
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFATC3 MUTATED        2      4      5
  NFATC3 WILD-TYPE     68    116     95
D465V5, multiclass
        clus
vv       NFATC3 MUTATED NFATC3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFATC3 MUTATED        4      1      2      1      0      2      0      1
  NFATC3 WILD-TYPE     37     25     28     28     39     67     20     13
                  vv
clus               CLUS_9
  NFATC3 MUTATED        0
  NFATC3 WILD-TYPE     22
D465V6, multiclass
        clus
vv       NFATC3 MUTATED NFATC3 WILD-TYPE
  CLUS_1              4               37
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFATC3 MUTATED        4      3      2      3
  NFATC3 WILD-TYPE     96     69     70    118
D465V7, multiclass
        clus
vv       NFATC3 MUTATED NFATC3 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFATC3 MUTATED        3      2      3      3      1
  NFATC3 WILD-TYPE     56     73     71    116     37
D465V8, multiclass
        clus
vv       NFATC3 MUTATED NFATC3 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              3              116
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFATC3 MUTATED        2      2      4      0      4
  NFATC3 WILD-TYPE     49     74     57     71     91
D465V9, multiclass
        clus
vv       NFATC3 MUTATED NFATC3 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              2               74
  CLUS_3              4               57
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFATC3 MUTATED        1      3      1      2      0      2      1      1
  NFATC3 WILD-TYPE     68     45     38     14     53     18     20     37
                  vv
clus               CLUS_9
  NFATC3 MUTATED        1
  NFATC3 WILD-TYPE     49
D465V10, multiclass
        clus
vv       NFATC3 MUTATED NFATC3 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFATC3 MUTATED        0      0      0      1      1      0
  NFATC3 WILD-TYPE     13     16     14     10     10      9
D465V11, multiclass
[1] "Remove cluster labels:" "NFATC3 MUTATED"        
clus
  NFATC3 MUTATED NFATC3 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFATC3 MUTATED        0      0      1      1      0      0      0      0
  NFATC3 WILD-TYPE     11      7      6      8      8      7     11      9
                  vv
clus               CLUS_9
  NFATC3 MUTATED        0
  NFATC3 WILD-TYPE      5
D465V12, multiclass
[1] "Remove cluster labels:" "NFATC3 MUTATED"        
clus
  NFATC3 MUTATED NFATC3 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" "NFATC3 WILD-TYPE" 

Clustering(466) Variable = C9ORF84 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF84 MUTATED        4      0      0      1      0
  C9ORF84 WILD-TYPE     28     18     46     26     23
D466V1, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF84 MUTATED        3      1      1
  C9ORF84 WILD-TYPE     40     66     35
D466V2, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF84 MUTATED        1      4     15
  C9ORF84 WILD-TYPE     41    169    132
D466V3, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               4               169
  CLUS_3              15               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF84 MUTATED        7      3      5
  C9ORF84 WILD-TYPE     55     70     70
D466V4, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               7                55
  CLUS_2               3                70
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF84 MUTATED        5      5      9
  C9ORF84 WILD-TYPE     65    115     91
D466V5, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               5                65
  CLUS_2               5               115
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF84 MUTATED        4      3      1      0      3      5      1      0
  C9ORF84 WILD-TYPE     37     23     29     29     36     64     19     14
                   vv
clus                CLUS_9
  C9ORF84 MUTATED        2
  C9ORF84 WILD-TYPE     20
D466V6, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               4                37
  CLUS_2               3                23
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               3                36
  CLUS_6               5                64
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               2                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C9ORF84 MUTATED        2      6      7      5
  C9ORF84 WILD-TYPE     98     66     65    116
D466V7, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               6                66
  CLUS_3               7                65
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF84 MUTATED        5      1      8      3      3
  C9ORF84 WILD-TYPE     54     74     66    116     35
D466V8, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               5                54
  CLUS_2               1                74
  CLUS_3               8                66
  CLUS_4               3               116
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF84 MUTATED        1      9      4      1      5
  C9ORF84 WILD-TYPE     50     67     57     70     90
D466V9, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               9                67
  CLUS_3               4                57
  CLUS_4               1                70
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF84 MUTATED        6      5      0      1      3      2      0      3
  C9ORF84 WILD-TYPE     63     43     39     15     50     18     21     35
                   vv
clus                CLUS_9
  C9ORF84 MUTATED        0
  C9ORF84 WILD-TYPE     50
D466V10, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               6                63
  CLUS_2               5                43
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               3                50
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C9ORF84 MUTATED        0      3      0      0      3      0
  C9ORF84 WILD-TYPE     13     13     14     11      8      9
D466V11, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               3                13
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF84 MUTATED        1      1      0      1      0      1      2      0
  C9ORF84 WILD-TYPE     10      6      7      8      8      6      9      9
                   vv
clus                CLUS_9
  C9ORF84 MUTATED        0
  C9ORF84 WILD-TYPE      5
D466V12, multiclass
        clus
vv       C9ORF84 MUTATED C9ORF84 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(467) Variable = IKZF4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IKZF4 MUTATED        1      0      0      0      0
  IKZF4 WILD-TYPE     31     18     46     27     23
D467V1, multiclass
[1] "Remove cluster labels:" "IKZF4 MUTATED"         
clus
  IKZF4 MUTATED IKZF4 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AY-4071 
"IKZF4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKZF4 MUTATED        1      0      0
  IKZF4 WILD-TYPE     42     67     36
D467V2, multiclass
[1] "Remove cluster labels:" "IKZF4 MUTATED"         
clus
  IKZF4 MUTATED IKZF4 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" "IKZF4 WILD-TYPE" 
     TCGA-AY-4071 
"IKZF4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKZF4 MUTATED        1      6      6
  IKZF4 WILD-TYPE     41    167    141
D467V3, multiclass
        clus
vv       IKZF4 MUTATED IKZF4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             6             167
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKZF4 MUTATED        4      5      3
  IKZF4 WILD-TYPE     58     68     72
D467V4, multiclass
        clus
vv       IKZF4 MUTATED IKZF4 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             5              68
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKZF4 MUTATED        2      6      4
  IKZF4 WILD-TYPE     68    114     96
D467V5, multiclass
        clus
vv       IKZF4 MUTATED IKZF4 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IKZF4 MUTATED        1      2      1      2      0      2      1      2
  IKZF4 WILD-TYPE     40     24     29     27     39     67     19     12
                 vv
clus              CLUS_9
  IKZF4 MUTATED        1
  IKZF4 WILD-TYPE     21
D467V6, multiclass
        clus
vv       IKZF4 MUTATED IKZF4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IKZF4 MUTATED        4      5      3      1
  IKZF4 WILD-TYPE     96     67     69    120
D467V7, multiclass
        clus
vv       IKZF4 MUTATED IKZF4 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IKZF4 MUTATED        3      4      5      0      1
  IKZF4 WILD-TYPE     56     71     69    119     37
D467V8, multiclass
        clus
vv       IKZF4 MUTATED IKZF4 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             4              71
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IKZF4 MUTATED        1      7      3      1      1
  IKZF4 WILD-TYPE     50     69     58     70     94
D467V9, multiclass
        clus
vv       IKZF4 MUTATED IKZF4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IKZF4 MUTATED        4      4      2      0      1      1      0      1
  IKZF4 WILD-TYPE     65     44     37     16     52     19     21     37
                 vv
clus              CLUS_9
  IKZF4 MUTATED        0
  IKZF4 WILD-TYPE     50
D467V10, multiclass
        clus
vv       IKZF4 MUTATED IKZF4 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              44
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IKZF4 MUTATED        2      2      1      1      1      0
  IKZF4 WILD-TYPE     11     14     13     10     10      9
D467V11, multiclass
        clus
vv       IKZF4 MUTATED IKZF4 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IKZF4 MUTATED        1      1      1      1      1      0      1      1
  IKZF4 WILD-TYPE     10      6      6      8      7      7     10      8
                 vv
clus              CLUS_9
  IKZF4 MUTATED        0
  IKZF4 WILD-TYPE      5
D467V12, multiclass
        clus
vv       IKZF4 MUTATED IKZF4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(468) Variable = MAP7D1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP7D1 MUTATED        0      0      0      1      0
  MAP7D1 WILD-TYPE     32     18     46     26     23
D468V1, multiclass
[1] "Remove cluster labels:" "MAP7D1 MUTATED"        
clus
  MAP7D1 MUTATED MAP7D1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AY-4071 
"MAP7D1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP7D1 MUTATED        1      0      0
  MAP7D1 WILD-TYPE     42     67     36
D468V2, multiclass
[1] "Remove cluster labels:" "MAP7D1 MUTATED"        
clus
  MAP7D1 MUTATED MAP7D1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" "MAP7D1 WILD-TYPE" 
      TCGA-AY-4071 
"MAP7D1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP7D1 MUTATED        1      2     12
  MAP7D1 WILD-TYPE     41    171    135
D468V3, multiclass
        clus
vv       MAP7D1 MUTATED MAP7D1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP7D1 MUTATED        7      0      7
  MAP7D1 WILD-TYPE     55     73     68
D468V4, multiclass
        clus
vv       MAP7D1 MUTATED MAP7D1 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              0               73
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP7D1 MUTATED        1      5      8
  MAP7D1 WILD-TYPE     69    115     92
D468V5, multiclass
        clus
vv       MAP7D1 MUTATED MAP7D1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP7D1 MUTATED        2      0      0      2      0      6      3      1
  MAP7D1 WILD-TYPE     39     26     30     27     39     63     17     13
                  vv
clus               CLUS_9
  MAP7D1 MUTATED        0
  MAP7D1 WILD-TYPE     22
D468V6, multiclass
        clus
vv       MAP7D1 MUTATED MAP7D1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              6               63
  CLUS_7              3               17
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP7D1 MUTATED        1      5      8      1
  MAP7D1 WILD-TYPE     99     67     64    120
D468V7, multiclass
        clus
vv       MAP7D1 MUTATED MAP7D1 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              5               67
  CLUS_3              8               64
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP7D1 MUTATED        2      1     11      0      1
  MAP7D1 WILD-TYPE     57     74     63    119     37
D468V8, multiclass
        clus
vv       MAP7D1 MUTATED MAP7D1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3             11               63
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP7D1 MUTATED        1     11      1      1      0
  MAP7D1 WILD-TYPE     50     65     60     70     95
D468V9, multiclass
        clus
vv       MAP7D1 MUTATED MAP7D1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2             11               65
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP7D1 MUTATED        4      7      0      3      0      0      0      0
  MAP7D1 WILD-TYPE     65     41     39     13     53     20     21     38
                  vv
clus               CLUS_9
  MAP7D1 MUTATED        0
  MAP7D1 WILD-TYPE     50
D468V10, multiclass
        clus
vv       MAP7D1 MUTATED MAP7D1 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              7               41
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAP7D1 MUTATED        1      2      1      0      2      0
  MAP7D1 WILD-TYPE     12     14     13     11      9      9
D468V11, multiclass
        clus
vv       MAP7D1 MUTATED MAP7D1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP7D1 MUTATED        0      0      1      1      0      1      2      1
  MAP7D1 WILD-TYPE     11      7      6      8      8      6      9      8
                  vv
clus               CLUS_9
  MAP7D1 MUTATED        0
  MAP7D1 WILD-TYPE      5
D468V12, multiclass
        clus
vv       MAP7D1 MUTATED MAP7D1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(469) Variable = LRRC39 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC39 MUTATED        2      0      0      0      0
  LRRC39 WILD-TYPE     30     18     46     27     23
D469V1, multiclass
[1] "Remove cluster labels:" "LRRC39 MUTATED"        
clus
  LRRC39 MUTATED LRRC39 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3812 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRC39 MUTATED        2      0      0
  LRRC39 WILD-TYPE     41     67     36
D469V2, multiclass
[1] "Remove cluster labels:" "LRRC39 MUTATED"        
clus
  LRRC39 MUTATED LRRC39 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3812 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRC39 MUTATED        1      1      6
  LRRC39 WILD-TYPE     41    172    141
D469V3, multiclass
        clus
vv       LRRC39 MUTATED LRRC39 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRC39 MUTATED        4      1      1
  LRRC39 WILD-TYPE     58     72     74
D469V4, multiclass
        clus
vv       LRRC39 MUTATED LRRC39 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRC39 MUTATED        0      2      5
  LRRC39 WILD-TYPE     70    118     95
D469V5, multiclass
        clus
vv       LRRC39 MUTATED LRRC39 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC39 MUTATED        1      0      0      0      1      4      0      1
  LRRC39 WILD-TYPE     40     26     30     29     38     65     20     13
                  vv
clus               CLUS_9
  LRRC39 MUTATED        0
  LRRC39 WILD-TYPE     22
D469V6, multiclass
        clus
vv       LRRC39 MUTATED LRRC39 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRRC39 MUTATED        1      2      3      2
  LRRC39 WILD-TYPE     99     70     69    119
D469V7, multiclass
        clus
vv       LRRC39 MUTATED LRRC39 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC39 MUTATED        2      0      4      0      2
  LRRC39 WILD-TYPE     57     75     70    119     36
D469V8, multiclass
        clus
vv       LRRC39 MUTATED LRRC39 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC39 MUTATED        0      4      2      1      1
  LRRC39 WILD-TYPE     51     72     59     70     94
D469V9, multiclass
        clus
vv       LRRC39 MUTATED LRRC39 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC39 MUTATED        1      3      0      2      1      0      0      1
  LRRC39 WILD-TYPE     68     45     39     14     52     20     21     37
                  vv
clus               CLUS_9
  LRRC39 MUTATED        0
  LRRC39 WILD-TYPE     50
D469V10, multiclass
        clus
vv       LRRC39 MUTATED LRRC39 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LRRC39 MUTATED        0      0      1      0      0      0
  LRRC39 WILD-TYPE     13     16     13     11     11      9
D469V11, multiclass
[1] "Remove cluster labels:" "LRRC39 MUTATED"        
clus
  LRRC39 MUTATED LRRC39 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-G4-6625 
"LRRC39 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC39 MUTATED        0      0      0      0      0      0      1      0
  LRRC39 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  LRRC39 MUTATED        0
  LRRC39 WILD-TYPE      5
D469V12, multiclass
[1] "Remove cluster labels:" "LRRC39 MUTATED"        
clus
  LRRC39 MUTATED LRRC39 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309 
"LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" "LRRC39 WILD-TYPE" 
      TCGA-G4-6625 
"LRRC39 WILD-TYPE" 

Clustering(470) Variable = RING1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RING1 MUTATED        1      0      0      0      0
  RING1 WILD-TYPE     31     18     46     27     23
D470V1, multiclass
[1] "Remove cluster labels:" "RING1 MUTATED"         
clus
  RING1 MUTATED RING1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AY-4071 
"RING1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RING1 MUTATED        0      0      1
  RING1 WILD-TYPE     43     67     35
D470V2, multiclass
[1] "Remove cluster labels:" "RING1 MUTATED"         
clus
  RING1 MUTATED RING1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AY-4071 
"RING1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RING1 MUTATED        0      1      9
  RING1 WILD-TYPE     42    172    138
D470V3, multiclass
        clus
vv       RING1 MUTATED RING1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RING1 MUTATED        4      0      5
  RING1 WILD-TYPE     58     73     70
D470V4, multiclass
        clus
vv       RING1 MUTATED RING1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RING1 MUTATED        2      2      5
  RING1 WILD-TYPE     68    118     95
D470V5, multiclass
        clus
vv       RING1 MUTATED RING1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RING1 MUTATED        0      0      0      2      1      5      0      1
  RING1 WILD-TYPE     41     26     30     27     38     64     20     13
                 vv
clus              CLUS_9
  RING1 MUTATED        0
  RING1 WILD-TYPE     22
D470V6, multiclass
        clus
vv       RING1 MUTATED RING1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RING1 MUTATED        1      7      1      1
  RING1 WILD-TYPE     99     65     71    120
D470V7, multiclass
        clus
vv       RING1 MUTATED RING1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             7              65
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RING1 MUTATED        0      1      8      1      0
  RING1 WILD-TYPE     59     74     66    118     38
D470V8, multiclass
        clus
vv       RING1 MUTATED RING1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RING1 MUTATED        1      5      2      1      1
  RING1 WILD-TYPE     50     71     59     70     94
D470V9, multiclass
        clus
vv       RING1 MUTATED RING1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RING1 MUTATED        3      1      0      3      2      0      0      0
  RING1 WILD-TYPE     66     47     39     13     51     20     21     38
                 vv
clus              CLUS_9
  RING1 MUTATED        1
  RING1 WILD-TYPE     49
D470V10, multiclass
        clus
vv       RING1 MUTATED RING1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RING1 MUTATED        0      0      1      0      1      0
  RING1 WILD-TYPE     13     16     13     11     10      9
D470V11, multiclass
[1] "Remove cluster labels:" "RING1 MUTATED"         
clus
  RING1 MUTATED RING1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A282      TCGA-DM-A285 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RING1 MUTATED        0      0      0      1      1      0      0      0
  RING1 WILD-TYPE     11      7      7      8      7      7     11      9
                 vv
clus              CLUS_9
  RING1 MUTATED        0
  RING1 WILD-TYPE      5
D470V12, multiclass
[1] "Remove cluster labels:" "RING1 MUTATED"         
clus
  RING1 MUTATED RING1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A282      TCGA-DM-A285 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" "RING1 WILD-TYPE" 

Clustering(471) Variable = VCX2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VCX2 MUTATED        0      0      0      0      0
  VCX2 WILD-TYPE     32     18     46     27     23
D471V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VCX2 MUTATED        0      0      0
  VCX2 WILD-TYPE     43     67     36
D471V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VCX2 MUTATED        0      5      2
  VCX2 WILD-TYPE     42    168    145
D471V3, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            5            168
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VCX2 MUTATED        2      4      1
  VCX2 WILD-TYPE     60     69     74
D471V4, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            4             69
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VCX2 MUTATED        1      3      3
  VCX2 WILD-TYPE     69    117     97
D471V5, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VCX2 MUTATED        1      1      0      2      0      2      0      1      0
  VCX2 WILD-TYPE     40     25     30     27     39     67     20     13     22
D471V6, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VCX2 MUTATED        4      1      2      0
  VCX2 WILD-TYPE     96     71     70    121
D471V7, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VCX2 MUTATED        3      3      1      0      0
  VCX2 WILD-TYPE     56     72     73    119     38
D471V8, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            3             72
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VCX2 MUTATED        1      2      3      1      0
  VCX2 WILD-TYPE     50     74     58     70     95
D471V9, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VCX2 MUTATED        3      2      1      0      0      1      0      0      0
  VCX2 WILD-TYPE     66     46     38     16     53     19     21     38     50
D471V10, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VCX2 MUTATED        0      1      0      1      0      1
  VCX2 WILD-TYPE     13     15     14     10     11      8
D471V11, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VCX2 MUTATED        0      1      0      0      0      0      1      1      0
  VCX2 WILD-TYPE     11      6      7      9      8      7     10      8      5
D471V12, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(472) Variable = N4BP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  N4BP2 MUTATED        4      0      0      1      1
  N4BP2 WILD-TYPE     28     18     46     26     22
D472V1, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  N4BP2 MUTATED        3      1      2
  N4BP2 WILD-TYPE     40     66     34
D472V2, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  N4BP2 MUTATED        2      5     17
  N4BP2 WILD-TYPE     40    168    130
D472V3, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3            17             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  N4BP2 MUTATED        6      3     10
  N4BP2 WILD-TYPE     56     70     65
D472V4, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             3              70
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  N4BP2 MUTATED        2     10     10
  N4BP2 WILD-TYPE     68    110     90
D472V5, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2            10             110
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  N4BP2 MUTATED        4      1      2      6      1      6      1      1
  N4BP2 WILD-TYPE     37     25     28     23     38     63     19     13
                 vv
clus              CLUS_9
  N4BP2 MUTATED        0
  N4BP2 WILD-TYPE     22
D472V6, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             6              23
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  N4BP2 MUTATED        5      6      7      6
  N4BP2 WILD-TYPE     95     66     65    115
D472V7, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             6              66
  CLUS_3             7              65
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  N4BP2 MUTATED        2      7      9      3      3
  N4BP2 WILD-TYPE     57     68     65    116     35
D472V8, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             7              68
  CLUS_3             9              65
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  N4BP2 MUTATED        4      9      3      3      4
  N4BP2 WILD-TYPE     47     67     58     68     91
D472V9, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             9              67
  CLUS_3             3              58
  CLUS_4             3              68
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  N4BP2 MUTATED        5      6      3      3      2      1      0      2
  N4BP2 WILD-TYPE     64     42     36     13     51     19     21     36
                 vv
clus              CLUS_9
  N4BP2 MUTATED        1
  N4BP2 WILD-TYPE     49
D472V10, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             6              42
  CLUS_3             3              36
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  N4BP2 MUTATED        1      2      0      0      3      1
  N4BP2 WILD-TYPE     12     14     14     11      8      8
D472V11, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  N4BP2 MUTATED        0      1      0      1      0      1      3      0
  N4BP2 WILD-TYPE     11      6      7      8      8      6      8      9
                 vv
clus              CLUS_9
  N4BP2 MUTATED        1
  N4BP2 WILD-TYPE      4
D472V12, multiclass
        clus
vv       N4BP2 MUTATED N4BP2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(473) Variable = NRK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRK MUTATED        5      0      0      2      0
  NRK WILD-TYPE     27     18     46     25     23
D473V1, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           5            27
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NRK MUTATED        4      2      1
  NRK WILD-TYPE     39     65     35
D473V2, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           4            39
  CLUS_2           2            65
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NRK MUTATED        4      5     14
  NRK WILD-TYPE     38    168    133
D473V3, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           4            38
  CLUS_2           5           168
  CLUS_3          14           133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NRK MUTATED        4      4      8
  NRK WILD-TYPE     58     69     67
D473V4, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           4            58
  CLUS_2           4            69
  CLUS_3           8            67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NRK MUTATED        0      9      7
  NRK WILD-TYPE     70    111     93
D473V5, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           0            70
  CLUS_2           9           111
  CLUS_3           7            93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NRK MUTATED        3      1      1      3      2      4      1      0      1
  NRK WILD-TYPE     38     25     29     26     37     65     19     14     21
D473V6, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           3            38
  CLUS_2           1            25
  CLUS_3           1            29
  CLUS_4           3            26
  CLUS_5           2            37
  CLUS_6           4            65
  CLUS_7           1            19
  CLUS_8           0            14
  CLUS_9           1            21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRK MUTATED        4      8      5      6
  NRK WILD-TYPE     96     64     67    115
D473V7, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           4            96
  CLUS_2           8            64
  CLUS_3           5            67
  CLUS_4           6           115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRK MUTATED        4      3      9      4      3
  NRK WILD-TYPE     55     72     65    115     35
D473V8, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           4            55
  CLUS_2           3            72
  CLUS_3           9            65
  CLUS_4           4           115
  CLUS_5           3            35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRK MUTATED        4      9      2      3      5
  NRK WILD-TYPE     47     67     59     68     90
D473V9, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           4            47
  CLUS_2           9            67
  CLUS_3           2            59
  CLUS_4           3            68
  CLUS_5           5            90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NRK MUTATED        4      4      1      4      6      1      1      2      0
  NRK WILD-TYPE     65     44     38     12     47     19     20     36     50
D473V10, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           4            65
  CLUS_2           4            44
  CLUS_3           1            38
  CLUS_4           4            12
  CLUS_5           6            47
  CLUS_6           1            19
  CLUS_7           1            20
  CLUS_8           2            36
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NRK MUTATED        0      2      0      0      0      2
  NRK WILD-TYPE     13     14     14     11     11      7
D473V11, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           0            13
  CLUS_2           2            14
  CLUS_3           0            14
  CLUS_4           0            11
  CLUS_5           0            11
  CLUS_6           2             7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NRK MUTATED        2      1      0      0      0      0      0      1      0
  NRK WILD-TYPE      9      6      7      9      8      7     11      8      5
D473V12, multiclass
        clus
vv       NRK MUTATED NRK WILD-TYPE
  CLUS_1           2             9
  CLUS_2           1             6
  CLUS_3           0             7
  CLUS_4           0             9
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           0            11
  CLUS_8           1             8
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(474) Variable = PTPRK MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRK MUTATED        7      1      0      1      1
  PTPRK WILD-TYPE     25     17     46     26     22
D474V1, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             7              25
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRK MUTATED        9      0      1
  PTPRK WILD-TYPE     34     67     35
D474V2, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             9              34
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRK MUTATED        2      5     25
  PTPRK WILD-TYPE     40    168    122
D474V3, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3            25             122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRK MUTATED        8      4     10
  PTPRK WILD-TYPE     54     69     65
D474V4, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             8              54
  CLUS_2             4              69
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRK MUTATED        2     10     13
  PTPRK WILD-TYPE     68    110     87
D474V5, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             2              68
  CLUS_2            10             110
  CLUS_3            13              87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRK MUTATED        2      2      1      2      3      7      5      1
  PTPRK WILD-TYPE     39     24     29     27     36     62     15     13
                 vv
clus              CLUS_9
  PTPRK MUTATED        2
  PTPRK WILD-TYPE     20
D474V6, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6             7              62
  CLUS_7             5              15
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRK MUTATED        5     11      5     12
  PTPRK WILD-TYPE     95     61     67    109
D474V7, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             5              95
  CLUS_2            11              61
  CLUS_3             5              67
  CLUS_4            12             109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRK MUTATED        4      2     14      4      9
  PTPRK WILD-TYPE     55     73     60    115     29
D474V8, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             4              55
  CLUS_2             2              73
  CLUS_3            14              60
  CLUS_4             4             115
  CLUS_5             9              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRK MUTATED        1     12      5      3     11
  PTPRK WILD-TYPE     50     64     56     68     84
D474V9, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             1              50
  CLUS_2            12              64
  CLUS_3             5              56
  CLUS_4             3              68
  CLUS_5            11              84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRK MUTATED        5      7      0      5      3      2      1      8
  PTPRK WILD-TYPE     64     41     39     11     50     18     20     30
                 vv
clus              CLUS_9
  PTPRK MUTATED        1
  PTPRK WILD-TYPE     49
D474V10, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             5              64
  CLUS_2             7              41
  CLUS_3             0              39
  CLUS_4             5              11
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             8              30
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPRK MUTATED        1      0      3      0      0      0
  PTPRK WILD-TYPE     12     16     11     11     11      9
D474V11, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             3              11
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRK MUTATED        0      0      0      0      1      1      0      1
  PTPRK WILD-TYPE     11      7      7      9      7      6     11      8
                 vv
clus              CLUS_9
  PTPRK MUTATED        1
  PTPRK WILD-TYPE      4
D474V12, multiclass
        clus
vv       PTPRK MUTATED PTPRK WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(475) Variable = HDAC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC1 MUTATED        1      0      0      0      0
  HDAC1 WILD-TYPE     31     18     46     27     23
D475V1, multiclass
[1] "Remove cluster labels:" "HDAC1 MUTATED"         
clus
  HDAC1 MUTATED HDAC1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A01K      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AY-4071 
"HDAC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC1 MUTATED        1      0      0
  HDAC1 WILD-TYPE     42     67     36
D475V2, multiclass
[1] "Remove cluster labels:" "HDAC1 MUTATED"         
clus
  HDAC1 MUTATED HDAC1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A01K      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" "HDAC1 WILD-TYPE" 
     TCGA-AY-4071 
"HDAC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC1 MUTATED        0      1      3
  HDAC1 WILD-TYPE     42    172    144
D475V3, multiclass
        clus
vv       HDAC1 MUTATED HDAC1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC1 MUTATED        0      0      3
  HDAC1 WILD-TYPE     62     73     72
D475V4, multiclass
        clus
vv       HDAC1 MUTATED HDAC1 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC1 MUTATED        1      1      3
  HDAC1 WILD-TYPE     69    119     97
D475V5, multiclass
        clus
vv       HDAC1 MUTATED HDAC1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC1 MUTATED        0      0      1      0      0      2      2      0
  HDAC1 WILD-TYPE     41     26     29     29     39     67     18     14
                 vv
clus              CLUS_9
  HDAC1 MUTATED        0
  HDAC1 WILD-TYPE     22
D475V6, multiclass
        clus
vv       HDAC1 MUTATED HDAC1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HDAC1 MUTATED        1      3      0      1
  HDAC1 WILD-TYPE     99     69     72    120
D475V7, multiclass
        clus
vv       HDAC1 MUTATED HDAC1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC1 MUTATED        0      3      1      0      1
  HDAC1 WILD-TYPE     59     72     73    119     37
D475V8, multiclass
        clus
vv       HDAC1 MUTATED HDAC1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC1 MUTATED        0      3      0      0      1
  HDAC1 WILD-TYPE     51     73     61     71     94
D475V9, multiclass
        clus
vv       HDAC1 MUTATED HDAC1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC1 MUTATED        1      0      0      1      2      0      0      0
  HDAC1 WILD-TYPE     68     48     39     15     51     20     21     38
                 vv
clus              CLUS_9
  HDAC1 MUTATED        0
  HDAC1 WILD-TYPE     50
D475V10, multiclass
        clus
vv       HDAC1 MUTATED HDAC1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HDAC1 MUTATED        0      0      0      0      0      0
  HDAC1 WILD-TYPE     13     16     14     11     11      9
D475V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC1 MUTATED        0      0      0      0      0      0      0      0
  HDAC1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  HDAC1 MUTATED        0
  HDAC1 WILD-TYPE      5
D475V12, multiclass

Clustering(476) Variable = E2F7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  E2F7 MUTATED        6      0      0      2      0
  E2F7 WILD-TYPE     26     18     46     25     23
D476V1, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  E2F7 MUTATED        6      1      1
  E2F7 WILD-TYPE     37     66     35
D476V2, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  E2F7 MUTATED        0      5     16
  E2F7 WILD-TYPE     42    168    131
D476V3, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            5            168
  CLUS_3           16            131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  E2F7 MUTATED        2      4      7
  E2F7 WILD-TYPE     60     69     68
D476V4, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            4             69
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  E2F7 MUTATED        3      5      6
  E2F7 WILD-TYPE     67    115     94
D476V5, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            5            115
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  E2F7 MUTATED        3      0      1      1      2      6      0      0      1
  E2F7 WILD-TYPE     38     26     29     28     37     63     20     14     21
D476V6, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  E2F7 MUTATED        4      4      5      8
  E2F7 WILD-TYPE     96     68     67    113
D476V7, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            4             68
  CLUS_3            5             67
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  E2F7 MUTATED        4      1      8      3      5
  E2F7 WILD-TYPE     55     74     66    116     33
D476V8, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            1             74
  CLUS_3            8             66
  CLUS_4            3            116
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  E2F7 MUTATED        3      7      3      2      5
  E2F7 WILD-TYPE     48     69     58     69     90
D476V9, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            7             69
  CLUS_3            3             58
  CLUS_4            2             69
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  E2F7 MUTATED        2      5      0      3      4      2      1      3      0
  E2F7 WILD-TYPE     67     43     39     13     49     18     20     35     50
D476V10, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             43
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            4             49
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  E2F7 MUTATED        0      1      1      0      1      0
  E2F7 WILD-TYPE     13     15     13     11     10      9
D476V11, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  E2F7 MUTATED        0      0      0      0      1      0      2      0      0
  E2F7 WILD-TYPE     11      7      7      9      7      7      9      9      5
D476V12, multiclass
        clus
vv       E2F7 MUTATED E2F7 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(477) Variable = SLC11A2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC11A2 MUTATED        3      0      0      0      0
  SLC11A2 WILD-TYPE     29     18     46     27     23
D477V1, multiclass
        clus
vv       SLC11A2 MUTATED SLC11A2 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC11A2 MUTATED        2      0      1
  SLC11A2 WILD-TYPE     41     67     35
D477V2, multiclass
        clus
vv       SLC11A2 MUTATED SLC11A2 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC11A2 MUTATED        0      0      8
  SLC11A2 WILD-TYPE     42    173    139
D477V3, multiclass
        clus
vv       SLC11A2 MUTATED SLC11A2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC11A2 MUTATED        2      0      3
  SLC11A2 WILD-TYPE     60     73     72
D477V4, multiclass
        clus
vv       SLC11A2 MUTATED SLC11A2 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC11A2 MUTATED        0      0      4
  SLC11A2 WILD-TYPE     70    120     96
D477V5, multiclass
        clus
vv       SLC11A2 MUTATED SLC11A2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               0               120
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC11A2 MUTATED        0      0      0      0      0      4      0      0
  SLC11A2 WILD-TYPE     41     26     30     29     39     65     20     14
                   vv
clus                CLUS_9
  SLC11A2 MUTATED        0
  SLC11A2 WILD-TYPE     22
D477V6, multiclass
        clus
vv       SLC11A2 MUTATED SLC11A2 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC11A2 MUTATED        0      2      3      3
  SLC11A2 WILD-TYPE    100     70     69    118
D477V7, multiclass
        clus
vv       SLC11A2 MUTATED SLC11A2 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC11A2 MUTATED        0      0      5      1      2
  SLC11A2 WILD-TYPE     59     75     69    118     36
D477V8, multiclass
        clus
vv       SLC11A2 MUTATED SLC11A2 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               5                69
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC11A2 MUTATED        0      2      3      1      2
  SLC11A2 WILD-TYPE     51     74     58     70     93
D477V9, multiclass
        clus
vv       SLC11A2 MUTATED SLC11A2 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               3                58
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC11A2 MUTATED        1      2      0      1      2      0      1      1
  SLC11A2 WILD-TYPE     68     46     39     15     51     20     20     37
                   vv
clus                CLUS_9
  SLC11A2 MUTATED        0
  SLC11A2 WILD-TYPE     50
D477V10, multiclass
        clus
vv       SLC11A2 MUTATED SLC11A2 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC11A2 MUTATED        0      0      1      0      0      0
  SLC11A2 WILD-TYPE     13     16     13     11     11      9
D477V11, multiclass
[1] "Remove cluster labels:" "SLC11A2 MUTATED"       
clus
  SLC11A2 MUTATED SLC11A2 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-G4-6628 
"SLC11A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC11A2 MUTATED        0      0      0      0      1      0      0      0
  SLC11A2 WILD-TYPE     11      7      7      9      7      7     11      9
                   vv
clus                CLUS_9
  SLC11A2 MUTATED        0
  SLC11A2 WILD-TYPE      5
D477V12, multiclass
[1] "Remove cluster labels:" "SLC11A2 MUTATED"       
clus
  SLC11A2 MUTATED SLC11A2 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" "SLC11A2 WILD-TYPE" 
       TCGA-G4-6628 
"SLC11A2 WILD-TYPE" 

Clustering(478) Variable = HIF3A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIF3A MUTATED        3      0      0      2      0
  HIF3A WILD-TYPE     29     18     46     25     23
D478V1, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIF3A MUTATED        4      1      0
  HIF3A WILD-TYPE     39     66     36
D478V2, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIF3A MUTATED        0      2     13
  HIF3A WILD-TYPE     42    171    134
D478V3, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIF3A MUTATED        4      0      5
  HIF3A WILD-TYPE     58     73     70
D478V4, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIF3A MUTATED        1      5      6
  HIF3A WILD-TYPE     69    115     94
D478V5, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIF3A MUTATED        0      1      2      3      0      5      1      0
  HIF3A WILD-TYPE     41     25     28     26     39     64     19     14
                 vv
clus              CLUS_9
  HIF3A MUTATED        0
  HIF3A WILD-TYPE     22
D478V6, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIF3A MUTATED        0      5      4      6
  HIF3A WILD-TYPE    100     67     68    115
D478V7, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIF3A MUTATED        1      0      8      1      5
  HIF3A WILD-TYPE     58     75     66    118     33
D478V8, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             8              66
  CLUS_4             1             118
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIF3A MUTATED        1      7      1      0      5
  HIF3A WILD-TYPE     50     69     60     71     90
D478V9, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIF3A MUTATED        1      3      0      3      1      2      2      2
  HIF3A WILD-TYPE     68     45     39     13     52     18     19     36
                 vv
clus              CLUS_9
  HIF3A MUTATED        0
  HIF3A WILD-TYPE     50
D478V10, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIF3A MUTATED        0      0      2      0      3      0
  HIF3A WILD-TYPE     13     16     12     11      8      9
D478V11, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIF3A MUTATED        0      0      0      2      1      0      2      0
  HIF3A WILD-TYPE     11      7      7      7      7      7      9      9
                 vv
clus              CLUS_9
  HIF3A MUTATED        0
  HIF3A WILD-TYPE      5
D478V12, multiclass
        clus
vv       HIF3A MUTATED HIF3A WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(479) Variable = NOX5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOX5 MUTATED        1      0      0      0      0
  NOX5 WILD-TYPE     31     18     46     27     23
D479V1, multiclass
[1] "Remove cluster labels:" "NOX5 MUTATED"          
clus
  NOX5 MUTATED NOX5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AY-4071 
"NOX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOX5 MUTATED        1      0      0
  NOX5 WILD-TYPE     42     67     36
D479V2, multiclass
[1] "Remove cluster labels:" "NOX5 MUTATED"          
clus
  NOX5 MUTATED NOX5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AY-4071 
"NOX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOX5 MUTATED        0      0      5
  NOX5 WILD-TYPE     42    173    142
D479V3, multiclass
        clus
vv       NOX5 MUTATED NOX5 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOX5 MUTATED        3      0      1
  NOX5 WILD-TYPE     59     73     74
D479V4, multiclass
        clus
vv       NOX5 MUTATED NOX5 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOX5 MUTATED        1      0      3
  NOX5 WILD-TYPE     69    120     97
D479V5, multiclass
        clus
vv       NOX5 MUTATED NOX5 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            0            120
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOX5 MUTATED        1      0      0      0      1      2      0      0      0
  NOX5 WILD-TYPE     40     26     30     29     38     67     20     14     22
D479V6, multiclass
        clus
vv       NOX5 MUTATED NOX5 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOX5 MUTATED        0      1      3      1
  NOX5 WILD-TYPE    100     71     69    120
D479V7, multiclass
        clus
vv       NOX5 MUTATED NOX5 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            3             69
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOX5 MUTATED        1      0      3      0      1
  NOX5 WILD-TYPE     58     75     71    119     37
D479V8, multiclass
        clus
vv       NOX5 MUTATED NOX5 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOX5 MUTATED        0      2      2      0      1
  NOX5 WILD-TYPE     51     74     59     71     94
D479V9, multiclass
        clus
vv       NOX5 MUTATED NOX5 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOX5 MUTATED        2      2      0      0      0      0      0      1      0
  NOX5 WILD-TYPE     67     46     39     16     53     20     21     37     50
D479V10, multiclass
        clus
vv       NOX5 MUTATED NOX5 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NOX5 MUTATED        0      0      0      0      1      0
  NOX5 WILD-TYPE     13     16     14     11     10      9
D479V11, multiclass
[1] "Remove cluster labels:" "NOX5 MUTATED"          
clus
  NOX5 MUTATED NOX5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-G4-6628 
"NOX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOX5 MUTATED        0      0      0      0      0      1      0      0      0
  NOX5 WILD-TYPE     11      7      7      9      8      6     11      9      5
D479V12, multiclass
[1] "Remove cluster labels:" "NOX5 MUTATED"          
clus
  NOX5 MUTATED NOX5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" "NOX5 WILD-TYPE" 
    TCGA-G4-6628 
"NOX5 WILD-TYPE" 

Clustering(480) Variable = WWTR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WWTR1 MUTATED        1      1      0      0      0
  WWTR1 WILD-TYPE     31     17     46     27     23
D480V1, multiclass
[1] "Remove cluster labels:" "WWTR1 MUTATED"         
clus
  WWTR1 MUTATED WWTR1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3542 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3556 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667      TCGA-AA-3672 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WWTR1 MUTATED        1      0      1
  WWTR1 WILD-TYPE     42     67     35
D480V2, multiclass
[1] "Remove cluster labels:" "WWTR1 MUTATED"         
clus
  WWTR1 MUTATED WWTR1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3542 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3556 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667      TCGA-AA-3672 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WWTR1 MUTATED        0      2      4
  WWTR1 WILD-TYPE     42    171    143
D480V3, multiclass
        clus
vv       WWTR1 MUTATED WWTR1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WWTR1 MUTATED        0      0      4
  WWTR1 WILD-TYPE     62     73     71
D480V4, multiclass
        clus
vv       WWTR1 MUTATED WWTR1 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WWTR1 MUTATED        0      3      2
  WWTR1 WILD-TYPE     70    117     98
D480V5, multiclass
        clus
vv       WWTR1 MUTATED WWTR1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WWTR1 MUTATED        1      0      0      0      0      2      1      0
  WWTR1 WILD-TYPE     40     26     30     29     39     67     19     14
                 vv
clus              CLUS_9
  WWTR1 MUTATED        1
  WWTR1 WILD-TYPE     21
D480V6, multiclass
        clus
vv       WWTR1 MUTATED WWTR1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WWTR1 MUTATED        1      2      2      1
  WWTR1 WILD-TYPE     99     70     70    120
D480V7, multiclass
        clus
vv       WWTR1 MUTATED WWTR1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WWTR1 MUTATED        1      1      2      1      1
  WWTR1 WILD-TYPE     58     74     72    118     37
D480V8, multiclass
        clus
vv       WWTR1 MUTATED WWTR1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WWTR1 MUTATED        0      3      1      0      2
  WWTR1 WILD-TYPE     51     73     60     71     93
D480V9, multiclass
        clus
vv       WWTR1 MUTATED WWTR1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WWTR1 MUTATED        1      1      0      0      3      0      0      1
  WWTR1 WILD-TYPE     68     47     39     16     50     20     21     37
                 vv
clus              CLUS_9
  WWTR1 MUTATED        0
  WWTR1 WILD-TYPE     50
D480V10, multiclass
        clus
vv       WWTR1 MUTATED WWTR1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WWTR1 MUTATED        0      0      1      0      1      0
  WWTR1 WILD-TYPE     13     16     13     11     10      9
D480V11, multiclass
[1] "Remove cluster labels:" "WWTR1 MUTATED"         
clus
  WWTR1 MUTATED WWTR1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6141      TCGA-A6-6142 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-6748 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WWTR1 MUTATED        0      0      0      0      1      0      1      0
  WWTR1 WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  WWTR1 MUTATED        0
  WWTR1 WILD-TYPE      5
D480V12, multiclass
[1] "Remove cluster labels:" "WWTR1 MUTATED"         
clus
  WWTR1 MUTATED WWTR1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6141      TCGA-A6-6142 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-6748 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" "WWTR1 WILD-TYPE" 

Clustering(481) Variable = HGS MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HGS MUTATED        0      0      0      0      0
  HGS WILD-TYPE     32     18     46     27     23
D481V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  HGS MUTATED        0      0      0
  HGS WILD-TYPE     43     67     36
D481V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  HGS MUTATED        1      2      7
  HGS WILD-TYPE     41    171    140
D481V3, multiclass
        clus
vv       HGS MUTATED HGS WILD-TYPE
  CLUS_1           1            41
  CLUS_2           2           171
  CLUS_3           7           140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  HGS MUTATED        1      2      7
  HGS WILD-TYPE     61     71     68
D481V4, multiclass
        clus
vv       HGS MUTATED HGS WILD-TYPE
  CLUS_1           1            61
  CLUS_2           2            71
  CLUS_3           7            68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  HGS MUTATED        1      5      3
  HGS WILD-TYPE     69    115     97
D481V5, multiclass
        clus
vv       HGS MUTATED HGS WILD-TYPE
  CLUS_1           1            69
  CLUS_2           5           115
  CLUS_3           3            97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HGS MUTATED        0      0      0      2      0      3      2      0      2
  HGS WILD-TYPE     41     26     30     27     39     66     18     14     20
D481V6, multiclass
        clus
vv       HGS MUTATED HGS WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           2            27
  CLUS_5           0            39
  CLUS_6           3            66
  CLUS_7           2            18
  CLUS_8           0            14
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HGS MUTATED        1      6      3      0
  HGS WILD-TYPE     99     66     69    121
D481V7, multiclass
        clus
vv       HGS MUTATED HGS WILD-TYPE
  CLUS_1           1            99
  CLUS_2           6            66
  CLUS_3           3            69
  CLUS_4           0           121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HGS MUTATED        1      1      8      0      0
  HGS WILD-TYPE     58     74     66    119     38
D481V8, multiclass
        clus
vv       HGS MUTATED HGS WILD-TYPE
  CLUS_1           1            58
  CLUS_2           1            74
  CLUS_3           8            66
  CLUS_4           0           119
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HGS MUTATED        2      8      0      0      0
  HGS WILD-TYPE     49     68     61     71     95
D481V9, multiclass
        clus
vv       HGS MUTATED HGS WILD-TYPE
  CLUS_1           2            49
  CLUS_2           8            68
  CLUS_3           0            61
  CLUS_4           0            71
  CLUS_5           0            95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HGS MUTATED        1      2      1      4      2      0      0      0      0
  HGS WILD-TYPE     68     46     38     12     51     20     21     38     50
D481V10, multiclass
        clus
vv       HGS MUTATED HGS WILD-TYPE
  CLUS_1           1            68
  CLUS_2           2            46
  CLUS_3           1            38
  CLUS_4           4            12
  CLUS_5           2            51
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HGS MUTATED        0      0      0      0      3      0
  HGS WILD-TYPE     13     16     14     11      8      9
D481V11, multiclass
        clus
vv       HGS MUTATED HGS WILD-TYPE
  CLUS_1           0            13
  CLUS_2           0            16
  CLUS_3           0            14
  CLUS_4           0            11
  CLUS_5           3             8
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HGS MUTATED        0      0      0      1      1      0      1      0      0
  HGS WILD-TYPE     11      7      7      8      7      7     10      9      5
D481V12, multiclass
        clus
vv       HGS MUTATED HGS WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           1             7
  CLUS_6           0             7
  CLUS_7           1            10
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(482) Variable = NLK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLK MUTATED        0      1      0      0      0
  NLK WILD-TYPE     32     17     46     27     23
D482V1, multiclass
[1] "Remove cluster labels:" "NLK MUTATED"           
clus
  NLK MUTATED NLK WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810    TCGA-AA-3514 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519    TCGA-AA-3520 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525    TCGA-AA-3526 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531    TCGA-AA-3532 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543    TCGA-AA-3544 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553    TCGA-AA-3554 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560    TCGA-AA-3561 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667    TCGA-AA-3672 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680    TCGA-AA-3681 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692    TCGA-AA-3693 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811    TCGA-AA-3812 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819    TCGA-AA-3821 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842    TCGA-AA-3844 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NLK MUTATED        0      1      0
  NLK WILD-TYPE     43     66     36
D482V2, multiclass
[1] "Remove cluster labels:" "NLK MUTATED"           
clus
  NLK MUTATED NLK WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810    TCGA-AA-3514 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519    TCGA-AA-3520 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525    TCGA-AA-3526 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531    TCGA-AA-3532 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543    TCGA-AA-3544 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553    TCGA-AA-3554 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560    TCGA-AA-3561 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667    TCGA-AA-3672 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680    TCGA-AA-3681 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692    TCGA-AA-3693 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811    TCGA-AA-3812 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819    TCGA-AA-3821 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842    TCGA-AA-3844 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NLK MUTATED        0      5      6
  NLK WILD-TYPE     42    168    141
D482V3, multiclass
        clus
vv       NLK MUTATED NLK WILD-TYPE
  CLUS_1           0            42
  CLUS_2           5           168
  CLUS_3           6           141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NLK MUTATED        4      1      5
  NLK WILD-TYPE     58     72     70
D482V4, multiclass
        clus
vv       NLK MUTATED NLK WILD-TYPE
  CLUS_1           4            58
  CLUS_2           1            72
  CLUS_3           5            70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NLK MUTATED        0      2      7
  NLK WILD-TYPE     70    118     93
D482V5, multiclass
        clus
vv       NLK MUTATED NLK WILD-TYPE
  CLUS_1           0            70
  CLUS_2           2           118
  CLUS_3           7            93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NLK MUTATED        0      1      0      0      0      5      2      1      0
  NLK WILD-TYPE     41     25     30     29     39     64     18     13     22
D482V6, multiclass
        clus
vv       NLK MUTATED NLK WILD-TYPE
  CLUS_1           0            41
  CLUS_2           1            25
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           0            39
  CLUS_6           5            64
  CLUS_7           2            18
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NLK MUTATED        2      5      3      1
  NLK WILD-TYPE     98     67     69    120
D482V7, multiclass
        clus
vv       NLK MUTATED NLK WILD-TYPE
  CLUS_1           2            98
  CLUS_2           5            67
  CLUS_3           3            69
  CLUS_4           1           120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLK MUTATED        2      3      5      1      0
  NLK WILD-TYPE     57     72     69    118     38
D482V8, multiclass
        clus
vv       NLK MUTATED NLK WILD-TYPE
  CLUS_1           2            57
  CLUS_2           3            72
  CLUS_3           5            69
  CLUS_4           1           118
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLK MUTATED        2      6      2      0      1
  NLK WILD-TYPE     49     70     59     71     94
D482V9, multiclass
        clus
vv       NLK MUTATED NLK WILD-TYPE
  CLUS_1           2            49
  CLUS_2           6            70
  CLUS_3           2            59
  CLUS_4           0            71
  CLUS_5           1            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NLK MUTATED        1      4      0      3      2      0      0      0      1
  NLK WILD-TYPE     68     44     39     13     51     20     21     38     49
D482V10, multiclass
        clus
vv       NLK MUTATED NLK WILD-TYPE
  CLUS_1           1            68
  CLUS_2           4            44
  CLUS_3           0            39
  CLUS_4           3            13
  CLUS_5           2            51
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NLK MUTATED        0      1      0      0      1      0
  NLK WILD-TYPE     13     15     14     11     10      9
D482V11, multiclass
[1] "Remove cluster labels:" "NLK MUTATED"           
clus
  NLK MUTATED NLK WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-CA-6718    TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-CM-6167    TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-CM-6679    TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-D5-6536    TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-DM-A1D0    TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-DM-A1HA    TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-F4-6460    TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6807 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"NLK WILD-TYPE" "NLK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NLK MUTATED        0      1      0      1      0      0      0      0      0
  NLK WILD-TYPE     11      6      7      8      8      7     11      9      5
D482V12, multiclass
[1] "Remove cluster labels:" "NLK MUTATED"           
clus
  NLK MUTATED NLK WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-CA-6718    TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-CM-6167    TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-CM-6679    TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-D5-6536    TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-DM-A1D0    TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-DM-A1HA    TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-F4-6460    TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6807 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" "NLK WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"NLK WILD-TYPE" "NLK WILD-TYPE" 

Clustering(483) Variable = ATP8B1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP8B1 MUTATED        4      1      0      1      0
  ATP8B1 WILD-TYPE     28     17     46     26     23
D483V1, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B1 MUTATED        3      2      1
  ATP8B1 WILD-TYPE     40     65     35
D483V2, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B1 MUTATED        3      4     16
  ATP8B1 WILD-TYPE     39    169    131
D483V3, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              4              169
  CLUS_3             16              131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B1 MUTATED        9      2      6
  ATP8B1 WILD-TYPE     53     71     69
D483V4, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              9               53
  CLUS_2              2               71
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B1 MUTATED        2      4     14
  ATP8B1 WILD-TYPE     68    116     86
D483V5, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3             14               86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP8B1 MUTATED        4      0      1      2      0      9      2      0
  ATP8B1 WILD-TYPE     37     26     29     27     39     60     18     14
                  vv
clus               CLUS_9
  ATP8B1 MUTATED        2
  ATP8B1 WILD-TYPE     20
D483V6, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              4               37
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              9               60
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP8B1 MUTATED        2      4     10      7
  ATP8B1 WILD-TYPE     98     68     62    114
D483V7, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3             10               62
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP8B1 MUTATED        5      4      7      5      2
  ATP8B1 WILD-TYPE     54     71     67    114     36
D483V8, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              5               54
  CLUS_2              4               71
  CLUS_3              7               67
  CLUS_4              5              114
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP8B1 MUTATED        1     11      3      3      4
  ATP8B1 WILD-TYPE     50     65     58     68     91
D483V9, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2             11               65
  CLUS_3              3               58
  CLUS_4              3               68
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP8B1 MUTATED        4      8      0      1      5      1      2      1
  ATP8B1 WILD-TYPE     65     40     39     15     48     19     19     37
                  vv
clus               CLUS_9
  ATP8B1 MUTATED        0
  ATP8B1 WILD-TYPE     50
D483V10, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              8               40
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              5               48
  CLUS_6              1               19
  CLUS_7              2               19
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP8B1 MUTATED        0      2      2      0      3      0
  ATP8B1 WILD-TYPE     13     14     12     11      8      9
D483V11, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP8B1 MUTATED        0      0      0      1      1      2      3      0
  ATP8B1 WILD-TYPE     11      7      7      8      7      5      8      9
                  vv
clus               CLUS_9
  ATP8B1 MUTATED        0
  ATP8B1 WILD-TYPE      5
D483V12, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              2                5
  CLUS_7              3                8
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(484) Variable = WDR66 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR66 MUTATED        3      0      1      3      0
  WDR66 WILD-TYPE     29     18     45     24     23
D484V1, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR66 MUTATED        3      2      2
  WDR66 WILD-TYPE     40     65     34
D484V2, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR66 MUTATED        0      3     15
  WDR66 WILD-TYPE     42    170    132
D484V3, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR66 MUTATED        7      3      2
  WDR66 WILD-TYPE     55     70     73
D484V4, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR66 MUTATED        2      4      8
  WDR66 WILD-TYPE     68    116     92
D484V5, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR66 MUTATED        2      2      1      0      1      6      2      0
  WDR66 WILD-TYPE     39     24     29     29     38     63     18     14
                 vv
clus              CLUS_9
  WDR66 MUTATED        0
  WDR66 WILD-TYPE     22
D484V6, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WDR66 MUTATED        3      3      6      7
  WDR66 WILD-TYPE     97     69     66    114
D484V7, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             6              66
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR66 MUTATED        2      2      7      5      3
  WDR66 WILD-TYPE     57     73     67    114     35
D484V8, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             7              67
  CLUS_4             5             114
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR66 MUTATED        1      5      4      3      5
  WDR66 WILD-TYPE     50     71     57     68     90
D484V9, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             4              57
  CLUS_4             3              68
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR66 MUTATED        2      5      1      1      2      3      0      2
  WDR66 WILD-TYPE     67     43     38     15     51     17     21     36
                 vv
clus              CLUS_9
  WDR66 MUTATED        2
  WDR66 WILD-TYPE     48
D484V10, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WDR66 MUTATED        2      1      1      1      1      0
  WDR66 WILD-TYPE     11     15     13     10     10      9
D484V11, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR66 MUTATED        1      0      1      0      1      0      1      1
  WDR66 WILD-TYPE     10      7      6      9      7      7     10      8
                 vv
clus              CLUS_9
  WDR66 MUTATED        1
  WDR66 WILD-TYPE      4
D484V12, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(485) Variable = GPR141 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR141 MUTATED        3      0      0      0      0
  GPR141 WILD-TYPE     29     18     46     27     23
D485V1, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR141 MUTATED        3      0      0
  GPR141 WILD-TYPE     40     67     36
D485V2, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR141 MUTATED        0      3      8
  GPR141 WILD-TYPE     42    170    139
D485V3, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR141 MUTATED        3      2      3
  GPR141 WILD-TYPE     59     71     72
D485V4, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR141 MUTATED        1      2      7
  GPR141 WILD-TYPE     69    118     93
D485V5, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR141 MUTATED        0      0      0      1      3      6      0      0
  GPR141 WILD-TYPE     41     26     30     28     36     63     20     14
                  vv
clus               CLUS_9
  GPR141 MUTATED        0
  GPR141 WILD-TYPE     22
D485V6, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              6               63
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR141 MUTATED        2      3      3      3
  GPR141 WILD-TYPE     98     69     69    118
D485V7, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR141 MUTATED        0      2      6      0      3
  GPR141 WILD-TYPE     59     73     68    119     35
D485V8, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              6               68
  CLUS_4              0              119
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR141 MUTATED        0      4      2      2      3
  GPR141 WILD-TYPE     51     72     59     69     92
D485V9, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR141 MUTATED        3      4      0      1      0      0      1      2
  GPR141 WILD-TYPE     66     44     39     15     53     20     20     36
                  vv
clus               CLUS_9
  GPR141 MUTATED        0
  GPR141 WILD-TYPE     50
D485V10, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR141 MUTATED        1      0      0      0      2      0
  GPR141 WILD-TYPE     12     16     14     11      9      9
D485V11, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR141 MUTATED        0      0      0      1      0      0      2      0
  GPR141 WILD-TYPE     11      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  GPR141 MUTATED        0
  GPR141 WILD-TYPE      5
D485V12, multiclass
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(486) Variable = ATP6V1D MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP6V1D MUTATED        0      0      0      0      0
  ATP6V1D WILD-TYPE     32     18     46     27     23
D486V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ATP6V1D MUTATED        0      0      0
  ATP6V1D WILD-TYPE     43     67     36
D486V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ATP6V1D MUTATED        1      3      2
  ATP6V1D WILD-TYPE     41    170    145
D486V3, multiclass
        clus
vv       ATP6V1D MUTATED ATP6V1D WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ATP6V1D MUTATED        3      2      1
  ATP6V1D WILD-TYPE     59     71     74
D486V4, multiclass
        clus
vv       ATP6V1D MUTATED ATP6V1D WILD-TYPE
  CLUS_1               3                59
  CLUS_2               2                71
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ATP6V1D MUTATED        1      1      4
  ATP6V1D WILD-TYPE     69    119     96
D486V5, multiclass
        clus
vv       ATP6V1D MUTATED ATP6V1D WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP6V1D MUTATED        1      0      0      1      1      2      0      0
  ATP6V1D WILD-TYPE     40     26     30     28     38     67     20     14
                   vv
clus                CLUS_9
  ATP6V1D MUTATED        1
  ATP6V1D WILD-TYPE     21
D486V6, multiclass
        clus
vv       ATP6V1D MUTATED ATP6V1D WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP6V1D MUTATED        3      3      0      0
  ATP6V1D WILD-TYPE     97     69     72    121
D486V7, multiclass
        clus
vv       ATP6V1D MUTATED ATP6V1D WILD-TYPE
  CLUS_1               3                97
  CLUS_2               3                69
  CLUS_3               0                72
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP6V1D MUTATED        1      2      3      0      0
  ATP6V1D WILD-TYPE     58     73     71    119     38
D486V8, multiclass
        clus
vv       ATP6V1D MUTATED ATP6V1D WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP6V1D MUTATED        1      5      0      0      0
  ATP6V1D WILD-TYPE     50     71     61     71     95
D486V9, multiclass
        clus
vv       ATP6V1D MUTATED ATP6V1D WILD-TYPE
  CLUS_1               1                50
  CLUS_2               5                71
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP6V1D MUTATED        3      0      2      0      1      0      0      0
  ATP6V1D WILD-TYPE     66     48     37     16     52     20     21     38
                   vv
clus                CLUS_9
  ATP6V1D MUTATED        0
  ATP6V1D WILD-TYPE     50
D486V10, multiclass
        clus
vv       ATP6V1D MUTATED ATP6V1D WILD-TYPE
  CLUS_1               3                66
  CLUS_2               0                48
  CLUS_3               2                37
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP6V1D MUTATED        0      1      0      0      0      0
  ATP6V1D WILD-TYPE     13     15     14     11     11      9
D486V11, multiclass
[1] "Remove cluster labels:" "ATP6V1D MUTATED"       
clus
  ATP6V1D MUTATED ATP6V1D WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-G4-6628 
"ATP6V1D WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP6V1D MUTATED        1      0      0      0      0      0      0      0
  ATP6V1D WILD-TYPE     10      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  ATP6V1D MUTATED        0
  ATP6V1D WILD-TYPE      5
D486V12, multiclass
[1] "Remove cluster labels:" "ATP6V1D MUTATED"       
clus
  ATP6V1D MUTATED ATP6V1D WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" "ATP6V1D WILD-TYPE" 
       TCGA-G4-6628 
"ATP6V1D WILD-TYPE" 

Clustering(487) Variable = LPCAT3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPCAT3 MUTATED        1      0      1      0      0
  LPCAT3 WILD-TYPE     31     18     45     27     23
D487V1, multiclass
[1] "Remove cluster labels:" "LPCAT3 MUTATED"        
clus
  LPCAT3 MUTATED LPCAT3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LPCAT3 MUTATED        1      0      1
  LPCAT3 WILD-TYPE     42     67     35
D487V2, multiclass
[1] "Remove cluster labels:" "LPCAT3 MUTATED"        
clus
  LPCAT3 MUTATED LPCAT3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" "LPCAT3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LPCAT3 MUTATED        1      2      2
  LPCAT3 WILD-TYPE     41    171    145
D487V3, multiclass
        clus
vv       LPCAT3 MUTATED LPCAT3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LPCAT3 MUTATED        2      0      1
  LPCAT3 WILD-TYPE     60     73     74
D487V4, multiclass
        clus
vv       LPCAT3 MUTATED LPCAT3 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LPCAT3 MUTATED        0      1      3
  LPCAT3 WILD-TYPE     70    119     97
D487V5, multiclass
        clus
vv       LPCAT3 MUTATED LPCAT3 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPCAT3 MUTATED        0      0      0      1      0      2      1      0
  LPCAT3 WILD-TYPE     41     26     30     28     39     67     19     14
                  vv
clus               CLUS_9
  LPCAT3 MUTATED        0
  LPCAT3 WILD-TYPE     22
D487V6, multiclass
        clus
vv       LPCAT3 MUTATED LPCAT3 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LPCAT3 MUTATED        0      1      2      2
  LPCAT3 WILD-TYPE    100     71     70    119
D487V7, multiclass
        clus
vv       LPCAT3 MUTATED LPCAT3 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPCAT3 MUTATED        1      0      2      1      1
  LPCAT3 WILD-TYPE     58     75     72    118     37
D487V8, multiclass
        clus
vv       LPCAT3 MUTATED LPCAT3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPCAT3 MUTATED        0      3      0      0      1
  LPCAT3 WILD-TYPE     51     73     61     71     94
D487V9, multiclass
        clus
vv       LPCAT3 MUTATED LPCAT3 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPCAT3 MUTATED        1      1      0      1      1      0      0      0
  LPCAT3 WILD-TYPE     68     47     39     15     52     20     21     38
                  vv
clus               CLUS_9
  LPCAT3 MUTATED        0
  LPCAT3 WILD-TYPE     50
D487V10, multiclass
        clus
vv       LPCAT3 MUTATED LPCAT3 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LPCAT3 MUTATED        0      0      1      1      1      0
  LPCAT3 WILD-TYPE     13     16     13     10     10      9
D487V11, multiclass
        clus
vv       LPCAT3 MUTATED LPCAT3 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPCAT3 MUTATED        0      0      0      1      0      0      2      0
  LPCAT3 WILD-TYPE     11      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  LPCAT3 MUTATED        0
  LPCAT3 WILD-TYPE      5
D487V12, multiclass
        clus
vv       LPCAT3 MUTATED LPCAT3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(488) Variable = SP4 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SP4 MUTATED        2      0      0      1      0
  SP4 WILD-TYPE     30     18     46     26     23
D488V1, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SP4 MUTATED        2      1      0
  SP4 WILD-TYPE     41     66     36
D488V2, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           2            41
  CLUS_2           1            66
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SP4 MUTATED        2      2      8
  SP4 WILD-TYPE     40    171    139
D488V3, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           2            40
  CLUS_2           2           171
  CLUS_3           8           139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SP4 MUTATED        4      2      3
  SP4 WILD-TYPE     58     71     72
D488V4, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           4            58
  CLUS_2           2            71
  CLUS_3           3            72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SP4 MUTATED        1      4      4
  SP4 WILD-TYPE     69    116     96
D488V5, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           1            69
  CLUS_2           4           116
  CLUS_3           4            96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SP4 MUTATED        1      0      1      1      0      3      0      1      2
  SP4 WILD-TYPE     40     26     29     28     39     66     20     13     20
D488V6, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           1            29
  CLUS_4           1            28
  CLUS_5           0            39
  CLUS_6           3            66
  CLUS_7           0            20
  CLUS_8           1            13
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SP4 MUTATED        2      4      3      3
  SP4 WILD-TYPE     98     68     69    118
D488V7, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           2            98
  CLUS_2           4            68
  CLUS_3           3            69
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SP4 MUTATED        1      3      5      1      2
  SP4 WILD-TYPE     58     72     69    118     36
D488V8, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           1            58
  CLUS_2           3            72
  CLUS_3           5            69
  CLUS_4           1           118
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SP4 MUTATED        2      6      1      0      2
  SP4 WILD-TYPE     49     70     60     71     93
D488V9, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           2            49
  CLUS_2           6            70
  CLUS_3           1            60
  CLUS_4           0            71
  CLUS_5           2            93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SP4 MUTATED        4      1      1      1      1      2      0      1      0
  SP4 WILD-TYPE     65     47     38     15     52     18     21     37     50
D488V10, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           4            65
  CLUS_2           1            47
  CLUS_3           1            38
  CLUS_4           1            15
  CLUS_5           1            52
  CLUS_6           2            18
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SP4 MUTATED        0      1      1      0      1      0
  SP4 WILD-TYPE     13     15     13     11     10      9
D488V11, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           0            13
  CLUS_2           1            15
  CLUS_3           1            13
  CLUS_4           0            11
  CLUS_5           1            10
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SP4 MUTATED        1      0      0      1      1      0      0      0      0
  SP4 WILD-TYPE     10      7      7      8      7      7     11      9      5
D488V12, multiclass
        clus
vv       SP4 MUTATED SP4 WILD-TYPE
  CLUS_1           1            10
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           1             7
  CLUS_6           0             7
  CLUS_7           0            11
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(489) Variable = PLA2G4E MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLA2G4E MUTATED        0      0      0      0      0
  PLA2G4E WILD-TYPE     32     18     46     27     23
D489V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLA2G4E MUTATED        0      0      0
  PLA2G4E WILD-TYPE     43     67     36
D489V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLA2G4E MUTATED        1      3      6
  PLA2G4E WILD-TYPE     41    170    141
D489V3, multiclass
        clus
vv       PLA2G4E MUTATED PLA2G4E WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLA2G4E MUTATED        2      3      5
  PLA2G4E WILD-TYPE     60     70     70
D489V4, multiclass
        clus
vv       PLA2G4E MUTATED PLA2G4E WILD-TYPE
  CLUS_1               2                60
  CLUS_2               3                70
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLA2G4E MUTATED        1      3      5
  PLA2G4E WILD-TYPE     69    117     95
D489V5, multiclass
        clus
vv       PLA2G4E MUTATED PLA2G4E WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLA2G4E MUTATED        1      1      0      1      2      4      0      0
  PLA2G4E WILD-TYPE     40     25     30     28     37     65     20     14
                   vv
clus                CLUS_9
  PLA2G4E MUTATED        0
  PLA2G4E WILD-TYPE     22
D489V6, multiclass
        clus
vv       PLA2G4E MUTATED PLA2G4E WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLA2G4E MUTATED        3      4      3      0
  PLA2G4E WILD-TYPE     97     68     69    121
D489V7, multiclass
        clus
vv       PLA2G4E MUTATED PLA2G4E WILD-TYPE
  CLUS_1               3                97
  CLUS_2               4                68
  CLUS_3               3                69
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLA2G4E MUTATED        1      5      4      0      0
  PLA2G4E WILD-TYPE     58     70     70    119     38
D489V8, multiclass
        clus
vv       PLA2G4E MUTATED PLA2G4E WILD-TYPE
  CLUS_1               1                58
  CLUS_2               5                70
  CLUS_3               4                70
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLA2G4E MUTATED        1      8      1      0      0
  PLA2G4E WILD-TYPE     50     68     60     71     95
D489V9, multiclass
        clus
vv       PLA2G4E MUTATED PLA2G4E WILD-TYPE
  CLUS_1               1                50
  CLUS_2               8                68
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLA2G4E MUTATED        2      3      0      2      2      1      0      0
  PLA2G4E WILD-TYPE     67     45     39     14     51     19     21     38
                   vv
clus                CLUS_9
  PLA2G4E MUTATED        0
  PLA2G4E WILD-TYPE     50
D489V10, multiclass
        clus
vv       PLA2G4E MUTATED PLA2G4E WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLA2G4E MUTATED        0      0      0      0      2      0
  PLA2G4E WILD-TYPE     13     16     14     11      9      9
D489V11, multiclass
[1] "Remove cluster labels:" "PLA2G4E MUTATED"       
clus
  PLA2G4E MUTATED PLA2G4E WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-6748 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLA2G4E MUTATED        0      0      0      1      0      0      1      0
  PLA2G4E WILD-TYPE     11      7      7      8      8      7     10      9
                   vv
clus                CLUS_9
  PLA2G4E MUTATED        0
  PLA2G4E WILD-TYPE      5
D489V12, multiclass
[1] "Remove cluster labels:" "PLA2G4E MUTATED"       
clus
  PLA2G4E MUTATED PLA2G4E WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-6748 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" "PLA2G4E WILD-TYPE" 

Clustering(490) Variable = RAB40C MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB40C MUTATED        1      0      0      0      0
  RAB40C WILD-TYPE     31     18     46     27     23
D490V1, multiclass
[1] "Remove cluster labels:" "RAB40C MUTATED"        
clus
  RAB40C MUTATED RAB40C WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AY-4071 
"RAB40C WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RAB40C MUTATED        1      0      0
  RAB40C WILD-TYPE     42     67     36
D490V2, multiclass
[1] "Remove cluster labels:" "RAB40C MUTATED"        
clus
  RAB40C MUTATED RAB40C WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AY-4071 
"RAB40C WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RAB40C MUTATED        1      0      6
  RAB40C WILD-TYPE     41    173    141
D490V3, multiclass
        clus
vv       RAB40C MUTATED RAB40C WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RAB40C MUTATED        3      0      4
  RAB40C WILD-TYPE     59     73     71
D490V4, multiclass
        clus
vv       RAB40C MUTATED RAB40C WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RAB40C MUTATED        1      3      4
  RAB40C WILD-TYPE     69    117     96
D490V5, multiclass
        clus
vv       RAB40C MUTATED RAB40C WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB40C MUTATED        0      1      0      2      1      3      1      0
  RAB40C WILD-TYPE     41     25     30     27     38     66     19     14
                  vv
clus               CLUS_9
  RAB40C MUTATED        0
  RAB40C WILD-TYPE     22
D490V6, multiclass
        clus
vv       RAB40C MUTATED RAB40C WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAB40C MUTATED        0      5      2      1
  RAB40C WILD-TYPE    100     67     70    120
D490V7, multiclass
        clus
vv       RAB40C MUTATED RAB40C WILD-TYPE
  CLUS_1              0              100
  CLUS_2              5               67
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB40C MUTATED        0      0      6      1      1
  RAB40C WILD-TYPE     59     75     68    118     37
D490V8, multiclass
        clus
vv       RAB40C MUTATED RAB40C WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB40C MUTATED        0      5      0      0      3
  RAB40C WILD-TYPE     51     71     61     71     92
D490V9, multiclass
        clus
vv       RAB40C MUTATED RAB40C WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB40C MUTATED        2      1      0      2      0      0      0      3
  RAB40C WILD-TYPE     67     47     39     14     53     20     21     35
                  vv
clus               CLUS_9
  RAB40C MUTATED        0
  RAB40C WILD-TYPE     50
D490V10, multiclass
        clus
vv       RAB40C MUTATED RAB40C WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAB40C MUTATED        0      0      0      0      2      0
  RAB40C WILD-TYPE     13     16     14     11      9      9
D490V11, multiclass
[1] "Remove cluster labels:" "RAB40C MUTATED"        
clus
  RAB40C MUTATED RAB40C WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6600 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB40C MUTATED        0      0      0      1      0      1      0      0
  RAB40C WILD-TYPE     11      7      7      8      8      6     11      9
                  vv
clus               CLUS_9
  RAB40C MUTATED        0
  RAB40C WILD-TYPE      5
D490V12, multiclass
[1] "Remove cluster labels:" "RAB40C MUTATED"        
clus
  RAB40C MUTATED RAB40C WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6600 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" "RAB40C WILD-TYPE" 

Clustering(491) Variable = UGT3A2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT3A2 MUTATED        2      0      0      1      1
  UGT3A2 WILD-TYPE     30     18     46     26     22
D491V1, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT3A2 MUTATED        2      1      1
  UGT3A2 WILD-TYPE     41     66     35
D491V2, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT3A2 MUTATED        0      4     14
  UGT3A2 WILD-TYPE     42    169    133
D491V3, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT3A2 MUTATED        7      2      5
  UGT3A2 WILD-TYPE     55     71     70
D491V4, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT3A2 MUTATED        1      5     10
  UGT3A2 WILD-TYPE     69    115     90
D491V5, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT3A2 MUTATED        1      2      1      0      2      7      2      0
  UGT3A2 WILD-TYPE     40     24     29     29     37     62     18     14
                  vv
clus               CLUS_9
  UGT3A2 MUTATED        1
  UGT3A2 WILD-TYPE     21
D491V6, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              7               62
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UGT3A2 MUTATED        2      6      5      5
  UGT3A2 WILD-TYPE     98     66     67    116
D491V7, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              6               66
  CLUS_3              5               67
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT3A2 MUTATED        2      2      9      3      2
  UGT3A2 WILD-TYPE     57     73     65    116     36
D491V8, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              9               65
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT3A2 MUTATED        0     11      1      0      6
  UGT3A2 WILD-TYPE     51     65     60     71     89
D491V9, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              0               51
  CLUS_2             11               65
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT3A2 MUTATED        2      5      1      3      1      1      0      3
  UGT3A2 WILD-TYPE     67     43     38     13     52     19     21     35
                  vv
clus               CLUS_9
  UGT3A2 MUTATED        2
  UGT3A2 WILD-TYPE     48
D491V10, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              5               43
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UGT3A2 MUTATED        1      0      1      1      2      0
  UGT3A2 WILD-TYPE     12     16     13     10      9      9
D491V11, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT3A2 MUTATED        0      0      0      0      0      1      3      1
  UGT3A2 WILD-TYPE     11      7      7      9      8      6      8      8
                  vv
clus               CLUS_9
  UGT3A2 MUTATED        0
  UGT3A2 WILD-TYPE      5
D491V12, multiclass
        clus
vv       UGT3A2 MUTATED UGT3A2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              3                8
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(492) Variable = ATAD2B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD2B MUTATED        2      1      0      1      0
  ATAD2B WILD-TYPE     30     17     46     26     23
D492V1, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              2               30
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATAD2B MUTATED        2      2      0
  ATAD2B WILD-TYPE     41     65     36
D492V2, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              2               41
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATAD2B MUTATED        2      4      9
  ATAD2B WILD-TYPE     40    169    138
D492V3, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              2               40
  CLUS_2              4              169
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATAD2B MUTATED        6      1      5
  ATAD2B WILD-TYPE     56     72     70
D492V4, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              6               56
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATAD2B MUTATED        3      5      6
  ATAD2B WILD-TYPE     67    115     94
D492V5, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              3               67
  CLUS_2              5              115
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATAD2B MUTATED        3      0      2      1      2      4      0      0
  ATAD2B WILD-TYPE     38     26     28     28     37     65     20     14
                  vv
clus               CLUS_9
  ATAD2B MUTATED        2
  ATAD2B WILD-TYPE     20
D492V6, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATAD2B MUTATED        1      2      8      4
  ATAD2B WILD-TYPE     99     70     64    117
D492V7, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              8               64
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD2B MUTATED        4      1      6      2      2
  ATAD2B WILD-TYPE     55     74     68    117     36
D492V8, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              4               55
  CLUS_2              1               74
  CLUS_3              6               68
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD2B MUTATED        0      4      6      1      3
  ATAD2B WILD-TYPE     51     72     55     70     92
D492V9, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              6               55
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATAD2B MUTATED        4      5      0      1      1      1      0      2
  ATAD2B WILD-TYPE     65     43     39     15     52     19     21     36
                  vv
clus               CLUS_9
  ATAD2B MUTATED        0
  ATAD2B WILD-TYPE     50
D492V10, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              4               65
  CLUS_2              5               43
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATAD2B MUTATED        1      2      1      0      1      1
  ATAD2B WILD-TYPE     12     14     13     11     10      8
D492V11, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATAD2B MUTATED        2      0      0      0      0      1      2      1
  ATAD2B WILD-TYPE      9      7      7      9      8      6      9      8
                  vv
clus               CLUS_9
  ATAD2B MUTATED        0
  ATAD2B WILD-TYPE      5
D492V12, multiclass
        clus
vv       ATAD2B MUTATED ATAD2B WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(493) Variable = SLC33A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC33A1 MUTATED        1      0      0      0      0
  SLC33A1 WILD-TYPE     31     18     46     27     23
D493V1, multiclass
[1] "Remove cluster labels:" "SLC33A1 MUTATED"       
clus
  SLC33A1 MUTATED SLC33A1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AY-4071 
"SLC33A1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC33A1 MUTATED        0      0      1
  SLC33A1 WILD-TYPE     43     67     35
D493V2, multiclass
[1] "Remove cluster labels:" "SLC33A1 MUTATED"       
clus
  SLC33A1 MUTATED SLC33A1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" "SLC33A1 WILD-TYPE" 
       TCGA-AY-4071 
"SLC33A1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC33A1 MUTATED        1      3      5
  SLC33A1 WILD-TYPE     41    170    142
D493V3, multiclass
        clus
vv       SLC33A1 MUTATED SLC33A1 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC33A1 MUTATED        3      2      3
  SLC33A1 WILD-TYPE     59     71     72
D493V4, multiclass
        clus
vv       SLC33A1 MUTATED SLC33A1 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               2                71
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC33A1 MUTATED        0      3      4
  SLC33A1 WILD-TYPE     70    117     96
D493V5, multiclass
        clus
vv       SLC33A1 MUTATED SLC33A1 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC33A1 MUTATED        0      1      0      1      0      3      2      0
  SLC33A1 WILD-TYPE     41     25     30     28     39     66     18     14
                   vv
clus                CLUS_9
  SLC33A1 MUTATED        0
  SLC33A1 WILD-TYPE     22
D493V6, multiclass
        clus
vv       SLC33A1 MUTATED SLC33A1 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC33A1 MUTATED        1      5      2      1
  SLC33A1 WILD-TYPE     99     67     70    120
D493V7, multiclass
        clus
vv       SLC33A1 MUTATED SLC33A1 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               5                67
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC33A1 MUTATED        2      2      4      1      0
  SLC33A1 WILD-TYPE     57     73     70    118     38
D493V8, multiclass
        clus
vv       SLC33A1 MUTATED SLC33A1 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC33A1 MUTATED        1      5      1      1      1
  SLC33A1 WILD-TYPE     50     71     60     70     94
D493V9, multiclass
        clus
vv       SLC33A1 MUTATED SLC33A1 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               5                71
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC33A1 MUTATED        4      1      1      0      2      0      0      0
  SLC33A1 WILD-TYPE     65     47     38     16     51     20     21     38
                   vv
clus                CLUS_9
  SLC33A1 MUTATED        1
  SLC33A1 WILD-TYPE     49
D493V10, multiclass
        clus
vv       SLC33A1 MUTATED SLC33A1 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC33A1 MUTATED        0      0      1      1      0      1
  SLC33A1 WILD-TYPE     13     16     13     10     11      8
D493V11, multiclass
        clus
vv       SLC33A1 MUTATED SLC33A1 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               0                11
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC33A1 MUTATED        1      0      0      0      0      0      2      0
  SLC33A1 WILD-TYPE     10      7      7      9      8      7      9      9
                   vv
clus                CLUS_9
  SLC33A1 MUTATED        0
  SLC33A1 WILD-TYPE      5
D493V12, multiclass
        clus
vv       SLC33A1 MUTATED SLC33A1 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(494) Variable = ABCB4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCB4 MUTATED        3      0      1      2      0
  ABCB4 WILD-TYPE     29     18     45     25     23
D494V1, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCB4 MUTATED        3      3      0
  ABCB4 WILD-TYPE     40     64     36
D494V2, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCB4 MUTATED        3      2     17
  ABCB4 WILD-TYPE     39    171    130
D494V3, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             2             171
  CLUS_3            17             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCB4 MUTATED        8      2      5
  ABCB4 WILD-TYPE     54     71     70
D494V4, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             2              71
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCB4 MUTATED        3      8      9
  ABCB4 WILD-TYPE     67    112     91
D494V5, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             8             112
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCB4 MUTATED        2      4      2      2      1      8      1      0
  ABCB4 WILD-TYPE     39     22     28     27     38     61     19     14
                 vv
clus              CLUS_9
  ABCB4 MUTATED        0
  ABCB4 WILD-TYPE     22
D494V6, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             4              22
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             8              61
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCB4 MUTATED        2      7      7      6
  ABCB4 WILD-TYPE     98     65     65    115
D494V7, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             7              65
  CLUS_3             7              65
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCB4 MUTATED        1      4      8      5      4
  ABCB4 WILD-TYPE     58     71     66    114     34
D494V8, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             8              66
  CLUS_4             5             114
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCB4 MUTATED        2      7      3      1      7
  ABCB4 WILD-TYPE     49     69     58     70     88
D494V9, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCB4 MUTATED        3      5      0      3      3      1      0      3
  ABCB4 WILD-TYPE     66     43     39     13     50     19     21     35
                 vv
clus              CLUS_9
  ABCB4 MUTATED        2
  ABCB4 WILD-TYPE     48
D494V10, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABCB4 MUTATED        0      1      0      0      4      0
  ABCB4 WILD-TYPE     13     15     14     11      7      9
D494V11, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCB4 MUTATED        0      0      0      2      0      1      2      0
  ABCB4 WILD-TYPE     11      7      7      7      8      6      9      9
                 vv
clus              CLUS_9
  ABCB4 MUTATED        0
  ABCB4 WILD-TYPE      5
D494V12, multiclass
        clus
vv       ABCB4 MUTATED ABCB4 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(495) Variable = RUFY1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUFY1 MUTATED        0      0      0      0      0
  RUFY1 WILD-TYPE     32     18     46     27     23
D495V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUFY1 MUTATED        0      0      0
  RUFY1 WILD-TYPE     43     67     36
D495V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUFY1 MUTATED        2      3      8
  RUFY1 WILD-TYPE     40    170    139
D495V3, multiclass
        clus
vv       RUFY1 MUTATED RUFY1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUFY1 MUTATED        3      4      6
  RUFY1 WILD-TYPE     59     69     69
D495V4, multiclass
        clus
vv       RUFY1 MUTATED RUFY1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUFY1 MUTATED        2      6      3
  RUFY1 WILD-TYPE     68    114     97
D495V5, multiclass
        clus
vv       RUFY1 MUTATED RUFY1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUFY1 MUTATED        0      0      0      4      1      3      0      2
  RUFY1 WILD-TYPE     41     26     30     25     38     66     20     12
                 vv
clus              CLUS_9
  RUFY1 MUTATED        1
  RUFY1 WILD-TYPE     21
D495V6, multiclass
        clus
vv       RUFY1 MUTATED RUFY1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             4              25
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RUFY1 MUTATED        3     10      0      0
  RUFY1 WILD-TYPE     97     62     72    121
D495V7, multiclass
        clus
vv       RUFY1 MUTATED RUFY1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2            10              62
  CLUS_3             0              72
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUFY1 MUTATED        0      6      7      0      0
  RUFY1 WILD-TYPE     59     69     67    119     38
D495V8, multiclass
        clus
vv       RUFY1 MUTATED RUFY1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             6              69
  CLUS_3             7              67
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUFY1 MUTATED        3      9      0      0      1
  RUFY1 WILD-TYPE     48     67     61     71     94
D495V9, multiclass
        clus
vv       RUFY1 MUTATED RUFY1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             9              67
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUFY1 MUTATED        5      0      0      3      2      2      0      0
  RUFY1 WILD-TYPE     64     48     39     13     51     18     21     38
                 vv
clus              CLUS_9
  RUFY1 MUTATED        1
  RUFY1 WILD-TYPE     49
D495V10, multiclass
        clus
vv       RUFY1 MUTATED RUFY1 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RUFY1 MUTATED        0      0      0      0      1      0
  RUFY1 WILD-TYPE     13     16     14     11     10      9
D495V11, multiclass
[1] "Remove cluster labels:" "RUFY1 MUTATED"         
clus
  RUFY1 MUTATED RUFY1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-G4-6628 
"RUFY1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUFY1 MUTATED        0      0      0      1      0      0      0      0
  RUFY1 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  RUFY1 MUTATED        0
  RUFY1 WILD-TYPE      5
D495V12, multiclass
[1] "Remove cluster labels:" "RUFY1 MUTATED"         
clus
  RUFY1 MUTATED RUFY1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625 
"RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" "RUFY1 WILD-TYPE" 
     TCGA-G4-6628 
"RUFY1 WILD-TYPE" 

Clustering(496) Variable = IBTK MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IBTK MUTATED        5      0      0      1      0
  IBTK WILD-TYPE     27     18     46     26     23
D496V1, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IBTK MUTATED        5      1      0
  IBTK WILD-TYPE     38     66     36
D496V2, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            5             38
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IBTK MUTATED        2      4     12
  IBTK WILD-TYPE     40    169    135
D496V3, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            2             40
  CLUS_2            4            169
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IBTK MUTATED        3      4      6
  IBTK WILD-TYPE     59     69     69
D496V4, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            3             59
  CLUS_2            4             69
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IBTK MUTATED        2      6      7
  IBTK WILD-TYPE     68    114     93
D496V5, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            114
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IBTK MUTATED        3      1      2      1      1      4      2      0      1
  IBTK WILD-TYPE     38     25     28     28     38     65     18     14     21
D496V6, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            3             38
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IBTK MUTATED        3      7      3      6
  IBTK WILD-TYPE     97     65     69    115
D496V7, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            3             97
  CLUS_2            7             65
  CLUS_3            3             69
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IBTK MUTATED        3      2      8      2      4
  IBTK WILD-TYPE     56     73     66    117     34
D496V8, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3            8             66
  CLUS_4            2            117
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IBTK MUTATED        2      6      3      1      7
  IBTK WILD-TYPE     49     70     58     70     88
D496V9, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IBTK MUTATED        3      4      0      4      1      1      1      4      1
  IBTK WILD-TYPE     66     44     39     12     52     19     20     34     49
D496V10, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            3             66
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IBTK MUTATED        2      1      1      2      1      0
  IBTK WILD-TYPE     11     15     13      9     10      9
D496V11, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            2             11
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            2              9
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IBTK MUTATED        0      0      3      1      0      1      1      0      1
  IBTK WILD-TYPE     11      7      4      8      8      6     10      9      4
D496V12, multiclass
        clus
vv       IBTK MUTATED IBTK WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            3              4
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(497) Variable = PNP MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PNP MUTATED        1      0      0      0      0
  PNP WILD-TYPE     31     18     46     27     23
D497V1, multiclass
[1] "Remove cluster labels:" "PNP MUTATED"           
clus
  PNP MUTATED PNP WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PNP MUTATED        1      0      0
  PNP WILD-TYPE     42     67     36
D497V2, multiclass
[1] "Remove cluster labels:" "PNP MUTATED"           
clus
  PNP MUTATED PNP WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PNP MUTATED        2      0      2
  PNP WILD-TYPE     40    173    145
D497V3, multiclass
        clus
vv       PNP MUTATED PNP WILD-TYPE
  CLUS_1           2            40
  CLUS_2           0           173
  CLUS_3           2           145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PNP MUTATED        0      1      2
  PNP WILD-TYPE     62     72     73
D497V4, multiclass
        clus
vv       PNP MUTATED PNP WILD-TYPE
  CLUS_1           0            62
  CLUS_2           1            72
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PNP MUTATED        1      1      1
  PNP WILD-TYPE     69    119     99
D497V5, multiclass
        clus
vv       PNP MUTATED PNP WILD-TYPE
  CLUS_1           1            69
  CLUS_2           1           119
  CLUS_3           1            99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PNP MUTATED        0      0      0      1      2      0      0      0      0
  PNP WILD-TYPE     41     26     30     28     37     69     20     14     22
D497V6, multiclass
        clus
vv       PNP MUTATED PNP WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           1            28
  CLUS_5           2            37
  CLUS_6           0            69
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PNP MUTATED        1      2      0      1
  PNP WILD-TYPE     99     70     72    120
D497V7, multiclass
        clus
vv       PNP MUTATED PNP WILD-TYPE
  CLUS_1           1            99
  CLUS_2           2            70
  CLUS_3           0            72
  CLUS_4           1           120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PNP MUTATED        0      1      2      0      1
  PNP WILD-TYPE     59     74     72    119     37
D497V8, multiclass
        clus
vv       PNP MUTATED PNP WILD-TYPE
  CLUS_1           0            59
  CLUS_2           1            74
  CLUS_3           2            72
  CLUS_4           0           119
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PNP MUTATED        1      1      0      0      2
  PNP WILD-TYPE     50     75     61     71     93
D497V9, multiclass
        clus
vv       PNP MUTATED PNP WILD-TYPE
  CLUS_1           1            50
  CLUS_2           1            75
  CLUS_3           0            61
  CLUS_4           0            71
  CLUS_5           2            93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PNP MUTATED        0      0      1      1      1      0      0      1      0
  PNP WILD-TYPE     69     48     38     15     52     20     21     37     50
D497V10, multiclass
        clus
vv       PNP MUTATED PNP WILD-TYPE
  CLUS_1           0            69
  CLUS_2           0            48
  CLUS_3           1            38
  CLUS_4           1            15
  CLUS_5           1            52
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PNP MUTATED        0      0      0      0      1      0
  PNP WILD-TYPE     13     16     14     11     10      9
D497V11, multiclass
[1] "Remove cluster labels:" "PNP MUTATED"           
clus
  PNP MUTATED PNP WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6600 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PNP MUTATED        0      0      0      1      0      0      0      0      0
  PNP WILD-TYPE     11      7      7      8      8      7     11      9      5
D497V12, multiclass
[1] "Remove cluster labels:" "PNP MUTATED"           
clus
  PNP MUTATED PNP WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6600 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"PNP WILD-TYPE" "PNP WILD-TYPE" "PNP WILD-TYPE" 

Clustering(498) Variable = ACTL8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL8 MUTATED        2      1      0      0      0
  ACTL8 WILD-TYPE     30     17     46     27     23
D498V1, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTL8 MUTATED        2      0      1
  ACTL8 WILD-TYPE     41     67     35
D498V2, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTL8 MUTATED        1      3      5
  ACTL8 WILD-TYPE     41    170    142
D498V3, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTL8 MUTATED        2      1      3
  ACTL8 WILD-TYPE     60     72     72
D498V4, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTL8 MUTATED        1      3      1
  ACTL8 WILD-TYPE     69    117     99
D498V5, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL8 MUTATED        1      0      0      0      1      0      1      2
  ACTL8 WILD-TYPE     40     26     30     29     38     69     19     12
                 vv
clus              CLUS_9
  ACTL8 MUTATED        0
  ACTL8 WILD-TYPE     22
D498V6, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             0              69
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACTL8 MUTATED        2      4      1      2
  ACTL8 WILD-TYPE     98     68     71    119
D498V7, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL8 MUTATED        1      1      4      2      1
  ACTL8 WILD-TYPE     58     74     70    117     37
D498V8, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL8 MUTATED        0      5      0      2      2
  ACTL8 WILD-TYPE     51     71     61     69     93
D498V9, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL8 MUTATED        4      0      0      0      3      0      1      1
  ACTL8 WILD-TYPE     65     48     39     16     50     20     20     37
                 vv
clus              CLUS_9
  ACTL8 MUTATED        0
  ACTL8 WILD-TYPE     50
D498V10, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACTL8 MUTATED        0      1      1      1      0      0
  ACTL8 WILD-TYPE     13     15     13     10     11      9
D498V11, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL8 MUTATED        1      0      0      0      1      0      0      1
  ACTL8 WILD-TYPE     10      7      7      9      7      7     11      8
                 vv
clus              CLUS_9
  ACTL8 MUTATED        0
  ACTL8 WILD-TYPE      5
D498V12, multiclass
        clus
vv       ACTL8 MUTATED ACTL8 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(499) Variable = CDK14 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK14 MUTATED        1      1      2      1      1
  CDK14 WILD-TYPE     31     17     44     26     22
D499V1, multiclass
        clus
vv       CDK14 MUTATED CDK14 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             1              17
  CLUS_3             2              44
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK14 MUTATED        2      2      2
  CDK14 WILD-TYPE     41     65     34
D499V2, multiclass
        clus
vv       CDK14 MUTATED CDK14 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK14 MUTATED        1      6      8
  CDK14 WILD-TYPE     41    167    139
D499V3, multiclass
        clus
vv       CDK14 MUTATED CDK14 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             6             167
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK14 MUTATED        3      2      4
  CDK14 WILD-TYPE     59     71     71
D499V4, multiclass
        clus
vv       CDK14 MUTATED CDK14 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK14 MUTATED        0      5      7
  CDK14 WILD-TYPE     70    115     93
D499V5, multiclass
        clus
vv       CDK14 MUTATED CDK14 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK14 MUTATED        1      0      0      3      0      6      1      1
  CDK14 WILD-TYPE     40     26     30     26     39     63     19     13
                 vv
clus              CLUS_9
  CDK14 MUTATED        0
  CDK14 WILD-TYPE     22
D499V6, multiclass
        clus
vv       CDK14 MUTATED CDK14 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDK14 MUTATED        2      6      2      5
  CDK14 WILD-TYPE     98     66     70    116
D499V7, multiclass
        clus
vv       CDK14 MUTATED CDK14 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK14 MUTATED        1      1      7      4      2
  CDK14 WILD-TYPE     58     74     67    115     36
D499V8, multiclass
        clus
vv       CDK14 MUTATED CDK14 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             7              67
  CLUS_4             4             115
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK14 MUTATED        2      6      1      2      3
  CDK14 WILD-TYPE     49     70     60     69     92
D499V9, multiclass
        clus
vv       CDK14 MUTATED CDK14 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK14 MUTATED        3      2      0      3      0      2      0      1
  CDK14 WILD-TYPE     66     46     39     13     53     18     21     37
                 vv
clus              CLUS_9
  CDK14 MUTATED        3
  CDK14 WILD-TYPE     47
D499V10, multiclass
        clus
vv       CDK14 MUTATED CDK14 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDK14 MUTATED        0      0      0      1      1      0
  CDK14 WILD-TYPE     13     16     14     10     10      9
D499V11, multiclass
[1] "Remove cluster labels:" "CDK14 MUTATED"         
clus
  CDK14 MUTATED CDK14 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK14 MUTATED        0      0      1      0      0      0      1      0
  CDK14 WILD-TYPE     11      7      6      9      8      7     10      9
                 vv
clus              CLUS_9
  CDK14 MUTATED        0
  CDK14 WILD-TYPE      5
D499V12, multiclass
[1] "Remove cluster labels:" "CDK14 MUTATED"         
clus
  CDK14 MUTATED CDK14 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" "CDK14 WILD-TYPE" 

Clustering(500) Variable = AXIN2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AXIN2 MUTATED        3      0      2      1      0
  AXIN2 WILD-TYPE     29     18     44     26     23
D500V1, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AXIN2 MUTATED        3      2      1
  AXIN2 WILD-TYPE     40     65     35
D500V2, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AXIN2 MUTATED        0      5     16
  AXIN2 WILD-TYPE     42    168    131
D500V3, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AXIN2 MUTATED        7      3      4
  AXIN2 WILD-TYPE     55     70     71
D500V4, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AXIN2 MUTATED        3      8      8
  AXIN2 WILD-TYPE     67    112     92
D500V5, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             8             112
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AXIN2 MUTATED        2      0      3      1      3      5      4      0
  AXIN2 WILD-TYPE     39     26     27     28     36     64     16     14
                 vv
clus              CLUS_9
  AXIN2 MUTATED        1
  AXIN2 WILD-TYPE     21
D500V6, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             3              27
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             5              64
  CLUS_7             4              16
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AXIN2 MUTATED        2      5      7      7
  AXIN2 WILD-TYPE     98     67     65    114
D500V7, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             7              65
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AXIN2 MUTATED        1      2     11      4      3
  AXIN2 WILD-TYPE     58     73     63    115     35
D500V8, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3            11              63
  CLUS_4             4             115
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AXIN2 MUTATED        1      9      2      2      6
  AXIN2 WILD-TYPE     50     67     59     69     89
D500V9, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             9              67
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AXIN2 MUTATED        4      5      0      1      2      3      1      3
  AXIN2 WILD-TYPE     65     43     39     15     51     17     20     35
                 vv
clus              CLUS_9
  AXIN2 MUTATED        1
  AXIN2 WILD-TYPE     49
D500V10, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             3              17
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AXIN2 MUTATED        0      1      2      0      1      0
  AXIN2 WILD-TYPE     13     15     12     11     10      9
D500V11, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AXIN2 MUTATED        0      0      0      0      1      0      3      0
  AXIN2 WILD-TYPE     11      7      7      9      7      7      8      9
                 vv
clus              CLUS_9
  AXIN2 MUTATED        0
  AXIN2 WILD-TYPE      5
D500V12, multiclass
        clus
vv       AXIN2 MUTATED AXIN2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(501) Variable = KCNH7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNH7 MUTATED        6      0      0      2      1
  KCNH7 WILD-TYPE     26     18     46     25     22
D501V1, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNH7 MUTATED        6      1      2
  KCNH7 WILD-TYPE     37     66     34
D501V2, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNH7 MUTATED        3      9     20
  KCNH7 WILD-TYPE     39    164    127
D501V3, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             9             164
  CLUS_3            20             127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNH7 MUTATED       10      7      5
  KCNH7 WILD-TYPE     52     66     70
D501V4, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1            10              52
  CLUS_2             7              66
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNH7 MUTATED        2      6     17
  KCNH7 WILD-TYPE     68    114     83
D501V5, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3            17              83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNH7 MUTATED        1      1      2      1      3     12      3      1
  KCNH7 WILD-TYPE     40     25     28     28     36     57     17     13
                 vv
clus              CLUS_9
  KCNH7 MUTATED        1
  KCNH7 WILD-TYPE     21
D501V6, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6            12              57
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCNH7 MUTATED        8      4      9     11
  KCNH7 WILD-TYPE     92     68     63    110
D501V7, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1             8              92
  CLUS_2             4              68
  CLUS_3             9              63
  CLUS_4            11             110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNH7 MUTATED        6      6      9      4      7
  KCNH7 WILD-TYPE     53     69     65    115     31
D501V8, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1             6              53
  CLUS_2             6              69
  CLUS_3             9              65
  CLUS_4             4             115
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNH7 MUTATED        5      9      5      5      7
  KCNH7 WILD-TYPE     46     67     56     66     88
D501V9, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1             5              46
  CLUS_2             9              67
  CLUS_3             5              56
  CLUS_4             5              66
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNH7 MUTATED        9      8      1      1      4      0      0      5
  KCNH7 WILD-TYPE     60     40     38     15     49     20     21     33
                 vv
clus              CLUS_9
  KCNH7 MUTATED        3
  KCNH7 WILD-TYPE     47
D501V10, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1             9              60
  CLUS_2             8              40
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             4              49
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             5              33
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KCNH7 MUTATED        1      2      1      1      3      0
  KCNH7 WILD-TYPE     12     14     13     10      8      9
D501V11, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNH7 MUTATED        2      0      0      0      1      1      3      0
  KCNH7 WILD-TYPE      9      7      7      9      7      6      8      9
                 vv
clus              CLUS_9
  KCNH7 MUTATED        1
  KCNH7 WILD-TYPE      4
D501V12, multiclass
        clus
vv       KCNH7 MUTATED KCNH7 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(502) Variable = SPCS2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPCS2 MUTATED        0      0      0      0      0
  SPCS2 WILD-TYPE     32     18     46     27     23
D502V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPCS2 MUTATED        0      0      0
  SPCS2 WILD-TYPE     43     67     36
D502V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPCS2 MUTATED        0      3      2
  SPCS2 WILD-TYPE     42    170    145
D502V3, multiclass
        clus
vv       SPCS2 MUTATED SPCS2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPCS2 MUTATED        0      4      1
  SPCS2 WILD-TYPE     62     69     74
D502V4, multiclass
        clus
vv       SPCS2 MUTATED SPCS2 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             4              69
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPCS2 MUTATED        0      4      1
  SPCS2 WILD-TYPE     70    116     99
D502V5, multiclass
        clus
vv       SPCS2 MUTATED SPCS2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPCS2 MUTATED        0      0      1      1      1      1      0      0
  SPCS2 WILD-TYPE     41     26     29     28     38     68     20     14
                 vv
clus              CLUS_9
  SPCS2 MUTATED        1
  SPCS2 WILD-TYPE     21
D502V6, multiclass
        clus
vv       SPCS2 MUTATED SPCS2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPCS2 MUTATED        3      1      1      0
  SPCS2 WILD-TYPE     97     71     71    121
D502V7, multiclass
        clus
vv       SPCS2 MUTATED SPCS2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPCS2 MUTATED        1      3      1      0      0
  SPCS2 WILD-TYPE     58     72     73    119     38
D502V8, multiclass
        clus
vv       SPCS2 MUTATED SPCS2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPCS2 MUTATED        1      2      0      2      0
  SPCS2 WILD-TYPE     50     74     61     69     95
D502V9, multiclass
        clus
vv       SPCS2 MUTATED SPCS2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPCS2 MUTATED        5      0      0      0      0      0      0      0
  SPCS2 WILD-TYPE     64     48     39     16     53     20     21     38
                 vv
clus              CLUS_9
  SPCS2 MUTATED        0
  SPCS2 WILD-TYPE     50
D502V10, multiclass
        clus
vv       SPCS2 MUTATED SPCS2 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPCS2 MUTATED        0      0      0      0      0      0
  SPCS2 WILD-TYPE     13     16     14     11     11      9
D502V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPCS2 MUTATED        0      0      0      0      0      0      0      0
  SPCS2 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  SPCS2 MUTATED        0
  SPCS2 WILD-TYPE      5
D502V12, multiclass

Clustering(503) Variable = TNRC6C MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNRC6C MUTATED        6      0      0      0      0
  TNRC6C WILD-TYPE     26     18     46     27     23
D503V1, multiclass
        clus
vv       TNRC6C MUTATED TNRC6C WILD-TYPE
  CLUS_1              6               26
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TNRC6C MUTATED        5      0      1
  TNRC6C WILD-TYPE     38     67     35
D503V2, multiclass
        clus
vv       TNRC6C MUTATED TNRC6C WILD-TYPE
  CLUS_1              5               38
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TNRC6C MUTATED        0      0     17
  TNRC6C WILD-TYPE     42    173    130
D503V3, multiclass
        clus
vv       TNRC6C MUTATED TNRC6C WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3             17              130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TNRC6C MUTATED        3      0      9
  TNRC6C WILD-TYPE     59     73     66
D503V4, multiclass
        clus
vv       TNRC6C MUTATED TNRC6C WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              9               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TNRC6C MUTATED        4      4      7
  TNRC6C WILD-TYPE     66    116     93
D503V5, multiclass
        clus
vv       TNRC6C MUTATED TNRC6C WILD-TYPE
  CLUS_1              4               66
  CLUS_2              4              116
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNRC6C MUTATED        2      1      0      2      3      4      3      0
  TNRC6C WILD-TYPE     39     25     30     27     36     65     17     14
                  vv
clus               CLUS_9
  TNRC6C MUTATED        0
  TNRC6C WILD-TYPE     22
D503V6, multiclass
        clus
vv       TNRC6C MUTATED TNRC6C WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              3               36
  CLUS_6              4               65
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNRC6C MUTATED        0      7      5      6
  TNRC6C WILD-TYPE    100     65     67    115
D503V7, multiclass
        clus
vv       TNRC6C MUTATED TNRC6C WILD-TYPE
  CLUS_1              0              100
  CLUS_2              7               65
  CLUS_3              5               67
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNRC6C MUTATED        1      0     11      1      5
  TNRC6C WILD-TYPE     58     75     63    118     33
D503V8, multiclass
        clus
vv       TNRC6C MUTATED TNRC6C WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3             11               63
  CLUS_4              1              118
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNRC6C MUTATED        0      9      1      1      7
  TNRC6C WILD-TYPE     51     67     60     70     88
D503V9, multiclass
        clus
vv       TNRC6C MUTATED TNRC6C WILD-TYPE
  CLUS_1              0               51
  CLUS_2              9               67
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNRC6C MUTATED        2      3      0      4      3      0      1      5
  TNRC6C WILD-TYPE     67     45     39     12     50     20     20     33
                  vv
clus               CLUS_9
  TNRC6C MUTATED        0
  TNRC6C WILD-TYPE     50
D503V10, multiclass
        clus
vv       TNRC6C MUTATED TNRC6C WILD-TYPE
  CLUS_1              2               67
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              4               12
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              5               33
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TNRC6C MUTATED        0      1      0      0      1      0
  TNRC6C WILD-TYPE     13     15     14     11     10      9
D503V11, multiclass
[1] "Remove cluster labels:" "TNRC6C MUTATED"        
clus
  TNRC6C MUTATED TNRC6C WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNRC6C MUTATED        0      0      0      0      1      0      1      0
  TNRC6C WILD-TYPE     11      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  TNRC6C MUTATED        0
  TNRC6C WILD-TYPE      5
D503V12, multiclass
[1] "Remove cluster labels:" "TNRC6C MUTATED"        
clus
  TNRC6C MUTATED TNRC6C WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" "TNRC6C WILD-TYPE" 

Clustering(504) Variable = OR4E2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4E2 MUTATED        0      0      0      0      0
  OR4E2 WILD-TYPE     32     18     46     27     23
D504V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4E2 MUTATED        0      0      0
  OR4E2 WILD-TYPE     43     67     36
D504V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4E2 MUTATED        0      0      5
  OR4E2 WILD-TYPE     42    173    142
D504V3, multiclass
        clus
vv       OR4E2 MUTATED OR4E2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4E2 MUTATED        1      0      4
  OR4E2 WILD-TYPE     61     73     71
D504V4, multiclass
        clus
vv       OR4E2 MUTATED OR4E2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4E2 MUTATED        0      4      1
  OR4E2 WILD-TYPE     70    116     99
D504V5, multiclass
        clus
vv       OR4E2 MUTATED OR4E2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4E2 MUTATED        0      1      0      3      0      1      0      0
  OR4E2 WILD-TYPE     41     25     30     26     39     68     20     14
                 vv
clus              CLUS_9
  OR4E2 MUTATED        0
  OR4E2 WILD-TYPE     22
D504V6, multiclass
        clus
vv       OR4E2 MUTATED OR4E2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR4E2 MUTATED        0      4      0      1
  OR4E2 WILD-TYPE    100     68     72    120
D504V7, multiclass
        clus
vv       OR4E2 MUTATED OR4E2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4E2 MUTATED        0      0      4      1      0
  OR4E2 WILD-TYPE     59     75     70    118     38
D504V8, multiclass
        clus
vv       OR4E2 MUTATED OR4E2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4E2 MUTATED        0      4      0      0      1
  OR4E2 WILD-TYPE     51     72     61     71     94
D504V9, multiclass
        clus
vv       OR4E2 MUTATED OR4E2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4E2 MUTATED        3      0      0      1      0      0      0      0
  OR4E2 WILD-TYPE     66     48     39     15     53     20     21     38
                 vv
clus              CLUS_9
  OR4E2 MUTATED        1
  OR4E2 WILD-TYPE     49
D504V10, multiclass
        clus
vv       OR4E2 MUTATED OR4E2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR4E2 MUTATED        0      0      0      0      0      0
  OR4E2 WILD-TYPE     13     16     14     11     11      9
D504V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4E2 MUTATED        0      0      0      0      0      0      0      0
  OR4E2 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  OR4E2 MUTATED        0
  OR4E2 WILD-TYPE      5
D504V12, multiclass

Clustering(505) Variable = SULT6B1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SULT6B1 MUTATED        1      0      0      1      0
  SULT6B1 WILD-TYPE     31     18     46     26     23
D505V1, multiclass
[1] "Remove cluster labels:" "SULT6B1 MUTATED"       
clus
  SULT6B1 MUTATED SULT6B1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SULT6B1 MUTATED        0      1      1
  SULT6B1 WILD-TYPE     43     66     35
D505V2, multiclass
[1] "Remove cluster labels:" "SULT6B1 MUTATED"       
clus
  SULT6B1 MUTATED SULT6B1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SULT6B1 MUTATED        1      2      6
  SULT6B1 WILD-TYPE     41    171    141
D505V3, multiclass
        clus
vv       SULT6B1 MUTATED SULT6B1 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SULT6B1 MUTATED        5      2      0
  SULT6B1 WILD-TYPE     57     71     75
D505V4, multiclass
        clus
vv       SULT6B1 MUTATED SULT6B1 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               2                71
  CLUS_3               0                75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SULT6B1 MUTATED        2      3      3
  SULT6B1 WILD-TYPE     68    117     97
D505V5, multiclass
        clus
vv       SULT6B1 MUTATED SULT6B1 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               3               117
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SULT6B1 MUTATED        1      1      1      0      0      4      0      0
  SULT6B1 WILD-TYPE     40     25     29     29     39     65     20     14
                   vv
clus                CLUS_9
  SULT6B1 MUTATED        1
  SULT6B1 WILD-TYPE     21
D505V6, multiclass
        clus
vv       SULT6B1 MUTATED SULT6B1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SULT6B1 MUTATED        2      3      1      3
  SULT6B1 WILD-TYPE     98     69     71    118
D505V7, multiclass
        clus
vv       SULT6B1 MUTATED SULT6B1 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               3                69
  CLUS_3               1                71
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SULT6B1 MUTATED        1      2      3      3      0
  SULT6B1 WILD-TYPE     58     73     71    116     38
D505V8, multiclass
        clus
vv       SULT6B1 MUTATED SULT6B1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               3                71
  CLUS_4               3               116
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SULT6B1 MUTATED        1      3      1      1      3
  SULT6B1 WILD-TYPE     50     73     60     70     92
D505V9, multiclass
        clus
vv       SULT6B1 MUTATED SULT6B1 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SULT6B1 MUTATED        2      1      0      1      1      2      0      0
  SULT6B1 WILD-TYPE     67     47     39     15     52     18     21     38
                   vv
clus                CLUS_9
  SULT6B1 MUTATED        2
  SULT6B1 WILD-TYPE     48
D505V10, multiclass
        clus
vv       SULT6B1 MUTATED SULT6B1 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SULT6B1 MUTATED        0      1      0      0      0      0
  SULT6B1 WILD-TYPE     13     15     14     11     11      9
D505V11, multiclass
[1] "Remove cluster labels:" "SULT6B1 MUTATED"       
clus
  SULT6B1 MUTATED SULT6B1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-G4-6628 
"SULT6B1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SULT6B1 MUTATED        1      0      0      0      0      0      0      0
  SULT6B1 WILD-TYPE     10      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  SULT6B1 MUTATED        0
  SULT6B1 WILD-TYPE      5
D505V12, multiclass
[1] "Remove cluster labels:" "SULT6B1 MUTATED"       
clus
  SULT6B1 MUTATED SULT6B1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" "SULT6B1 WILD-TYPE" 
       TCGA-G4-6628 
"SULT6B1 WILD-TYPE" 

Clustering(506) Variable = LDHA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LDHA MUTATED        2      0      0      0      0
  LDHA WILD-TYPE     30     18     46     27     23
D506V1, multiclass
[1] "Remove cluster labels:" "LDHA MUTATED"          
clus
  LDHA MUTATED LDHA WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LDHA MUTATED        2      0      0
  LDHA WILD-TYPE     41     67     36
D506V2, multiclass
[1] "Remove cluster labels:" "LDHA MUTATED"          
clus
  LDHA MUTATED LDHA WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" "LDHA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LDHA MUTATED        1      3      5
  LDHA WILD-TYPE     41    170    142
D506V3, multiclass
        clus
vv       LDHA MUTATED LDHA WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LDHA MUTATED        1      3      4
  LDHA WILD-TYPE     61     70     71
D506V4, multiclass
        clus
vv       LDHA MUTATED LDHA WILD-TYPE
  CLUS_1            1             61
  CLUS_2            3             70
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LDHA MUTATED        2      1      5
  LDHA WILD-TYPE     68    119     95
D506V5, multiclass
        clus
vv       LDHA MUTATED LDHA WILD-TYPE
  CLUS_1            2             68
  CLUS_2            1            119
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LDHA MUTATED        2      0      0      0      0      3      3      0      0
  LDHA WILD-TYPE     39     26     30     29     39     66     17     14     22
D506V6, multiclass
        clus
vv       LDHA MUTATED LDHA WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LDHA MUTATED        1      3      3      3
  LDHA WILD-TYPE     99     69     69    118
D506V7, multiclass
        clus
vv       LDHA MUTATED LDHA WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LDHA MUTATED        2      2      3      1      2
  LDHA WILD-TYPE     57     73     71    118     36
D506V8, multiclass
        clus
vv       LDHA MUTATED LDHA WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LDHA MUTATED        4      4      0      0      1
  LDHA WILD-TYPE     47     72     61     71     94
D506V9, multiclass
        clus
vv       LDHA MUTATED LDHA WILD-TYPE
  CLUS_1            4             47
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LDHA MUTATED        0      3      1      1      0      2      1      1      0
  LDHA WILD-TYPE     69     45     38     15     53     18     20     37     50
D506V10, multiclass
        clus
vv       LDHA MUTATED LDHA WILD-TYPE
  CLUS_1            0             69
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LDHA MUTATED        0      0      0      2      1      0
  LDHA WILD-TYPE     13     16     14      9     10      9
D506V11, multiclass
        clus
vv       LDHA MUTATED LDHA WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            2              9
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LDHA MUTATED        0      0      1      0      0      0      2      0      0
  LDHA WILD-TYPE     11      7      6      9      8      7      9      9      5
D506V12, multiclass
        clus
vv       LDHA MUTATED LDHA WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(507) Variable = EIF4A2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF4A2 MUTATED        0      1      2      0      1
  EIF4A2 WILD-TYPE     32     17     44     27     22
D507V1, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              0               32
  CLUS_2              1               17
  CLUS_3              2               44
  CLUS_4              0               27
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4A2 MUTATED        0      2      2
  EIF4A2 WILD-TYPE     43     65     34
D507V2, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              0               43
  CLUS_2              2               65
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4A2 MUTATED        1      4      5
  EIF4A2 WILD-TYPE     41    169    142
D507V3, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4A2 MUTATED        3      0      3
  EIF4A2 WILD-TYPE     59     73     72
D507V4, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4A2 MUTATED        1      5      3
  EIF4A2 WILD-TYPE     69    115     97
D507V5, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF4A2 MUTATED        1      3      0      1      1      2      0      1
  EIF4A2 WILD-TYPE     40     23     30     28     38     67     20     13
                  vv
clus               CLUS_9
  EIF4A2 MUTATED        0
  EIF4A2 WILD-TYPE     22
D507V6, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              3               23
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF4A2 MUTATED        1      3      3      3
  EIF4A2 WILD-TYPE     99     69     69    118
D507V7, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF4A2 MUTATED        2      0      3      5      0
  EIF4A2 WILD-TYPE     57     75     71    114     38
D507V8, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              5              114
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF4A2 MUTATED        0      2      4      1      2
  EIF4A2 WILD-TYPE     51     74     57     70     93
D507V9, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              4               57
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF4A2 MUTATED        0      3      1      2      0      0      1      1
  EIF4A2 WILD-TYPE     69     45     38     14     53     20     20     37
                  vv
clus               CLUS_9
  EIF4A2 MUTATED        1
  EIF4A2 WILD-TYPE     49
D507V10, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EIF4A2 MUTATED        0      1      0      0      0      1
  EIF4A2 WILD-TYPE     13     15     14     11     11      8
D507V11, multiclass
[1] "Remove cluster labels:" "EIF4A2 MUTATED"        
clus
  EIF4A2 MUTATED EIF4A2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6805       TCGA-F4-6807 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF4A2 MUTATED        0      1      0      0      0      1      0      0
  EIF4A2 WILD-TYPE     11      6      7      9      8      6     11      9
                  vv
clus               CLUS_9
  EIF4A2 MUTATED        0
  EIF4A2 WILD-TYPE      5
D507V12, multiclass
[1] "Remove cluster labels:" "EIF4A2 MUTATED"        
clus
  EIF4A2 MUTATED EIF4A2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6805       TCGA-F4-6807 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 

Clustering(508) Variable = RCSD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RCSD1 MUTATED        2      0      1      0      0
  RCSD1 WILD-TYPE     30     18     45     27     23
D508V1, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RCSD1 MUTATED        2      0      1
  RCSD1 WILD-TYPE     41     67     35
D508V2, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RCSD1 MUTATED        2      5      7
  RCSD1 WILD-TYPE     40    168    140
D508V3, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RCSD1 MUTATED        4      2      5
  RCSD1 WILD-TYPE     58     71     70
D508V4, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RCSD1 MUTATED        2      5      5
  RCSD1 WILD-TYPE     68    115     95
D508V5, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RCSD1 MUTATED        4      1      0      2      2      3      0      0
  RCSD1 WILD-TYPE     37     25     30     27     37     66     20     14
                 vv
clus              CLUS_9
  RCSD1 MUTATED        0
  RCSD1 WILD-TYPE     22
D508V6, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RCSD1 MUTATED        1      4      6      3
  RCSD1 WILD-TYPE     99     68     66    118
D508V7, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             6              66
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RCSD1 MUTATED        3      1      7      1      2
  RCSD1 WILD-TYPE     56     74     67    118     36
D508V8, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             7              67
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RCSD1 MUTATED        2      7      2      0      3
  RCSD1 WILD-TYPE     49     69     59     71     92
D508V9, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RCSD1 MUTATED        2      6      1      2      1      0      0      2
  RCSD1 WILD-TYPE     67     42     38     14     52     20     21     36
                 vv
clus              CLUS_9
  RCSD1 MUTATED        0
  RCSD1 WILD-TYPE     50
D508V10, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             6              42
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RCSD1 MUTATED        0      2      0      1      2      0
  RCSD1 WILD-TYPE     13     14     14     10      9      9
D508V11, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RCSD1 MUTATED        1      0      2      1      0      0      1      0
  RCSD1 WILD-TYPE     10      7      5      8      8      7     10      9
                 vv
clus              CLUS_9
  RCSD1 MUTATED        0
  RCSD1 WILD-TYPE      5
D508V12, multiclass
        clus
vv       RCSD1 MUTATED RCSD1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             2               5
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(509) Variable = EIF5B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF5B MUTATED        2      0      0      0      0
  EIF5B WILD-TYPE     30     18     46     27     23
D509V1, multiclass
[1] "Remove cluster labels:" "EIF5B MUTATED"         
clus
  EIF5B MUTATED EIF5B WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EIF5B MUTATED        2      0      0
  EIF5B WILD-TYPE     41     67     36
D509V2, multiclass
[1] "Remove cluster labels:" "EIF5B MUTATED"         
clus
  EIF5B MUTATED EIF5B WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" "EIF5B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EIF5B MUTATED        1      1     14
  EIF5B WILD-TYPE     41    172    133
D509V3, multiclass
        clus
vv       EIF5B MUTATED EIF5B WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EIF5B MUTATED        3      0     10
  EIF5B WILD-TYPE     59     73     65
D509V4, multiclass
        clus
vv       EIF5B MUTATED EIF5B WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EIF5B MUTATED        4      4      5
  EIF5B WILD-TYPE     66    116     95
D509V5, multiclass
        clus
vv       EIF5B MUTATED EIF5B WILD-TYPE
  CLUS_1             4              66
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF5B MUTATED        1      2      1      1      2      4      1      0
  EIF5B WILD-TYPE     40     24     29     28     37     65     19     14
                 vv
clus              CLUS_9
  EIF5B MUTATED        1
  EIF5B WILD-TYPE     21
D509V6, multiclass
        clus
vv       EIF5B MUTATED EIF5B WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF5B MUTATED        0      8      4      4
  EIF5B WILD-TYPE    100     64     68    117
D509V7, multiclass
        clus
vv       EIF5B MUTATED EIF5B WILD-TYPE
  CLUS_1             0             100
  CLUS_2             8              64
  CLUS_3             4              68
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF5B MUTATED        1      1     10      1      3
  EIF5B WILD-TYPE     58     74     64    118     35
D509V8, multiclass
        clus
vv       EIF5B MUTATED EIF5B WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3            10              64
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF5B MUTATED        1      9      1      0      5
  EIF5B WILD-TYPE     50     67     60     71     90
D509V9, multiclass
        clus
vv       EIF5B MUTATED EIF5B WILD-TYPE
  CLUS_1             1              50
  CLUS_2             9              67
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF5B MUTATED        3      2      0      4      1      1      0      4
  EIF5B WILD-TYPE     66     46     39     12     52     19     21     34
                 vv
clus              CLUS_9
  EIF5B MUTATED        1
  EIF5B WILD-TYPE     49
D509V10, multiclass
        clus
vv       EIF5B MUTATED EIF5B WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EIF5B MUTATED        0      0      0      0      4      0
  EIF5B WILD-TYPE     13     16     14     11      7      9
D509V11, multiclass
        clus
vv       EIF5B MUTATED EIF5B WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF5B MUTATED        0      0      0      2      1      0      1      0
  EIF5B WILD-TYPE     11      7      7      7      7      7     10      9
                 vv
clus              CLUS_9
  EIF5B MUTATED        0
  EIF5B WILD-TYPE      5
D509V12, multiclass
        clus
vv       EIF5B MUTATED EIF5B WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(510) Variable = FGFR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGFR1 MUTATED        2      0      0      0      0
  FGFR1 WILD-TYPE     30     18     46     27     23
D510V1, multiclass
[1] "Remove cluster labels:" "FGFR1 MUTATED"         
clus
  FGFR1 MUTATED FGFR1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR1 MUTATED        1      0      1
  FGFR1 WILD-TYPE     42     67     35
D510V2, multiclass
[1] "Remove cluster labels:" "FGFR1 MUTATED"         
clus
  FGFR1 MUTATED FGFR1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" "FGFR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR1 MUTATED        1      4     12
  FGFR1 WILD-TYPE     41    169    135
D510V3, multiclass
        clus
vv       FGFR1 MUTATED FGFR1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR1 MUTATED        3      4      8
  FGFR1 WILD-TYPE     59     69     67
D510V4, multiclass
        clus
vv       FGFR1 MUTATED FGFR1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR1 MUTATED        0      8      5
  FGFR1 WILD-TYPE     70    112     95
D510V5, multiclass
        clus
vv       FGFR1 MUTATED FGFR1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             8             112
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FGFR1 MUTATED        2      4      0      2      1      3      0      1
  FGFR1 WILD-TYPE     39     22     30     27     38     66     20     13
                 vv
clus              CLUS_9
  FGFR1 MUTATED        0
  FGFR1 WILD-TYPE     22
D510V6, multiclass
        clus
vv       FGFR1 MUTATED FGFR1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             4              22
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FGFR1 MUTATED        2      9      2      4
  FGFR1 WILD-TYPE     98     63     70    117
D510V7, multiclass
        clus
vv       FGFR1 MUTATED FGFR1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             9              63
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGFR1 MUTATED        2      2      9      3      1
  FGFR1 WILD-TYPE     57     73     65    116     37
D510V8, multiclass
        clus
vv       FGFR1 MUTATED FGFR1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             9              65
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGFR1 MUTATED        0      9      2      2      4
  FGFR1 WILD-TYPE     51     67     59     69     91
D510V9, multiclass
        clus
vv       FGFR1 MUTATED FGFR1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             9              67
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FGFR1 MUTATED        3      2      1      3      2      2      0      2
  FGFR1 WILD-TYPE     66     46     38     13     51     18     21     36
                 vv
clus              CLUS_9
  FGFR1 MUTATED        2
  FGFR1 WILD-TYPE     48
D510V10, multiclass
        clus
vv       FGFR1 MUTATED FGFR1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FGFR1 MUTATED        0      0      1      1      1      0
  FGFR1 WILD-TYPE     13     16     13     10     10      9
D510V11, multiclass
        clus
vv       FGFR1 MUTATED FGFR1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FGFR1 MUTATED        0      0      1      1      0      0      1      0
  FGFR1 WILD-TYPE     11      7      6      8      8      7     10      9
                 vv
clus              CLUS_9
  FGFR1 MUTATED        0
  FGFR1 WILD-TYPE      5
D510V12, multiclass
        clus
vv       FGFR1 MUTATED FGFR1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(511) Variable = ADNP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADNP2 MUTATED        2      0      0      0      0
  ADNP2 WILD-TYPE     30     18     46     27     23
D511V1, multiclass
[1] "Remove cluster labels:" "ADNP2 MUTATED"         
clus
  ADNP2 MUTATED ADNP2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADNP2 MUTATED        2      0      0
  ADNP2 WILD-TYPE     41     67     36
D511V2, multiclass
[1] "Remove cluster labels:" "ADNP2 MUTATED"         
clus
  ADNP2 MUTATED ADNP2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADNP2 MUTATED        1      3     11
  ADNP2 WILD-TYPE     41    170    136
D511V3, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADNP2 MUTATED        3      1      8
  ADNP2 WILD-TYPE     59     72     67
D511V4, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADNP2 MUTATED        2      8      4
  ADNP2 WILD-TYPE     68    112     96
D511V5, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             8             112
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADNP2 MUTATED        1      1      2      2      1      3      3      1
  ADNP2 WILD-TYPE     40     25     28     27     38     66     17     13
                 vv
clus              CLUS_9
  ADNP2 MUTATED        0
  ADNP2 WILD-TYPE     22
D511V6, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADNP2 MUTATED        1      8      2      4
  ADNP2 WILD-TYPE     99     64     70    117
D511V7, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             8              64
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADNP2 MUTATED        0      4      7      2      2
  ADNP2 WILD-TYPE     59     71     67    117     36
D511V8, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             4              71
  CLUS_3             7              67
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADNP2 MUTATED        1      7      1      2      3
  ADNP2 WILD-TYPE     50     69     60     69     92
D511V9, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADNP2 MUTATED        7      0      0      2      1      1      0      1
  ADNP2 WILD-TYPE     62     48     39     14     52     19     21     37
                 vv
clus              CLUS_9
  ADNP2 MUTATED        2
  ADNP2 WILD-TYPE     48
D511V10, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             7              62
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADNP2 MUTATED        0      0      2      0      1      0
  ADNP2 WILD-TYPE     13     16     12     11     10      9
D511V11, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADNP2 MUTATED        0      0      0      0      2      0      1      0
  ADNP2 WILD-TYPE     11      7      7      9      6      7     10      9
                 vv
clus              CLUS_9
  ADNP2 MUTATED        0
  ADNP2 WILD-TYPE      5
D511V12, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(512) Variable = IRAK3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRAK3 MUTATED        0      0      0      1      0
  IRAK3 WILD-TYPE     32     18     46     26     23
D512V1, multiclass
[1] "Remove cluster labels:" "IRAK3 MUTATED"         
clus
  IRAK3 MUTATED IRAK3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AY-4071 
"IRAK3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IRAK3 MUTATED        1      0      0
  IRAK3 WILD-TYPE     42     67     36
D512V2, multiclass
[1] "Remove cluster labels:" "IRAK3 MUTATED"         
clus
  IRAK3 MUTATED IRAK3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AY-4071 
"IRAK3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IRAK3 MUTATED        1      1      6
  IRAK3 WILD-TYPE     41    172    141
D512V3, multiclass
        clus
vv       IRAK3 MUTATED IRAK3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IRAK3 MUTATED        3      1      3
  IRAK3 WILD-TYPE     59     72     72
D512V4, multiclass
        clus
vv       IRAK3 MUTATED IRAK3 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IRAK3 MUTATED        1      2      4
  IRAK3 WILD-TYPE     69    118     96
D512V5, multiclass
        clus
vv       IRAK3 MUTATED IRAK3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IRAK3 MUTATED        1      0      1      0      1      3      0      1
  IRAK3 WILD-TYPE     40     26     29     29     38     66     20     13
                 vv
clus              CLUS_9
  IRAK3 MUTATED        0
  IRAK3 WILD-TYPE     22
D512V6, multiclass
        clus
vv       IRAK3 MUTATED IRAK3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IRAK3 MUTATED        1      5      1      1
  IRAK3 WILD-TYPE     99     67     71    120
D512V7, multiclass
        clus
vv       IRAK3 MUTATED IRAK3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRAK3 MUTATED        1      3      3      0      1
  IRAK3 WILD-TYPE     58     72     71    119     37
D512V8, multiclass
        clus
vv       IRAK3 MUTATED IRAK3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRAK3 MUTATED        1      3      1      0      2
  IRAK3 WILD-TYPE     50     73     60     71     93
D512V9, multiclass
        clus
vv       IRAK3 MUTATED IRAK3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IRAK3 MUTATED        1      1      1      2      0      0      0      1
  IRAK3 WILD-TYPE     68     47     38     14     53     20     21     37
                 vv
clus              CLUS_9
  IRAK3 MUTATED        1
  IRAK3 WILD-TYPE     49
D512V10, multiclass
        clus
vv       IRAK3 MUTATED IRAK3 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IRAK3 MUTATED        0      0      0      0      1      0
  IRAK3 WILD-TYPE     13     16     14     11     10      9
D512V11, multiclass
[1] "Remove cluster labels:" "IRAK3 MUTATED"         
clus
  IRAK3 MUTATED IRAK3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-G4-6628 
"IRAK3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IRAK3 MUTATED        0      0      0      1      0      0      0      0
  IRAK3 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  IRAK3 MUTATED        0
  IRAK3 WILD-TYPE      5
D512V12, multiclass
[1] "Remove cluster labels:" "IRAK3 MUTATED"         
clus
  IRAK3 MUTATED IRAK3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625 
"IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" "IRAK3 WILD-TYPE" 
     TCGA-G4-6628 
"IRAK3 WILD-TYPE" 

Clustering(513) Variable = KIAA0195 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0195 MUTATED        1      1      1      0      0
  KIAA0195 WILD-TYPE     31     17     45     27     23
D513V1, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                1                 17
  CLUS_3                1                 45
  CLUS_4                0                 27
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0195 MUTATED        1      2      0
  KIAA0195 WILD-TYPE     42     65     36
D513V2, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                2                 65
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0195 MUTATED        0      3     14
  KIAA0195 WILD-TYPE     42    170    133
D513V3, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3               14                133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0195 MUTATED        4      1      8
  KIAA0195 WILD-TYPE     58     72     67
D513V4, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                1                 72
  CLUS_3                8                 67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0195 MUTATED        2      3     10
  KIAA0195 WILD-TYPE     68    117     90
D513V5, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                3                117
  CLUS_3               10                 90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0195 MUTATED        1      0      2      1      0      8      2      0
  KIAA0195 WILD-TYPE     40     26     28     28     39     61     18     14
                    vv
clus                 CLUS_9
  KIAA0195 MUTATED        1
  KIAA0195 WILD-TYPE     21
D513V6, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                2                 28
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                8                 61
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0195 MUTATED        1      7      5      4
  KIAA0195 WILD-TYPE     99     65     67    117
D513V7, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                7                 65
  CLUS_3                5                 67
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0195 MUTATED        0      1     12      3      1
  KIAA0195 WILD-TYPE     59     74     62    116     37
D513V8, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3               12                 62
  CLUS_4                3                116
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0195 MUTATED        1     10      2      1      2
  KIAA0195 WILD-TYPE     50     66     59     70     93
D513V9, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2               10                 66
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0195 MUTATED        0      5      0      4      2      2      1      1
  KIAA0195 WILD-TYPE     69     43     39     12     51     18     20     37
                    vv
clus                 CLUS_9
  KIAA0195 MUTATED        1
  KIAA0195 WILD-TYPE     49
D513V10, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                5                 43
  CLUS_3                0                 39
  CLUS_4                4                 12
  CLUS_5                2                 51
  CLUS_6                2                 18
  CLUS_7                1                 20
  CLUS_8                1                 37
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA0195 MUTATED        1      1      2      0      1      0
  KIAA0195 WILD-TYPE     12     15     12     11     10      9
D513V11, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                1                 15
  CLUS_3                2                 12
  CLUS_4                0                 11
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0195 MUTATED        0      0      0      0      1      1      2      0
  KIAA0195 WILD-TYPE     11      7      7      9      7      6      9      9
                    vv
clus                 CLUS_9
  KIAA0195 MUTATED        1
  KIAA0195 WILD-TYPE      4
D513V12, multiclass
        clus
vv       KIAA0195 MUTATED KIAA0195 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                1                  7
  CLUS_6                1                  6
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                1                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(514) Variable = AGBL2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGBL2 MUTATED        1      0      0      3      0
  AGBL2 WILD-TYPE     31     18     46     24     23
D514V1, multiclass
        clus
vv       AGBL2 MUTATED AGBL2 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGBL2 MUTATED        1      2      1
  AGBL2 WILD-TYPE     42     65     35
D514V2, multiclass
        clus
vv       AGBL2 MUTATED AGBL2 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGBL2 MUTATED        0      4     10
  AGBL2 WILD-TYPE     42    169    137
D514V3, multiclass
        clus
vv       AGBL2 MUTATED AGBL2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGBL2 MUTATED        2      1      7
  AGBL2 WILD-TYPE     60     72     68
D514V4, multiclass
        clus
vv       AGBL2 MUTATED AGBL2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGBL2 MUTATED        2      5      2
  AGBL2 WILD-TYPE     68    115     98
D514V5, multiclass
        clus
vv       AGBL2 MUTATED AGBL2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGBL2 MUTATED        2      0      1      4      0      2      0      0
  AGBL2 WILD-TYPE     39     26     29     25     39     67     20     14
                 vv
clus              CLUS_9
  AGBL2 MUTATED        0
  AGBL2 WILD-TYPE     22
D514V6, multiclass
        clus
vv       AGBL2 MUTATED AGBL2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AGBL2 MUTATED        4      5      1      4
  AGBL2 WILD-TYPE     96     67     71    117
D514V7, multiclass
        clus
vv       AGBL2 MUTATED AGBL2 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGBL2 MUTATED        0      5      5      3      1
  AGBL2 WILD-TYPE     59     70     69    116     37
D514V8, multiclass
        clus
vv       AGBL2 MUTATED AGBL2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             5              70
  CLUS_3             5              69
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGBL2 MUTATED        1      8      0      1      2
  AGBL2 WILD-TYPE     50     68     61     70     93
D514V9, multiclass
        clus
vv       AGBL2 MUTATED AGBL2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             8              68
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGBL2 MUTATED        2      2      1      2      3      1      0      0
  AGBL2 WILD-TYPE     67     46     38     14     50     19     21     38
                 vv
clus              CLUS_9
  AGBL2 MUTATED        1
  AGBL2 WILD-TYPE     49
D514V10, multiclass
        clus
vv       AGBL2 MUTATED AGBL2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AGBL2 MUTATED        0      1      0      0      0      0
  AGBL2 WILD-TYPE     13     15     14     11     11      9
D514V11, multiclass
[1] "Remove cluster labels:" "AGBL2 MUTATED"         
clus
  AGBL2 MUTATED AGBL2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-G4-6628 
"AGBL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGBL2 MUTATED        0      0      0      0      0      0      1      0
  AGBL2 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  AGBL2 MUTATED        0
  AGBL2 WILD-TYPE      5
D514V12, multiclass
[1] "Remove cluster labels:" "AGBL2 MUTATED"         
clus
  AGBL2 MUTATED AGBL2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" "AGBL2 WILD-TYPE" 
     TCGA-G4-6628 
"AGBL2 WILD-TYPE" 

Clustering(515) Variable = OR1J2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR1J2 MUTATED        0      0      0      0      0
  OR1J2 WILD-TYPE     32     18     46     27     23
D515V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR1J2 MUTATED        0      0      0
  OR1J2 WILD-TYPE     43     67     36
D515V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR1J2 MUTATED        1      5      4
  OR1J2 WILD-TYPE     41    168    143
D515V3, multiclass
        clus
vv       OR1J2 MUTATED OR1J2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR1J2 MUTATED        1      5      4
  OR1J2 WILD-TYPE     61     68     71
D515V4, multiclass
        clus
vv       OR1J2 MUTATED OR1J2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             5              68
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR1J2 MUTATED        1      5      3
  OR1J2 WILD-TYPE     69    115     97
D515V5, multiclass
        clus
vv       OR1J2 MUTATED OR1J2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR1J2 MUTATED        1      3      1      2      0      1      1      0
  OR1J2 WILD-TYPE     40     23     29     27     39     68     19     14
                 vv
clus              CLUS_9
  OR1J2 MUTATED        0
  OR1J2 WILD-TYPE     22
D515V6, multiclass
        clus
vv       OR1J2 MUTATED OR1J2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR1J2 MUTATED        5      5      0      0
  OR1J2 WILD-TYPE     95     67     72    121
D515V7, multiclass
        clus
vv       OR1J2 MUTATED OR1J2 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             5              67
  CLUS_3             0              72
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR1J2 MUTATED        2      6      2      0      0
  OR1J2 WILD-TYPE     57     69     72    119     38
D515V8, multiclass
        clus
vv       OR1J2 MUTATED OR1J2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             6              69
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR1J2 MUTATED        4      6      0      0      0
  OR1J2 WILD-TYPE     47     70     61     71     95
D515V9, multiclass
        clus
vv       OR1J2 MUTATED OR1J2 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR1J2 MUTATED        3      0      2      1      2      2      0      0
  OR1J2 WILD-TYPE     66     48     37     15     51     18     21     38
                 vv
clus              CLUS_9
  OR1J2 MUTATED        0
  OR1J2 WILD-TYPE     50
D515V10, multiclass
        clus
vv       OR1J2 MUTATED OR1J2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR1J2 MUTATED        0      0      0      0      0      0
  OR1J2 WILD-TYPE     13     16     14     11     11      9
D515V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR1J2 MUTATED        0      0      0      0      0      0      0      0
  OR1J2 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  OR1J2 MUTATED        0
  OR1J2 WILD-TYPE      5
D515V12, multiclass

Clustering(516) Variable = PTPRC MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRC MUTATED        5      0      0      1      1
  PTPRC WILD-TYPE     27     18     46     26     22
D516V1, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRC MUTATED        5      1      1
  PTPRC WILD-TYPE     38     66     35
D516V2, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRC MUTATED        0      6     19
  PTPRC WILD-TYPE     42    167    128
D516V3, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             0              42
  CLUS_2             6             167
  CLUS_3            19             128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRC MUTATED        8      2      7
  PTPRC WILD-TYPE     54     71     68
D516V4, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             8              54
  CLUS_2             2              71
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRC MUTATED        4      4     12
  PTPRC WILD-TYPE     66    116     88
D516V5, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             4              66
  CLUS_2             4             116
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRC MUTATED        4      2      2      0      2      7      2      1
  PTPRC WILD-TYPE     37     24     28     29     37     62     18     13
                 vv
clus              CLUS_9
  PTPRC MUTATED        0
  PTPRC WILD-TYPE     22
D516V6, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             4              37
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             7              62
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRC MUTATED        2      5      9      9
  PTPRC WILD-TYPE     98     67     63    112
D516V7, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             9              63
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRC MUTATED        6      3      7      3      6
  PTPRC WILD-TYPE     53     72     67    116     32
D516V8, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             6              53
  CLUS_2             3              72
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRC MUTATED        2      8      5      1      9
  PTPRC WILD-TYPE     49     68     56     70     86
D516V9, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             2              49
  CLUS_2             8              68
  CLUS_3             5              56
  CLUS_4             1              70
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRC MUTATED        3      4      1      4      3      2      2      4
  PTPRC WILD-TYPE     66     44     38     12     50     18     19     34
                 vv
clus              CLUS_9
  PTPRC MUTATED        2
  PTPRC WILD-TYPE     48
D516V10, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             3              66
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPRC MUTATED        0      2      1      2      3      2
  PTPRC WILD-TYPE     13     14     13      9      8      7
D516V11, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             2               9
  CLUS_5             3               8
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRC MUTATED        2      1      0      1      1      1      4      0
  PTPRC WILD-TYPE      9      6      7      8      7      6      7      9
                 vv
clus              CLUS_9
  PTPRC MUTATED        0
  PTPRC WILD-TYPE      5
D516V12, multiclass
        clus
vv       PTPRC MUTATED PTPRC WILD-TYPE
  CLUS_1             2               9
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             4               7
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(517) Variable = ARMCX5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARMCX5 MUTATED        2      0      0      1      0
  ARMCX5 WILD-TYPE     30     18     46     26     23
D517V1, multiclass
        clus
vv       ARMCX5 MUTATED ARMCX5 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARMCX5 MUTATED        3      0      0
  ARMCX5 WILD-TYPE     40     67     36
D517V2, multiclass
        clus
vv       ARMCX5 MUTATED ARMCX5 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARMCX5 MUTATED        2      2      3
  ARMCX5 WILD-TYPE     40    171    144
D517V3, multiclass
        clus
vv       ARMCX5 MUTATED ARMCX5 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              2              171
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARMCX5 MUTATED        0      1      3
  ARMCX5 WILD-TYPE     62     72     72
D517V4, multiclass
        clus
vv       ARMCX5 MUTATED ARMCX5 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARMCX5 MUTATED        1      2      4
  ARMCX5 WILD-TYPE     69    118     96
D517V5, multiclass
        clus
vv       ARMCX5 MUTATED ARMCX5 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARMCX5 MUTATED        1      0      0      1      2      2      1      0
  ARMCX5 WILD-TYPE     40     26     30     28     37     67     19     14
                  vv
clus               CLUS_9
  ARMCX5 MUTATED        0
  ARMCX5 WILD-TYPE     22
D517V6, multiclass
        clus
vv       ARMCX5 MUTATED ARMCX5 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARMCX5 MUTATED        1      2      1      3
  ARMCX5 WILD-TYPE     99     70     71    118
D517V7, multiclass
        clus
vv       ARMCX5 MUTATED ARMCX5 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARMCX5 MUTATED        1      1      2      0      3
  ARMCX5 WILD-TYPE     58     74     72    119     35
D517V8, multiclass
        clus
vv       ARMCX5 MUTATED ARMCX5 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARMCX5 MUTATED        2      2      0      1      2
  ARMCX5 WILD-TYPE     49     74     61     70     93
D517V9, multiclass
        clus
vv       ARMCX5 MUTATED ARMCX5 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARMCX5 MUTATED        1      0      1      2      0      1      0      2
  ARMCX5 WILD-TYPE     68     48     38     14     53     19     21     36
                  vv
clus               CLUS_9
  ARMCX5 MUTATED        0
  ARMCX5 WILD-TYPE     50
D517V10, multiclass
        clus
vv       ARMCX5 MUTATED ARMCX5 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARMCX5 MUTATED        0      0      0      0      1      1
  ARMCX5 WILD-TYPE     13     16     14     11     10      8
D517V11, multiclass
[1] "Remove cluster labels:" "ARMCX5 MUTATED"        
clus
  ARMCX5 MUTATED ARMCX5 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARMCX5 MUTATED        1      0      0      1      0      0      0      0
  ARMCX5 WILD-TYPE     10      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  ARMCX5 MUTATED        0
  ARMCX5 WILD-TYPE      5
D517V12, multiclass
[1] "Remove cluster labels:" "ARMCX5 MUTATED"        
clus
  ARMCX5 MUTATED ARMCX5 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" "ARMCX5 WILD-TYPE" 

Clustering(518) Variable = PPIG MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPIG MUTATED        3      0      0      2      0
  PPIG WILD-TYPE     29     18     46     25     23
D518V1, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PPIG MUTATED        4      1      0
  PPIG WILD-TYPE     39     66     36
D518V2, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PPIG MUTATED        0      1     11
  PPIG WILD-TYPE     42    172    136
D518V3, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PPIG MUTATED        3      2      2
  PPIG WILD-TYPE     59     71     73
D518V4, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            3             59
  CLUS_2            2             71
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PPIG MUTATED        0      6      5
  PPIG WILD-TYPE     70    114     95
D518V5, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            114
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PPIG MUTATED        0      1      2      0      0      5      1      2      0
  PPIG WILD-TYPE     41     25     28     29     39     64     19     12     22
D518V6, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            2             12
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPIG MUTATED        2      5      1      4
  PPIG WILD-TYPE     98     67     71    117
D518V7, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            1             71
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPIG MUTATED        0      3      4      1      4
  PPIG WILD-TYPE     59     72     70    118     34
D518V8, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            0             59
  CLUS_2            3             72
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPIG MUTATED        1      4      0      1      4
  PPIG WILD-TYPE     50     72     61     70     91
D518V9, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PPIG MUTATED        1      1      1      2      0      2      1      1      1
  PPIG WILD-TYPE     68     47     38     14     53     18     20     37     49
D518V10, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPIG MUTATED        2      0      0      0      2      0
  PPIG WILD-TYPE     11     16     14     11      9      9
D518V11, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            2             11
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PPIG MUTATED        0      0      0      2      0      0      1      1      0
  PPIG WILD-TYPE     11      7      7      7      8      7     10      8      5
D518V12, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(519) Variable = NFASC MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFASC MUTATED        7      1      1      2      1
  NFASC WILD-TYPE     25     17     45     25     22
D519V1, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             7              25
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NFASC MUTATED        7      2      3
  NFASC WILD-TYPE     36     65     33
D519V2, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             7              36
  CLUS_2             2              65
  CLUS_3             3              33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NFASC MUTATED        2      7     22
  NFASC WILD-TYPE     40    166    125
D519V3, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             2              40
  CLUS_2             7             166
  CLUS_3            22             125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NFASC MUTATED        7      5      7
  NFASC WILD-TYPE     55     68     68
D519V4, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             7              55
  CLUS_2             5              68
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NFASC MUTATED        3      8     15
  NFASC WILD-TYPE     67    112     85
D519V5, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             3              67
  CLUS_2             8             112
  CLUS_3            15              85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFASC MUTATED        4      0      2      3      5      9      3      0
  NFASC WILD-TYPE     37     26     28     26     34     60     17     14
                 vv
clus              CLUS_9
  NFASC MUTATED        0
  NFASC WILD-TYPE     22
D519V6, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             4              37
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             3              26
  CLUS_5             5              34
  CLUS_6             9              60
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFASC MUTATED        6      7      5     14
  NFASC WILD-TYPE     94     65     67    107
D519V7, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             6              94
  CLUS_2             7              65
  CLUS_3             5              67
  CLUS_4            14             107
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFASC MUTATED        1      8      9      6      8
  NFASC WILD-TYPE     58     67     65    113     30
D519V8, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             1              58
  CLUS_2             8              67
  CLUS_3             9              65
  CLUS_4             6             113
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFASC MUTATED        1     11      4      4     11
  NFASC WILD-TYPE     50     65     57     67     84
D519V9, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             1              50
  CLUS_2            11              65
  CLUS_3             4              57
  CLUS_4             4              67
  CLUS_5            11              84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFASC MUTATED        4      5      1      3      4      2      2      6
  NFASC WILD-TYPE     65     43     38     13     49     18     19     32
                 vv
clus              CLUS_9
  NFASC MUTATED        4
  NFASC WILD-TYPE     46
D519V10, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             4              65
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             4              49
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             6              32
  CLUS_9             4              46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFASC MUTATED        1      0      0      0      2      1
  NFASC WILD-TYPE     12     16     14     11      9      8
D519V11, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFASC MUTATED        0      0      0      1      0      1      1      1
  NFASC WILD-TYPE     11      7      7      8      8      6     10      8
                 vv
clus              CLUS_9
  NFASC MUTATED        0
  NFASC WILD-TYPE      5
D519V12, multiclass
        clus
vv       NFASC MUTATED NFASC WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(520) Variable = PLCH2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLCH2 MUTATED        0      0      0      1      0
  PLCH2 WILD-TYPE     32     18     46     26     23
D520V1, multiclass
[1] "Remove cluster labels:" "PLCH2 MUTATED"         
clus
  PLCH2 MUTATED PLCH2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AY-4071 
"PLCH2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCH2 MUTATED        1      0      0
  PLCH2 WILD-TYPE     42     67     36
D520V2, multiclass
[1] "Remove cluster labels:" "PLCH2 MUTATED"         
clus
  PLCH2 MUTATED PLCH2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" "PLCH2 WILD-TYPE" 
     TCGA-AY-4071 
"PLCH2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCH2 MUTATED        2      7     10
  PLCH2 WILD-TYPE     40    166    137
D520V3, multiclass
        clus
vv       PLCH2 MUTATED PLCH2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             7             166
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCH2 MUTATED        5      7      6
  PLCH2 WILD-TYPE     57     66     69
D520V4, multiclass
        clus
vv       PLCH2 MUTATED PLCH2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             7              66
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCH2 MUTATED        4      5      7
  PLCH2 WILD-TYPE     66    115     93
D520V5, multiclass
        clus
vv       PLCH2 MUTATED PLCH2 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             5             115
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLCH2 MUTATED        4      0      1      1      0      6      1      0
  PLCH2 WILD-TYPE     37     26     29     28     39     63     19     14
                 vv
clus              CLUS_9
  PLCH2 MUTATED        3
  PLCH2 WILD-TYPE     19
D520V6, multiclass
        clus
vv       PLCH2 MUTATED PLCH2 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLCH2 MUTATED        5      7      6      1
  PLCH2 WILD-TYPE     95     65     66    120
D520V7, multiclass
        clus
vv       PLCH2 MUTATED PLCH2 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             7              65
  CLUS_3             6              66
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLCH2 MUTATED        6      3      9      0      1
  PLCH2 WILD-TYPE     53     72     65    119     37
D520V8, multiclass
        clus
vv       PLCH2 MUTATED PLCH2 WILD-TYPE
  CLUS_1             6              53
  CLUS_2             3              72
  CLUS_3             9              65
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLCH2 MUTATED        3      6      7      2      1
  PLCH2 WILD-TYPE     48     70     54     69     94
D520V9, multiclass
        clus
vv       PLCH2 MUTATED PLCH2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             6              70
  CLUS_3             7              54
  CLUS_4             2              69
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLCH2 MUTATED        7      4      0      2      4      1      1      0
  PLCH2 WILD-TYPE     62     44     39     14     49     19     20     38
                 vv
clus              CLUS_9
  PLCH2 MUTATED        0
  PLCH2 WILD-TYPE     50
D520V10, multiclass
        clus
vv       PLCH2 MUTATED PLCH2 WILD-TYPE
  CLUS_1             7              62
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             4              49
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLCH2 MUTATED        3      2      1      1      1      2
  PLCH2 WILD-TYPE     10     14     13     10     10      7
D520V11, multiclass
        clus
vv       PLCH2 MUTATED PLCH2 WILD-TYPE
  CLUS_1             3              10
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLCH2 MUTATED        2      1      2      2      0      0      1      1
  PLCH2 WILD-TYPE      9      6      5      7      8      7     10      8
                 vv
clus              CLUS_9
  PLCH2 MUTATED        1
  PLCH2 WILD-TYPE      4
D520V12, multiclass
        clus
vv       PLCH2 MUTATED PLCH2 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             1               6
  CLUS_3             2               5
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(521) Variable = MTDH MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTDH MUTATED        1      0      1      1      0
  MTDH WILD-TYPE     31     18     45     26     23
D521V1, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTDH MUTATED        1      2      0
  MTDH WILD-TYPE     42     65     36
D521V2, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            1             42
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTDH MUTATED        1      3      8
  MTDH WILD-TYPE     41    170    139
D521V3, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTDH MUTATED        2      2      5
  MTDH WILD-TYPE     60     71     70
D521V4, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTDH MUTATED        1      5      3
  MTDH WILD-TYPE     69    115     97
D521V5, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTDH MUTATED        2      1      1      2      0      3      0      0      0
  MTDH WILD-TYPE     39     25     29     27     39     66     20     14     22
D521V6, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTDH MUTATED        2      4      3      3
  MTDH WILD-TYPE     98     68     69    118
D521V7, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTDH MUTATED        3      0      6      2      1
  MTDH WILD-TYPE     56     75     68    117     37
D521V8, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            3             56
  CLUS_2            0             75
  CLUS_3            6             68
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTDH MUTATED        0      4      3      2      3
  MTDH WILD-TYPE     51     72     58     69     92
D521V9, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            3             58
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTDH MUTATED        2      4      0      2      0      1      0      2      1
  MTDH WILD-TYPE     67     44     39     14     53     19     21     36     49
D521V10, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MTDH MUTATED        0      0      0      0      2      1
  MTDH WILD-TYPE     13     16     14     11      9      8
D521V11, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTDH MUTATED        0      0      0      1      0      0      1      1      0
  MTDH WILD-TYPE     11      7      7      8      8      7     10      8      5
D521V12, multiclass
        clus
vv       MTDH MUTATED MTDH WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(522) Variable = RGS22 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RGS22 MUTATED        0      0      0      2      0
  RGS22 WILD-TYPE     32     18     46     25     23
D522V1, multiclass
[1] "Remove cluster labels:" "RGS22 MUTATED"         
clus
  RGS22 MUTATED RGS22 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RGS22 MUTATED        1      1      0
  RGS22 WILD-TYPE     42     66     36
D522V2, multiclass
[1] "Remove cluster labels:" "RGS22 MUTATED"         
clus
  RGS22 MUTATED RGS22 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" "RGS22 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RGS22 MUTATED        2      4     18
  RGS22 WILD-TYPE     40    169    129
D522V3, multiclass
        clus
vv       RGS22 MUTATED RGS22 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4             169
  CLUS_3            18             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RGS22 MUTATED       11      2      9
  RGS22 WILD-TYPE     51     71     66
D522V4, multiclass
        clus
vv       RGS22 MUTATED RGS22 WILD-TYPE
  CLUS_1            11              51
  CLUS_2             2              71
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RGS22 MUTATED        2      9     10
  RGS22 WILD-TYPE     68    111     90
D522V5, multiclass
        clus
vv       RGS22 MUTATED RGS22 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             9             111
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RGS22 MUTATED        2      2      1      3      2      8      1      2
  RGS22 WILD-TYPE     39     24     29     26     37     61     19     12
                 vv
clus              CLUS_9
  RGS22 MUTATED        0
  RGS22 WILD-TYPE     22
D522V6, multiclass
        clus
vv       RGS22 MUTATED RGS22 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             2              37
  CLUS_6             8              61
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RGS22 MUTATED        2     10      9      3
  RGS22 WILD-TYPE     98     62     63    118
D522V7, multiclass
        clus
vv       RGS22 MUTATED RGS22 WILD-TYPE
  CLUS_1             2              98
  CLUS_2            10              62
  CLUS_3             9              63
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RGS22 MUTATED        3      3     15      2      1
  RGS22 WILD-TYPE     56     72     59    117     37
D522V8, multiclass
        clus
vv       RGS22 MUTATED RGS22 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3            15              59
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RGS22 MUTATED        3     11      5      1      3
  RGS22 WILD-TYPE     48     65     56     70     92
D522V9, multiclass
        clus
vv       RGS22 MUTATED RGS22 WILD-TYPE
  CLUS_1             3              48
  CLUS_2            11              65
  CLUS_3             5              56
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RGS22 MUTATED        5      7      1      4      2      2      0      0
  RGS22 WILD-TYPE     64     41     38     12     51     18     21     38
                 vv
clus              CLUS_9
  RGS22 MUTATED        2
  RGS22 WILD-TYPE     48
D522V10, multiclass
        clus
vv       RGS22 MUTATED RGS22 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             7              41
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RGS22 MUTATED        0      1      1      1      4      0
  RGS22 WILD-TYPE     13     15     13     10      7      9
D522V11, multiclass
        clus
vv       RGS22 MUTATED RGS22 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RGS22 MUTATED        1      0      0      3      0      0      3      0
  RGS22 WILD-TYPE     10      7      7      6      8      7      8      9
                 vv
clus              CLUS_9
  RGS22 MUTATED        0
  RGS22 WILD-TYPE      5
D522V12, multiclass
        clus
vv       RGS22 MUTATED RGS22 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(523) Variable = DMRTB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DMRTB1 MUTATED        0      0      0      0      1
  DMRTB1 WILD-TYPE     32     18     46     27     22
D523V1, multiclass
[1] "Remove cluster labels:" "DMRTB1 MUTATED"        
clus
  DMRTB1 MUTATED DMRTB1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AY-4071 
"DMRTB1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DMRTB1 MUTATED        0      0      1
  DMRTB1 WILD-TYPE     43     67     35
D523V2, multiclass
[1] "Remove cluster labels:" "DMRTB1 MUTATED"        
clus
  DMRTB1 MUTATED DMRTB1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AY-4071 
"DMRTB1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DMRTB1 MUTATED        1      1      4
  DMRTB1 WILD-TYPE     41    172    143
D523V3, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DMRTB1 MUTATED        1      1      3
  DMRTB1 WILD-TYPE     61     72     72
D523V4, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DMRTB1 MUTATED        2      0      3
  DMRTB1 WILD-TYPE     68    120     97
D523V5, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              0              120
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DMRTB1 MUTATED        0      0      0      0      2      3      0      0
  DMRTB1 WILD-TYPE     41     26     30     29     37     66     20     14
                  vv
clus               CLUS_9
  DMRTB1 MUTATED        0
  DMRTB1 WILD-TYPE     22
D523V6, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DMRTB1 MUTATED        0      2      2      2
  DMRTB1 WILD-TYPE    100     70     70    119
D523V7, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DMRTB1 MUTATED        0      0      4      2      0
  DMRTB1 WILD-TYPE     59     75     70    117     38
D523V8, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DMRTB1 MUTATED        0      3      1      2      0
  DMRTB1 WILD-TYPE     51     73     60     69     95
D523V9, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DMRTB1 MUTATED        1      2      0      1      0      0      0      0
  DMRTB1 WILD-TYPE     68     46     39     15     53     20     21     38
                  vv
clus               CLUS_9
  DMRTB1 MUTATED        2
  DMRTB1 WILD-TYPE     48
D523V10, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DMRTB1 MUTATED        0      0      0      0      1      0
  DMRTB1 WILD-TYPE     13     16     14     11     10      9
D523V11, multiclass
[1] "Remove cluster labels:" "DMRTB1 MUTATED"        
clus
  DMRTB1 MUTATED DMRTB1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-G4-6628 
"DMRTB1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DMRTB1 MUTATED        0      0      0      0      0      0      1      0
  DMRTB1 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  DMRTB1 MUTATED        0
  DMRTB1 WILD-TYPE      5
D523V12, multiclass
[1] "Remove cluster labels:" "DMRTB1 MUTATED"        
clus
  DMRTB1 MUTATED DMRTB1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" "DMRTB1 WILD-TYPE" 
      TCGA-G4-6628 
"DMRTB1 WILD-TYPE" 

Clustering(524) Variable = MAP3K4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP3K4 MUTATED        9      0      1      1      0
  MAP3K4 WILD-TYPE     23     18     45     26     23
D524V1, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1              9               23
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP3K4 MUTATED        8      1      2
  MAP3K4 WILD-TYPE     35     66     34
D524V2, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1              8               35
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP3K4 MUTATED        5      4     26
  MAP3K4 WILD-TYPE     37    169    121
D524V3, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1              5               37
  CLUS_2              4              169
  CLUS_3             26              121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP3K4 MUTATED       10      4      7
  MAP3K4 WILD-TYPE     52     69     68
D524V4, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1             10               52
  CLUS_2              4               69
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP3K4 MUTATED        7     11     12
  MAP3K4 WILD-TYPE     63    109     88
D524V5, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1              7               63
  CLUS_2             11              109
  CLUS_3             12               88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP3K4 MUTATED        3      5      2      3      5      8      2      1
  MAP3K4 WILD-TYPE     38     21     28     26     34     61     18     13
                  vv
clus               CLUS_9
  MAP3K4 MUTATED        1
  MAP3K4 WILD-TYPE     21
D524V6, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              5               21
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              5               34
  CLUS_6              8               61
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP3K4 MUTATED        5      7     10     14
  MAP3K4 WILD-TYPE     95     65     62    107
D524V7, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              7               65
  CLUS_3             10               62
  CLUS_4             14              107
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP3K4 MUTATED        5      5     11      5     10
  MAP3K4 WILD-TYPE     54     70     63    114     28
D524V8, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1              5               54
  CLUS_2              5               70
  CLUS_3             11               63
  CLUS_4              5              114
  CLUS_5             10               28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP3K4 MUTATED        1      8      7      5     14
  MAP3K4 WILD-TYPE     50     68     54     66     81
D524V9, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              8               68
  CLUS_3              7               54
  CLUS_4              5               66
  CLUS_5             14               81
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP3K4 MUTATED        5      6      1      2      5      0      2     11
  MAP3K4 WILD-TYPE     64     42     38     14     48     20     19     27
                  vv
clus               CLUS_9
  MAP3K4 MUTATED        3
  MAP3K4 WILD-TYPE     47
D524V10, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              6               42
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              5               48
  CLUS_6              0               20
  CLUS_7              2               19
  CLUS_8             11               27
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAP3K4 MUTATED        0      1      3      0      3      0
  MAP3K4 WILD-TYPE     13     15     11     11      8      9
D524V11, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              3               11
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP3K4 MUTATED        0      0      0      2      1      1      3      0
  MAP3K4 WILD-TYPE     11      7      7      7      7      6      8      9
                  vv
clus               CLUS_9
  MAP3K4 MUTATED        0
  MAP3K4 WILD-TYPE      5
D524V12, multiclass
        clus
vv       MAP3K4 MUTATED MAP3K4 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              3                8
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(525) Variable = PNPLA8 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PNPLA8 MUTATED        3      0      0      1      0
  PNPLA8 WILD-TYPE     29     18     46     26     23
D525V1, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PNPLA8 MUTATED        4      0      0
  PNPLA8 WILD-TYPE     39     67     36
D525V2, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PNPLA8 MUTATED        2      3     13
  PNPLA8 WILD-TYPE     40    170    134
D525V3, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3              170
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PNPLA8 MUTATED        6      2      7
  PNPLA8 WILD-TYPE     56     71     68
D525V4, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              2               71
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PNPLA8 MUTATED        1      6      7
  PNPLA8 WILD-TYPE     69    114     93
D525V5, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              6              114
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PNPLA8 MUTATED        2      1      1      0      3      5      0      2
  PNPLA8 WILD-TYPE     39     25     29     29     36     64     20     12
                  vv
clus               CLUS_9
  PNPLA8 MUTATED        0
  PNPLA8 WILD-TYPE     22
D525V6, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              3               36
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PNPLA8 MUTATED        4      5      5      4
  PNPLA8 WILD-TYPE     96     67     67    117
D525V7, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              5               67
  CLUS_3              5               67
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PNPLA8 MUTATED        2      6      6      0      4
  PNPLA8 WILD-TYPE     57     69     68    119     34
D525V8, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              6               69
  CLUS_3              6               68
  CLUS_4              0              119
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PNPLA8 MUTATED        2      7      3      1      4
  PNPLA8 WILD-TYPE     49     69     58     70     91
D525V9, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              7               69
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PNPLA8 MUTATED        4      6      1      1      1      0      0      3
  PNPLA8 WILD-TYPE     65     42     38     15     52     20     21     35
                  vv
clus               CLUS_9
  PNPLA8 MUTATED        1
  PNPLA8 WILD-TYPE     49
D525V10, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              6               42
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PNPLA8 MUTATED        0      1      0      0      3      0
  PNPLA8 WILD-TYPE     13     15     14     11      8      9
D525V11, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PNPLA8 MUTATED        0      0      0      1      0      1      2      0
  PNPLA8 WILD-TYPE     11      7      7      8      8      6      9      9
                  vv
clus               CLUS_9
  PNPLA8 MUTATED        0
  PNPLA8 WILD-TYPE      5
D525V12, multiclass
        clus
vv       PNPLA8 MUTATED PNPLA8 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(526) Variable = ALX4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALX4 MUTATED        1      0      0      0      0
  ALX4 WILD-TYPE     31     18     46     27     23
D526V1, multiclass
[1] "Remove cluster labels:" "ALX4 MUTATED"          
clus
  ALX4 MUTATED ALX4 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3950 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AY-4071 
"ALX4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALX4 MUTATED        1      0      0
  ALX4 WILD-TYPE     42     67     36
D526V2, multiclass
[1] "Remove cluster labels:" "ALX4 MUTATED"          
clus
  ALX4 MUTATED ALX4 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3950 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" "ALX4 WILD-TYPE" 
    TCGA-AY-4071 
"ALX4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALX4 MUTATED        1      1      9
  ALX4 WILD-TYPE     41    172    138
D526V3, multiclass
        clus
vv       ALX4 MUTATED ALX4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALX4 MUTATED        2      1      7
  ALX4 WILD-TYPE     60     72     68
D526V4, multiclass
        clus
vv       ALX4 MUTATED ALX4 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALX4 MUTATED        1      3      6
  ALX4 WILD-TYPE     69    117     94
D526V5, multiclass
        clus
vv       ALX4 MUTATED ALX4 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALX4 MUTATED        0      0      0      2      1      5      2      0      0
  ALX4 WILD-TYPE     41     26     30     27     38     64     18     14     22
D526V6, multiclass
        clus
vv       ALX4 MUTATED ALX4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALX4 MUTATED        1      7      2      1
  ALX4 WILD-TYPE     99     65     70    120
D526V7, multiclass
        clus
vv       ALX4 MUTATED ALX4 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            7             65
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALX4 MUTATED        1      0      9      0      1
  ALX4 WILD-TYPE     58     75     65    119     37
D526V8, multiclass
        clus
vv       ALX4 MUTATED ALX4 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            9             65
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALX4 MUTATED        1      9      0      0      1
  ALX4 WILD-TYPE     50     67     61     71     94
D526V9, multiclass
        clus
vv       ALX4 MUTATED ALX4 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            9             67
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALX4 MUTATED        2      3      0      4      1      0      1      0      0
  ALX4 WILD-TYPE     67     45     39     12     52     20     20     38     50
D526V10, multiclass
        clus
vv       ALX4 MUTATED ALX4 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ALX4 MUTATED        0      0      0      0      3      0
  ALX4 WILD-TYPE     13     16     14     11      8      9
D526V11, multiclass
        clus
vv       ALX4 MUTATED ALX4 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALX4 MUTATED        0      0      0      2      0      0      1      0      0
  ALX4 WILD-TYPE     11      7      7      7      8      7     10      9      5
D526V12, multiclass
        clus
vv       ALX4 MUTATED ALX4 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(527) Variable = ULK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ULK1 MUTATED        0      0      0      0      0
  ULK1 WILD-TYPE     32     18     46     27     23
D527V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ULK1 MUTATED        0      0      0
  ULK1 WILD-TYPE     43     67     36
D527V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ULK1 MUTATED        1      2      7
  ULK1 WILD-TYPE     41    171    140
D527V3, multiclass
        clus
vv       ULK1 MUTATED ULK1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ULK1 MUTATED        3      0      7
  ULK1 WILD-TYPE     59     73     68
D527V4, multiclass
        clus
vv       ULK1 MUTATED ULK1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ULK1 MUTATED        0      4      5
  ULK1 WILD-TYPE     70    116     95
D527V5, multiclass
        clus
vv       ULK1 MUTATED ULK1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ULK1 MUTATED        0      0      0      2      0      4      3      0      0
  ULK1 WILD-TYPE     41     26     30     27     39     65     17     14     22
D527V6, multiclass
        clus
vv       ULK1 MUTATED ULK1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ULK1 MUTATED        1      7      2      0
  ULK1 WILD-TYPE     99     65     70    121
D527V7, multiclass
        clus
vv       ULK1 MUTATED ULK1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            7             65
  CLUS_3            2             70
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ULK1 MUTATED        2      1      7      0      0
  ULK1 WILD-TYPE     57     74     67    119     38
D527V8, multiclass
        clus
vv       ULK1 MUTATED ULK1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            7             67
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ULK1 MUTATED        1      7      2      0      0
  ULK1 WILD-TYPE     50     69     59     71     95
D527V9, multiclass
        clus
vv       ULK1 MUTATED ULK1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            7             69
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ULK1 MUTATED        1      3      0      3      3      0      0      0      0
  ULK1 WILD-TYPE     68     45     39     13     50     20     21     38     50
D527V10, multiclass
        clus
vv       ULK1 MUTATED ULK1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ULK1 MUTATED        0      1      0      0      1      0
  ULK1 WILD-TYPE     13     15     14     11     10      9
D527V11, multiclass
[1] "Remove cluster labels:" "ULK1 MUTATED"          
clus
  ULK1 MUTATED ULK1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6600 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ULK1 MUTATED        1      0      0      1      0      0      0      0      0
  ULK1 WILD-TYPE     10      7      7      8      8      7     11      9      5
D527V12, multiclass
[1] "Remove cluster labels:" "ULK1 MUTATED"          
clus
  ULK1 MUTATED ULK1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6600 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" "ULK1 WILD-TYPE" 

Clustering(528) Variable = POLM MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLM MUTATED        1      0      0      0      0
  POLM WILD-TYPE     31     18     46     27     23
D528V1, multiclass
[1] "Remove cluster labels:" "POLM MUTATED"          
clus
  POLM MUTATED POLM WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AY-4071 
"POLM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLM MUTATED        1      0      0
  POLM WILD-TYPE     42     67     36
D528V2, multiclass
[1] "Remove cluster labels:" "POLM MUTATED"          
clus
  POLM MUTATED POLM WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AY-4071 
"POLM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLM MUTATED        0      2      9
  POLM WILD-TYPE     42    171    138
D528V3, multiclass
        clus
vv       POLM MUTATED POLM WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLM MUTATED        3      1      6
  POLM WILD-TYPE     59     72     69
D528V4, multiclass
        clus
vv       POLM MUTATED POLM WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLM MUTATED        1      4      5
  POLM WILD-TYPE     69    116     95
D528V5, multiclass
        clus
vv       POLM MUTATED POLM WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  POLM MUTATED        0      1      1      2      0      5      1      0      0
  POLM WILD-TYPE     41     25     29     27     39     64     19     14     22
D528V6, multiclass
        clus
vv       POLM MUTATED POLM WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  POLM MUTATED        1      6      3      1
  POLM WILD-TYPE     99     66     69    120
D528V7, multiclass
        clus
vv       POLM MUTATED POLM WILD-TYPE
  CLUS_1            1             99
  CLUS_2            6             66
  CLUS_3            3             69
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLM MUTATED        0      3      7      1      0
  POLM WILD-TYPE     59     72     67    118     38
D528V8, multiclass
        clus
vv       POLM MUTATED POLM WILD-TYPE
  CLUS_1            0             59
  CLUS_2            3             72
  CLUS_3            7             67
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLM MUTATED        1      7      1      1      1
  POLM WILD-TYPE     50     69     60     70     94
D528V9, multiclass
        clus
vv       POLM MUTATED POLM WILD-TYPE
  CLUS_1            1             50
  CLUS_2            7             69
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  POLM MUTATED        2      3      0      3      0      1      1      0      1
  POLM WILD-TYPE     67     45     39     13     53     19     20     38     49
D528V10, multiclass
        clus
vv       POLM MUTATED POLM WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  POLM MUTATED        0      0      0      0      1      0
  POLM WILD-TYPE     13     16     14     11     10      9
D528V11, multiclass
[1] "Remove cluster labels:" "POLM MUTATED"          
clus
  POLM MUTATED POLM WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-G4-6628 
"POLM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  POLM MUTATED        0      0      0      0      0      1      0      0      0
  POLM WILD-TYPE     11      7      7      9      8      6     11      9      5
D528V12, multiclass
[1] "Remove cluster labels:" "POLM MUTATED"          
clus
  POLM MUTATED POLM WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" "POLM WILD-TYPE" 
    TCGA-G4-6628 
"POLM WILD-TYPE" 

Clustering(529) Variable = HIST1H1C MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1C MUTATED        0      0      0      0      0
  HIST1H1C WILD-TYPE     32     18     46     27     23
D529V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1C MUTATED        0      0      0
  HIST1H1C WILD-TYPE     43     67     36
D529V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1C MUTATED        1      0      3
  HIST1H1C WILD-TYPE     41    173    144
D529V3, multiclass
        clus
vv       HIST1H1C MUTATED HIST1H1C WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                173
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1C MUTATED        1      0      2
  HIST1H1C WILD-TYPE     61     73     73
D529V4, multiclass
        clus
vv       HIST1H1C MUTATED HIST1H1C WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                0                 73
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1C MUTATED        0      3      0
  HIST1H1C WILD-TYPE     70    117    100
D529V5, multiclass
        clus
vv       HIST1H1C MUTATED HIST1H1C WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                3                117
  CLUS_3                0                100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1C MUTATED        0      2      0      1      0      0      0      0
  HIST1H1C WILD-TYPE     41     24     30     28     39     69     20     14
                    vv
clus                 CLUS_9
  HIST1H1C MUTATED        0
  HIST1H1C WILD-TYPE     22
D529V6, multiclass
        clus
vv       HIST1H1C MUTATED HIST1H1C WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                2                 24
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                0                 69
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST1H1C MUTATED        0      1      1      2
  HIST1H1C WILD-TYPE    100     71     71    119
D529V7, multiclass
        clus
vv       HIST1H1C MUTATED HIST1H1C WILD-TYPE
  CLUS_1                0                100
  CLUS_2                1                 71
  CLUS_3                1                 71
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1C MUTATED        0      1      1      2      0
  HIST1H1C WILD-TYPE     59     74     73    117     38
D529V8, multiclass
        clus
vv       HIST1H1C MUTATED HIST1H1C WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                1                 73
  CLUS_4                2                117
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1C MUTATED        1      0      1      0      2
  HIST1H1C WILD-TYPE     50     76     60     71     93
D529V9, multiclass
        clus
vv       HIST1H1C MUTATED HIST1H1C WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                0                 76
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1C MUTATED        0      1      0      0      1      1      0      0
  HIST1H1C WILD-TYPE     69     47     39     16     52     19     21     38
                    vv
clus                 CLUS_9
  HIST1H1C MUTATED        1
  HIST1H1C WILD-TYPE     49
D529V10, multiclass
        clus
vv       HIST1H1C MUTATED HIST1H1C WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                1                 52
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIST1H1C MUTATED        0      0      0      0      0      0
  HIST1H1C WILD-TYPE     13     16     14     11     11      9
D529V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1C MUTATED        0      0      0      0      0      0      0      0
  HIST1H1C WILD-TYPE     11      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  HIST1H1C MUTATED        0
  HIST1H1C WILD-TYPE      5
D529V12, multiclass

Clustering(530) Variable = TGFBR1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGFBR1 MUTATED        2      0      0      2      0
  TGFBR1 WILD-TYPE     30     18     46     25     23
D530V1, multiclass
        clus
vv       TGFBR1 MUTATED TGFBR1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR1 MUTATED        3      1      0
  TGFBR1 WILD-TYPE     40     66     36
D530V2, multiclass
        clus
vv       TGFBR1 MUTATED TGFBR1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR1 MUTATED        0      2     12
  TGFBR1 WILD-TYPE     42    171    135
D530V3, multiclass
        clus
vv       TGFBR1 MUTATED TGFBR1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR1 MUTATED        3      1      6
  TGFBR1 WILD-TYPE     59     72     69
D530V4, multiclass
        clus
vv       TGFBR1 MUTATED TGFBR1 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR1 MUTATED        2      4      7
  TGFBR1 WILD-TYPE     68    116     93
D530V5, multiclass
        clus
vv       TGFBR1 MUTATED TGFBR1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TGFBR1 MUTATED        3      1      1      0      1      6      0      0
  TGFBR1 WILD-TYPE     38     25     29     29     38     63     20     14
                  vv
clus               CLUS_9
  TGFBR1 MUTATED        1
  TGFBR1 WILD-TYPE     21
D530V6, multiclass
        clus
vv       TGFBR1 MUTATED TGFBR1 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              6               63
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TGFBR1 MUTATED        0      6      4      4
  TGFBR1 WILD-TYPE    100     66     68    117
D530V7, multiclass
        clus
vv       TGFBR1 MUTATED TGFBR1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              6               66
  CLUS_3              4               68
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGFBR1 MUTATED        3      1      6      1      3
  TGFBR1 WILD-TYPE     56     74     68    118     35
D530V8, multiclass
        clus
vv       TGFBR1 MUTATED TGFBR1 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              1               74
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGFBR1 MUTATED        1      4      2      1      4
  TGFBR1 WILD-TYPE     50     72     59     70     91
D530V9, multiclass
        clus
vv       TGFBR1 MUTATED TGFBR1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TGFBR1 MUTATED        3      2      0      2      1      1      0      2
  TGFBR1 WILD-TYPE     66     46     39     14     52     19     21     36
                  vv
clus               CLUS_9
  TGFBR1 MUTATED        1
  TGFBR1 WILD-TYPE     49
D530V10, multiclass
        clus
vv       TGFBR1 MUTATED TGFBR1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TGFBR1 MUTATED        0      0      1      0      1      0
  TGFBR1 WILD-TYPE     13     16     13     11     10      9
D530V11, multiclass
[1] "Remove cluster labels:" "TGFBR1 MUTATED"        
clus
  TGFBR1 MUTATED TGFBR1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6141       TCGA-A6-6142 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654       TCGA-A6-6781 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511       TCGA-AD-5900 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901       TCGA-AD-6963 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196       TCGA-AZ-4323 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TGFBR1 MUTATED        0      0      0      1      1      0      0      0
  TGFBR1 WILD-TYPE     11      7      7      8      7      7     11      9
                  vv
clus               CLUS_9
  TGFBR1 MUTATED        0
  TGFBR1 WILD-TYPE      5
D530V12, multiclass
[1] "Remove cluster labels:" "TGFBR1 MUTATED"        
clus
  TGFBR1 MUTATED TGFBR1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6141       TCGA-A6-6142 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654       TCGA-A6-6781 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511       TCGA-AD-5900 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901       TCGA-AD-6963 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196       TCGA-AZ-4323 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" "TGFBR1 WILD-TYPE" 

Clustering(531) Variable = CIC MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CIC MUTATED        3      0      0      0      0
  CIC WILD-TYPE     29     18     46     27     23
D531V1, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           3            29
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           0            27
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CIC MUTATED        3      0      0
  CIC WILD-TYPE     40     67     36
D531V2, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           3            40
  CLUS_2           0            67
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CIC MUTATED        0      3     20
  CIC WILD-TYPE     42    170    127
D531V3, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           0            42
  CLUS_2           3           170
  CLUS_3          20           127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CIC MUTATED        9      2      8
  CIC WILD-TYPE     53     71     67
D531V4, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           9            53
  CLUS_2           2            71
  CLUS_3           8            67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CIC MUTATED        0      6     14
  CIC WILD-TYPE     70    114     86
D531V5, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           0            70
  CLUS_2           6           114
  CLUS_3          14            86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CIC MUTATED        1      1      1      2      1     12      2      0      0
  CIC WILD-TYPE     40     25     29     27     38     57     18     14     22
D531V6, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           1            40
  CLUS_2           1            25
  CLUS_3           1            29
  CLUS_4           2            27
  CLUS_5           1            38
  CLUS_6          12            57
  CLUS_7           2            18
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CIC MUTATED        2     11      6      4
  CIC WILD-TYPE     98     61     66    117
D531V7, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           2            98
  CLUS_2          11            61
  CLUS_3           6            66
  CLUS_4           4           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CIC MUTATED        2      2     15      0      4
  CIC WILD-TYPE     57     73     59    119     34
D531V8, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           2            57
  CLUS_2           2            73
  CLUS_3          15            59
  CLUS_4           0           119
  CLUS_5           4            34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CIC MUTATED        0     15      3      0      5
  CIC WILD-TYPE     51     61     58     71     90
D531V9, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           0            51
  CLUS_2          15            61
  CLUS_3           3            58
  CLUS_4           0            71
  CLUS_5           5            90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CIC MUTATED        4      5      1      6      1      1      1      3      1
  CIC WILD-TYPE     65     43     38     10     52     19     20     35     49
D531V10, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           4            65
  CLUS_2           5            43
  CLUS_3           1            38
  CLUS_4           6            10
  CLUS_5           1            52
  CLUS_6           1            19
  CLUS_7           1            20
  CLUS_8           3            35
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CIC MUTATED        0      0      2      1      3      0
  CIC WILD-TYPE     13     16     12     10      8      9
D531V11, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           0            13
  CLUS_2           0            16
  CLUS_3           2            12
  CLUS_4           1            10
  CLUS_5           3             8
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CIC MUTATED        0      0      1      1      0      1      3      0      0
  CIC WILD-TYPE     11      7      6      8      8      6      8      9      5
D531V12, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           1             6
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           1             6
  CLUS_7           3             8
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(532) Variable = FBXO21 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO21 MUTATED        2      0      0      0      0
  FBXO21 WILD-TYPE     30     18     46     27     23
D532V1, multiclass
[1] "Remove cluster labels:" "FBXO21 MUTATED"        
clus
  FBXO21 MUTATED FBXO21 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3952 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO21 MUTATED        2      0      0
  FBXO21 WILD-TYPE     41     67     36
D532V2, multiclass
[1] "Remove cluster labels:" "FBXO21 MUTATED"        
clus
  FBXO21 MUTATED FBXO21 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3952 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO21 MUTATED        1      0      5
  FBXO21 WILD-TYPE     41    173    142
D532V3, multiclass
        clus
vv       FBXO21 MUTATED FBXO21 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO21 MUTATED        1      0      3
  FBXO21 WILD-TYPE     61     73     72
D532V4, multiclass
        clus
vv       FBXO21 MUTATED FBXO21 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO21 MUTATED        0      1      4
  FBXO21 WILD-TYPE     70    119     96
D532V5, multiclass
        clus
vv       FBXO21 MUTATED FBXO21 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO21 MUTATED        0      0      0      1      0      3      1      0
  FBXO21 WILD-TYPE     41     26     30     28     39     66     19     14
                  vv
clus               CLUS_9
  FBXO21 MUTATED        0
  FBXO21 WILD-TYPE     22
D532V6, multiclass
        clus
vv       FBXO21 MUTATED FBXO21 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXO21 MUTATED        0      3      1      2
  FBXO21 WILD-TYPE    100     69     71    119
D532V7, multiclass
        clus
vv       FBXO21 MUTATED FBXO21 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO21 MUTATED        0      0      4      1      1
  FBXO21 WILD-TYPE     59     75     70    118     37
D532V8, multiclass
        clus
vv       FBXO21 MUTATED FBXO21 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO21 MUTATED        0      3      1      0      2
  FBXO21 WILD-TYPE     51     73     60     71     93
D532V9, multiclass
        clus
vv       FBXO21 MUTATED FBXO21 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO21 MUTATED        0      1      0      3      0      0      1      1
  FBXO21 WILD-TYPE     69     47     39     13     53     20     20     37
                  vv
clus               CLUS_9
  FBXO21 MUTATED        0
  FBXO21 WILD-TYPE     50
D532V10, multiclass
        clus
vv       FBXO21 MUTATED FBXO21 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FBXO21 MUTATED        0      0      0      0      1      0
  FBXO21 WILD-TYPE     13     16     14     11     10      9
D532V11, multiclass
[1] "Remove cluster labels:" "FBXO21 MUTATED"        
clus
  FBXO21 MUTATED FBXO21 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-G4-6628 
"FBXO21 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO21 MUTATED        0      0      0      1      0      0      0      0
  FBXO21 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  FBXO21 MUTATED        0
  FBXO21 WILD-TYPE      5
D532V12, multiclass
[1] "Remove cluster labels:" "FBXO21 MUTATED"        
clus
  FBXO21 MUTATED FBXO21 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" "FBXO21 WILD-TYPE" 
      TCGA-G4-6628 
"FBXO21 WILD-TYPE" 

Clustering(533) Variable = PI4K2B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PI4K2B MUTATED        1      0      0      0      0
  PI4K2B WILD-TYPE     31     18     46     27     23
D533V1, multiclass
[1] "Remove cluster labels:" "PI4K2B MUTATED"        
clus
  PI4K2B MUTATED PI4K2B WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AY-4071 
"PI4K2B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PI4K2B MUTATED        1      0      0
  PI4K2B WILD-TYPE     42     67     36
D533V2, multiclass
[1] "Remove cluster labels:" "PI4K2B MUTATED"        
clus
  PI4K2B MUTATED PI4K2B WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AY-4071 
"PI4K2B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PI4K2B MUTATED        0      6      4
  PI4K2B WILD-TYPE     42    167    143
D533V3, multiclass
        clus
vv       PI4K2B MUTATED PI4K2B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              6              167
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PI4K2B MUTATED        2      4      3
  PI4K2B WILD-TYPE     60     69     72
D533V4, multiclass
        clus
vv       PI4K2B MUTATED PI4K2B WILD-TYPE
  CLUS_1              2               60
  CLUS_2              4               69
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PI4K2B MUTATED        4      3      2
  PI4K2B WILD-TYPE     66    117     98
D533V5, multiclass
        clus
vv       PI4K2B MUTATED PI4K2B WILD-TYPE
  CLUS_1              4               66
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PI4K2B MUTATED        4      1      1      1      0      2      0      0
  PI4K2B WILD-TYPE     37     25     29     28     39     67     20     14
                  vv
clus               CLUS_9
  PI4K2B MUTATED        0
  PI4K2B WILD-TYPE     22
D533V6, multiclass
        clus
vv       PI4K2B MUTATED PI4K2B WILD-TYPE
  CLUS_1              4               37
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PI4K2B MUTATED        6      1      2      1
  PI4K2B WILD-TYPE     94     71     70    120
D533V7, multiclass
        clus
vv       PI4K2B MUTATED PI4K2B WILD-TYPE
  CLUS_1              6               94
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PI4K2B MUTATED        2      4      3      0      1
  PI4K2B WILD-TYPE     57     71     71    119     37
D533V8, multiclass
        clus
vv       PI4K2B MUTATED PI4K2B WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PI4K2B MUTATED        3      4      1      1      1
  PI4K2B WILD-TYPE     48     72     60     70     94
D533V9, multiclass
        clus
vv       PI4K2B MUTATED PI4K2B WILD-TYPE
  CLUS_1              3               48
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PI4K2B MUTATED        4      2      0      1      1      1      0      1
  PI4K2B WILD-TYPE     65     46     39     15     52     19     21     37
                  vv
clus               CLUS_9
  PI4K2B MUTATED        0
  PI4K2B WILD-TYPE     50
D533V10, multiclass
        clus
vv       PI4K2B MUTATED PI4K2B WILD-TYPE
  CLUS_1              4               65
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PI4K2B MUTATED        0      1      0      0      1      0
  PI4K2B WILD-TYPE     13     15     14     11     10      9
D533V11, multiclass
[1] "Remove cluster labels:" "PI4K2B MUTATED"        
clus
  PI4K2B MUTATED PI4K2B WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A282       TCGA-DM-A285 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PI4K2B MUTATED        1      0      0      1      0      0      0      0
  PI4K2B WILD-TYPE     10      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  PI4K2B MUTATED        0
  PI4K2B WILD-TYPE      5
D533V12, multiclass
[1] "Remove cluster labels:" "PI4K2B MUTATED"        
clus
  PI4K2B MUTATED PI4K2B WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A282       TCGA-DM-A285 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" "PI4K2B WILD-TYPE" 

Clustering(534) Variable = OLR1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OLR1 MUTATED        0      0      0      0      0
  OLR1 WILD-TYPE     32     18     46     27     23
D534V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OLR1 MUTATED        0      0      0
  OLR1 WILD-TYPE     43     67     36
D534V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OLR1 MUTATED        0      5      4
  OLR1 WILD-TYPE     42    168    143
D534V3, multiclass
        clus
vv       OLR1 MUTATED OLR1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            5            168
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OLR1 MUTATED        2      2      4
  OLR1 WILD-TYPE     60     71     71
D534V4, multiclass
        clus
vv       OLR1 MUTATED OLR1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OLR1 MUTATED        2      4      3
  OLR1 WILD-TYPE     68    116     97
D534V5, multiclass
        clus
vv       OLR1 MUTATED OLR1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4            116
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OLR1 MUTATED        2      0      1      3      0      3      0      0      0
  OLR1 WILD-TYPE     39     26     29     26     39     66     20     14     22
D534V6, multiclass
        clus
vv       OLR1 MUTATED OLR1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OLR1 MUTATED        3      3      1      2
  OLR1 WILD-TYPE     97     69     71    119
D534V7, multiclass
        clus
vv       OLR1 MUTATED OLR1 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            3             69
  CLUS_3            1             71
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OLR1 MUTATED        0      2      5      1      1
  OLR1 WILD-TYPE     59     73     69    118     37
D534V8, multiclass
        clus
vv       OLR1 MUTATED OLR1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OLR1 MUTATED        2      3      2      1      1
  OLR1 WILD-TYPE     49     73     59     70     94
D534V9, multiclass
        clus
vv       OLR1 MUTATED OLR1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OLR1 MUTATED        2      3      0      0      3      0      0      1      0
  OLR1 WILD-TYPE     67     45     39     16     50     20     21     37     50
D534V10, multiclass
        clus
vv       OLR1 MUTATED OLR1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OLR1 MUTATED        0      1      0      1      1      1
  OLR1 WILD-TYPE     13     15     14     10     10      8
D534V11, multiclass
        clus
vv       OLR1 MUTATED OLR1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OLR1 MUTATED        0      0      0      1      0      0      2      1      0
  OLR1 WILD-TYPE     11      7      7      8      8      7      9      8      5
D534V12, multiclass
        clus
vv       OLR1 MUTATED OLR1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(535) Variable = CCDC160 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC160 MUTATED        2      0      1      1      0
  CCDC160 WILD-TYPE     30     18     45     26     23
D535V1, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC160 MUTATED        1      1      2
  CCDC160 WILD-TYPE     42     66     34
D535V2, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               1                66
  CLUS_3               2                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC160 MUTATED        0      1      9
  CCDC160 WILD-TYPE     42    172    138
D535V3, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC160 MUTATED        1      0      4
  CCDC160 WILD-TYPE     61     73     71
D535V4, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               0                73
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC160 MUTATED        1      2      6
  CCDC160 WILD-TYPE     69    118     94
D535V5, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC160 MUTATED        0      0      2      0      1      6      0      0
  CCDC160 WILD-TYPE     41     26     28     29     38     63     20     14
                   vv
clus                CLUS_9
  CCDC160 MUTATED        0
  CCDC160 WILD-TYPE     22
D535V6, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC160 MUTATED        1      4      1      4
  CCDC160 WILD-TYPE     99     68     71    117
D535V7, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               1                71
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC160 MUTATED        0      0      5      4      1
  CCDC160 WILD-TYPE     59     75     69    115     37
D535V8, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               5                69
  CLUS_4               4               115
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC160 MUTATED        0      5      0      2      3
  CCDC160 WILD-TYPE     51     71     61     69     92
D535V9, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               5                71
  CLUS_3               0                61
  CLUS_4               2                69
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC160 MUTATED        3      0      0      2      1      1      1      1
  CCDC160 WILD-TYPE     66     48     39     14     52     19     20     37
                   vv
clus                CLUS_9
  CCDC160 MUTATED        1
  CCDC160 WILD-TYPE     49
D535V10, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC160 MUTATED        0      0      1      0      1      0
  CCDC160 WILD-TYPE     13     16     13     11     10      9
D535V11, multiclass
[1] "Remove cluster labels:" "CCDC160 MUTATED"       
clus
  CCDC160 MUTATED CCDC160 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6654 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC160 MUTATED        0      0      0      1      0      0      1      0
  CCDC160 WILD-TYPE     11      7      7      8      8      7     10      9
                   vv
clus                CLUS_9
  CCDC160 MUTATED        0
  CCDC160 WILD-TYPE      5
D535V12, multiclass
[1] "Remove cluster labels:" "CCDC160 MUTATED"       
clus
  CCDC160 MUTATED CCDC160 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6654 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" "CCDC160 WILD-TYPE" 

Clustering(536) Variable = RNF111 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF111 MUTATED        4      0      0      1      0
  RNF111 WILD-TYPE     28     18     46     26     23
D536V1, multiclass
        clus
vv       RNF111 MUTATED RNF111 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF111 MUTATED        5      0      0
  RNF111 WILD-TYPE     38     67     36
D536V2, multiclass
        clus
vv       RNF111 MUTATED RNF111 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF111 MUTATED        1      2     10
  RNF111 WILD-TYPE     41    171    137
D536V3, multiclass
        clus
vv       RNF111 MUTATED RNF111 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF111 MUTATED        4      3      3
  RNF111 WILD-TYPE     58     70     72
D536V4, multiclass
        clus
vv       RNF111 MUTATED RNF111 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              3               70
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF111 MUTATED        1      4      9
  RNF111 WILD-TYPE     69    116     91
D536V5, multiclass
        clus
vv       RNF111 MUTATED RNF111 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF111 MUTATED        1      1      0      2      3      6      1      0
  RNF111 WILD-TYPE     40     25     30     27     36     63     19     14
                  vv
clus               CLUS_9
  RNF111 MUTATED        0
  RNF111 WILD-TYPE     22
D536V6, multiclass
        clus
vv       RNF111 MUTATED RNF111 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              3               36
  CLUS_6              6               63
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF111 MUTATED        3      3      3      5
  RNF111 WILD-TYPE     97     69     69    116
D536V7, multiclass
        clus
vv       RNF111 MUTATED RNF111 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF111 MUTATED        1      5      3      0      5
  RNF111 WILD-TYPE     58     70     71    119     33
D536V8, multiclass
        clus
vv       RNF111 MUTATED RNF111 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              5               70
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF111 MUTATED        1      5      1      1      5
  RNF111 WILD-TYPE     50     71     60     70     90
D536V9, multiclass
        clus
vv       RNF111 MUTATED RNF111 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF111 MUTATED        3      3      0      0      2      1      0      3
  RNF111 WILD-TYPE     66     45     39     16     51     19     21     35
                  vv
clus               CLUS_9
  RNF111 MUTATED        1
  RNF111 WILD-TYPE     49
D536V10, multiclass
        clus
vv       RNF111 MUTATED RNF111 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF111 MUTATED        0      0      0      0      2      0
  RNF111 WILD-TYPE     13     16     14     11      9      9
D536V11, multiclass
[1] "Remove cluster labels:" "RNF111 MUTATED"        
clus
  RNF111 MUTATED RNF111 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF111 MUTATED        0      0      0      0      0      1      1      0
  RNF111 WILD-TYPE     11      7      7      9      8      6     10      9
                  vv
clus               CLUS_9
  RNF111 MUTATED        0
  RNF111 WILD-TYPE      5
D536V12, multiclass
[1] "Remove cluster labels:" "RNF111 MUTATED"        
clus
  RNF111 MUTATED RNF111 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" "RNF111 WILD-TYPE" 

Clustering(537) Variable = RBM19 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM19 MUTATED        5      0      0      1      0
  RBM19 WILD-TYPE     27     18     46     26     23
D537V1, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM19 MUTATED        6      0      0
  RBM19 WILD-TYPE     37     67     36
D537V2, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM19 MUTATED        1      6     14
  RBM19 WILD-TYPE     41    167    133
D537V3, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             6             167
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM19 MUTATED        4      6      5
  RBM19 WILD-TYPE     58     67     70
D537V4, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             6              67
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM19 MUTATED        3      2     12
  RBM19 WILD-TYPE     67    118     88
D537V5, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             2             118
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM19 MUTATED        3      0      0      1      2      9      1      1
  RBM19 WILD-TYPE     38     26     30     28     37     60     19     13
                 vv
clus              CLUS_9
  RBM19 MUTATED        0
  RBM19 WILD-TYPE     22
D537V6, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             9              60
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM19 MUTATED        6      3      6      6
  RBM19 WILD-TYPE     94     69     66    115
D537V7, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             6              94
  CLUS_2             3              69
  CLUS_3             6              66
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM19 MUTATED        2      6      7      1      5
  RBM19 WILD-TYPE     57     69     67    118     33
D537V8, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             6              69
  CLUS_3             7              67
  CLUS_4             1             118
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM19 MUTATED        5      4      3      1      7
  RBM19 WILD-TYPE     46     72     58     70     88
D537V9, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             5              46
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM19 MUTATED        4      5      2      0      2      0      1      5
  RBM19 WILD-TYPE     65     43     37     16     51     20     20     33
                 vv
clus              CLUS_9
  RBM19 MUTATED        1
  RBM19 WILD-TYPE     49
D537V10, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             5              43
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             5              33
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBM19 MUTATED        0      0      2      0      2      1
  RBM19 WILD-TYPE     13     16     12     11      9      8
D537V11, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM19 MUTATED        1      0      0      0      2      0      2      0
  RBM19 WILD-TYPE     10      7      7      9      6      7      9      9
                 vv
clus              CLUS_9
  RBM19 MUTATED        0
  RBM19 WILD-TYPE      5
D537V12, multiclass
        clus
vv       RBM19 MUTATED RBM19 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(538) Variable = NEUROD1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEUROD1 MUTATED        2      0      0      0      0
  NEUROD1 WILD-TYPE     30     18     46     27     23
D538V1, multiclass
[1] "Remove cluster labels:" "NEUROD1 MUTATED"       
clus
  NEUROD1 MUTATED NEUROD1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00K 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NEUROD1 MUTATED        2      0      0
  NEUROD1 WILD-TYPE     41     67     36
D538V2, multiclass
[1] "Remove cluster labels:" "NEUROD1 MUTATED"       
clus
  NEUROD1 MUTATED NEUROD1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00K 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" "NEUROD1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NEUROD1 MUTATED        0      3      5
  NEUROD1 WILD-TYPE     42    170    142
D538V3, multiclass
        clus
vv       NEUROD1 MUTATED NEUROD1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NEUROD1 MUTATED        4      1      1
  NEUROD1 WILD-TYPE     58     72     74
D538V4, multiclass
        clus
vv       NEUROD1 MUTATED NEUROD1 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               1                72
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NEUROD1 MUTATED        2      2      4
  NEUROD1 WILD-TYPE     68    118     96
D538V5, multiclass
        clus
vv       NEUROD1 MUTATED NEUROD1 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               2               118
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NEUROD1 MUTATED        1      1      0      0      1      3      0      1
  NEUROD1 WILD-TYPE     40     25     30     29     38     66     20     13
                   vv
clus                CLUS_9
  NEUROD1 MUTATED        1
  NEUROD1 WILD-TYPE     21
D538V6, multiclass
        clus
vv       NEUROD1 MUTATED NEUROD1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEUROD1 MUTATED        1      3      0      4
  NEUROD1 WILD-TYPE     99     69     72    117
D538V7, multiclass
        clus
vv       NEUROD1 MUTATED NEUROD1 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               0                72
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEUROD1 MUTATED        1      2      1      2      2
  NEUROD1 WILD-TYPE     58     73     73    117     36
D538V8, multiclass
        clus
vv       NEUROD1 MUTATED NEUROD1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               1                73
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEUROD1 MUTATED        2      2      0      0      4
  NEUROD1 WILD-TYPE     49     74     61     71     91
D538V9, multiclass
        clus
vv       NEUROD1 MUTATED NEUROD1 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NEUROD1 MUTATED        1      0      0      0      2      1      0      2
  NEUROD1 WILD-TYPE     68     48     39     16     51     19     21     36
                   vv
clus                CLUS_9
  NEUROD1 MUTATED        2
  NEUROD1 WILD-TYPE     48
D538V10, multiclass
        clus
vv       NEUROD1 MUTATED NEUROD1 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NEUROD1 MUTATED        0      0      0      0      0      0
  NEUROD1 WILD-TYPE     13     16     14     11     11      9
D538V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NEUROD1 MUTATED        0      0      0      0      0      0      0      0
  NEUROD1 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  NEUROD1 MUTATED        0
  NEUROD1 WILD-TYPE      5
D538V12, multiclass

Clustering(539) Variable = SLFN12L MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLFN12L MUTATED        2      0      0      1      0
  SLFN12L WILD-TYPE     30     18     46     26     23
D539V1, multiclass
        clus
vv       SLFN12L MUTATED SLFN12L WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLFN12L MUTATED        2      1      0
  SLFN12L WILD-TYPE     41     66     36
D539V2, multiclass
        clus
vv       SLFN12L MUTATED SLFN12L WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLFN12L MUTATED        1      3      3
  SLFN12L WILD-TYPE     41    170    144
D539V3, multiclass
        clus
vv       SLFN12L MUTATED SLFN12L WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLFN12L MUTATED        4      1      0
  SLFN12L WILD-TYPE     58     72     75
D539V4, multiclass
        clus
vv       SLFN12L MUTATED SLFN12L WILD-TYPE
  CLUS_1               4                58
  CLUS_2               1                72
  CLUS_3               0                75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLFN12L MUTATED        0      2      5
  SLFN12L WILD-TYPE     70    118     95
D539V5, multiclass
        clus
vv       SLFN12L MUTATED SLFN12L WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLFN12L MUTATED        1      0      0      1      1      3      1      0
  SLFN12L WILD-TYPE     40     26     30     28     38     66     19     14
                   vv
clus                CLUS_9
  SLFN12L MUTATED        0
  SLFN12L WILD-TYPE     22
D539V6, multiclass
        clus
vv       SLFN12L MUTATED SLFN12L WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               3                66
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLFN12L MUTATED        2      1      2      3
  SLFN12L WILD-TYPE     98     71     70    118
D539V7, multiclass
        clus
vv       SLFN12L MUTATED SLFN12L WILD-TYPE
  CLUS_1               2                98
  CLUS_2               1                71
  CLUS_3               2                70
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLFN12L MUTATED        1      3      1      0      3
  SLFN12L WILD-TYPE     58     72     73    119     35
D539V8, multiclass
        clus
vv       SLFN12L MUTATED SLFN12L WILD-TYPE
  CLUS_1               1                58
  CLUS_2               3                72
  CLUS_3               1                73
  CLUS_4               0               119
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLFN12L MUTATED        0      3      1      1      3
  SLFN12L WILD-TYPE     51     73     60     70     92
D539V9, multiclass
        clus
vv       SLFN12L MUTATED SLFN12L WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLFN12L MUTATED        0      2      1      0      2      0      0      2
  SLFN12L WILD-TYPE     69     46     38     16     51     20     21     36
                   vv
clus                CLUS_9
  SLFN12L MUTATED        1
  SLFN12L WILD-TYPE     49
D539V10, multiclass
        clus
vv       SLFN12L MUTATED SLFN12L WILD-TYPE
  CLUS_1               0                69
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLFN12L MUTATED        0      0      0      0      1      0
  SLFN12L WILD-TYPE     13     16     14     11     10      9
D539V11, multiclass
[1] "Remove cluster labels:" "SLFN12L MUTATED"       
clus
  SLFN12L MUTATED SLFN12L WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-G4-6628 
"SLFN12L WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLFN12L MUTATED        0      0      0      0      0      0      1      0
  SLFN12L WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  SLFN12L MUTATED        0
  SLFN12L WILD-TYPE      5
D539V12, multiclass
[1] "Remove cluster labels:" "SLFN12L MUTATED"       
clus
  SLFN12L MUTATED SLFN12L WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" "SLFN12L WILD-TYPE" 
       TCGA-G4-6628 
"SLFN12L WILD-TYPE" 

Clustering(540) Variable = UPF3A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UPF3A MUTATED        2      0      0      0      0
  UPF3A WILD-TYPE     30     18     46     27     23
D540V1, multiclass
[1] "Remove cluster labels:" "UPF3A MUTATED"         
clus
  UPF3A MUTATED UPF3A WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UPF3A MUTATED        2      0      0
  UPF3A WILD-TYPE     41     67     36
D540V2, multiclass
[1] "Remove cluster labels:" "UPF3A MUTATED"         
clus
  UPF3A MUTATED UPF3A WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UPF3A MUTATED        0      1      8
  UPF3A WILD-TYPE     42    172    139
D540V3, multiclass
        clus
vv       UPF3A MUTATED UPF3A WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UPF3A MUTATED        2      1      4
  UPF3A WILD-TYPE     60     72     71
D540V4, multiclass
        clus
vv       UPF3A MUTATED UPF3A WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UPF3A MUTATED        1      3      1
  UPF3A WILD-TYPE     69    117     99
D540V5, multiclass
        clus
vv       UPF3A MUTATED UPF3A WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UPF3A MUTATED        0      2      0      0      1      1      0      0
  UPF3A WILD-TYPE     41     24     30     29     38     68     20     14
                 vv
clus              CLUS_9
  UPF3A MUTATED        1
  UPF3A WILD-TYPE     21
D540V6, multiclass
        clus
vv       UPF3A MUTATED UPF3A WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UPF3A MUTATED        0      4      1      4
  UPF3A WILD-TYPE    100     68     71    117
D540V7, multiclass
        clus
vv       UPF3A MUTATED UPF3A WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UPF3A MUTATED        0      0      5      2      2
  UPF3A WILD-TYPE     59     75     69    117     36
D540V8, multiclass
        clus
vv       UPF3A MUTATED UPF3A WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UPF3A MUTATED        0      4      0      0      5
  UPF3A WILD-TYPE     51     72     61     71     90
D540V9, multiclass
        clus
vv       UPF3A MUTATED UPF3A WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UPF3A MUTATED        0      1      0      3      0      0      0      3
  UPF3A WILD-TYPE     69     47     39     13     53     20     21     35
                 vv
clus              CLUS_9
  UPF3A MUTATED        2
  UPF3A WILD-TYPE     48
D540V10, multiclass
        clus
vv       UPF3A MUTATED UPF3A WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UPF3A MUTATED        0      0      0      0      2      0
  UPF3A WILD-TYPE     13     16     14     11      9      9
D540V11, multiclass
[1] "Remove cluster labels:" "UPF3A MUTATED"         
clus
  UPF3A MUTATED UPF3A WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UPF3A MUTATED        0      0      0      1      0      0      1      0
  UPF3A WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  UPF3A MUTATED        0
  UPF3A WILD-TYPE      5
D540V12, multiclass
[1] "Remove cluster labels:" "UPF3A MUTATED"         
clus
  UPF3A MUTATED UPF3A WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" "UPF3A WILD-TYPE" 

Clustering(541) Variable = KDM3B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM3B MUTATED        7      0      1      1      0
  KDM3B WILD-TYPE     25     18     45     26     23
D541V1, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             7              25
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM3B MUTATED        6      2      1
  KDM3B WILD-TYPE     37     65     35
D541V2, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             6              37
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM3B MUTATED        3      9     20
  KDM3B WILD-TYPE     39    164    127
D541V3, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             3              39
  CLUS_2             9             164
  CLUS_3            20             127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM3B MUTATED        9      4     10
  KDM3B WILD-TYPE     53     69     65
D541V4, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             9              53
  CLUS_2             4              69
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM3B MUTATED        3     10     12
  KDM3B WILD-TYPE     67    110     88
D541V5, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             3              67
  CLUS_2            10             110
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM3B MUTATED        2      0      2      2      2     11      2      1
  KDM3B WILD-TYPE     39     26     28     27     37     58     18     13
                 vv
clus              CLUS_9
  KDM3B MUTATED        3
  KDM3B WILD-TYPE     19
D541V6, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6            11              58
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM3B MUTATED        7      5     10     10
  KDM3B WILD-TYPE     93     67     62    111
D541V7, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             7              93
  CLUS_2             5              67
  CLUS_3            10              62
  CLUS_4            10             111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM3B MUTATED        9      4      9      5      5
  KDM3B WILD-TYPE     50     71     65    114     33
D541V8, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             9              50
  CLUS_2             4              71
  CLUS_3             9              65
  CLUS_4             5             114
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM3B MUTATED        2     10      7      5      7
  KDM3B WILD-TYPE     49     66     54     66     88
D541V9, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             2              49
  CLUS_2            10              66
  CLUS_3             7              54
  CLUS_4             5              66
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM3B MUTATED       12      6      0      3      2      1      2      4
  KDM3B WILD-TYPE     57     42     39     13     51     19     19     34
                 vv
clus              CLUS_9
  KDM3B MUTATED        1
  KDM3B WILD-TYPE     49
D541V10, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1            12              57
  CLUS_2             6              42
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             2              19
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KDM3B MUTATED        2      2      2      1      2      1
  KDM3B WILD-TYPE     11     14     12     10      9      8
D541V11, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             2              11
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM3B MUTATED        3      0      1      1      1      1      0      3
  KDM3B WILD-TYPE      8      7      6      8      7      6     11      6
                 vv
clus              CLUS_9
  KDM3B MUTATED        0
  KDM3B WILD-TYPE      5
D541V12, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             3               8
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             3               6
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(542) Variable = RPGRIP1L MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPGRIP1L MUTATED        4      0      0      3      0
  RPGRIP1L WILD-TYPE     28     18     46     24     23
D542V1, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                3                 24
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  RPGRIP1L MUTATED        4      2      1
  RPGRIP1L WILD-TYPE     39     65     35
D542V2, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                2                 65
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  RPGRIP1L MUTATED        1      5     11
  RPGRIP1L WILD-TYPE     41    168    136
D542V3, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                5                168
  CLUS_3               11                136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  RPGRIP1L MUTATED        4      3      3
  RPGRIP1L WILD-TYPE     58     70     72
D542V4, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                3                 70
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  RPGRIP1L MUTATED        1      4      8
  RPGRIP1L WILD-TYPE     69    116     92
D542V5, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                4                116
  CLUS_3                8                 92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPGRIP1L MUTATED        0      1      1      1      0      7      2      1
  RPGRIP1L WILD-TYPE     41     25     29     28     39     62     18     13
                    vv
clus                 CLUS_9
  RPGRIP1L MUTATED        0
  RPGRIP1L WILD-TYPE     22
D542V6, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                7                 62
  CLUS_7                2                 18
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPGRIP1L MUTATED        3      5      2      7
  RPGRIP1L WILD-TYPE     97     67     70    114
D542V7, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                3                 97
  CLUS_2                5                 67
  CLUS_3                2                 70
  CLUS_4                7                114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPGRIP1L MUTATED        2      2      5      4      4
  RPGRIP1L WILD-TYPE     57     73     69    115     34
D542V8, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                2                 73
  CLUS_3                5                 69
  CLUS_4                4                115
  CLUS_5                4                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPGRIP1L MUTATED        2      5      2      2      5
  RPGRIP1L WILD-TYPE     49     71     59     69     90
D542V9, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                5                 71
  CLUS_3                2                 59
  CLUS_4                2                 69
  CLUS_5                5                 90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPGRIP1L MUTATED        3      2      0      3      3      2      1      2
  RPGRIP1L WILD-TYPE     66     46     39     13     50     18     20     36
                    vv
clus                 CLUS_9
  RPGRIP1L MUTATED        0
  RPGRIP1L WILD-TYPE     50
D542V10, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                3                 13
  CLUS_5                3                 50
  CLUS_6                2                 18
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RPGRIP1L MUTATED        1      0      1      1      2      1
  RPGRIP1L WILD-TYPE     12     16     13     10      9      8
D542V11, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                0                 16
  CLUS_3                1                 13
  CLUS_4                1                 10
  CLUS_5                2                  9
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPGRIP1L MUTATED        0      0      0      2      1      0      1      1
  RPGRIP1L WILD-TYPE     11      7      7      7      7      7     10      8
                    vv
clus                 CLUS_9
  RPGRIP1L MUTATED        1
  RPGRIP1L WILD-TYPE      4
D542V12, multiclass
        clus
vv       RPGRIP1L MUTATED RPGRIP1L WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                2                  7
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                1                  8
  CLUS_9                1                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(543) Variable = RBM12 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM12 MUTATED        1      0      0      0      1
  RBM12 WILD-TYPE     31     18     46     27     22
D543V1, multiclass
[1] "Remove cluster labels:" "RBM12 MUTATED"         
clus
  RBM12 MUTATED RBM12 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3530      TCGA-AA-3531 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3950      TCGA-AA-3952 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM12 MUTATED        1      1      0
  RBM12 WILD-TYPE     42     66     36
D543V2, multiclass
[1] "Remove cluster labels:" "RBM12 MUTATED"         
clus
  RBM12 MUTATED RBM12 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3530      TCGA-AA-3531 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3950      TCGA-AA-3952 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" "RBM12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM12 MUTATED        0      2     10
  RBM12 WILD-TYPE     42    171    137
D543V3, multiclass
        clus
vv       RBM12 MUTATED RBM12 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM12 MUTATED        3      1      6
  RBM12 WILD-TYPE     59     72     69
D543V4, multiclass
        clus
vv       RBM12 MUTATED RBM12 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM12 MUTATED        4      2      3
  RBM12 WILD-TYPE     66    118     97
D543V5, multiclass
        clus
vv       RBM12 MUTATED RBM12 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM12 MUTATED        4      0      0      1      1      2      1      0
  RBM12 WILD-TYPE     37     26     30     28     38     67     19     14
                 vv
clus              CLUS_9
  RBM12 MUTATED        0
  RBM12 WILD-TYPE     22
D543V6, multiclass
        clus
vv       RBM12 MUTATED RBM12 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM12 MUTATED        1      6      3      2
  RBM12 WILD-TYPE     99     66     69    119
D543V7, multiclass
        clus
vv       RBM12 MUTATED RBM12 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM12 MUTATED        2      2      6      1      1
  RBM12 WILD-TYPE     57     73     68    118     37
D543V8, multiclass
        clus
vv       RBM12 MUTATED RBM12 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM12 MUTATED        1      6      1      1      3
  RBM12 WILD-TYPE     50     70     60     70     92
D543V9, multiclass
        clus
vv       RBM12 MUTATED RBM12 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM12 MUTATED        2      1      2      2      2      1      1      0
  RBM12 WILD-TYPE     67     47     37     14     51     19     20     38
                 vv
clus              CLUS_9
  RBM12 MUTATED        1
  RBM12 WILD-TYPE     49
D543V10, multiclass
        clus
vv       RBM12 MUTATED RBM12 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             2              37
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBM12 MUTATED        0      2      1      0      0      0
  RBM12 WILD-TYPE     13     14     13     11     11      9
D543V11, multiclass
        clus
vv       RBM12 MUTATED RBM12 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM12 MUTATED        0      1      0      0      1      0      1      0
  RBM12 WILD-TYPE     11      6      7      9      7      7     10      9
                 vv
clus              CLUS_9
  RBM12 MUTATED        0
  RBM12 WILD-TYPE      5
D543V12, multiclass
        clus
vv       RBM12 MUTATED RBM12 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(544) Variable = PALB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PALB2 MUTATED        2      0      0      2      1
  PALB2 WILD-TYPE     30     18     46     25     22
D544V1, multiclass
        clus
vv       PALB2 MUTATED PALB2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PALB2 MUTATED        4      0      1
  PALB2 WILD-TYPE     39     67     35
D544V2, multiclass
        clus
vv       PALB2 MUTATED PALB2 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PALB2 MUTATED        2      5     12
  PALB2 WILD-TYPE     40    168    135
D544V3, multiclass
        clus
vv       PALB2 MUTATED PALB2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PALB2 MUTATED        4      3      7
  PALB2 WILD-TYPE     58     70     68
D544V4, multiclass
        clus
vv       PALB2 MUTATED PALB2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PALB2 MUTATED        2      6      8
  PALB2 WILD-TYPE     68    114     92
D544V5, multiclass
        clus
vv       PALB2 MUTATED PALB2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PALB2 MUTATED        1      2      0      0      2      5      3      3
  PALB2 WILD-TYPE     40     24     30     29     37     64     17     11
                 vv
clus              CLUS_9
  PALB2 MUTATED        0
  PALB2 WILD-TYPE     22
D544V6, multiclass
        clus
vv       PALB2 MUTATED PALB2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             3              17
  CLUS_8             3              11
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PALB2 MUTATED        5      7      1      6
  PALB2 WILD-TYPE     95     65     71    115
D544V7, multiclass
        clus
vv       PALB2 MUTATED PALB2 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             7              65
  CLUS_3             1              71
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PALB2 MUTATED        0      5      7      3      4
  PALB2 WILD-TYPE     59     70     67    116     34
D544V8, multiclass
        clus
vv       PALB2 MUTATED PALB2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             5              70
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PALB2 MUTATED        5      7      1      1      5
  PALB2 WILD-TYPE     46     69     60     70     90
D544V9, multiclass
        clus
vv       PALB2 MUTATED PALB2 WILD-TYPE
  CLUS_1             5              46
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PALB2 MUTATED        3      1      4      3      2      1      0      4
  PALB2 WILD-TYPE     66     47     35     13     51     19     21     34
                 vv
clus              CLUS_9
  PALB2 MUTATED        1
  PALB2 WILD-TYPE     49
D544V10, multiclass
        clus
vv       PALB2 MUTATED PALB2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             4              35
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PALB2 MUTATED        0      0      0      0      1      0
  PALB2 WILD-TYPE     13     16     14     11     10      9
D544V11, multiclass
[1] "Remove cluster labels:" "PALB2 MUTATED"         
clus
  PALB2 MUTATED PALB2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-G4-6628 
"PALB2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PALB2 MUTATED        0      0      0      1      0      0      0      0
  PALB2 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  PALB2 MUTATED        0
  PALB2 WILD-TYPE      5
D544V12, multiclass
[1] "Remove cluster labels:" "PALB2 MUTATED"         
clus
  PALB2 MUTATED PALB2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" "PALB2 WILD-TYPE" 
     TCGA-G4-6628 
"PALB2 WILD-TYPE" 

Clustering(545) Variable = PCDH12 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH12 MUTATED        3      0      0      2      0
  PCDH12 WILD-TYPE     29     18     46     25     23
D545V1, multiclass
        clus
vv       PCDH12 MUTATED PCDH12 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH12 MUTATED        4      1      0
  PCDH12 WILD-TYPE     39     66     36
D545V2, multiclass
        clus
vv       PCDH12 MUTATED PCDH12 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH12 MUTATED        1      2     14
  PCDH12 WILD-TYPE     41    171    133
D545V3, multiclass
        clus
vv       PCDH12 MUTATED PCDH12 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH12 MUTATED        4      2      6
  PCDH12 WILD-TYPE     58     71     69
D545V4, multiclass
        clus
vv       PCDH12 MUTATED PCDH12 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              2               71
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH12 MUTATED        1      6      6
  PCDH12 WILD-TYPE     69    114     94
D545V5, multiclass
        clus
vv       PCDH12 MUTATED PCDH12 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              6              114
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH12 MUTATED        1      0      1      3      2      4      1      1
  PCDH12 WILD-TYPE     40     26     29     26     37     65     19     13
                  vv
clus               CLUS_9
  PCDH12 MUTATED        0
  PCDH12 WILD-TYPE     22
D545V6, multiclass
        clus
vv       PCDH12 MUTATED PCDH12 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDH12 MUTATED        2      6      4      5
  PCDH12 WILD-TYPE     98     66     68    116
D545V7, multiclass
        clus
vv       PCDH12 MUTATED PCDH12 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              6               66
  CLUS_3              4               68
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH12 MUTATED        2      1      9      2      3
  PCDH12 WILD-TYPE     57     74     65    117     35
D545V8, multiclass
        clus
vv       PCDH12 MUTATED PCDH12 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              9               65
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH12 MUTATED        0      8      4      1      4
  PCDH12 WILD-TYPE     51     68     57     70     91
D545V9, multiclass
        clus
vv       PCDH12 MUTATED PCDH12 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              8               68
  CLUS_3              4               57
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH12 MUTATED        2      4      1      4      1      1      2      2
  PCDH12 WILD-TYPE     67     44     38     12     52     19     19     36
                  vv
clus               CLUS_9
  PCDH12 MUTATED        0
  PCDH12 WILD-TYPE     50
D545V10, multiclass
        clus
vv       PCDH12 MUTATED PCDH12 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              4               12
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              2               19
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCDH12 MUTATED        0      0      1      0      1      0
  PCDH12 WILD-TYPE     13     16     13     11     10      9
D545V11, multiclass
[1] "Remove cluster labels:" "PCDH12 MUTATED"        
clus
  PCDH12 MUTATED PCDH12 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AY-6196 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6600 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH12 MUTATED        0      0      0      1      1      0      0      0
  PCDH12 WILD-TYPE     11      7      7      8      7      7     11      9
                  vv
clus               CLUS_9
  PCDH12 MUTATED        0
  PCDH12 WILD-TYPE      5
D545V12, multiclass
[1] "Remove cluster labels:" "PCDH12 MUTATED"        
clus
  PCDH12 MUTATED PCDH12 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AY-6196 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6600 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" "PCDH12 WILD-TYPE" 

Clustering(546) Variable = MIER1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIER1 MUTATED        0      0      0      1      0
  MIER1 WILD-TYPE     32     18     46     26     23
D546V1, multiclass
[1] "Remove cluster labels:" "MIER1 MUTATED"         
clus
  MIER1 MUTATED MIER1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AY-4071 
"MIER1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIER1 MUTATED        0      1      0
  MIER1 WILD-TYPE     43     66     36
D546V2, multiclass
[1] "Remove cluster labels:" "MIER1 MUTATED"         
clus
  MIER1 MUTATED MIER1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AY-4071 
"MIER1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIER1 MUTATED        0      3      3
  MIER1 WILD-TYPE     42    170    144
D546V3, multiclass
        clus
vv       MIER1 MUTATED MIER1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIER1 MUTATED        1      2      2
  MIER1 WILD-TYPE     61     71     73
D546V4, multiclass
        clus
vv       MIER1 MUTATED MIER1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIER1 MUTATED        1      3      2
  MIER1 WILD-TYPE     69    117     98
D546V5, multiclass
        clus
vv       MIER1 MUTATED MIER1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MIER1 MUTATED        2      0      1      1      0      2      0      0
  MIER1 WILD-TYPE     39     26     29     28     39     67     20     14
                 vv
clus              CLUS_9
  MIER1 MUTATED        0
  MIER1 WILD-TYPE     22
D546V6, multiclass
        clus
vv       MIER1 MUTATED MIER1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MIER1 MUTATED        3      1      1      1
  MIER1 WILD-TYPE     97     71     71    120
D546V7, multiclass
        clus
vv       MIER1 MUTATED MIER1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIER1 MUTATED        2      2      1      1      0
  MIER1 WILD-TYPE     57     73     73    118     38
D546V8, multiclass
        clus
vv       MIER1 MUTATED MIER1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIER1 MUTATED        1      1      1      2      1
  MIER1 WILD-TYPE     50     75     60     69     94
D546V9, multiclass
        clus
vv       MIER1 MUTATED MIER1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MIER1 MUTATED        1      2      0      1      1      1      0      0
  MIER1 WILD-TYPE     68     46     39     15     52     19     21     38
                 vv
clus              CLUS_9
  MIER1 MUTATED        0
  MIER1 WILD-TYPE     50
D546V10, multiclass
        clus
vv       MIER1 MUTATED MIER1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MIER1 MUTATED        1      0      0      0      0      0
  MIER1 WILD-TYPE     12     16     14     11     11      9
D546V11, multiclass
[1] "Remove cluster labels:" "MIER1 MUTATED"         
clus
  MIER1 MUTATED MIER1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-F4-6459      TCGA-F4-6460 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-G4-6628 
"MIER1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MIER1 MUTATED        0      0      0      1      0      0      0      0
  MIER1 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  MIER1 MUTATED        0
  MIER1 WILD-TYPE      5
D546V12, multiclass
[1] "Remove cluster labels:" "MIER1 MUTATED"         
clus
  MIER1 MUTATED MIER1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-F4-6459      TCGA-F4-6460 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" "MIER1 WILD-TYPE" 
     TCGA-G4-6628 
"MIER1 WILD-TYPE" 

Clustering(547) Variable = ICOSLG MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ICOSLG MUTATED        0      0      0      0      0
  ICOSLG WILD-TYPE     32     18     46     27     23
D547V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ICOSLG MUTATED        0      0      0
  ICOSLG WILD-TYPE     43     67     36
D547V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ICOSLG MUTATED        0      0      4
  ICOSLG WILD-TYPE     42    173    143
D547V3, multiclass
        clus
vv       ICOSLG MUTATED ICOSLG WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ICOSLG MUTATED        2      0      2
  ICOSLG WILD-TYPE     60     73     73
D547V4, multiclass
        clus
vv       ICOSLG MUTATED ICOSLG WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ICOSLG MUTATED        0      1      3
  ICOSLG WILD-TYPE     70    119     97
D547V5, multiclass
        clus
vv       ICOSLG MUTATED ICOSLG WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ICOSLG MUTATED        0      1      0      0      0      3      0      0
  ICOSLG WILD-TYPE     41     25     30     29     39     66     20     14
                  vv
clus               CLUS_9
  ICOSLG MUTATED        0
  ICOSLG WILD-TYPE     22
D547V6, multiclass
        clus
vv       ICOSLG MUTATED ICOSLG WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ICOSLG MUTATED        0      2      2      0
  ICOSLG WILD-TYPE    100     70     70    121
D547V7, multiclass
        clus
vv       ICOSLG MUTATED ICOSLG WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ICOSLG MUTATED        0      1      3      0      0
  ICOSLG WILD-TYPE     59     74     71    119     38
D547V8, multiclass
        clus
vv       ICOSLG MUTATED ICOSLG WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ICOSLG MUTATED        0      3      0      0      1
  ICOSLG WILD-TYPE     51     73     61     71     94
D547V9, multiclass
        clus
vv       ICOSLG MUTATED ICOSLG WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ICOSLG MUTATED        0      2      0      1      0      0      0      0
  ICOSLG WILD-TYPE     69     46     39     15     53     20     21     38
                  vv
clus               CLUS_9
  ICOSLG MUTATED        1
  ICOSLG WILD-TYPE     49
D547V10, multiclass
        clus
vv       ICOSLG MUTATED ICOSLG WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ICOSLG MUTATED        0      0      1      0      2      0
  ICOSLG WILD-TYPE     13     16     13     11      9      9
D547V11, multiclass
        clus
vv       ICOSLG MUTATED ICOSLG WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ICOSLG MUTATED        0      0      0      1      0      1      1      0
  ICOSLG WILD-TYPE     11      7      7      8      8      6     10      9
                  vv
clus               CLUS_9
  ICOSLG MUTATED        0
  ICOSLG WILD-TYPE      5
D547V12, multiclass
        clus
vv       ICOSLG MUTATED ICOSLG WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(548) Variable = ARNT2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARNT2 MUTATED        4      0      0      0      0
  ARNT2 WILD-TYPE     28     18     46     27     23
D548V1, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARNT2 MUTATED        3      0      1
  ARNT2 WILD-TYPE     40     67     35
D548V2, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARNT2 MUTATED        1      1     10
  ARNT2 WILD-TYPE     41    172    137
D548V3, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARNT2 MUTATED        3      1      4
  ARNT2 WILD-TYPE     59     72     71
D548V4, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARNT2 MUTATED        1      3      6
  ARNT2 WILD-TYPE     69    117     94
D548V5, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARNT2 MUTATED        3      0      1      1      1      3      0      1
  ARNT2 WILD-TYPE     38     26     29     28     38     66     20     13
                 vv
clus              CLUS_9
  ARNT2 MUTATED        0
  ARNT2 WILD-TYPE     22
D548V6, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARNT2 MUTATED        0      3      5      4
  ARNT2 WILD-TYPE    100     69     67    117
D548V7, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             5              67
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARNT2 MUTATED        2      0      6      1      3
  ARNT2 WILD-TYPE     57     75     68    118     35
D548V8, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARNT2 MUTATED        1      3      3      3      1
  ARNT2 WILD-TYPE     50     73     58     68     94
D548V9, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             3              58
  CLUS_4             3              68
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARNT2 MUTATED        0      4      0      2      3      1      0      1
  ARNT2 WILD-TYPE     69     44     39     14     50     19     21     37
                 vv
clus              CLUS_9
  ARNT2 MUTATED        0
  ARNT2 WILD-TYPE     50
D548V10, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARNT2 MUTATED        0      0      1      1      1      0
  ARNT2 WILD-TYPE     13     16     13     10     10      9
D548V11, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARNT2 MUTATED        0      0      1      0      1      0      1      0
  ARNT2 WILD-TYPE     11      7      6      9      7      7     10      9
                 vv
clus              CLUS_9
  ARNT2 MUTATED        0
  ARNT2 WILD-TYPE      5
D548V12, multiclass
        clus
vv       ARNT2 MUTATED ARNT2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(549) Variable = MRE11A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRE11A MUTATED        0      0      0      1      0
  MRE11A WILD-TYPE     32     18     46     26     23
D549V1, multiclass
[1] "Remove cluster labels:" "MRE11A MUTATED"        
clus
  MRE11A MUTATED MRE11A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AY-4071 
"MRE11A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRE11A MUTATED        1      0      0
  MRE11A WILD-TYPE     42     67     36
D549V2, multiclass
[1] "Remove cluster labels:" "MRE11A MUTATED"        
clus
  MRE11A MUTATED MRE11A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" "MRE11A WILD-TYPE" 
      TCGA-AY-4071 
"MRE11A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRE11A MUTATED        2      0     10
  MRE11A WILD-TYPE     40    173    137
D549V3, multiclass
        clus
vv       MRE11A MUTATED MRE11A WILD-TYPE
  CLUS_1              2               40
  CLUS_2              0              173
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRE11A MUTATED        5      1      5
  MRE11A WILD-TYPE     57     72     70
D549V4, multiclass
        clus
vv       MRE11A MUTATED MRE11A WILD-TYPE
  CLUS_1              5               57
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRE11A MUTATED        1      3      7
  MRE11A WILD-TYPE     69    117     93
D549V5, multiclass
        clus
vv       MRE11A MUTATED MRE11A WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRE11A MUTATED        3      0      0      2      0      4      0      2
  MRE11A WILD-TYPE     38     26     30     27     39     65     20     12
                  vv
clus               CLUS_9
  MRE11A MUTATED        0
  MRE11A WILD-TYPE     22
D549V6, multiclass
        clus
vv       MRE11A MUTATED MRE11A WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MRE11A MUTATED        1      7      3      1
  MRE11A WILD-TYPE     99     65     69    120
D549V7, multiclass
        clus
vv       MRE11A MUTATED MRE11A WILD-TYPE
  CLUS_1              1               99
  CLUS_2              7               65
  CLUS_3              3               69
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRE11A MUTATED        2      2      7      0      1
  MRE11A WILD-TYPE     57     73     67    119     37
D549V8, multiclass
        clus
vv       MRE11A MUTATED MRE11A WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              7               67
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRE11A MUTATED        1      5      3      2      0
  MRE11A WILD-TYPE     50     71     58     69     95
D549V9, multiclass
        clus
vv       MRE11A MUTATED MRE11A WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              3               58
  CLUS_4              2               69
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRE11A MUTATED        3      3      1      3      0      1      0      0
  MRE11A WILD-TYPE     66     45     38     13     53     19     21     38
                  vv
clus               CLUS_9
  MRE11A MUTATED        0
  MRE11A WILD-TYPE     50
D549V10, multiclass
        clus
vv       MRE11A MUTATED MRE11A WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MRE11A MUTATED        0      1      3      0      0      0
  MRE11A WILD-TYPE     13     15     11     11     11      9
D549V11, multiclass
        clus
vv       MRE11A MUTATED MRE11A WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              3               11
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRE11A MUTATED        1      0      0      0      1      1      0      0
  MRE11A WILD-TYPE     10      7      7      9      7      6     11      9
                  vv
clus               CLUS_9
  MRE11A MUTATED        1
  MRE11A WILD-TYPE      4
D549V12, multiclass
        clus
vv       MRE11A MUTATED MRE11A WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(550) Variable = DUSP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP1 MUTATED        0      1      0      0      0
  DUSP1 WILD-TYPE     32     17     46     27     23
D550V1, multiclass
[1] "Remove cluster labels:" "DUSP1 MUTATED"         
clus
  DUSP1 MUTATED DUSP1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3516      TCGA-AA-3517 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AY-4071 
"DUSP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP1 MUTATED        1      0      0
  DUSP1 WILD-TYPE     42     67     36
D550V2, multiclass
[1] "Remove cluster labels:" "DUSP1 MUTATED"         
clus
  DUSP1 MUTATED DUSP1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3516      TCGA-AA-3517 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AY-4071 
"DUSP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP1 MUTATED        0      1      5
  DUSP1 WILD-TYPE     42    172    142
D550V3, multiclass
        clus
vv       DUSP1 MUTATED DUSP1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP1 MUTATED        2      2      1
  DUSP1 WILD-TYPE     60     71     74
D550V4, multiclass
        clus
vv       DUSP1 MUTATED DUSP1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP1 MUTATED        3      0      2
  DUSP1 WILD-TYPE     67    120     98
D550V5, multiclass
        clus
vv       DUSP1 MUTATED DUSP1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             0             120
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP1 MUTATED        1      1      0      0      1      2      0      0
  DUSP1 WILD-TYPE     40     25     30     29     38     67     20     14
                 vv
clus              CLUS_9
  DUSP1 MUTATED        0
  DUSP1 WILD-TYPE     22
D550V6, multiclass
        clus
vv       DUSP1 MUTATED DUSP1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DUSP1 MUTATED        1      2      2      1
  DUSP1 WILD-TYPE     99     70     70    120
D550V7, multiclass
        clus
vv       DUSP1 MUTATED DUSP1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP1 MUTATED        1      2      2      1      0
  DUSP1 WILD-TYPE     58     73     72    118     38
D550V8, multiclass
        clus
vv       DUSP1 MUTATED DUSP1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP1 MUTATED        1      3      2      0      0
  DUSP1 WILD-TYPE     50     73     59     71     95
D550V9, multiclass
        clus
vv       DUSP1 MUTATED DUSP1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP1 MUTATED        3      1      0      0      0      1      1      0
  DUSP1 WILD-TYPE     66     47     39     16     53     19     20     38
                 vv
clus              CLUS_9
  DUSP1 MUTATED        0
  DUSP1 WILD-TYPE     50
D550V10, multiclass
        clus
vv       DUSP1 MUTATED DUSP1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DUSP1 MUTATED        0      1      1      0      0      0
  DUSP1 WILD-TYPE     13     15     13     11     11      9
D550V11, multiclass
[1] "Remove cluster labels:" "DUSP1 MUTATED"         
clus
  DUSP1 MUTATED DUSP1 WILD-TYPE 
              2              72 
     TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP1 MUTATED        0      1      0      0      0      0      1      0
  DUSP1 WILD-TYPE     11      6      7      9      8      7     10      9
                 vv
clus              CLUS_9
  DUSP1 MUTATED        0
  DUSP1 WILD-TYPE      5
D550V12, multiclass
[1] "Remove cluster labels:" "DUSP1 MUTATED"         
clus
  DUSP1 MUTATED DUSP1 WILD-TYPE 
              2              72 
     TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" "DUSP1 WILD-TYPE" 

Clustering(551) Variable = ERGIC1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERGIC1 MUTATED        0      0      0      0      0
  ERGIC1 WILD-TYPE     32     18     46     27     23
D551V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERGIC1 MUTATED        0      0      0
  ERGIC1 WILD-TYPE     43     67     36
D551V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERGIC1 MUTATED        1      1      2
  ERGIC1 WILD-TYPE     41    172    145
D551V3, multiclass
        clus
vv       ERGIC1 MUTATED ERGIC1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERGIC1 MUTATED        1      1      2
  ERGIC1 WILD-TYPE     61     72     73
D551V4, multiclass
        clus
vv       ERGIC1 MUTATED ERGIC1 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERGIC1 MUTATED        0      1      3
  ERGIC1 WILD-TYPE     70    119     97
D551V5, multiclass
        clus
vv       ERGIC1 MUTATED ERGIC1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERGIC1 MUTATED        1      0      0      1      0      2      0      0
  ERGIC1 WILD-TYPE     40     26     30     28     39     67     20     14
                  vv
clus               CLUS_9
  ERGIC1 MUTATED        0
  ERGIC1 WILD-TYPE     22
D551V6, multiclass
        clus
vv       ERGIC1 MUTATED ERGIC1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERGIC1 MUTATED        1      1      2      0
  ERGIC1 WILD-TYPE     99     71     70    121
D551V7, multiclass
        clus
vv       ERGIC1 MUTATED ERGIC1 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERGIC1 MUTATED        0      3      1      0      0
  ERGIC1 WILD-TYPE     59     72     73    119     38
D551V8, multiclass
        clus
vv       ERGIC1 MUTATED ERGIC1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERGIC1 MUTATED        1      2      0      1      0
  ERGIC1 WILD-TYPE     50     74     61     70     95
D551V9, multiclass
        clus
vv       ERGIC1 MUTATED ERGIC1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERGIC1 MUTATED        3      0      1      0      0      0      0      0
  ERGIC1 WILD-TYPE     66     48     38     16     53     20     21     38
                  vv
clus               CLUS_9
  ERGIC1 MUTATED        0
  ERGIC1 WILD-TYPE     50
D551V10, multiclass
        clus
vv       ERGIC1 MUTATED ERGIC1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERGIC1 MUTATED        0      0      1      0      0      0
  ERGIC1 WILD-TYPE     13     16     13     11     11      9
D551V11, multiclass
[1] "Remove cluster labels:" "ERGIC1 MUTATED"        
clus
  ERGIC1 MUTATED ERGIC1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6678       TCGA-CM-6679 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-G4-6628 
"ERGIC1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERGIC1 MUTATED        1      0      0      0      0      0      0      0
  ERGIC1 WILD-TYPE     10      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  ERGIC1 MUTATED        0
  ERGIC1 WILD-TYPE      5
D551V12, multiclass
[1] "Remove cluster labels:" "ERGIC1 MUTATED"        
clus
  ERGIC1 MUTATED ERGIC1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6678       TCGA-CM-6679 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" "ERGIC1 WILD-TYPE" 
      TCGA-G4-6628 
"ERGIC1 WILD-TYPE" 

Clustering(552) Variable = SYNRG MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNRG MUTATED        4      0      0      1      0
  SYNRG WILD-TYPE     28     18     46     26     23
D552V1, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNRG MUTATED        5      0      0
  SYNRG WILD-TYPE     38     67     36
D552V2, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNRG MUTATED        2      3     11
  SYNRG WILD-TYPE     40    170    136
D552V3, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNRG MUTATED        7      1      3
  SYNRG WILD-TYPE     55     72     72
D552V4, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             7              55
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNRG MUTATED        1      5      9
  SYNRG WILD-TYPE     69    115     91
D552V5, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNRG MUTATED        3      0      1      1      1      8      1      0
  SYNRG WILD-TYPE     38     26     29     28     38     61     19     14
                 vv
clus              CLUS_9
  SYNRG MUTATED        0
  SYNRG WILD-TYPE     22
D552V6, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             8              61
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SYNRG MUTATED        1      5      5      5
  SYNRG WILD-TYPE     99     67     67    116
D552V7, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             5              67
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNRG MUTATED        1      1      8      1      5
  SYNRG WILD-TYPE     58     74     66    118     33
D552V8, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             1             118
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNRG MUTATED        1      7      1      2      5
  SYNRG WILD-TYPE     50     69     60     69     90
D552V9, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNRG MUTATED        6      3      0      1      1      0      1      4
  SYNRG WILD-TYPE     63     45     39     15     52     20     20     34
                 vv
clus              CLUS_9
  SYNRG MUTATED        0
  SYNRG WILD-TYPE     50
D552V10, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             6              63
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SYNRG MUTATED        1      0      1      0      3      0
  SYNRG WILD-TYPE     12     16     13     11      8      9
D552V11, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNRG MUTATED        0      0      0      1      0      1      2      1
  SYNRG WILD-TYPE     11      7      7      8      8      6      9      8
                 vv
clus              CLUS_9
  SYNRG MUTATED        0
  SYNRG WILD-TYPE      5
D552V12, multiclass
        clus
vv       SYNRG MUTATED SYNRG WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(553) Variable = BACE2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BACE2 MUTATED        1      0      0      2      0
  BACE2 WILD-TYPE     31     18     46     25     23
D553V1, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BACE2 MUTATED        2      1      0
  BACE2 WILD-TYPE     41     66     36
D553V2, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BACE2 MUTATED        0      2      8
  BACE2 WILD-TYPE     42    171    139
D553V3, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BACE2 MUTATED        2      2      3
  BACE2 WILD-TYPE     60     71     72
D553V4, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BACE2 MUTATED        2      3      2
  BACE2 WILD-TYPE     68    117     98
D553V5, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BACE2 MUTATED        1      0      2      0      1      1      0      2
  BACE2 WILD-TYPE     40     26     28     29     38     68     20     12
                 vv
clus              CLUS_9
  BACE2 MUTATED        0
  BACE2 WILD-TYPE     22
D553V6, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BACE2 MUTATED        1      3      3      3
  BACE2 WILD-TYPE     99     69     69    118
D553V7, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BACE2 MUTATED        2      2      3      1      2
  BACE2 WILD-TYPE     57     73     71    118     36
D553V8, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BACE2 MUTATED        0      4      4      0      2
  BACE2 WILD-TYPE     51     72     57     71     93
D553V9, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             4              57
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BACE2 MUTATED        3      1      1      2      0      1      1      1
  BACE2 WILD-TYPE     66     47     38     14     53     19     20     37
                 vv
clus              CLUS_9
  BACE2 MUTATED        0
  BACE2 WILD-TYPE     50
D553V10, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BACE2 MUTATED        0      1      0      0      1      1
  BACE2 WILD-TYPE     13     15     14     11     10      8
D553V11, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BACE2 MUTATED        1      1      0      1      0      0      0      0
  BACE2 WILD-TYPE     10      6      7      8      8      7     11      9
                 vv
clus              CLUS_9
  BACE2 MUTATED        0
  BACE2 WILD-TYPE      5
D553V12, multiclass
        clus
vv       BACE2 MUTATED BACE2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(554) Variable = LMTK3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LMTK3 MUTATED        0      0      0      0      0
  LMTK3 WILD-TYPE     32     18     46     27     23
D554V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMTK3 MUTATED        0      0      0
  LMTK3 WILD-TYPE     43     67     36
D554V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMTK3 MUTATED        2      3     10
  LMTK3 WILD-TYPE     40    170    137
D554V3, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMTK3 MUTATED        7      2      6
  LMTK3 WILD-TYPE     55     71     69
D554V4, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             2              71
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMTK3 MUTATED        1      6      8
  LMTK3 WILD-TYPE     69    114     92
D554V5, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LMTK3 MUTATED        2      2      1      1      0      7      1      1
  LMTK3 WILD-TYPE     39     24     29     28     39     62     19     13
                 vv
clus              CLUS_9
  LMTK3 MUTATED        0
  LMTK3 WILD-TYPE     22
D554V6, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LMTK3 MUTATED        3      6      6      0
  LMTK3 WILD-TYPE     97     66     66    121
D554V7, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             6              66
  CLUS_3             6              66
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LMTK3 MUTATED        4      3      8      0      0
  LMTK3 WILD-TYPE     55     72     66    119     38
D554V8, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             3              72
  CLUS_3             8              66
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LMTK3 MUTATED        1      9      5      0      0
  LMTK3 WILD-TYPE     50     67     56     71     95
D554V9, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             9              67
  CLUS_3             5              56
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LMTK3 MUTATED        4      6      1      3      0      1      0      0
  LMTK3 WILD-TYPE     65     42     38     13     53     19     21     38
                 vv
clus              CLUS_9
  LMTK3 MUTATED        0
  LMTK3 WILD-TYPE     50
D554V10, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             6              42
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LMTK3 MUTATED        0      0      1      1      3      0
  LMTK3 WILD-TYPE     13     16     13     10      8      9
D554V11, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LMTK3 MUTATED        0      0      1      2      0      0      2      0
  LMTK3 WILD-TYPE     11      7      6      7      8      7      9      9
                 vv
clus              CLUS_9
  LMTK3 MUTATED        0
  LMTK3 WILD-TYPE      5
D554V12, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(555) Variable = RTP3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RTP3 MUTATED        0      0      0      0      0
  RTP3 WILD-TYPE     32     18     46     27     23
D555V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTP3 MUTATED        0      0      0
  RTP3 WILD-TYPE     43     67     36
D555V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTP3 MUTATED        1      4      0
  RTP3 WILD-TYPE     41    169    147
D555V3, multiclass
        clus
vv       RTP3 MUTATED RTP3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            0            147
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTP3 MUTATED        1      3      1
  RTP3 WILD-TYPE     61     70     74
D555V4, multiclass
        clus
vv       RTP3 MUTATED RTP3 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            3             70
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTP3 MUTATED        0      4      0
  RTP3 WILD-TYPE     70    116    100
D555V5, multiclass
        clus
vv       RTP3 MUTATED RTP3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            0            100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RTP3 MUTATED        0      0      2      2      0      0      0      0      0
  RTP3 WILD-TYPE     41     26     28     27     39     69     20     14     22
D555V6, multiclass
        clus
vv       RTP3 MUTATED RTP3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            0             69
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RTP3 MUTATED        4      1      0      0
  RTP3 WILD-TYPE     96     71     72    121
D555V7, multiclass
        clus
vv       RTP3 MUTATED RTP3 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            1             71
  CLUS_3            0             72
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RTP3 MUTATED        1      3      1      0      0
  RTP3 WILD-TYPE     58     72     73    119     38
D555V8, multiclass
        clus
vv       RTP3 MUTATED RTP3 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RTP3 MUTATED        1      2      1      1      0
  RTP3 WILD-TYPE     50     74     60     70     95
D555V9, multiclass
        clus
vv       RTP3 MUTATED RTP3 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RTP3 MUTATED        2      1      0      1      1      0      0      0      0
  RTP3 WILD-TYPE     67     47     39     15     52     20     21     38     50
D555V10, multiclass
        clus
vv       RTP3 MUTATED RTP3 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RTP3 MUTATED        1      0      0      0      1      0
  RTP3 WILD-TYPE     12     16     14     11     10      9
D555V11, multiclass
[1] "Remove cluster labels:" "RTP3 MUTATED"          
clus
  RTP3 MUTATED RTP3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6605     TCGA-AZ-6607 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RTP3 MUTATED        0      0      1      1      0      0      0      0      0
  RTP3 WILD-TYPE     11      7      6      8      8      7     11      9      5
D555V12, multiclass
[1] "Remove cluster labels:" "RTP3 MUTATED"          
clus
  RTP3 MUTATED RTP3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6605     TCGA-AZ-6607 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" "RTP3 WILD-TYPE" 

Clustering(556) Variable = BCL9L MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL9L MUTATED        1      2      1      0      0
  BCL9L WILD-TYPE     31     16     45     27     23
D556V1, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             1              31
  CLUS_2             2              16
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL9L MUTATED        2      1      1
  BCL9L WILD-TYPE     41     66     35
D556V2, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL9L MUTATED        1      4     14
  BCL9L WILD-TYPE     41    169    133
D556V3, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL9L MUTATED        8      2      4
  BCL9L WILD-TYPE     54     71     71
D556V4, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             8              54
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL9L MUTATED        1      3     10
  BCL9L WILD-TYPE     69    117     90
D556V5, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCL9L MUTATED        1      0      1      0      2      7      2      1
  BCL9L WILD-TYPE     40     26     29     29     37     62     18     13
                 vv
clus              CLUS_9
  BCL9L MUTATED        0
  BCL9L WILD-TYPE     22
D556V6, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             7              62
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCL9L MUTATED        2      6      7      4
  BCL9L WILD-TYPE     98     66     65    117
D556V7, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             7              65
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL9L MUTATED        1      3     10      3      2
  BCL9L WILD-TYPE     58     72     64    116     36
D556V8, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3            10              64
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL9L MUTATED        2      9      4      1      3
  BCL9L WILD-TYPE     49     67     57     70     92
D556V9, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             2              49
  CLUS_2             9              67
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCL9L MUTATED        4      4      1      2      1      1      3      1
  BCL9L WILD-TYPE     65     44     38     14     52     19     18     37
                 vv
clus              CLUS_9
  BCL9L MUTATED        2
  BCL9L WILD-TYPE     48
D556V10, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             3              18
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BCL9L MUTATED        0      0      1      1      2      0
  BCL9L WILD-TYPE     13     16     13     10      9      9
D556V11, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCL9L MUTATED        0      0      0      0      1      1      2      0
  BCL9L WILD-TYPE     11      7      7      9      7      6      9      9
                 vv
clus              CLUS_9
  BCL9L MUTATED        0
  BCL9L WILD-TYPE      5
D556V12, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(557) Variable = AKAP9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP9 MUTATED        9      0      0      3      2
  AKAP9 WILD-TYPE     23     18     46     24     21
D557V1, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1             9              23
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             2              21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP9 MUTATED       11      1      2
  AKAP9 WILD-TYPE     32     66     34
D557V2, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1            11              32
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP9 MUTATED        2      9     32
  AKAP9 WILD-TYPE     40    164    115
D557V3, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             9             164
  CLUS_3            32             115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP9 MUTATED       11      6     12
  AKAP9 WILD-TYPE     51     67     63
D557V4, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1            11              51
  CLUS_2             6              67
  CLUS_3            12              63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP9 MUTATED        5     15     16
  AKAP9 WILD-TYPE     65    105     84
D557V5, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1             5              65
  CLUS_2            15             105
  CLUS_3            16              84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP9 MUTATED        6      1      1      3      7     10      4      1
  AKAP9 WILD-TYPE     35     25     29     26     32     59     16     13
                 vv
clus              CLUS_9
  AKAP9 MUTATED        3
  AKAP9 WILD-TYPE     19
D557V6, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1             6              35
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             7              32
  CLUS_6            10              59
  CLUS_7             4              16
  CLUS_8             1              13
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AKAP9 MUTATED        5     12     11     15
  AKAP9 WILD-TYPE     95     60     61    106
D557V7, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1             5              95
  CLUS_2            12              60
  CLUS_3            11              61
  CLUS_4            15             106
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP9 MUTATED        7      6     15      6      9
  AKAP9 WILD-TYPE     52     69     59    113     29
D557V8, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1             7              52
  CLUS_2             6              69
  CLUS_3            15              59
  CLUS_4             6             113
  CLUS_5             9              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP9 MUTATED        4     14      8      1     15
  AKAP9 WILD-TYPE     47     62     53     70     80
D557V9, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1             4              47
  CLUS_2            14              62
  CLUS_3             8              53
  CLUS_4             1              70
  CLUS_5            15              80
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP9 MUTATED        8      7      1      4      5      3      3      8
  AKAP9 WILD-TYPE     61     41     38     12     48     17     18     30
                 vv
clus              CLUS_9
  AKAP9 MUTATED        3
  AKAP9 WILD-TYPE     47
D557V10, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1             8              61
  CLUS_2             7              41
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             5              48
  CLUS_6             3              17
  CLUS_7             3              18
  CLUS_8             8              30
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AKAP9 MUTATED        0      2      3      1      3      0
  AKAP9 WILD-TYPE     13     14     11     10      8      9
D557V11, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             3              11
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP9 MUTATED        1      0      0      0      3      2      3      0
  AKAP9 WILD-TYPE     10      7      7      9      5      5      8      9
                 vv
clus              CLUS_9
  AKAP9 MUTATED        0
  AKAP9 WILD-TYPE      5
D557V12, multiclass
        clus
vv       AKAP9 MUTATED AKAP9 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             3               5
  CLUS_6             2               5
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(558) Variable = ZNF547 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF547 MUTATED        0      0      0      0      0
  ZNF547 WILD-TYPE     32     18     46     27     23
D558V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF547 MUTATED        0      0      0
  ZNF547 WILD-TYPE     43     67     36
D558V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF547 MUTATED        1      3      4
  ZNF547 WILD-TYPE     41    170    143
D558V3, multiclass
        clus
vv       ZNF547 MUTATED ZNF547 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF547 MUTATED        3      2      3
  ZNF547 WILD-TYPE     59     71     72
D558V4, multiclass
        clus
vv       ZNF547 MUTATED ZNF547 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF547 MUTATED        0      3      5
  ZNF547 WILD-TYPE     70    117     95
D558V5, multiclass
        clus
vv       ZNF547 MUTATED ZNF547 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF547 MUTATED        1      0      2      0      1      4      0      0
  ZNF547 WILD-TYPE     40     26     28     29     38     65     20     14
                  vv
clus               CLUS_9
  ZNF547 MUTATED        0
  ZNF547 WILD-TYPE     22
D558V6, multiclass
        clus
vv       ZNF547 MUTATED ZNF547 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF547 MUTATED        3      2      3      0
  ZNF547 WILD-TYPE     97     70     69    121
D558V7, multiclass
        clus
vv       ZNF547 MUTATED ZNF547 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF547 MUTATED        2      3      3      0      0
  ZNF547 WILD-TYPE     57     72     71    119     38
D558V8, multiclass
        clus
vv       ZNF547 MUTATED ZNF547 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF547 MUTATED        0      3      2      2      1
  ZNF547 WILD-TYPE     51     73     59     69     94
D558V9, multiclass
        clus
vv       ZNF547 MUTATED ZNF547 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF547 MUTATED        3      3      0      1      0      0      0      1
  ZNF547 WILD-TYPE     66     45     39     15     53     20     21     37
                  vv
clus               CLUS_9
  ZNF547 MUTATED        0
  ZNF547 WILD-TYPE     50
D558V10, multiclass
        clus
vv       ZNF547 MUTATED ZNF547 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF547 MUTATED        1      0      0      0      0      0
  ZNF547 WILD-TYPE     12     16     14     11     11      9
D558V11, multiclass
[1] "Remove cluster labels:" "ZNF547 MUTATED"        
clus
  ZNF547 MUTATED ZNF547 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF547 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF547 MUTATED        0      0      0      0      0      0      0      1
  ZNF547 WILD-TYPE     11      7      7      9      8      7     11      8
                  vv
clus               CLUS_9
  ZNF547 MUTATED        0
  ZNF547 WILD-TYPE      5
D558V12, multiclass
[1] "Remove cluster labels:" "ZNF547 MUTATED"        
clus
  ZNF547 MUTATED ZNF547 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" "ZNF547 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF547 WILD-TYPE" 

Clustering(559) Variable = MRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRAS MUTATED        1      0      0      0      0
  MRAS WILD-TYPE     31     18     46     27     23
D559V1, multiclass
[1] "Remove cluster labels:" "MRAS MUTATED"          
clus
  MRAS MUTATED MRAS WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2677     TCGA-A6-2678 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AY-4071 
"MRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MRAS MUTATED        1      0      0
  MRAS WILD-TYPE     42     67     36
D559V2, multiclass
[1] "Remove cluster labels:" "MRAS MUTATED"          
clus
  MRAS MUTATED MRAS WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2677     TCGA-A6-2678 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" "MRAS WILD-TYPE" 
    TCGA-AY-4071 
"MRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MRAS MUTATED        1      1      2
  MRAS WILD-TYPE     41    172    145
D559V3, multiclass
        clus
vv       MRAS MUTATED MRAS WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MRAS MUTATED        1      1      1
  MRAS WILD-TYPE     61     72     74
D559V4, multiclass
        clus
vv       MRAS MUTATED MRAS WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MRAS MUTATED        0      3      1
  MRAS WILD-TYPE     70    117     99
D559V5, multiclass
        clus
vv       MRAS MUTATED MRAS WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MRAS MUTATED        0      0      0      1      1      1      0      1      0
  MRAS WILD-TYPE     41     26     30     28     38     68     20     13     22
D559V6, multiclass
        clus
vv       MRAS MUTATED MRAS WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MRAS MUTATED        2      1      0      1
  MRAS WILD-TYPE     98     71     72    120
D559V7, multiclass
        clus
vv       MRAS MUTATED MRAS WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            0             72
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRAS MUTATED        1      1      1      0      1
  MRAS WILD-TYPE     58     74     73    119     37
D559V8, multiclass
        clus
vv       MRAS MUTATED MRAS WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRAS MUTATED        1      2      0      0      1
  MRAS WILD-TYPE     50     74     61     71     94
D559V9, multiclass
        clus
vv       MRAS MUTATED MRAS WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MRAS MUTATED        0      1      1      1      0      0      0      1      0
  MRAS WILD-TYPE     69     47     38     15     53     20     21     37     50
D559V10, multiclass
        clus
vv       MRAS MUTATED MRAS WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MRAS MUTATED        0      0      0      0      0      0
  MRAS WILD-TYPE     13     16     14     11     11      9
D559V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MRAS MUTATED        0      0      0      0      0      0      0      0      0
  MRAS WILD-TYPE     11      7      7      9      8      7     11      9      5
D559V12, multiclass

Clustering(560) Variable = ARFIP1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARFIP1 MUTATED        1      0      1      2      0
  ARFIP1 WILD-TYPE     31     18     45     25     23
D560V1, multiclass
        clus
vv       ARFIP1 MUTATED ARFIP1 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARFIP1 MUTATED        2      1      1
  ARFIP1 WILD-TYPE     41     66     35
D560V2, multiclass
        clus
vv       ARFIP1 MUTATED ARFIP1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARFIP1 MUTATED        1      1     10
  ARFIP1 WILD-TYPE     41    172    137
D560V3, multiclass
        clus
vv       ARFIP1 MUTATED ARFIP1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARFIP1 MUTATED        5      0      2
  ARFIP1 WILD-TYPE     57     73     73
D560V4, multiclass
        clus
vv       ARFIP1 MUTATED ARFIP1 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARFIP1 MUTATED        2      2      7
  ARFIP1 WILD-TYPE     68    118     93
D560V5, multiclass
        clus
vv       ARFIP1 MUTATED ARFIP1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARFIP1 MUTATED        1      1      0      1      1      6      0      1
  ARFIP1 WILD-TYPE     40     25     30     28     38     63     20     13
                  vv
clus               CLUS_9
  ARFIP1 MUTATED        0
  ARFIP1 WILD-TYPE     22
D560V6, multiclass
        clus
vv       ARFIP1 MUTATED ARFIP1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              6               63
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARFIP1 MUTATED        0      4      4      3
  ARFIP1 WILD-TYPE    100     68     68    118
D560V7, multiclass
        clus
vv       ARFIP1 MUTATED ARFIP1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              4               68
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARFIP1 MUTATED        2      2      4      1      2
  ARFIP1 WILD-TYPE     57     73     70    118     36
D560V8, multiclass
        clus
vv       ARFIP1 MUTATED ARFIP1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARFIP1 MUTATED        0      4      2      1      4
  ARFIP1 WILD-TYPE     51     72     59     70     91
D560V9, multiclass
        clus
vv       ARFIP1 MUTATED ARFIP1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARFIP1 MUTATED        1      3      0      2      0      1      1      0
  ARFIP1 WILD-TYPE     68     45     39     14     53     19     20     38
                  vv
clus               CLUS_9
  ARFIP1 MUTATED        3
  ARFIP1 WILD-TYPE     47
D560V10, multiclass
        clus
vv       ARFIP1 MUTATED ARFIP1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARFIP1 MUTATED        0      1      0      0      1      0
  ARFIP1 WILD-TYPE     13     15     14     11     10      9
D560V11, multiclass
[1] "Remove cluster labels:" "ARFIP1 MUTATED"        
clus
  ARFIP1 MUTATED ARFIP1 WILD-TYPE 
               2               72 
      TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARFIP1 MUTATED        0      1      0      0      0      0      1      0
  ARFIP1 WILD-TYPE     11      6      7      9      8      7     10      9
                  vv
clus               CLUS_9
  ARFIP1 MUTATED        0
  ARFIP1 WILD-TYPE      5
D560V12, multiclass
[1] "Remove cluster labels:" "ARFIP1 MUTATED"        
clus
  ARFIP1 MUTATED ARFIP1 WILD-TYPE 
               2               72 
      TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" "ARFIP1 WILD-TYPE" 

Clustering(561) Variable = CNTFR MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNTFR MUTATED        1      0      0      0      1
  CNTFR WILD-TYPE     31     18     46     27     22
D561V1, multiclass
[1] "Remove cluster labels:" "CNTFR MUTATED"         
clus
  CNTFR MUTATED CNTFR WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3679 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNTFR MUTATED        0      1      1
  CNTFR WILD-TYPE     43     66     35
D561V2, multiclass
[1] "Remove cluster labels:" "CNTFR MUTATED"         
clus
  CNTFR MUTATED CNTFR WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3679 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" "CNTFR WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNTFR MUTATED        2      3      5
  CNTFR WILD-TYPE     40    170    142
D561V3, multiclass
        clus
vv       CNTFR MUTATED CNTFR WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNTFR MUTATED        2      3      3
  CNTFR WILD-TYPE     60     70     72
D561V4, multiclass
        clus
vv       CNTFR MUTATED CNTFR WILD-TYPE
  CLUS_1             2              60
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNTFR MUTATED        0      2      6
  CNTFR WILD-TYPE     70    118     94
D561V5, multiclass
        clus
vv       CNTFR MUTATED CNTFR WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNTFR MUTATED        1      0      0      2      0      5      0      0
  CNTFR WILD-TYPE     40     26     30     27     39     64     20     14
                 vv
clus              CLUS_9
  CNTFR MUTATED        0
  CNTFR WILD-TYPE     22
D561V6, multiclass
        clus
vv       CNTFR MUTATED CNTFR WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CNTFR MUTATED        3      3      2      2
  CNTFR WILD-TYPE     97     69     70    119
D561V7, multiclass
        clus
vv       CNTFR MUTATED CNTFR WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNTFR MUTATED        2      3      3      2      0
  CNTFR WILD-TYPE     57     72     71    117     38
D561V8, multiclass
        clus
vv       CNTFR MUTATED CNTFR WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNTFR MUTATED        2      5      1      2      0
  CNTFR WILD-TYPE     49     71     60     69     95
D561V9, multiclass
        clus
vv       CNTFR MUTATED CNTFR WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNTFR MUTATED        1      2      1      1      3      1      0      0
  CNTFR WILD-TYPE     68     46     38     15     50     19     21     38
                 vv
clus              CLUS_9
  CNTFR MUTATED        1
  CNTFR WILD-TYPE     49
D561V10, multiclass
        clus
vv       CNTFR MUTATED CNTFR WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CNTFR MUTATED        1      0      0      0      2      0
  CNTFR WILD-TYPE     12     16     14     11      9      9
D561V11, multiclass
        clus
vv       CNTFR MUTATED CNTFR WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNTFR MUTATED        0      0      0      1      0      0      1      0
  CNTFR WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  CNTFR MUTATED        1
  CNTFR WILD-TYPE      4
D561V12, multiclass
        clus
vv       CNTFR MUTATED CNTFR WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(562) Variable = RANBP17 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RANBP17 MUTATED        1      0      0      1      0
  RANBP17 WILD-TYPE     31     18     46     26     23
D562V1, multiclass
[1] "Remove cluster labels:" "RANBP17 MUTATED"       
clus
  RANBP17 MUTATED RANBP17 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RANBP17 MUTATED        1      1      0
  RANBP17 WILD-TYPE     42     66     36
D562V2, multiclass
[1] "Remove cluster labels:" "RANBP17 MUTATED"       
clus
  RANBP17 MUTATED RANBP17 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" "RANBP17 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RANBP17 MUTATED        1      2      7
  RANBP17 WILD-TYPE     41    171    140
D562V3, multiclass
        clus
vv       RANBP17 MUTATED RANBP17 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RANBP17 MUTATED        3      1      4
  RANBP17 WILD-TYPE     59     72     71
D562V4, multiclass
        clus
vv       RANBP17 MUTATED RANBP17 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RANBP17 MUTATED        1      2      7
  RANBP17 WILD-TYPE     69    118     93
D562V5, multiclass
        clus
vv       RANBP17 MUTATED RANBP17 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RANBP17 MUTATED        1      1      0      0      2      5      0      0
  RANBP17 WILD-TYPE     40     25     30     29     37     64     20     14
                   vv
clus                CLUS_9
  RANBP17 MUTATED        1
  RANBP17 WILD-TYPE     21
D562V6, multiclass
        clus
vv       RANBP17 MUTATED RANBP17 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               2                37
  CLUS_6               5                64
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RANBP17 MUTATED        2      3      4      1
  RANBP17 WILD-TYPE     98     69     68    120
D562V7, multiclass
        clus
vv       RANBP17 MUTATED RANBP17 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               3                69
  CLUS_3               4                68
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RANBP17 MUTATED        3      0      5      1      1
  RANBP17 WILD-TYPE     56     75     69    118     37
D562V8, multiclass
        clus
vv       RANBP17 MUTATED RANBP17 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               0                75
  CLUS_3               5                69
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RANBP17 MUTATED        1      5      2      0      1
  RANBP17 WILD-TYPE     50     71     59     71     94
D562V9, multiclass
        clus
vv       RANBP17 MUTATED RANBP17 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               5                71
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RANBP17 MUTATED        2      3      1      2      1      0      0      0
  RANBP17 WILD-TYPE     67     45     38     14     52     20     21     38
                   vv
clus                CLUS_9
  RANBP17 MUTATED        0
  RANBP17 WILD-TYPE     50
D562V10, multiclass
        clus
vv       RANBP17 MUTATED RANBP17 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               1                38
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RANBP17 MUTATED        0      0      0      1      3      0
  RANBP17 WILD-TYPE     13     16     14     10      8      9
D562V11, multiclass
        clus
vv       RANBP17 MUTATED RANBP17 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RANBP17 MUTATED        0      0      0      1      0      0      2      1
  RANBP17 WILD-TYPE     11      7      7      8      8      7      9      8
                   vv
clus                CLUS_9
  RANBP17 MUTATED        0
  RANBP17 WILD-TYPE      5
D562V12, multiclass
        clus
vv       RANBP17 MUTATED RANBP17 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(563) Variable = ZNF280C MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF280C MUTATED        1      1      0      0      0
  ZNF280C WILD-TYPE     31     17     46     27     23
D563V1, multiclass
[1] "Remove cluster labels:" "ZNF280C MUTATED"       
clus
  ZNF280C MUTATED ZNF280C WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3867 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF280C MUTATED        1      0      1
  ZNF280C WILD-TYPE     42     67     35
D563V2, multiclass
[1] "Remove cluster labels:" "ZNF280C MUTATED"       
clus
  ZNF280C MUTATED ZNF280C WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3867 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" "ZNF280C WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF280C MUTATED        0      3      6
  ZNF280C WILD-TYPE     42    170    141
D563V3, multiclass
        clus
vv       ZNF280C MUTATED ZNF280C WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF280C MUTATED        4      2      1
  ZNF280C WILD-TYPE     58     71     74
D563V4, multiclass
        clus
vv       ZNF280C MUTATED ZNF280C WILD-TYPE
  CLUS_1               4                58
  CLUS_2               2                71
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF280C MUTATED        0      3      5
  ZNF280C WILD-TYPE     70    117     95
D563V5, multiclass
        clus
vv       ZNF280C MUTATED ZNF280C WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF280C MUTATED        1      0      0      2      0      4      0      1
  ZNF280C WILD-TYPE     40     26     30     27     39     65     20     13
                   vv
clus                CLUS_9
  ZNF280C MUTATED        0
  ZNF280C WILD-TYPE     22
D563V6, multiclass
        clus
vv       ZNF280C MUTATED ZNF280C WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF280C MUTATED        3      2      2      2
  ZNF280C WILD-TYPE     97     70     70    119
D563V7, multiclass
        clus
vv       ZNF280C MUTATED ZNF280C WILD-TYPE
  CLUS_1               3                97
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF280C MUTATED        3      2      2      1      1
  ZNF280C WILD-TYPE     56     73     72    118     37
D563V8, multiclass
        clus
vv       ZNF280C MUTATED ZNF280C WILD-TYPE
  CLUS_1               3                56
  CLUS_2               2                73
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF280C MUTATED        1      2      3      1      2
  ZNF280C WILD-TYPE     50     74     58     70     93
D563V9, multiclass
        clus
vv       ZNF280C MUTATED ZNF280C WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               3                58
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF280C MUTATED        3      1      1      0      1      1      1      0
  ZNF280C WILD-TYPE     66     47     38     16     52     19     20     38
                   vv
clus                CLUS_9
  ZNF280C MUTATED        1
  ZNF280C WILD-TYPE     49
D563V10, multiclass
        clus
vv       ZNF280C MUTATED ZNF280C WILD-TYPE
  CLUS_1               3                66
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF280C MUTATED        0      0      1      2      0      0
  ZNF280C WILD-TYPE     13     16     13      9     11      9
D563V11, multiclass
        clus
vv       ZNF280C MUTATED ZNF280C WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               2                 9
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF280C MUTATED        0      0      0      0      0      0      3      0
  ZNF280C WILD-TYPE     11      7      7      9      8      7      8      9
                   vv
clus                CLUS_9
  ZNF280C MUTATED        0
  ZNF280C WILD-TYPE      5
D563V12, multiclass
        clus
vv       ZNF280C MUTATED ZNF280C WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               3                 8
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(564) Variable = SCN2A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCN2A MUTATED        7      0      1      2      0
  SCN2A WILD-TYPE     25     18     45     25     23
D564V1, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1             7              25
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN2A MUTATED        8      2      0
  SCN2A WILD-TYPE     35     65     36
D564V2, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1             8              35
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN2A MUTATED        1     15     28
  SCN2A WILD-TYPE     41    158    119
D564V3, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1             1              41
  CLUS_2            15             158
  CLUS_3            28             119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN2A MUTATED       10     11     11
  SCN2A WILD-TYPE     52     62     64
D564V4, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1            10              52
  CLUS_2            11              62
  CLUS_3            11              64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN2A MUTATED        6     14     16
  SCN2A WILD-TYPE     64    106     84
D564V5, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1             6              64
  CLUS_2            14             106
  CLUS_3            16              84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCN2A MUTATED        7      1      2      5      2     13      1      4
  SCN2A WILD-TYPE     34     25     28     24     37     56     19     10
                 vv
clus              CLUS_9
  SCN2A MUTATED        1
  SCN2A WILD-TYPE     21
D564V6, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1             7              34
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             5              24
  CLUS_5             2              37
  CLUS_6            13              56
  CLUS_7             1              19
  CLUS_8             4              10
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SCN2A MUTATED       13     11      9     12
  SCN2A WILD-TYPE     87     61     63    109
D564V7, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1            13              87
  CLUS_2            11              61
  CLUS_3             9              63
  CLUS_4            12             109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCN2A MUTATED        6     15     12      4      8
  SCN2A WILD-TYPE     53     60     62    115     30
D564V8, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1             6              53
  CLUS_2            15              60
  CLUS_3            12              62
  CLUS_4             4             115
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCN2A MUTATED        9     12      8      3     10
  SCN2A WILD-TYPE     42     64     53     68     85
D564V9, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1             9              42
  CLUS_2            12              64
  CLUS_3             8              53
  CLUS_4             3              68
  CLUS_5            10              85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCN2A MUTATED        9      7      8      4      2      3      3      5
  SCN2A WILD-TYPE     60     41     31     12     51     17     18     33
                 vv
clus              CLUS_9
  SCN2A MUTATED        1
  SCN2A WILD-TYPE     49
D564V10, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1             9              60
  CLUS_2             7              41
  CLUS_3             8              31
  CLUS_4             4              12
  CLUS_5             2              51
  CLUS_6             3              17
  CLUS_7             3              18
  CLUS_8             5              33
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SCN2A MUTATED        2      4      2      1      1      0
  SCN2A WILD-TYPE     11     12     12     10     10      9
D564V11, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1             2              11
  CLUS_2             4              12
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCN2A MUTATED        0      2      1      2      1      0      3      1
  SCN2A WILD-TYPE     11      5      6      7      7      7      8      8
                 vv
clus              CLUS_9
  SCN2A MUTATED        0
  SCN2A WILD-TYPE      5
D564V12, multiclass
        clus
vv       SCN2A MUTATED SCN2A WILD-TYPE
  CLUS_1             0              11
  CLUS_2             2               5
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(565) Variable = PLEK MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEK MUTATED        3      0      0      2      0
  PLEK WILD-TYPE     29     18     46     25     23
D565V1, multiclass
        clus
vv       PLEK MUTATED PLEK WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PLEK MUTATED        4      1      0
  PLEK WILD-TYPE     39     66     36
D565V2, multiclass
        clus
vv       PLEK MUTATED PLEK WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PLEK MUTATED        0      2      9
  PLEK WILD-TYPE     42    171    138
D565V3, multiclass
        clus
vv       PLEK MUTATED PLEK WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PLEK MUTATED        2      1      4
  PLEK WILD-TYPE     60     72     71
D565V4, multiclass
        clus
vv       PLEK MUTATED PLEK WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PLEK MUTATED        1      4      5
  PLEK WILD-TYPE     69    116     95
D565V5, multiclass
        clus
vv       PLEK MUTATED PLEK WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PLEK MUTATED        2      0      1      2      0      3      1      0      1
  PLEK WILD-TYPE     39     26     29     27     39     66     19     14     21
D565V6, multiclass
        clus
vv       PLEK MUTATED PLEK WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLEK MUTATED        2      3      2      5
  PLEK WILD-TYPE     98     69     70    116
D565V7, multiclass
        clus
vv       PLEK MUTATED PLEK WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEK MUTATED        1      3      3      1      4
  PLEK WILD-TYPE     58     72     71    118     34
D565V8, multiclass
        clus
vv       PLEK MUTATED PLEK WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEK MUTATED        1      4      1      0      5
  PLEK WILD-TYPE     50     72     60     71     90
D565V9, multiclass
        clus
vv       PLEK MUTATED PLEK WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PLEK MUTATED        0      2      1      1      2      2      0      2      1
  PLEK WILD-TYPE     69     46     38     15     51     18     21     36     49
D565V10, multiclass
        clus
vv       PLEK MUTATED PLEK WILD-TYPE
  CLUS_1            0             69
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLEK MUTATED        0      1      0      0      1      0
  PLEK WILD-TYPE     13     15     14     11     10      9
D565V11, multiclass
[1] "Remove cluster labels:" "PLEK MUTATED"          
clus
  PLEK MUTATED PLEK WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901     TCGA-AD-6963 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PLEK MUTATED        0      0      0      1      0      0      1      0      0
  PLEK WILD-TYPE     11      7      7      8      8      7     10      9      5
D565V12, multiclass
[1] "Remove cluster labels:" "PLEK MUTATED"          
clus
  PLEK MUTATED PLEK WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901     TCGA-AD-6963 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" "PLEK WILD-TYPE" 

Clustering(566) Variable = FAHD2A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAHD2A MUTATED        1      0      0      0      0
  FAHD2A WILD-TYPE     31     18     46     27     23
D566V1, multiclass
[1] "Remove cluster labels:" "FAHD2A MUTATED"        
clus
  FAHD2A MUTATED FAHD2A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AY-4071 
"FAHD2A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAHD2A MUTATED        1      0      0
  FAHD2A WILD-TYPE     42     67     36
D566V2, multiclass
[1] "Remove cluster labels:" "FAHD2A MUTATED"        
clus
  FAHD2A MUTATED FAHD2A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" "FAHD2A WILD-TYPE" 
      TCGA-AY-4071 
"FAHD2A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAHD2A MUTATED        0      1      5
  FAHD2A WILD-TYPE     42    172    142
D566V3, multiclass
        clus
vv       FAHD2A MUTATED FAHD2A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAHD2A MUTATED        0      1      4
  FAHD2A WILD-TYPE     62     72     71
D566V4, multiclass
        clus
vv       FAHD2A MUTATED FAHD2A WILD-TYPE
  CLUS_1              0               62
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAHD2A MUTATED        0      1      5
  FAHD2A WILD-TYPE     70    119     95
D566V5, multiclass
        clus
vv       FAHD2A MUTATED FAHD2A WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAHD2A MUTATED        0      0      0      1      0      5      0      0
  FAHD2A WILD-TYPE     41     26     30     28     39     64     20     14
                  vv
clus               CLUS_9
  FAHD2A MUTATED        0
  FAHD2A WILD-TYPE     22
D566V6, multiclass
        clus
vv       FAHD2A MUTATED FAHD2A WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAHD2A MUTATED        1      3      1      1
  FAHD2A WILD-TYPE     99     69     71    120
D566V7, multiclass
        clus
vv       FAHD2A MUTATED FAHD2A WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAHD2A MUTATED        0      1      4      0      1
  FAHD2A WILD-TYPE     59     74     70    119     37
D566V8, multiclass
        clus
vv       FAHD2A MUTATED FAHD2A WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAHD2A MUTATED        0      5      0      0      1
  FAHD2A WILD-TYPE     51     71     61     71     94
D566V9, multiclass
        clus
vv       FAHD2A MUTATED FAHD2A WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAHD2A MUTATED        2      1      1      1      0      0      0      1
  FAHD2A WILD-TYPE     67     47     38     15     53     20     21     37
                  vv
clus               CLUS_9
  FAHD2A MUTATED        0
  FAHD2A WILD-TYPE     50
D566V10, multiclass
        clus
vv       FAHD2A MUTATED FAHD2A WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAHD2A MUTATED        1      0      0      0      2      0
  FAHD2A WILD-TYPE     12     16     14     11      9      9
D566V11, multiclass
        clus
vv       FAHD2A MUTATED FAHD2A WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAHD2A MUTATED        0      0      0      1      0      0      1      1
  FAHD2A WILD-TYPE     11      7      7      8      8      7     10      8
                  vv
clus               CLUS_9
  FAHD2A MUTATED        0
  FAHD2A WILD-TYPE      5
D566V12, multiclass
        clus
vv       FAHD2A MUTATED FAHD2A WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(567) Variable = SPANXN2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPANXN2 MUTATED        3      0      0      0      0
  SPANXN2 WILD-TYPE     29     18     46     27     23
D567V1, multiclass
        clus
vv       SPANXN2 MUTATED SPANXN2 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPANXN2 MUTATED        3      0      0
  SPANXN2 WILD-TYPE     40     67     36
D567V2, multiclass
        clus
vv       SPANXN2 MUTATED SPANXN2 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPANXN2 MUTATED        0      2      5
  SPANXN2 WILD-TYPE     42    171    142
D567V3, multiclass
        clus
vv       SPANXN2 MUTATED SPANXN2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPANXN2 MUTATED        3      1      1
  SPANXN2 WILD-TYPE     59     72     74
D567V4, multiclass
        clus
vv       SPANXN2 MUTATED SPANXN2 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPANXN2 MUTATED        0      2      5
  SPANXN2 WILD-TYPE     70    118     95
D567V5, multiclass
        clus
vv       SPANXN2 MUTATED SPANXN2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPANXN2 MUTATED        0      0      1      0      0      4      1      1
  SPANXN2 WILD-TYPE     41     26     29     29     39     65     19     13
                   vv
clus                CLUS_9
  SPANXN2 MUTATED        0
  SPANXN2 WILD-TYPE     22
D567V6, multiclass
        clus
vv       SPANXN2 MUTATED SPANXN2 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPANXN2 MUTATED        1      3      1      3
  SPANXN2 WILD-TYPE     99     69     71    118
D567V7, multiclass
        clus
vv       SPANXN2 MUTATED SPANXN2 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               1                71
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPANXN2 MUTATED        0      3      2      0      3
  SPANXN2 WILD-TYPE     59     72     72    119     35
D567V8, multiclass
        clus
vv       SPANXN2 MUTATED SPANXN2 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               3                72
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPANXN2 MUTATED        0      4      0      0      4
  SPANXN2 WILD-TYPE     51     72     61     71     91
D567V9, multiclass
        clus
vv       SPANXN2 MUTATED SPANXN2 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPANXN2 MUTATED        2      0      0      1      1      0      0      3
  SPANXN2 WILD-TYPE     67     48     39     15     52     20     21     35
                   vv
clus                CLUS_9
  SPANXN2 MUTATED        1
  SPANXN2 WILD-TYPE     49
D567V10, multiclass
        clus
vv       SPANXN2 MUTATED SPANXN2 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPANXN2 MUTATED        0      0      0      0      2      0
  SPANXN2 WILD-TYPE     13     16     14     11      9      9
D567V11, multiclass
[1] "Remove cluster labels:" "SPANXN2 MUTATED"       
clus
  SPANXN2 MUTATED SPANXN2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625        TCGA-G4-6628 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPANXN2 MUTATED        0      0      0      1      0      1      0      0
  SPANXN2 WILD-TYPE     11      7      7      8      8      6     11      9
                   vv
clus                CLUS_9
  SPANXN2 MUTATED        0
  SPANXN2 WILD-TYPE      5
D567V12, multiclass
[1] "Remove cluster labels:" "SPANXN2 MUTATED"       
clus
  SPANXN2 MUTATED SPANXN2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625        TCGA-G4-6628 
"SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" "SPANXN2 WILD-TYPE" 

Clustering(568) Variable = KIF21A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF21A MUTATED        4      1      0      1      0
  KIF21A WILD-TYPE     28     17     46     26     23
D568V1, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              4               28
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF21A MUTATED        4      0      2
  KIF21A WILD-TYPE     39     67     34
D568V2, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF21A MUTATED        1      3     19
  KIF21A WILD-TYPE     41    170    128
D568V3, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3             19              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF21A MUTATED        6      2     10
  KIF21A WILD-TYPE     56     71     65
D568V4, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              6               56
  CLUS_2              2               71
  CLUS_3             10               65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF21A MUTATED        2      4     12
  KIF21A WILD-TYPE     68    116     88
D568V5, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3             12               88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF21A MUTATED        3      0      0      3      2      5      4      1
  KIF21A WILD-TYPE     38     26     30     26     37     64     16     13
                  vv
clus               CLUS_9
  KIF21A MUTATED        0
  KIF21A WILD-TYPE     22
D568V6, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              4               16
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIF21A MUTATED        2      9      8      5
  KIF21A WILD-TYPE     98     63     64    116
D568V7, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              2               98
  CLUS_2              9               63
  CLUS_3              8               64
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF21A MUTATED        3      3     12      2      4
  KIF21A WILD-TYPE     56     72     62    117     34
D568V8, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3             12               62
  CLUS_4              2              117
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF21A MUTATED        2     10      3      3      5
  KIF21A WILD-TYPE     49     66     58     68     90
D568V9, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              2               49
  CLUS_2             10               66
  CLUS_3              3               58
  CLUS_4              3               68
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF21A MUTATED        3      5      0      5      6      0      0      3
  KIF21A WILD-TYPE     66     43     39     11     47     20     21     35
                  vv
clus               CLUS_9
  KIF21A MUTATED        1
  KIF21A WILD-TYPE     49
D568V10, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              3               66
  CLUS_2              5               43
  CLUS_3              0               39
  CLUS_4              5               11
  CLUS_5              6               47
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIF21A MUTATED        0      0      1      0      4      0
  KIF21A WILD-TYPE     13     16     13     11      7      9
D568V11, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              4                7
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF21A MUTATED        0      0      0      2      2      1      0      0
  KIF21A WILD-TYPE     11      7      7      7      6      6     11      9
                  vv
clus               CLUS_9
  KIF21A MUTATED        0
  KIF21A WILD-TYPE      5
D568V12, multiclass
        clus
vv       KIF21A MUTATED KIF21A WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              2                6
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(569) Variable = TAOK3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAOK3 MUTATED        3      0      0      2      0
  TAOK3 WILD-TYPE     29     18     46     25     23
D569V1, multiclass
        clus
vv       TAOK3 MUTATED TAOK3 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAOK3 MUTATED        3      1      1
  TAOK3 WILD-TYPE     40     66     35
D569V2, multiclass
        clus
vv       TAOK3 MUTATED TAOK3 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAOK3 MUTATED        1      4     15
  TAOK3 WILD-TYPE     41    169    132
D569V3, multiclass
        clus
vv       TAOK3 MUTATED TAOK3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAOK3 MUTATED        5      2      9
  TAOK3 WILD-TYPE     57     71     66
D569V4, multiclass
        clus
vv       TAOK3 MUTATED TAOK3 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             2              71
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAOK3 MUTATED        1      5      9
  TAOK3 WILD-TYPE     69    115     91
D569V5, multiclass
        clus
vv       TAOK3 MUTATED TAOK3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAOK3 MUTATED        2      0      1      3      3      6      0      0
  TAOK3 WILD-TYPE     39     26     29     26     36     63     20     14
                 vv
clus              CLUS_9
  TAOK3 MUTATED        0
  TAOK3 WILD-TYPE     22
D569V6, multiclass
        clus
vv       TAOK3 MUTATED TAOK3 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAOK3 MUTATED        3      7      5      5
  TAOK3 WILD-TYPE     97     65     67    116
D569V7, multiclass
        clus
vv       TAOK3 MUTATED TAOK3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             7              65
  CLUS_3             5              67
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAOK3 MUTATED        3      3      9      2      3
  TAOK3 WILD-TYPE     56     72     65    117     35
D569V8, multiclass
        clus
vv       TAOK3 MUTATED TAOK3 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             9              65
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAOK3 MUTATED        3      9      2      1      4
  TAOK3 WILD-TYPE     48     67     59     70     91
D569V9, multiclass
        clus
vv       TAOK3 MUTATED TAOK3 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             9              67
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAOK3 MUTATED        4      4      1      4      2      1      0      3
  TAOK3 WILD-TYPE     65     44     38     12     51     19     21     35
                 vv
clus              CLUS_9
  TAOK3 MUTATED        0
  TAOK3 WILD-TYPE     50
D569V10, multiclass
        clus
vv       TAOK3 MUTATED TAOK3 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAOK3 MUTATED        0      1      0      0      1      0
  TAOK3 WILD-TYPE     13     15     14     11     10      9
D569V11, multiclass
[1] "Remove cluster labels:" "TAOK3 MUTATED"         
clus
  TAOK3 MUTATED TAOK3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3511      TCGA-AD-5900 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901      TCGA-AD-6963 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAOK3 MUTATED        1      0      0      0      0      1      0      0
  TAOK3 WILD-TYPE     10      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  TAOK3 MUTATED        0
  TAOK3 WILD-TYPE      5
D569V12, multiclass
[1] "Remove cluster labels:" "TAOK3 MUTATED"         
clus
  TAOK3 MUTATED TAOK3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3511      TCGA-AD-5900 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901      TCGA-AD-6963 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" "TAOK3 WILD-TYPE" 

Clustering(570) Variable = ANKRD17 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD17 MUTATED        5      0      1      2      0
  ANKRD17 WILD-TYPE     27     18     45     25     23
D570V1, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               5                27
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD17 MUTATED        6      2      0
  ANKRD17 WILD-TYPE     37     65     36
D570V2, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               6                37
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD17 MUTATED        0      5     21
  ANKRD17 WILD-TYPE     42    168    126
D570V3, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               5               168
  CLUS_3              21               126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD17 MUTATED        6      2     10
  ANKRD17 WILD-TYPE     56     71     65
D570V4, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               6                56
  CLUS_2               2                71
  CLUS_3              10                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD17 MUTATED        4      9     11
  ANKRD17 WILD-TYPE     66    111     89
D570V5, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               4                66
  CLUS_2               9               111
  CLUS_3              11                89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD17 MUTATED        5      2      1      3      1      8      2      1
  ANKRD17 WILD-TYPE     36     24     29     26     38     61     18     13
                   vv
clus                CLUS_9
  ANKRD17 MUTATED        1
  ANKRD17 WILD-TYPE     21
D570V6, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               5                36
  CLUS_2               2                24
  CLUS_3               1                29
  CLUS_4               3                26
  CLUS_5               1                38
  CLUS_6               8                61
  CLUS_7               2                18
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKRD17 MUTATED        2     12      5      7
  ANKRD17 WILD-TYPE     98     60     67    114
D570V7, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               2                98
  CLUS_2              12                60
  CLUS_3               5                67
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD17 MUTATED        3      2     11      4      6
  ANKRD17 WILD-TYPE     56     73     63    115     32
D570V8, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               2                73
  CLUS_3              11                63
  CLUS_4               4               115
  CLUS_5               6                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD17 MUTATED        3     10      3      0      8
  ANKRD17 WILD-TYPE     48     66     58     71     87
D570V9, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               3                48
  CLUS_2              10                66
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               8                87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD17 MUTATED        2      6      0      6      1      1      1      5
  ANKRD17 WILD-TYPE     67     42     39     10     52     19     20     33
                   vv
clus                CLUS_9
  ANKRD17 MUTATED        2
  ANKRD17 WILD-TYPE     48
D570V10, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               6                42
  CLUS_3               0                39
  CLUS_4               6                10
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               5                33
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANKRD17 MUTATED        0      1      0      1      3      1
  ANKRD17 WILD-TYPE     13     15     14     10      8      8
D570V11, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               3                 8
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD17 MUTATED        1      0      1      2      0      0      2      0
  ANKRD17 WILD-TYPE     10      7      6      7      8      7      9      9
                   vv
clus                CLUS_9
  ANKRD17 MUTATED        0
  ANKRD17 WILD-TYPE      5
D570V12, multiclass
        clus
vv       ANKRD17 MUTATED ANKRD17 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(571) Variable = WBP11 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WBP11 MUTATED        1      0      0      0      0
  WBP11 WILD-TYPE     31     18     46     27     23
D571V1, multiclass
[1] "Remove cluster labels:" "WBP11 MUTATED"         
clus
  WBP11 MUTATED WBP11 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AY-4071 
"WBP11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WBP11 MUTATED        0      0      1
  WBP11 WILD-TYPE     43     67     35
D571V2, multiclass
[1] "Remove cluster labels:" "WBP11 MUTATED"         
clus
  WBP11 MUTATED WBP11 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AY-4071 
"WBP11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WBP11 MUTATED        0      0      8
  WBP11 WILD-TYPE     42    173    139
D571V3, multiclass
        clus
vv       WBP11 MUTATED WBP11 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WBP11 MUTATED        2      0      5
  WBP11 WILD-TYPE     60     73     70
D571V4, multiclass
        clus
vv       WBP11 MUTATED WBP11 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WBP11 MUTATED        1      3      2
  WBP11 WILD-TYPE     69    117     98
D571V5, multiclass
        clus
vv       WBP11 MUTATED WBP11 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WBP11 MUTATED        0      1      0      1      1      2      0      1
  WBP11 WILD-TYPE     41     25     30     28     38     67     20     13
                 vv
clus              CLUS_9
  WBP11 MUTATED        0
  WBP11 WILD-TYPE     22
D571V6, multiclass
        clus
vv       WBP11 MUTATED WBP11 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WBP11 MUTATED        1      5      1      1
  WBP11 WILD-TYPE     99     67     71    120
D571V7, multiclass
        clus
vv       WBP11 MUTATED WBP11 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WBP11 MUTATED        0      2      5      1      0
  WBP11 WILD-TYPE     59     73     69    118     38
D571V8, multiclass
        clus
vv       WBP11 MUTATED WBP11 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WBP11 MUTATED        1      6      0      1      0
  WBP11 WILD-TYPE     50     70     61     70     95
D571V9, multiclass
        clus
vv       WBP11 MUTATED WBP11 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WBP11 MUTATED        4      0      1      2      1      0      0      0
  WBP11 WILD-TYPE     65     48     38     14     52     20     21     38
                 vv
clus              CLUS_9
  WBP11 MUTATED        0
  WBP11 WILD-TYPE     50
D571V10, multiclass
        clus
vv       WBP11 MUTATED WBP11 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WBP11 MUTATED        0      0      0      0      1      0
  WBP11 WILD-TYPE     13     16     14     11     10      9
D571V11, multiclass
[1] "Remove cluster labels:" "WBP11 MUTATED"         
clus
  WBP11 MUTATED WBP11 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-G4-6628 
"WBP11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WBP11 MUTATED        0      0      0      1      0      0      0      0
  WBP11 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  WBP11 MUTATED        0
  WBP11 WILD-TYPE      5
D571V12, multiclass
[1] "Remove cluster labels:" "WBP11 MUTATED"         
clus
  WBP11 MUTATED WBP11 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625 
"WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" "WBP11 WILD-TYPE" 
     TCGA-G4-6628 
"WBP11 WILD-TYPE" 

Clustering(572) Variable = HNRNPH3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HNRNPH3 MUTATED        0      0      0      0      1
  HNRNPH3 WILD-TYPE     32     18     46     27     22
D572V1, multiclass
[1] "Remove cluster labels:" "HNRNPH3 MUTATED"       
clus
  HNRNPH3 MUTATED HNRNPH3 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3966 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AY-4071 
"HNRNPH3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HNRNPH3 MUTATED        0      0      1
  HNRNPH3 WILD-TYPE     43     67     35
D572V2, multiclass
[1] "Remove cluster labels:" "HNRNPH3 MUTATED"       
clus
  HNRNPH3 MUTATED HNRNPH3 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3966 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AY-4071 
"HNRNPH3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HNRNPH3 MUTATED        1      1      2
  HNRNPH3 WILD-TYPE     41    172    145
D572V3, multiclass
        clus
vv       HNRNPH3 MUTATED HNRNPH3 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HNRNPH3 MUTATED        0      0      3
  HNRNPH3 WILD-TYPE     62     73     72
D572V4, multiclass
        clus
vv       HNRNPH3 MUTATED HNRNPH3 WILD-TYPE
  CLUS_1               0                62
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HNRNPH3 MUTATED        0      2      1
  HNRNPH3 WILD-TYPE     70    118     99
D572V5, multiclass
        clus
vv       HNRNPH3 MUTATED HNRNPH3 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HNRNPH3 MUTATED        0      0      0      2      0      1      0      0
  HNRNPH3 WILD-TYPE     41     26     30     27     39     68     20     14
                   vv
clus                CLUS_9
  HNRNPH3 MUTATED        0
  HNRNPH3 WILD-TYPE     22
D572V6, multiclass
        clus
vv       HNRNPH3 MUTATED HNRNPH3 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNRNPH3 MUTATED        0      3      0      1
  HNRNPH3 WILD-TYPE    100     69     72    120
D572V7, multiclass
        clus
vv       HNRNPH3 MUTATED HNRNPH3 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               0                72
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HNRNPH3 MUTATED        0      0      3      1      0
  HNRNPH3 WILD-TYPE     59     75     71    118     38
D572V8, multiclass
        clus
vv       HNRNPH3 MUTATED HNRNPH3 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               3                71
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HNRNPH3 MUTATED        0      3      0      1      0
  HNRNPH3 WILD-TYPE     51     73     61     70     95
D572V9, multiclass
        clus
vv       HNRNPH3 MUTATED HNRNPH3 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HNRNPH3 MUTATED        0      1      0      2      0      0      1      0
  HNRNPH3 WILD-TYPE     69     47     39     14     53     20     20     38
                   vv
clus                CLUS_9
  HNRNPH3 MUTATED        0
  HNRNPH3 WILD-TYPE     50
D572V10, multiclass
        clus
vv       HNRNPH3 MUTATED HNRNPH3 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HNRNPH3 MUTATED        0      0      0      0      1      0
  HNRNPH3 WILD-TYPE     13     16     14     11     10      9
D572V11, multiclass
[1] "Remove cluster labels:" "HNRNPH3 MUTATED"       
clus
  HNRNPH3 MUTATED HNRNPH3 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-G4-6628 
"HNRNPH3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HNRNPH3 MUTATED        0      0      0      1      0      0      0      0
  HNRNPH3 WILD-TYPE     11      7      7      8      8      7     11      9
                   vv
clus                CLUS_9
  HNRNPH3 MUTATED        0
  HNRNPH3 WILD-TYPE      5
D572V12, multiclass
[1] "Remove cluster labels:" "HNRNPH3 MUTATED"       
clus
  HNRNPH3 MUTATED HNRNPH3 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" "HNRNPH3 WILD-TYPE" 
       TCGA-G4-6628 
"HNRNPH3 WILD-TYPE" 

Clustering(573) Variable = ENTPD4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENTPD4 MUTATED        2      0      0      1      0
  ENTPD4 WILD-TYPE     30     18     46     26     23
D573V1, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ENTPD4 MUTATED        2      1      0
  ENTPD4 WILD-TYPE     41     66     36
D573V2, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ENTPD4 MUTATED        1      3     13
  ENTPD4 WILD-TYPE     41    170    134
D573V3, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ENTPD4 MUTATED        6      2      4
  ENTPD4 WILD-TYPE     56     71     71
D573V4, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              2               71
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ENTPD4 MUTATED        3      4      7
  ENTPD4 WILD-TYPE     67    116     93
D573V5, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              4              116
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENTPD4 MUTATED        1      2      2      1      2      5      1      0
  ENTPD4 WILD-TYPE     40     24     28     28     37     64     19     14
                  vv
clus               CLUS_9
  ENTPD4 MUTATED        0
  ENTPD4 WILD-TYPE     22
D573V6, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ENTPD4 MUTATED        3      5      5      4
  ENTPD4 WILD-TYPE     97     67     67    117
D573V7, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              5               67
  CLUS_3              5               67
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENTPD4 MUTATED        2      2      9      1      3
  ENTPD4 WILD-TYPE     57     73     65    118     35
D573V8, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              9               65
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENTPD4 MUTATED        2      6      4      0      5
  ENTPD4 WILD-TYPE     49     70     57     71     90
D573V9, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              6               70
  CLUS_3              4               57
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENTPD4 MUTATED        4      3      2      3      0      1      2      2
  ENTPD4 WILD-TYPE     65     45     37     13     53     19     19     36
                  vv
clus               CLUS_9
  ENTPD4 MUTATED        0
  ENTPD4 WILD-TYPE     50
D573V10, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              3               45
  CLUS_3              2               37
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              2               19
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ENTPD4 MUTATED        0      1      1      1      1      0
  ENTPD4 WILD-TYPE     13     15     13     10     10      9
D573V11, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENTPD4 MUTATED        1      0      0      1      0      0      2      0
  ENTPD4 WILD-TYPE     10      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  ENTPD4 MUTATED        0
  ENTPD4 WILD-TYPE      5
D573V12, multiclass
        clus
vv       ENTPD4 MUTATED ENTPD4 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(574) Variable = DDX3X MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX3X MUTATED        1      0      0      1      0
  DDX3X WILD-TYPE     31     18     46     26     23
D574V1, multiclass
[1] "Remove cluster labels:" "DDX3X MUTATED"         
clus
  DDX3X MUTATED DDX3X WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX3X MUTATED        0      1      1
  DDX3X WILD-TYPE     43     66     35
D574V2, multiclass
[1] "Remove cluster labels:" "DDX3X MUTATED"         
clus
  DDX3X MUTATED DDX3X WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX3X MUTATED        1      2      7
  DDX3X WILD-TYPE     41    171    140
D574V3, multiclass
        clus
vv       DDX3X MUTATED DDX3X WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX3X MUTATED        4      1      3
  DDX3X WILD-TYPE     58     72     72
D574V4, multiclass
        clus
vv       DDX3X MUTATED DDX3X WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX3X MUTATED        1      2      3
  DDX3X WILD-TYPE     69    118     97
D574V5, multiclass
        clus
vv       DDX3X MUTATED DDX3X WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX3X MUTATED        1      0      1      0      2      2      0      0
  DDX3X WILD-TYPE     40     26     29     29     37     67     20     14
                 vv
clus              CLUS_9
  DDX3X MUTATED        0
  DDX3X WILD-TYPE     22
D574V6, multiclass
        clus
vv       DDX3X MUTATED DDX3X WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDX3X MUTATED        3      2      3      2
  DDX3X WILD-TYPE     97     70     69    119
D574V7, multiclass
        clus
vv       DDX3X MUTATED DDX3X WILD-TYPE
  CLUS_1             3              97
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX3X MUTATED        2      2      4      2      0
  DDX3X WILD-TYPE     57     73     70    117     38
D574V8, multiclass
        clus
vv       DDX3X MUTATED DDX3X WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX3X MUTATED        1      3      2      2      2
  DDX3X WILD-TYPE     50     73     59     69     93
D574V9, multiclass
        clus
vv       DDX3X MUTATED DDX3X WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX3X MUTATED        2      3      0      0      3      1      0      1
  DDX3X WILD-TYPE     67     45     39     16     50     19     21     37
                 vv
clus              CLUS_9
  DDX3X MUTATED        0
  DDX3X WILD-TYPE     50
D574V10, multiclass
        clus
vv       DDX3X MUTATED DDX3X WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDX3X MUTATED        0      0      1      0      0      0
  DDX3X WILD-TYPE     13     16     13     11     11      9
D574V11, multiclass
[1] "Remove cluster labels:" "DDX3X MUTATED"         
clus
  DDX3X MUTATED DDX3X WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-G4-6628 
"DDX3X WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX3X MUTATED        0      0      0      0      1      0      0      0
  DDX3X WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  DDX3X MUTATED        0
  DDX3X WILD-TYPE      5
D574V12, multiclass
[1] "Remove cluster labels:" "DDX3X MUTATED"         
clus
  DDX3X MUTATED DDX3X WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" "DDX3X WILD-TYPE" 
     TCGA-G4-6628 
"DDX3X WILD-TYPE" 

Clustering(575) Variable = MCCC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCCC1 MUTATED        4      0      0      2      0
  MCCC1 WILD-TYPE     28     18     46     25     23
D575V1, multiclass
        clus
vv       MCCC1 MUTATED MCCC1 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MCCC1 MUTATED        4      2      0
  MCCC1 WILD-TYPE     39     65     36
D575V2, multiclass
        clus
vv       MCCC1 MUTATED MCCC1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MCCC1 MUTATED        1      4     12
  MCCC1 WILD-TYPE     41    169    135
D575V3, multiclass
        clus
vv       MCCC1 MUTATED MCCC1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MCCC1 MUTATED        3      5      2
  MCCC1 WILD-TYPE     59     68     73
D575V4, multiclass
        clus
vv       MCCC1 MUTATED MCCC1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             5              68
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MCCC1 MUTATED        1      9      4
  MCCC1 WILD-TYPE     69    111     96
D575V5, multiclass
        clus
vv       MCCC1 MUTATED MCCC1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             9             111
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MCCC1 MUTATED        0      0      4      2      1      3      2      0
  MCCC1 WILD-TYPE     41     26     26     27     38     66     18     14
                 vv
clus              CLUS_9
  MCCC1 MUTATED        2
  MCCC1 WILD-TYPE     20
D575V6, multiclass
        clus
vv       MCCC1 MUTATED MCCC1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             4              26
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MCCC1 MUTATED        5      5      0      7
  MCCC1 WILD-TYPE     95     67     72    114
D575V7, multiclass
        clus
vv       MCCC1 MUTATED MCCC1 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             5              67
  CLUS_3             0              72
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCCC1 MUTATED        0      7      3      1      6
  MCCC1 WILD-TYPE     59     68     71    118     32
D575V8, multiclass
        clus
vv       MCCC1 MUTATED MCCC1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             7              68
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCCC1 MUTATED        3      4      1      1      7
  MCCC1 WILD-TYPE     48     72     60     70     88
D575V9, multiclass
        clus
vv       MCCC1 MUTATED MCCC1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MCCC1 MUTATED        3      0      0      2      1      4      1      4
  MCCC1 WILD-TYPE     66     48     39     14     52     16     20     34
                 vv
clus              CLUS_9
  MCCC1 MUTATED        1
  MCCC1 WILD-TYPE     49
D575V10, multiclass
        clus
vv       MCCC1 MUTATED MCCC1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             4              16
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MCCC1 MUTATED        0      0      0      0      1      0
  MCCC1 WILD-TYPE     13     16     14     11     10      9
D575V11, multiclass
[1] "Remove cluster labels:" "MCCC1 MUTATED"         
clus
  MCCC1 MUTATED MCCC1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-G4-6628 
"MCCC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MCCC1 MUTATED        0      0      0      1      0      0      0      0
  MCCC1 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  MCCC1 MUTATED        0
  MCCC1 WILD-TYPE      5
D575V12, multiclass
[1] "Remove cluster labels:" "MCCC1 MUTATED"         
clus
  MCCC1 MUTATED MCCC1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" "MCCC1 WILD-TYPE" 
     TCGA-G4-6628 
"MCCC1 WILD-TYPE" 

Clustering(576) Variable = MDH1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MDH1 MUTATED        1      0      0      0      0
  MDH1 WILD-TYPE     31     18     46     27     23
D576V1, multiclass
[1] "Remove cluster labels:" "MDH1 MUTATED"          
clus
  MDH1 MUTATED MDH1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3846 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AY-4071 
"MDH1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MDH1 MUTATED        1      0      0
  MDH1 WILD-TYPE     42     67     36
D576V2, multiclass
[1] "Remove cluster labels:" "MDH1 MUTATED"          
clus
  MDH1 MUTATED MDH1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3846 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" "MDH1 WILD-TYPE" 
    TCGA-AY-4071 
"MDH1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MDH1 MUTATED        1      4      3
  MDH1 WILD-TYPE     41    169    144
D576V3, multiclass
        clus
vv       MDH1 MUTATED MDH1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MDH1 MUTATED        3      3      1
  MDH1 WILD-TYPE     59     70     74
D576V4, multiclass
        clus
vv       MDH1 MUTATED MDH1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            3             70
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MDH1 MUTATED        0      3      5
  MDH1 WILD-TYPE     70    117     95
D576V5, multiclass
        clus
vv       MDH1 MUTATED MDH1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MDH1 MUTATED        2      0      1      1      1      2      0      1      0
  MDH1 WILD-TYPE     39     26     29     28     38     67     20     13     22
D576V6, multiclass
        clus
vv       MDH1 MUTATED MDH1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MDH1 MUTATED        2      2      3      1
  MDH1 WILD-TYPE     98     70     69    120
D576V7, multiclass
        clus
vv       MDH1 MUTATED MDH1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            3             69
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MDH1 MUTATED        3      3      1      0      1
  MDH1 WILD-TYPE     56     72     73    119     37
D576V8, multiclass
        clus
vv       MDH1 MUTATED MDH1 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            3             72
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MDH1 MUTATED        3      1      1      1      2
  MDH1 WILD-TYPE     48     75     60     70     93
D576V9, multiclass
        clus
vv       MDH1 MUTATED MDH1 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MDH1 MUTATED        4      1      0      0      1      1      0      0      1
  MDH1 WILD-TYPE     65     47     39     16     52     19     21     38     49
D576V10, multiclass
        clus
vv       MDH1 MUTATED MDH1 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MDH1 MUTATED        0      0      1      1      0      1
  MDH1 WILD-TYPE     13     16     13     10     11      8
D576V11, multiclass
        clus
vv       MDH1 MUTATED MDH1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MDH1 MUTATED        1      0      0      0      1      0      0      1      0
  MDH1 WILD-TYPE     10      7      7      9      7      7     11      8      5
D576V12, multiclass
        clus
vv       MDH1 MUTATED MDH1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(577) Variable = ARHGAP25 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP25 MUTATED        1      0      0      0      0
  ARHGAP25 WILD-TYPE     31     18     46     27     23
D577V1, multiclass
[1] "Remove cluster labels:" "ARHGAP25 MUTATED"      
clus
  ARHGAP25 MUTATED ARHGAP25 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3949         TCGA-AA-3950 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AY-4071 
"ARHGAP25 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP25 MUTATED        1      0      0
  ARHGAP25 WILD-TYPE     42     67     36
D577V2, multiclass
[1] "Remove cluster labels:" "ARHGAP25 MUTATED"      
clus
  ARHGAP25 MUTATED ARHGAP25 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3949         TCGA-AA-3950 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" "ARHGAP25 WILD-TYPE" 
        TCGA-AY-4071 
"ARHGAP25 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP25 MUTATED        0      5      5
  ARHGAP25 WILD-TYPE     42    168    142
D577V3, multiclass
        clus
vv       ARHGAP25 MUTATED ARHGAP25 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                5                168
  CLUS_3                5                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP25 MUTATED        5      3      0
  ARHGAP25 WILD-TYPE     57     70     75
D577V4, multiclass
        clus
vv       ARHGAP25 MUTATED ARHGAP25 WILD-TYPE
  CLUS_1                5                 57
  CLUS_2                3                 70
  CLUS_3                0                 75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP25 MUTATED        0      1      8
  ARHGAP25 WILD-TYPE     70    119     92
D577V5, multiclass
        clus
vv       ARHGAP25 MUTATED ARHGAP25 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                1                119
  CLUS_3                8                 92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP25 MUTATED        2      0      1      0      1      3      1      0
  ARHGAP25 WILD-TYPE     39     26     29     29     38     66     19     14
                    vv
clus                 CLUS_9
  ARHGAP25 MUTATED        1
  ARHGAP25 WILD-TYPE     21
D577V6, multiclass
        clus
vv       ARHGAP25 MUTATED ARHGAP25 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                3                 66
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGAP25 MUTATED        3      1      4      2
  ARHGAP25 WILD-TYPE     97     71     68    119
D577V7, multiclass
        clus
vv       ARHGAP25 MUTATED ARHGAP25 WILD-TYPE
  CLUS_1                3                 97
  CLUS_2                1                 71
  CLUS_3                4                 68
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP25 MUTATED        3      4      1      0      2
  ARHGAP25 WILD-TYPE     56     71     73    119     36
D577V8, multiclass
        clus
vv       ARHGAP25 MUTATED ARHGAP25 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                4                 71
  CLUS_3                1                 73
  CLUS_4                0                119
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP25 MUTATED        1      3      2      1      3
  ARHGAP25 WILD-TYPE     50     73     59     70     92
D577V9, multiclass
        clus
vv       ARHGAP25 MUTATED ARHGAP25 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                3                 73
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP25 MUTATED        0      4      2      0      0      1      0      2
  ARHGAP25 WILD-TYPE     69     44     37     16     53     19     21     36
                    vv
clus                 CLUS_9
  ARHGAP25 MUTATED        1
  ARHGAP25 WILD-TYPE     49
D577V10, multiclass
        clus
vv       ARHGAP25 MUTATED ARHGAP25 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                4                 44
  CLUS_3                2                 37
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARHGAP25 MUTATED        1      0      0      2      0      1
  ARHGAP25 WILD-TYPE     12     16     14      9     11      8
D577V11, multiclass
        clus
vv       ARHGAP25 MUTATED ARHGAP25 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                0                 16
  CLUS_3                0                 14
  CLUS_4                2                  9
  CLUS_5                0                 11
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP25 MUTATED        0      0      1      0      0      0      1      2
  ARHGAP25 WILD-TYPE     11      7      6      9      8      7     10      7
                    vv
clus                 CLUS_9
  ARHGAP25 MUTATED        0
  ARHGAP25 WILD-TYPE      5
D577V12, multiclass
        clus
vv       ARHGAP25 MUTATED ARHGAP25 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                1                  6
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                2                  7
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(578) Variable = SPEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPEN MUTATED        7      0      1      2      1
  SPEN WILD-TYPE     25     18     45     25     22
D578V1, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            7             25
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPEN MUTATED        8      2      1
  SPEN WILD-TYPE     35     65     35
D578V2, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            8             35
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPEN MUTATED        1      6     24
  SPEN WILD-TYPE     41    167    123
D578V3, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            1             41
  CLUS_2            6            167
  CLUS_3           24            123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPEN MUTATED        5      3     13
  SPEN WILD-TYPE     57     70     62
D578V4, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            5             57
  CLUS_2            3             70
  CLUS_3           13             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPEN MUTATED        4      8     13
  SPEN WILD-TYPE     66    112     87
D578V5, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            4             66
  CLUS_2            8            112
  CLUS_3           13             87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SPEN MUTATED        3      1      2      2      4      9      3      0      1
  SPEN WILD-TYPE     38     25     28     27     35     60     17     14     21
D578V6, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            3             38
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            2             27
  CLUS_5            4             35
  CLUS_6            9             60
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPEN MUTATED        2     12      7     10
  SPEN WILD-TYPE     98     60     65    111
D578V7, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            2             98
  CLUS_2           12             60
  CLUS_3            7             65
  CLUS_4           10            111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPEN MUTATED        3      4     12      5      7
  SPEN WILD-TYPE     56     71     62    114     31
D578V8, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            3             56
  CLUS_2            4             71
  CLUS_3           12             62
  CLUS_4            5            114
  CLUS_5            7             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPEN MUTATED        4     10      2      3     11
  SPEN WILD-TYPE     47     66     59     68     84
D578V9, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            4             47
  CLUS_2           10             66
  CLUS_3            2             59
  CLUS_4            3             68
  CLUS_5           11             84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SPEN MUTATED        3      6      0      4      3      2      4      7      1
  SPEN WILD-TYPE     66     42     39     12     50     18     17     31     49
D578V10, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            3             66
  CLUS_2            6             42
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            3             50
  CLUS_6            2             18
  CLUS_7            4             17
  CLUS_8            7             31
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPEN MUTATED        1      1      2      0      1      0
  SPEN WILD-TYPE     12     15     12     11     10      9
D578V11, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SPEN MUTATED        0      0      1      0      0      0      3      0      1
  SPEN WILD-TYPE     11      7      6      9      8      7      8      9      4
D578V12, multiclass
        clus
vv       SPEN MUTATED SPEN WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            3              8
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(579) Variable = GPR75 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR75 MUTATED        1      0      0      0      0
  GPR75 WILD-TYPE     31     18     46     27     23
D579V1, multiclass
[1] "Remove cluster labels:" "GPR75 MUTATED"         
clus
  GPR75 MUTATED GPR75 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3812 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AY-4071 
"GPR75 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR75 MUTATED        1      0      0
  GPR75 WILD-TYPE     42     67     36
D579V2, multiclass
[1] "Remove cluster labels:" "GPR75 MUTATED"         
clus
  GPR75 MUTATED GPR75 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3812 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AY-4071 
"GPR75 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR75 MUTATED        2      2      4
  GPR75 WILD-TYPE     40    171    143
D579V3, multiclass
        clus
vv       GPR75 MUTATED GPR75 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR75 MUTATED        3      1      3
  GPR75 WILD-TYPE     59     72     72
D579V4, multiclass
        clus
vv       GPR75 MUTATED GPR75 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR75 MUTATED        0      3      5
  GPR75 WILD-TYPE     70    117     95
D579V5, multiclass
        clus
vv       GPR75 MUTATED GPR75 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR75 MUTATED        1      0      0      2      1      2      2      0
  GPR75 WILD-TYPE     40     26     30     27     38     67     18     14
                 vv
clus              CLUS_9
  GPR75 MUTATED        0
  GPR75 WILD-TYPE     22
D579V6, multiclass
        clus
vv       GPR75 MUTATED GPR75 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR75 MUTATED        1      3      3      1
  GPR75 WILD-TYPE     99     69     69    120
D579V7, multiclass
        clus
vv       GPR75 MUTATED GPR75 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR75 MUTATED        2      1      4      0      1
  GPR75 WILD-TYPE     57     74     70    119     37
D579V8, multiclass
        clus
vv       GPR75 MUTATED GPR75 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR75 MUTATED        0      5      1      2      0
  GPR75 WILD-TYPE     51     71     60     69     95
D579V9, multiclass
        clus
vv       GPR75 MUTATED GPR75 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR75 MUTATED        1      4      0      2      1      0      0      0
  GPR75 WILD-TYPE     68     44     39     14     52     20     21     38
                 vv
clus              CLUS_9
  GPR75 MUTATED        0
  GPR75 WILD-TYPE     50
D579V10, multiclass
        clus
vv       GPR75 MUTATED GPR75 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR75 MUTATED        1      0      0      0      1      0
  GPR75 WILD-TYPE     12     16     14     11     10      9
D579V11, multiclass
[1] "Remove cluster labels:" "GPR75 MUTATED"         
clus
  GPR75 MUTATED GPR75 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR75 MUTATED        0      0      0      2      0      0      0      0
  GPR75 WILD-TYPE     11      7      7      7      8      7     11      9
                 vv
clus              CLUS_9
  GPR75 MUTATED        0
  GPR75 WILD-TYPE      5
D579V12, multiclass
[1] "Remove cluster labels:" "GPR75 MUTATED"         
clus
  GPR75 MUTATED GPR75 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" "GPR75 WILD-TYPE" 

Clustering(580) Variable = HERC5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HERC5 MUTATED        2      0      1      1      1
  HERC5 WILD-TYPE     30     18     45     26     22
D580V1, multiclass
        clus
vv       HERC5 MUTATED HERC5 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC5 MUTATED        2      2      1
  HERC5 WILD-TYPE     41     65     35
D580V2, multiclass
        clus
vv       HERC5 MUTATED HERC5 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC5 MUTATED        0      9      9
  HERC5 WILD-TYPE     42    164    138
D580V3, multiclass
        clus
vv       HERC5 MUTATED HERC5 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             9             164
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC5 MUTATED        3      4      6
  HERC5 WILD-TYPE     59     69     69
D580V4, multiclass
        clus
vv       HERC5 MUTATED HERC5 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC5 MUTATED        3     10      5
  HERC5 WILD-TYPE     67    110     95
D580V5, multiclass
        clus
vv       HERC5 MUTATED HERC5 WILD-TYPE
  CLUS_1             3              67
  CLUS_2            10             110
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HERC5 MUTATED        4      1      3      3      3      3      0      0
  HERC5 WILD-TYPE     37     25     27     26     36     66     20     14
                 vv
clus              CLUS_9
  HERC5 MUTATED        1
  HERC5 WILD-TYPE     21
D580V6, multiclass
        clus
vv       HERC5 MUTATED HERC5 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             1              25
  CLUS_3             3              27
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HERC5 MUTATED        6      5      1      6
  HERC5 WILD-TYPE     94     67     71    115
D580V7, multiclass
        clus
vv       HERC5 MUTATED HERC5 WILD-TYPE
  CLUS_1             6              94
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HERC5 MUTATED        3      5      4      4      2
  HERC5 WILD-TYPE     56     70     70    115     36
D580V8, multiclass
        clus
vv       HERC5 MUTATED HERC5 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             5              70
  CLUS_3             4              70
  CLUS_4             4             115
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HERC5 MUTATED        2      5      3      1      7
  HERC5 WILD-TYPE     49     71     58     70     88
D580V9, multiclass
        clus
vv       HERC5 MUTATED HERC5 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HERC5 MUTATED        4      4      1      0      2      1      0      3
  HERC5 WILD-TYPE     65     44     38     16     51     19     21     35
                 vv
clus              CLUS_9
  HERC5 MUTATED        3
  HERC5 WILD-TYPE     47
D580V10, multiclass
        clus
vv       HERC5 MUTATED HERC5 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HERC5 MUTATED        1      0      0      1      0      0
  HERC5 WILD-TYPE     12     16     14     10     11      9
D580V11, multiclass
[1] "Remove cluster labels:" "HERC5 MUTATED"         
clus
  HERC5 MUTATED HERC5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AY-6196      TCGA-AZ-4323 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HERC5 MUTATED        0      0      0      0      0      0      1      0
  HERC5 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  HERC5 MUTATED        1
  HERC5 WILD-TYPE      4
D580V12, multiclass
[1] "Remove cluster labels:" "HERC5 MUTATED"         
clus
  HERC5 MUTATED HERC5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AY-6196      TCGA-AZ-4323 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" "HERC5 WILD-TYPE" 

Clustering(581) Variable = AKR1C4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKR1C4 MUTATED        0      0      1      0      0
  AKR1C4 WILD-TYPE     32     18     45     27     23
D581V1, multiclass
[1] "Remove cluster labels:" "AKR1C4 MUTATED"        
clus
  AKR1C4 MUTATED AKR1C4 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AY-4071 
"AKR1C4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKR1C4 MUTATED        0      1      0
  AKR1C4 WILD-TYPE     43     66     36
D581V2, multiclass
[1] "Remove cluster labels:" "AKR1C4 MUTATED"        
clus
  AKR1C4 MUTATED AKR1C4 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" "AKR1C4 WILD-TYPE" 
      TCGA-AY-4071 
"AKR1C4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKR1C4 MUTATED        0      5      4
  AKR1C4 WILD-TYPE     42    168    143
D581V3, multiclass
        clus
vv       AKR1C4 MUTATED AKR1C4 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              5              168
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKR1C4 MUTATED        3      2      2
  AKR1C4 WILD-TYPE     59     71     73
D581V4, multiclass
        clus
vv       AKR1C4 MUTATED AKR1C4 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKR1C4 MUTATED        1      2      3
  AKR1C4 WILD-TYPE     69    118     97
D581V5, multiclass
        clus
vv       AKR1C4 MUTATED AKR1C4 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKR1C4 MUTATED        0      0      2      0      0      2      0      0
  AKR1C4 WILD-TYPE     41     26     28     29     39     67     20     14
                  vv
clus               CLUS_9
  AKR1C4 MUTATED        2
  AKR1C4 WILD-TYPE     20
D581V6, multiclass
        clus
vv       AKR1C4 MUTATED AKR1C4 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AKR1C4 MUTATED        4      2      2      1
  AKR1C4 WILD-TYPE     96     70     70    120
D581V7, multiclass
        clus
vv       AKR1C4 MUTATED AKR1C4 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKR1C4 MUTATED        1      4      2      1      1
  AKR1C4 WILD-TYPE     58     71     72    118     37
D581V8, multiclass
        clus
vv       AKR1C4 MUTATED AKR1C4 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKR1C4 MUTATED        1      3      2      2      1
  AKR1C4 WILD-TYPE     50     73     59     69     94
D581V9, multiclass
        clus
vv       AKR1C4 MUTATED AKR1C4 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKR1C4 MUTATED        3      2      1      0      0      1      1      1
  AKR1C4 WILD-TYPE     66     46     38     16     53     19     20     37
                  vv
clus               CLUS_9
  AKR1C4 MUTATED        0
  AKR1C4 WILD-TYPE     50
D581V10, multiclass
        clus
vv       AKR1C4 MUTATED AKR1C4 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AKR1C4 MUTATED        1      1      0      0      1      1
  AKR1C4 WILD-TYPE     12     15     14     11     10      8
D581V11, multiclass
        clus
vv       AKR1C4 MUTATED AKR1C4 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKR1C4 MUTATED        0      1      0      1      0      0      1      1
  AKR1C4 WILD-TYPE     11      6      7      8      8      7     10      8
                  vv
clus               CLUS_9
  AKR1C4 MUTATED        0
  AKR1C4 WILD-TYPE      5
D581V12, multiclass
        clus
vv       AKR1C4 MUTATED AKR1C4 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(582) Variable = LIG1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIG1 MUTATED        0      0      0      4      0
  LIG1 WILD-TYPE     32     18     46     23     23
D582V1, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            0             32
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            4             23
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIG1 MUTATED        2      2      0
  LIG1 WILD-TYPE     41     65     36
D582V2, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIG1 MUTATED        2      4      9
  LIG1 WILD-TYPE     40    169    138
D582V3, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            4            169
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIG1 MUTATED        5      2      4
  LIG1 WILD-TYPE     57     71     71
D582V4, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            2             71
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIG1 MUTATED        1      7      8
  LIG1 WILD-TYPE     69    113     92
D582V5, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            7            113
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LIG1 MUTATED        2      0      3      2      1      5      2      1      0
  LIG1 WILD-TYPE     39     26     27     27     38     64     18     13     22
D582V6, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            3             27
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LIG1 MUTATED        3      6      3      4
  LIG1 WILD-TYPE     97     66     69    117
D582V7, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            6             66
  CLUS_3            3             69
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIG1 MUTATED        2      2      7      2      3
  LIG1 WILD-TYPE     57     73     67    117     35
D582V8, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            7             67
  CLUS_4            2            117
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIG1 MUTATED        0      6      2      3      4
  LIG1 WILD-TYPE     51     70     59     68     91
D582V9, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            2             59
  CLUS_4            3             68
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LIG1 MUTATED        5      2      1      2      1      2      0      2      0
  LIG1 WILD-TYPE     64     46     38     14     52     18     21     36     50
D582V10, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LIG1 MUTATED        1      2      1      2      0      0
  LIG1 WILD-TYPE     12     14     13      9     11      9
D582V11, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            2              9
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LIG1 MUTATED        1      0      0      1      1      1      2      0      0
  LIG1 WILD-TYPE     10      7      7      8      7      6      9      9      5
D582V12, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(583) Variable = ARHGEF10 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGEF10 MUTATED        6      0      0      1      0
  ARHGEF10 WILD-TYPE     26     18     46     26     23
D583V1, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                6                 26
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGEF10 MUTATED        7      0      0
  ARHGEF10 WILD-TYPE     36     67     36
D583V2, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                7                 36
  CLUS_2                0                 67
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGEF10 MUTATED        0      4     19
  ARHGEF10 WILD-TYPE     42    169    128
D583V3, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                4                169
  CLUS_3               19                128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGEF10 MUTATED        8      3      4
  ARHGEF10 WILD-TYPE     54     70     71
D583V4, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                8                 54
  CLUS_2                3                 70
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGEF10 MUTATED        4      4     12
  ARHGEF10 WILD-TYPE     66    116     88
D583V5, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                4                 66
  CLUS_2                4                116
  CLUS_3               12                 88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGEF10 MUTATED        2      1      1      0      3      9      1      2
  ARHGEF10 WILD-TYPE     39     25     29     29     36     60     19     12
                    vv
clus                 CLUS_9
  ARHGEF10 MUTATED        1
  ARHGEF10 WILD-TYPE     21
D583V6, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                3                 36
  CLUS_6                9                 60
  CLUS_7                1                 19
  CLUS_8                2                 12
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGEF10 MUTATED        1      7      8      7
  ARHGEF10 WILD-TYPE     99     65     64    114
D583V7, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                7                 65
  CLUS_3                8                 64
  CLUS_4                7                114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGEF10 MUTATED        3      5      8      1      6
  ARHGEF10 WILD-TYPE     56     70     66    118     32
D583V8, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                5                 70
  CLUS_3                8                 66
  CLUS_4                1                118
  CLUS_5                6                 32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGEF10 MUTATED        2      8      4      0      9
  ARHGEF10 WILD-TYPE     49     68     57     71     86
D583V9, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                8                 68
  CLUS_3                4                 57
  CLUS_4                0                 71
  CLUS_5                9                 86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGEF10 MUTATED        3      6      0      2      2      2      2      5
  ARHGEF10 WILD-TYPE     66     42     39     14     51     18     19     33
                    vv
clus                 CLUS_9
  ARHGEF10 MUTATED        1
  ARHGEF10 WILD-TYPE     49
D583V10, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                6                 42
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                2                 51
  CLUS_6                2                 18
  CLUS_7                2                 19
  CLUS_8                5                 33
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARHGEF10 MUTATED        1      1      1      1      1      0
  ARHGEF10 WILD-TYPE     12     15     13     10     10      9
D583V11, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                1                 10
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGEF10 MUTATED        0      0      1      0      1      0      3      0
  ARHGEF10 WILD-TYPE     11      7      6      9      7      7      8      9
                    vv
clus                 CLUS_9
  ARHGEF10 MUTATED        0
  ARHGEF10 WILD-TYPE      5
D583V12, multiclass
        clus
vv       ARHGEF10 MUTATED ARHGEF10 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                1                  6
  CLUS_4                0                  9
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                3                  8
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(584) Variable = OVCH1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OVCH1 MUTATED        3      0      0      3      0
  OVCH1 WILD-TYPE     29     18     46     24     23
D584V1, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OVCH1 MUTATED        3      2      1
  OVCH1 WILD-TYPE     40     65     35
D584V2, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OVCH1 MUTATED        1      6     15
  OVCH1 WILD-TYPE     41    167    132
D584V3, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             6             167
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OVCH1 MUTATED        3      6      7
  OVCH1 WILD-TYPE     59     67     68
D584V4, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             6              67
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OVCH1 MUTATED        3      4     10
  OVCH1 WILD-TYPE     67    116     90
D584V5, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             116
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OVCH1 MUTATED        2      1      1      1      2      6      1      0
  OVCH1 WILD-TYPE     39     25     29     28     37     63     19     14
                 vv
clus              CLUS_9
  OVCH1 MUTATED        3
  OVCH1 WILD-TYPE     19
D584V6, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OVCH1 MUTATED        4      7      6      5
  OVCH1 WILD-TYPE     96     65     66    116
D584V7, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             7              65
  CLUS_3             6              66
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OVCH1 MUTATED        5      4      7      3      3
  OVCH1 WILD-TYPE     54     71     67    116     35
D584V8, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             4              71
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OVCH1 MUTATED        4      8      3      1      5
  OVCH1 WILD-TYPE     47     68     58     70     90
D584V9, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             8              68
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OVCH1 MUTATED        5      2      0      4      5      2      0      3
  OVCH1 WILD-TYPE     64     46     39     12     48     18     21     35
                 vv
clus              CLUS_9
  OVCH1 MUTATED        0
  OVCH1 WILD-TYPE     50
D584V10, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             5              48
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OVCH1 MUTATED        0      0      0      1      2      1
  OVCH1 WILD-TYPE     13     16     14     10      9      8
D584V11, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OVCH1 MUTATED        1      0      1      0      1      1      0      0
  OVCH1 WILD-TYPE     10      7      6      9      7      6     11      9
                 vv
clus              CLUS_9
  OVCH1 MUTATED        0
  OVCH1 WILD-TYPE      5
D584V12, multiclass
        clus
vv       OVCH1 MUTATED OVCH1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(585) Variable = RRS1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRS1 MUTATED        0      0      0      0      0
  RRS1 WILD-TYPE     32     18     46     27     23
D585V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRS1 MUTATED        0      0      0
  RRS1 WILD-TYPE     43     67     36
D585V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRS1 MUTATED        0      1      3
  RRS1 WILD-TYPE     42    172    144
D585V3, multiclass
        clus
vv       RRS1 MUTATED RRS1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRS1 MUTATED        1      1      2
  RRS1 WILD-TYPE     61     72     73
D585V4, multiclass
        clus
vv       RRS1 MUTATED RRS1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRS1 MUTATED        0      0      4
  RRS1 WILD-TYPE     70    120     96
D585V5, multiclass
        clus
vv       RRS1 MUTATED RRS1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            0            120
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RRS1 MUTATED        0      0      0      0      0      3      1      0      0
  RRS1 WILD-TYPE     41     26     30     29     39     66     19     14     22
D585V6, multiclass
        clus
vv       RRS1 MUTATED RRS1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RRS1 MUTATED        1      2      1      0
  RRS1 WILD-TYPE     99     70     71    121
D585V7, multiclass
        clus
vv       RRS1 MUTATED RRS1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRS1 MUTATED        1      0      3      0      0
  RRS1 WILD-TYPE     58     75     71    119     38
D585V8, multiclass
        clus
vv       RRS1 MUTATED RRS1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRS1 MUTATED        1      2      1      0      0
  RRS1 WILD-TYPE     50     74     60     71     95
D585V9, multiclass
        clus
vv       RRS1 MUTATED RRS1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RRS1 MUTATED        1      1      0      2      0      0      0      0      0
  RRS1 WILD-TYPE     68     47     39     14     53     20     21     38     50
D585V10, multiclass
        clus
vv       RRS1 MUTATED RRS1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RRS1 MUTATED        0      0      0      0      0      0
  RRS1 WILD-TYPE     13     16     14     11     11      9
D585V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RRS1 MUTATED        0      0      0      0      0      0      0      0      0
  RRS1 WILD-TYPE     11      7      7      9      8      7     11      9      5
D585V12, multiclass

Clustering(586) Variable = RFXAP MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RFXAP MUTATED        0      0      0      0      1
  RFXAP WILD-TYPE     32     18     46     27     22
D586V1, multiclass
[1] "Remove cluster labels:" "RFXAP MUTATED"         
clus
  RFXAP MUTATED RFXAP WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3530      TCGA-AA-3531 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AY-4071 
"RFXAP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RFXAP MUTATED        0      1      0
  RFXAP WILD-TYPE     43     66     36
D586V2, multiclass
[1] "Remove cluster labels:" "RFXAP MUTATED"         
clus
  RFXAP MUTATED RFXAP WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3530      TCGA-AA-3531 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AY-4071 
"RFXAP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RFXAP MUTATED        1      2      3
  RFXAP WILD-TYPE     41    171    144
D586V3, multiclass
        clus
vv       RFXAP MUTATED RFXAP WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RFXAP MUTATED        4      1      0
  RFXAP WILD-TYPE     58     72     75
D586V4, multiclass
        clus
vv       RFXAP MUTATED RFXAP WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RFXAP MUTATED        1      1      4
  RFXAP WILD-TYPE     69    119     96
D586V5, multiclass
        clus
vv       RFXAP MUTATED RFXAP WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RFXAP MUTATED        3      1      0      0      0      2      0      0
  RFXAP WILD-TYPE     38     25     30     29     39     67     20     14
                 vv
clus              CLUS_9
  RFXAP MUTATED        0
  RFXAP WILD-TYPE     22
D586V6, multiclass
        clus
vv       RFXAP MUTATED RFXAP WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RFXAP MUTATED        1      1      3      1
  RFXAP WILD-TYPE     99     71     69    120
D586V7, multiclass
        clus
vv       RFXAP MUTATED RFXAP WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RFXAP MUTATED        2      1      2      1      0
  RFXAP WILD-TYPE     57     74     72    118     38
D586V8, multiclass
        clus
vv       RFXAP MUTATED RFXAP WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RFXAP MUTATED        1      2      2      0      1
  RFXAP WILD-TYPE     50     74     59     71     94
D586V9, multiclass
        clus
vv       RFXAP MUTATED RFXAP WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RFXAP MUTATED        1      3      1      0      1      0      0      0
  RFXAP WILD-TYPE     68     45     38     16     52     20     21     38
                 vv
clus              CLUS_9
  RFXAP MUTATED        0
  RFXAP WILD-TYPE     50
D586V10, multiclass
        clus
vv       RFXAP MUTATED RFXAP WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RFXAP MUTATED        0      2      0      0      0      0
  RFXAP WILD-TYPE     13     14     14     11     11      9
D586V11, multiclass
[1] "Remove cluster labels:" "RFXAP MUTATED"         
clus
  RFXAP MUTATED RFXAP WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RFXAP MUTATED        1      1      0      0      0      0      0      0
  RFXAP WILD-TYPE     10      6      7      9      8      7     11      9
                 vv
clus              CLUS_9
  RFXAP MUTATED        0
  RFXAP WILD-TYPE      5
D586V12, multiclass
[1] "Remove cluster labels:" "RFXAP MUTATED"         
clus
  RFXAP MUTATED RFXAP WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" "RFXAP WILD-TYPE" 

Clustering(587) Variable = RBAK MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBAK MUTATED        1      0      0      1      1
  RBAK WILD-TYPE     31     18     46     26     22
D587V1, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBAK MUTATED        1      2      0
  RBAK WILD-TYPE     42     65     36
D587V2, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            1             42
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBAK MUTATED        1      5     11
  RBAK WILD-TYPE     41    168    136
D587V3, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            1             41
  CLUS_2            5            168
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBAK MUTATED        6      2      6
  RBAK WILD-TYPE     56     71     69
D587V4, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            6             56
  CLUS_2            2             71
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBAK MUTATED        1      5      8
  RBAK WILD-TYPE     69    115     92
D587V5, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBAK MUTATED        1      1      1      1      0      4      3      0      3
  RBAK WILD-TYPE     40     25     29     28     39     65     17     14     19
D587V6, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBAK MUTATED        3      8      4      2
  RBAK WILD-TYPE     97     64     68    119
D587V7, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            3             97
  CLUS_2            8             64
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBAK MUTATED        4      3      6      3      1
  RBAK WILD-TYPE     55     72     68    116     37
D587V8, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            4             55
  CLUS_2            3             72
  CLUS_3            6             68
  CLUS_4            3            116
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBAK MUTATED        4      6      2      1      4
  RBAK WILD-TYPE     47     70     59     70     91
D587V9, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            4             47
  CLUS_2            6             70
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBAK MUTATED        1      3      1      2      2      4      0      2      2
  RBAK WILD-TYPE     68     45     38     14     51     16     21     36     48
D587V10, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            4             16
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBAK MUTATED        0      1      0      1      2      0
  RBAK WILD-TYPE     13     15     14     10      9      9
D587V11, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RBAK MUTATED        0      1      0      1      0      0      1      1      0
  RBAK WILD-TYPE     11      6      7      8      8      7     10      8      5
D587V12, multiclass
        clus
vv       RBAK MUTATED RBAK WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(588) Variable = ZHX1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZHX1 MUTATED        0      0      0      1      0
  ZHX1 WILD-TYPE     32     18     46     26     23
D588V1, multiclass
[1] "Remove cluster labels:" "ZHX1 MUTATED"          
clus
  ZHX1 MUTATED ZHX1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AY-4071 
"ZHX1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZHX1 MUTATED        0      1      0
  ZHX1 WILD-TYPE     43     66     36
D588V2, multiclass
[1] "Remove cluster labels:" "ZHX1 MUTATED"          
clus
  ZHX1 MUTATED ZHX1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" "ZHX1 WILD-TYPE" 
    TCGA-AY-4071 
"ZHX1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZHX1 MUTATED        2      2      5
  ZHX1 WILD-TYPE     40    171    142
D588V3, multiclass
        clus
vv       ZHX1 MUTATED ZHX1 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2            171
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZHX1 MUTATED        4      2      2
  ZHX1 WILD-TYPE     58     71     73
D588V4, multiclass
        clus
vv       ZHX1 MUTATED ZHX1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            2             71
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZHX1 MUTATED        1      4      3
  ZHX1 WILD-TYPE     69    116     97
D588V5, multiclass
        clus
vv       ZHX1 MUTATED ZHX1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZHX1 MUTATED        2      1      1      1      0      2      0      1      0
  ZHX1 WILD-TYPE     39     25     29     28     39     67     20     13     22
D588V6, multiclass
        clus
vv       ZHX1 MUTATED ZHX1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZHX1 MUTATED        4      1      2      2
  ZHX1 WILD-TYPE     96     71     70    119
D588V7, multiclass
        clus
vv       ZHX1 MUTATED ZHX1 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZHX1 MUTATED        3      2      2      2      0
  ZHX1 WILD-TYPE     56     73     72    117     38
D588V8, multiclass
        clus
vv       ZHX1 MUTATED ZHX1 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3            2             72
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZHX1 MUTATED        1      2      2      2      2
  ZHX1 WILD-TYPE     50     74     59     69     93
D588V9, multiclass
        clus
vv       ZHX1 MUTATED ZHX1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZHX1 MUTATED        2      2      2      1      0      1      0      0      1
  ZHX1 WILD-TYPE     67     46     37     15     53     19     21     38     49
D588V10, multiclass
        clus
vv       ZHX1 MUTATED ZHX1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            2             37
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZHX1 MUTATED        0      1      0      2      1      0
  ZHX1 WILD-TYPE     13     15     14      9     10      9
D588V11, multiclass
        clus
vv       ZHX1 MUTATED ZHX1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            2              9
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZHX1 MUTATED        0      0      0      1      0      0      3      0      0
  ZHX1 WILD-TYPE     11      7      7      8      8      7      8      9      5
D588V12, multiclass
        clus
vv       ZHX1 MUTATED ZHX1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            3              8
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(589) Variable = DOCK10 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK10 MUTATED        5      0      1      2      1
  DOCK10 WILD-TYPE     27     18     45     25     22
D589V1, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DOCK10 MUTATED        5      1      3
  DOCK10 WILD-TYPE     38     66     33
D589V2, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              1               66
  CLUS_3              3               33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DOCK10 MUTATED        2      6     17
  DOCK10 WILD-TYPE     40    167    130
D589V3, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              6              167
  CLUS_3             17              130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DOCK10 MUTATED        4      4      8
  DOCK10 WILD-TYPE     58     69     67
D589V4, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              4               69
  CLUS_3              8               67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DOCK10 MUTATED        5      7      8
  DOCK10 WILD-TYPE     65    113     92
D589V5, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              5               65
  CLUS_2              7              113
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK10 MUTATED        4      0      2      1      3      6      3      0
  DOCK10 WILD-TYPE     37     26     28     28     36     63     17     14
                  vv
clus               CLUS_9
  DOCK10 MUTATED        1
  DOCK10 WILD-TYPE     21
D589V6, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              4               37
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              6               63
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DOCK10 MUTATED        4      5      6     10
  DOCK10 WILD-TYPE     96     67     66    111
D589V7, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              5               67
  CLUS_3              6               66
  CLUS_4             10              111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK10 MUTATED        2      5      8      5      5
  DOCK10 WILD-TYPE     57     70     66    114     33
D589V8, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              5               70
  CLUS_3              8               66
  CLUS_4              5              114
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK10 MUTATED        1      9      3      4      7
  DOCK10 WILD-TYPE     50     67     58     67     88
D589V9, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              9               67
  CLUS_3              3               58
  CLUS_4              4               67
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK10 MUTATED        6      4      1      2      4      1      1      4
  DOCK10 WILD-TYPE     63     44     38     14     49     19     20     34
                  vv
clus               CLUS_9
  DOCK10 MUTATED        1
  DOCK10 WILD-TYPE     49
D589V10, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              4               49
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              4               34
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DOCK10 MUTATED        1      2      0      1      2      1
  DOCK10 WILD-TYPE     12     14     14     10      9      8
D589V11, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK10 MUTATED        2      0      0      0      1      0      3      1
  DOCK10 WILD-TYPE      9      7      7      9      7      7      8      8
                  vv
clus               CLUS_9
  DOCK10 MUTATED        0
  DOCK10 WILD-TYPE      5
D589V12, multiclass
        clus
vv       DOCK10 MUTATED DOCK10 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              3                8
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(590) Variable = CHEK2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHEK2 MUTATED        2      0      0      0      0
  CHEK2 WILD-TYPE     30     18     46     27     23
D590V1, multiclass
[1] "Remove cluster labels:" "CHEK2 MUTATED"         
clus
  CHEK2 MUTATED CHEK2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHEK2 MUTATED        2      0      0
  CHEK2 WILD-TYPE     41     67     36
D590V2, multiclass
[1] "Remove cluster labels:" "CHEK2 MUTATED"         
clus
  CHEK2 MUTATED CHEK2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHEK2 MUTATED        0      2      7
  CHEK2 WILD-TYPE     42    171    140
D590V3, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHEK2 MUTATED        5      2      1
  CHEK2 WILD-TYPE     57     71     74
D590V4, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHEK2 MUTATED        0      1      9
  CHEK2 WILD-TYPE     70    119     91
D590V5, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHEK2 MUTATED        1      0      1      0      0      7      1      0
  CHEK2 WILD-TYPE     40     26     29     29     39     62     19     14
                 vv
clus              CLUS_9
  CHEK2 MUTATED        0
  CHEK2 WILD-TYPE     22
D590V6, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHEK2 MUTATED        2      2      4      2
  CHEK2 WILD-TYPE     98     70     68    119
D590V7, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHEK2 MUTATED        1      3      4      0      2
  CHEK2 WILD-TYPE     58     72     70    119     36
D590V8, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHEK2 MUTATED        1      4      2      1      1
  CHEK2 WILD-TYPE     50     72     59     70     94
D590V9, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHEK2 MUTATED        3      3      0      2      0      0      0      1
  CHEK2 WILD-TYPE     66     45     39     14     53     20     21     37
                 vv
clus              CLUS_9
  CHEK2 MUTATED        0
  CHEK2 WILD-TYPE     50
D590V10, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHEK2 MUTATED        0      0      0      0      2      0
  CHEK2 WILD-TYPE     13     16     14     11      9      9
D590V11, multiclass
[1] "Remove cluster labels:" "CHEK2 MUTATED"         
clus
  CHEK2 MUTATED CHEK2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHEK2 MUTATED        0      0      0      1      0      0      1      0
  CHEK2 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  CHEK2 MUTATED        0
  CHEK2 WILD-TYPE      5
D590V12, multiclass
[1] "Remove cluster labels:" "CHEK2 MUTATED"         
clus
  CHEK2 MUTATED CHEK2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" "CHEK2 WILD-TYPE" 

Clustering(591) Variable = USP9X MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP9X MUTATED        4      0      0      2      0
  USP9X WILD-TYPE     28     18     46     25     23
D591V1, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP9X MUTATED        5      0      1
  USP9X WILD-TYPE     38     67     35
D591V2, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP9X MUTATED        4      6     20
  USP9X WILD-TYPE     38    167    127
D591V3, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             4              38
  CLUS_2             6             167
  CLUS_3            20             127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP9X MUTATED        6      8     11
  USP9X WILD-TYPE     56     65     64
D591V4, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             6              56
  CLUS_2             8              65
  CLUS_3            11              64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP9X MUTATED        4     10     12
  USP9X WILD-TYPE     66    110     88
D591V5, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             4              66
  CLUS_2            10             110
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP9X MUTATED        0      3      0      4      5      9      3      0
  USP9X WILD-TYPE     41     23     30     25     34     60     17     14
                 vv
clus              CLUS_9
  USP9X MUTATED        2
  USP9X WILD-TYPE     20
D591V6, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             0              41
  CLUS_2             3              23
  CLUS_3             0              30
  CLUS_4             4              25
  CLUS_5             5              34
  CLUS_6             9              60
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP9X MUTATED        7     11      6      7
  USP9X WILD-TYPE     93     61     66    114
D591V7, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             7              93
  CLUS_2            11              61
  CLUS_3             6              66
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP9X MUTATED        3      7     14      2      5
  USP9X WILD-TYPE     56     68     60    117     33
D591V8, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             3              56
  CLUS_2             7              68
  CLUS_3            14              60
  CLUS_4             2             117
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP9X MUTATED        5     14      2      3      6
  USP9X WILD-TYPE     46     62     59     68     89
D591V9, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             5              46
  CLUS_2            14              62
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP9X MUTATED        7      4      2      5      4      1      0      4
  USP9X WILD-TYPE     62     44     37     11     49     19     21     34
                 vv
clus              CLUS_9
  USP9X MUTATED        3
  USP9X WILD-TYPE     47
D591V10, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             7              62
  CLUS_2             4              44
  CLUS_3             2              37
  CLUS_4             5              11
  CLUS_5             4              49
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USP9X MUTATED        0      0      2      0      3      0
  USP9X WILD-TYPE     13     16     12     11      8      9
D591V11, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP9X MUTATED        0      0      0      1      1      0      3      0
  USP9X WILD-TYPE     11      7      7      8      7      7      8      9
                 vv
clus              CLUS_9
  USP9X MUTATED        0
  USP9X WILD-TYPE      5
D591V12, multiclass
        clus
vv       USP9X MUTATED USP9X WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(592) Variable = OR5B2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5B2 MUTATED        1      0      0      1      0
  OR5B2 WILD-TYPE     31     18     46     26     23
D592V1, multiclass
[1] "Remove cluster labels:" "OR5B2 MUTATED"         
clus
  OR5B2 MUTATED OR5B2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5B2 MUTATED        1      1      0
  OR5B2 WILD-TYPE     42     66     36
D592V2, multiclass
[1] "Remove cluster labels:" "OR5B2 MUTATED"         
clus
  OR5B2 MUTATED OR5B2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" "OR5B2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5B2 MUTATED        1      4      7
  OR5B2 WILD-TYPE     41    169    140
D592V3, multiclass
        clus
vv       OR5B2 MUTATED OR5B2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5B2 MUTATED        4      4      2
  OR5B2 WILD-TYPE     58     69     73
D592V4, multiclass
        clus
vv       OR5B2 MUTATED OR5B2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             4              69
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5B2 MUTATED        1      8      2
  OR5B2 WILD-TYPE     69    112     98
D592V5, multiclass
        clus
vv       OR5B2 MUTATED OR5B2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             8             112
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5B2 MUTATED        1      2      1      1      0      4      1      1
  OR5B2 WILD-TYPE     40     24     29     28     39     65     19     13
                 vv
clus              CLUS_9
  OR5B2 MUTATED        0
  OR5B2 WILD-TYPE     22
D592V6, multiclass
        clus
vv       OR5B2 MUTATED OR5B2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR5B2 MUTATED        4      3      2      3
  OR5B2 WILD-TYPE     96     69     70    118
D592V7, multiclass
        clus
vv       OR5B2 MUTATED OR5B2 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5B2 MUTATED        2      5      2      2      1
  OR5B2 WILD-TYPE     57     70     72    117     37
D592V8, multiclass
        clus
vv       OR5B2 MUTATED OR5B2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             5              70
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5B2 MUTATED        2      4      1      1      4
  OR5B2 WILD-TYPE     49     72     60     70     91
D592V9, multiclass
        clus
vv       OR5B2 MUTATED OR5B2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5B2 MUTATED        4      0      1      0      1      3      0      1
  OR5B2 WILD-TYPE     65     48     38     16     52     17     21     37
                 vv
clus              CLUS_9
  OR5B2 MUTATED        2
  OR5B2 WILD-TYPE     48
D592V10, multiclass
        clus
vv       OR5B2 MUTATED OR5B2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR5B2 MUTATED        0      1      1      1      0      0
  OR5B2 WILD-TYPE     13     15     13     10     11      9
D592V11, multiclass
        clus
vv       OR5B2 MUTATED OR5B2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5B2 MUTATED        2      0      0      0      0      0      0      1
  OR5B2 WILD-TYPE      9      7      7      9      8      7     11      8
                 vv
clus              CLUS_9
  OR5B2 MUTATED        0
  OR5B2 WILD-TYPE      5
D592V12, multiclass
        clus
vv       OR5B2 MUTATED OR5B2 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(593) Variable = IFNAR1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFNAR1 MUTATED        2      0      0      1      1
  IFNAR1 WILD-TYPE     30     18     46     26     22
D593V1, multiclass
        clus
vv       IFNAR1 MUTATED IFNAR1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFNAR1 MUTATED        2      1      1
  IFNAR1 WILD-TYPE     41     66     35
D593V2, multiclass
        clus
vv       IFNAR1 MUTATED IFNAR1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFNAR1 MUTATED        0      3      3
  IFNAR1 WILD-TYPE     42    170    144
D593V3, multiclass
        clus
vv       IFNAR1 MUTATED IFNAR1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFNAR1 MUTATED        0      2      1
  IFNAR1 WILD-TYPE     62     71     74
D593V4, multiclass
        clus
vv       IFNAR1 MUTATED IFNAR1 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              2               71
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFNAR1 MUTATED        0      1      4
  IFNAR1 WILD-TYPE     70    119     96
D593V5, multiclass
        clus
vv       IFNAR1 MUTATED IFNAR1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFNAR1 MUTATED        1      0      1      0      0      2      1      0
  IFNAR1 WILD-TYPE     40     26     29     29     39     67     19     14
                  vv
clus               CLUS_9
  IFNAR1 MUTATED        0
  IFNAR1 WILD-TYPE     22
D593V6, multiclass
        clus
vv       IFNAR1 MUTATED IFNAR1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFNAR1 MUTATED        2      0      1      4
  IFNAR1 WILD-TYPE     98     72     71    117
D593V7, multiclass
        clus
vv       IFNAR1 MUTATED IFNAR1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              0               72
  CLUS_3              1               71
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFNAR1 MUTATED        2      1      0      3      1
  IFNAR1 WILD-TYPE     57     74     74    116     37
D593V8, multiclass
        clus
vv       IFNAR1 MUTATED IFNAR1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              0               74
  CLUS_4              3              116
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFNAR1 MUTATED        2      0      0      2      3
  IFNAR1 WILD-TYPE     49     76     61     69     92
D593V9, multiclass
        clus
vv       IFNAR1 MUTATED IFNAR1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              0               76
  CLUS_3              0               61
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFNAR1 MUTATED        2      0      0      0      0      2      1      1
  IFNAR1 WILD-TYPE     67     48     39     16     53     18     20     37
                  vv
clus               CLUS_9
  IFNAR1 MUTATED        1
  IFNAR1 WILD-TYPE     49
D593V10, multiclass
        clus
vv       IFNAR1 MUTATED IFNAR1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IFNAR1 MUTATED        0      0      0      1      0      1
  IFNAR1 WILD-TYPE     13     16     14     10     11      8
D593V11, multiclass
[1] "Remove cluster labels:" "IFNAR1 MUTATED"        
clus
  IFNAR1 MUTATED IFNAR1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6679       TCGA-CM-6680 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFNAR1 MUTATED        1      0      0      0      0      0      1      0
  IFNAR1 WILD-TYPE     10      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  IFNAR1 MUTATED        0
  IFNAR1 WILD-TYPE      5
D593V12, multiclass
[1] "Remove cluster labels:" "IFNAR1 MUTATED"        
clus
  IFNAR1 MUTATED IFNAR1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6679       TCGA-CM-6680 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" "IFNAR1 WILD-TYPE" 

Clustering(594) Variable = ALDH2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALDH2 MUTATED        2      0      0      0      0
  ALDH2 WILD-TYPE     30     18     46     27     23
D594V1, multiclass
[1] "Remove cluster labels:" "ALDH2 MUTATED"         
clus
  ALDH2 MUTATED ALDH2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALDH2 MUTATED        2      0      0
  ALDH2 WILD-TYPE     41     67     36
D594V2, multiclass
[1] "Remove cluster labels:" "ALDH2 MUTATED"         
clus
  ALDH2 MUTATED ALDH2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALDH2 MUTATED        2      2      7
  ALDH2 WILD-TYPE     40    171    140
D594V3, multiclass
        clus
vv       ALDH2 MUTATED ALDH2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALDH2 MUTATED        3      2      3
  ALDH2 WILD-TYPE     59     71     72
D594V4, multiclass
        clus
vv       ALDH2 MUTATED ALDH2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALDH2 MUTATED        3      2      3
  ALDH2 WILD-TYPE     67    118     97
D594V5, multiclass
        clus
vv       ALDH2 MUTATED ALDH2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALDH2 MUTATED        3      0      2      1      0      1      1      0
  ALDH2 WILD-TYPE     38     26     28     28     39     68     19     14
                 vv
clus              CLUS_9
  ALDH2 MUTATED        0
  ALDH2 WILD-TYPE     22
D594V6, multiclass
        clus
vv       ALDH2 MUTATED ALDH2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALDH2 MUTATED        1      5      2      3
  ALDH2 WILD-TYPE     99     67     70    118
D594V7, multiclass
        clus
vv       ALDH2 MUTATED ALDH2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALDH2 MUTATED        2      1      5      0      3
  ALDH2 WILD-TYPE     57     74     69    119     35
D594V8, multiclass
        clus
vv       ALDH2 MUTATED ALDH2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALDH2 MUTATED        2      3      2      0      4
  ALDH2 WILD-TYPE     49     73     59     71     91
D594V9, multiclass
        clus
vv       ALDH2 MUTATED ALDH2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALDH2 MUTATED        1      1      0      2      1      4      0      2
  ALDH2 WILD-TYPE     68     47     39     14     52     16     21     36
                 vv
clus              CLUS_9
  ALDH2 MUTATED        0
  ALDH2 WILD-TYPE     50
D594V10, multiclass
        clus
vv       ALDH2 MUTATED ALDH2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             4              16
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ALDH2 MUTATED        0      0      0      0      1      1
  ALDH2 WILD-TYPE     13     16     14     11     10      8
D594V11, multiclass
[1] "Remove cluster labels:" "ALDH2 MUTATED"         
clus
  ALDH2 MUTATED ALDH2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALDH2 MUTATED        1      0      0      1      0      0      0      0
  ALDH2 WILD-TYPE     10      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  ALDH2 MUTATED        0
  ALDH2 WILD-TYPE      5
D594V12, multiclass
[1] "Remove cluster labels:" "ALDH2 MUTATED"         
clus
  ALDH2 MUTATED ALDH2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" "ALDH2 WILD-TYPE" 

Clustering(595) Variable = ZNF14 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF14 MUTATED        1      0      0      2      0
  ZNF14 WILD-TYPE     31     18     46     25     23
D595V1, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF14 MUTATED        1      1      1
  ZNF14 WILD-TYPE     42     66     35
D595V2, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF14 MUTATED        2      3      8
  ZNF14 WILD-TYPE     40    170    139
D595V3, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF14 MUTATED        4      2      3
  ZNF14 WILD-TYPE     58     71     72
D595V4, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF14 MUTATED        1      4      6
  ZNF14 WILD-TYPE     69    116     94
D595V5, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF14 MUTATED        2      0      1      2      0      3      0      2
  ZNF14 WILD-TYPE     39     26     29     27     39     66     20     12
                 vv
clus              CLUS_9
  ZNF14 MUTATED        1
  ZNF14 WILD-TYPE     21
D595V6, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF14 MUTATED        1      4      5      3
  ZNF14 WILD-TYPE     99     68     67    118
D595V7, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             5              67
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF14 MUTATED        5      0      5      2      1
  ZNF14 WILD-TYPE     54     75     69    117     37
D595V8, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF14 MUTATED        3      3      4      1      1
  ZNF14 WILD-TYPE     48     73     57     70     94
D595V9, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             3              73
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF14 MUTATED        5      2      2      0      1      2      0      0
  ZNF14 WILD-TYPE     64     46     37     16     52     18     21     38
                 vv
clus              CLUS_9
  ZNF14 MUTATED        0
  ZNF14 WILD-TYPE     50
D595V10, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF14 MUTATED        0      0      1      1      1      2
  ZNF14 WILD-TYPE     13     16     13     10     10      7
D595V11, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF14 MUTATED        2      0      0      0      1      0      1      1
  ZNF14 WILD-TYPE      9      7      7      9      7      7     10      8
                 vv
clus              CLUS_9
  ZNF14 MUTATED        0
  ZNF14 WILD-TYPE      5
D595V12, multiclass
        clus
vv       ZNF14 MUTATED ZNF14 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(596) Variable = CYP4A22 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP4A22 MUTATED        1      0      1      0      0
  CYP4A22 WILD-TYPE     31     18     45     27     23
D596V1, multiclass
[1] "Remove cluster labels:" "CYP4A22 MUTATED"       
clus
  CYP4A22 MUTATED CYP4A22 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP4A22 MUTATED        1      1      0
  CYP4A22 WILD-TYPE     42     66     36
D596V2, multiclass
[1] "Remove cluster labels:" "CYP4A22 MUTATED"       
clus
  CYP4A22 MUTATED CYP4A22 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" "CYP4A22 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP4A22 MUTATED        2      4      7
  CYP4A22 WILD-TYPE     40    169    140
D596V3, multiclass
        clus
vv       CYP4A22 MUTATED CYP4A22 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               4               169
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP4A22 MUTATED        4      4      3
  CYP4A22 WILD-TYPE     58     69     72
D596V4, multiclass
        clus
vv       CYP4A22 MUTATED CYP4A22 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               4                69
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP4A22 MUTATED        0      6      4
  CYP4A22 WILD-TYPE     70    114     96
D596V5, multiclass
        clus
vv       CYP4A22 MUTATED CYP4A22 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               6               114
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP4A22 MUTATED        2      2      0      2      0      2      0      0
  CYP4A22 WILD-TYPE     39     24     30     27     39     67     20     14
                   vv
clus                CLUS_9
  CYP4A22 MUTATED        2
  CYP4A22 WILD-TYPE     20
D596V6, multiclass
        clus
vv       CYP4A22 MUTATED CYP4A22 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               2                24
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               2                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYP4A22 MUTATED        5      2      4      2
  CYP4A22 WILD-TYPE     95     70     68    119
D596V7, multiclass
        clus
vv       CYP4A22 MUTATED CYP4A22 WILD-TYPE
  CLUS_1               5                95
  CLUS_2               2                70
  CLUS_3               4                68
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP4A22 MUTATED        3      4      4      1      1
  CYP4A22 WILD-TYPE     56     71     70    118     37
D596V8, multiclass
        clus
vv       CYP4A22 MUTATED CYP4A22 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               4                71
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP4A22 MUTATED        3      2      4      3      1
  CYP4A22 WILD-TYPE     48     74     57     68     94
D596V9, multiclass
        clus
vv       CYP4A22 MUTATED CYP4A22 WILD-TYPE
  CLUS_1               3                48
  CLUS_2               2                74
  CLUS_3               4                57
  CLUS_4               3                68
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP4A22 MUTATED        2      3      3      1      1      1      1      1
  CYP4A22 WILD-TYPE     67     45     36     15     52     19     20     37
                   vv
clus                CLUS_9
  CYP4A22 MUTATED        0
  CYP4A22 WILD-TYPE     50
D596V10, multiclass
        clus
vv       CYP4A22 MUTATED CYP4A22 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               3                36
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CYP4A22 MUTATED        1      1      0      1      1      1
  CYP4A22 WILD-TYPE     12     15     14     10     10      8
D596V11, multiclass
        clus
vv       CYP4A22 MUTATED CYP4A22 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP4A22 MUTATED        0      0      0      1      0      1      0      3
  CYP4A22 WILD-TYPE     11      7      7      8      8      6     11      6
                   vv
clus                CLUS_9
  CYP4A22 MUTATED        0
  CYP4A22 WILD-TYPE      5
D596V12, multiclass
        clus
vv       CYP4A22 MUTATED CYP4A22 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               3                 6
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(597) Variable = AIFM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AIFM1 MUTATED        1      0      0      0      0
  AIFM1 WILD-TYPE     31     18     46     27     23
D597V1, multiclass
[1] "Remove cluster labels:" "AIFM1 MUTATED"         
clus
  AIFM1 MUTATED AIFM1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AY-4071 
"AIFM1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        1      0      0
  AIFM1 WILD-TYPE     42     67     36
D597V2, multiclass
[1] "Remove cluster labels:" "AIFM1 MUTATED"         
clus
  AIFM1 MUTATED AIFM1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AY-4071 
"AIFM1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        1      3      7
  AIFM1 WILD-TYPE     41    170    140
D597V3, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        3      2      5
  AIFM1 WILD-TYPE     59     71     70
D597V4, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        4      2      4
  AIFM1 WILD-TYPE     66    118     96
D597V5, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             2             118
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AIFM1 MUTATED        2      0      0      2      1      4      0      0
  AIFM1 WILD-TYPE     39     26     30     27     38     65     20     14
                 vv
clus              CLUS_9
  AIFM1 MUTATED        1
  AIFM1 WILD-TYPE     21
D597V6, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AIFM1 MUTATED        3      4      3      1
  AIFM1 WILD-TYPE     97     68     69    120
D597V7, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AIFM1 MUTATED        3      1      6      0      1
  AIFM1 WILD-TYPE     56     74     68    119     37
D597V8, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             6              68
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AIFM1 MUTATED        2      6      2      0      1
  AIFM1 WILD-TYPE     49     70     59     71     94
D597V9, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             6              70
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AIFM1 MUTATED        2      3      1      1      3      0      0      1
  AIFM1 WILD-TYPE     67     45     38     15     50     20     21     37
                 vv
clus              CLUS_9
  AIFM1 MUTATED        0
  AIFM1 WILD-TYPE     50
D597V10, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AIFM1 MUTATED        0      0      0      0      1      0
  AIFM1 WILD-TYPE     13     16     14     11     10      9
D597V11, multiclass
[1] "Remove cluster labels:" "AIFM1 MUTATED"         
clus
  AIFM1 MUTATED AIFM1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-G4-6628 
"AIFM1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AIFM1 MUTATED        0      0      0      0      0      0      1      0
  AIFM1 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  AIFM1 MUTATED        0
  AIFM1 WILD-TYPE      5
D597V12, multiclass
[1] "Remove cluster labels:" "AIFM1 MUTATED"         
clus
  AIFM1 MUTATED AIFM1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" "AIFM1 WILD-TYPE" 
     TCGA-G4-6628 
"AIFM1 WILD-TYPE" 

Clustering(598) Variable = ST3GAL6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST3GAL6 MUTATED        3      0      0      1      0
  ST3GAL6 WILD-TYPE     29     18     46     26     23
D598V1, multiclass
        clus
vv       ST3GAL6 MUTATED ST3GAL6 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ST3GAL6 MUTATED        4      0      0
  ST3GAL6 WILD-TYPE     39     67     36
D598V2, multiclass
        clus
vv       ST3GAL6 MUTATED ST3GAL6 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ST3GAL6 MUTATED        2      0      8
  ST3GAL6 WILD-TYPE     40    173    139
D598V3, multiclass
        clus
vv       ST3GAL6 MUTATED ST3GAL6 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               0               173
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ST3GAL6 MUTATED        1      1      4
  ST3GAL6 WILD-TYPE     61     72     71
D598V4, multiclass
        clus
vv       ST3GAL6 MUTATED ST3GAL6 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ST3GAL6 MUTATED        0      3      5
  ST3GAL6 WILD-TYPE     70    117     95
D598V5, multiclass
        clus
vv       ST3GAL6 MUTATED ST3GAL6 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ST3GAL6 MUTATED        1      0      0      2      2      3      0      0
  ST3GAL6 WILD-TYPE     40     26     30     27     37     66     20     14
                   vv
clus                CLUS_9
  ST3GAL6 MUTATED        0
  ST3GAL6 WILD-TYPE     22
D598V6, multiclass
        clus
vv       ST3GAL6 MUTATED ST3GAL6 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               2                37
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ST3GAL6 MUTATED        1      2      3      4
  ST3GAL6 WILD-TYPE     99     70     69    117
D598V7, multiclass
        clus
vv       ST3GAL6 MUTATED ST3GAL6 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST3GAL6 MUTATED        1      1      4      0      4
  ST3GAL6 WILD-TYPE     58     74     70    119     34
D598V8, multiclass
        clus
vv       ST3GAL6 MUTATED ST3GAL6 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               4                70
  CLUS_4               0               119
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST3GAL6 MUTATED        1      3      2      0      2
  ST3GAL6 WILD-TYPE     50     73     59     71     93
D598V9, multiclass
        clus
vv       ST3GAL6 MUTATED ST3GAL6 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ST3GAL6 MUTATED        0      3      0      2      1      0      0      2
  ST3GAL6 WILD-TYPE     69     45     39     14     52     20     21     36
                   vv
clus                CLUS_9
  ST3GAL6 MUTATED        0
  ST3GAL6 WILD-TYPE     50
D598V10, multiclass
        clus
vv       ST3GAL6 MUTATED ST3GAL6 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ST3GAL6 MUTATED        0      0      0      0      2      0
  ST3GAL6 WILD-TYPE     13     16     14     11      9      9
D598V11, multiclass
[1] "Remove cluster labels:" "ST3GAL6 MUTATED"       
clus
  ST3GAL6 MUTATED ST3GAL6 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-6748 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ST3GAL6 MUTATED        0      0      0      1      0      0      1      0
  ST3GAL6 WILD-TYPE     11      7      7      8      8      7     10      9
                   vv
clus                CLUS_9
  ST3GAL6 MUTATED        0
  ST3GAL6 WILD-TYPE      5
D598V12, multiclass
[1] "Remove cluster labels:" "ST3GAL6 MUTATED"       
clus
  ST3GAL6 MUTATED ST3GAL6 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-6748 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" "ST3GAL6 WILD-TYPE" 

Clustering(599) Variable = NOVA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOVA1 MUTATED        2      1      1      1      0
  NOVA1 WILD-TYPE     30     17     45     26     23
D599V1, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NOVA1 MUTATED        2      3      0
  NOVA1 WILD-TYPE     41     64     36
D599V2, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NOVA1 MUTATED        1      4      9
  NOVA1 WILD-TYPE     41    169    138
D599V3, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NOVA1 MUTATED        1      4      6
  NOVA1 WILD-TYPE     61     69     69
D599V4, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             4              69
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NOVA1 MUTATED        4      4      5
  NOVA1 WILD-TYPE     66    116     95
D599V5, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NOVA1 MUTATED        4      0      1      2      2      3      1      0
  NOVA1 WILD-TYPE     37     26     29     27     37     66     19     14
                 vv
clus              CLUS_9
  NOVA1 MUTATED        0
  NOVA1 WILD-TYPE     22
D599V6, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOVA1 MUTATED        2      4      5      3
  NOVA1 WILD-TYPE     98     68     67    118
D599V7, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             5              67
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOVA1 MUTATED        2      0      7      3      2
  NOVA1 WILD-TYPE     57     75     67    116     36
D599V8, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOVA1 MUTATED        1      6      2      1      4
  NOVA1 WILD-TYPE     50     70     59     70     91
D599V9, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NOVA1 MUTATED        1      4      1      3      1      1      2      1
  NOVA1 WILD-TYPE     68     44     38     13     52     19     19     37
                 vv
clus              CLUS_9
  NOVA1 MUTATED        0
  NOVA1 WILD-TYPE     50
D599V10, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             2              19
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NOVA1 MUTATED        0      1      0      1      3      0
  NOVA1 WILD-TYPE     13     15     14     10      8      9
D599V11, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NOVA1 MUTATED        0      0      1      1      0      1      2      0
  NOVA1 WILD-TYPE     11      7      6      8      8      6      9      9
                 vv
clus              CLUS_9
  NOVA1 MUTATED        0
  NOVA1 WILD-TYPE      5
D599V12, multiclass
        clus
vv       NOVA1 MUTATED NOVA1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(600) Variable = CD244 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD244 MUTATED        0      0      0      3      0
  CD244 WILD-TYPE     32     18     46     24     23
D600V1, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             0              32
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD244 MUTATED        2      1      0
  CD244 WILD-TYPE     41     66     36
D600V2, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD244 MUTATED        0      2      5
  CD244 WILD-TYPE     42    171    142
D600V3, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD244 MUTATED        3      1      0
  CD244 WILD-TYPE     59     72     75
D600V4, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD244 MUTATED        0      4      3
  CD244 WILD-TYPE     70    116     97
D600V5, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CD244 MUTATED        0      1      1      0      1      3      0      1
  CD244 WILD-TYPE     41     25     29     29     38     66     20     13
                 vv
clus              CLUS_9
  CD244 MUTATED        0
  CD244 WILD-TYPE     22
D600V6, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD244 MUTATED        2      0      1      4
  CD244 WILD-TYPE     98     72     71    117
D600V7, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             0              72
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD244 MUTATED        2      1      0      2      2
  CD244 WILD-TYPE     57     74     74    117     36
D600V8, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             0              74
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD244 MUTATED        0      0      2      1      3
  CD244 WILD-TYPE     51     76     59     70     92
D600V9, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             0              76
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CD244 MUTATED        1      1      1      0      0      1      0      1
  CD244 WILD-TYPE     68     47     38     16     53     19     21     37
                 vv
clus              CLUS_9
  CD244 MUTATED        1
  CD244 WILD-TYPE     49
D600V10, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CD244 MUTATED        1      1      0      1      0      0
  CD244 WILD-TYPE     12     15     14     10     11      9
D600V11, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CD244 MUTATED        0      1      0      1      0      0      1      0
  CD244 WILD-TYPE     11      6      7      8      8      7     10      9
                 vv
clus              CLUS_9
  CD244 MUTATED        0
  CD244 WILD-TYPE      5
D600V12, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(601) Variable = ARHGEF3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGEF3 MUTATED        2      0      0      1      0
  ARHGEF3 WILD-TYPE     30     18     46     26     23
D601V1, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGEF3 MUTATED        2      1      0
  ARHGEF3 WILD-TYPE     41     66     36
D601V2, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGEF3 MUTATED        0      1     10
  ARHGEF3 WILD-TYPE     42    172    137
D601V3, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3              10               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGEF3 MUTATED        4      1      3
  ARHGEF3 WILD-TYPE     58     72     72
D601V4, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGEF3 MUTATED        1      1      7
  ARHGEF3 WILD-TYPE     69    119     93
D601V5, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGEF3 MUTATED        2      0      1      0      0      6      0      0
  ARHGEF3 WILD-TYPE     39     26     29     29     39     63     20     14
                   vv
clus                CLUS_9
  ARHGEF3 MUTATED        0
  ARHGEF3 WILD-TYPE     22
D601V6, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGEF3 MUTATED        1      4      3      3
  ARHGEF3 WILD-TYPE     99     68     69    118
D601V7, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               3                69
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGEF3 MUTATED        2      1      5      1      2
  ARHGEF3 WILD-TYPE     57     74     69    118     36
D601V8, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               1                74
  CLUS_3               5                69
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGEF3 MUTATED        0      5      2      0      3
  ARHGEF3 WILD-TYPE     51     71     59     71     92
D601V9, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               5                71
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGEF3 MUTATED        1      3      0      3      0      1      0      1
  ARHGEF3 WILD-TYPE     68     45     39     13     53     19     21     37
                   vv
clus                CLUS_9
  ARHGEF3 MUTATED        1
  ARHGEF3 WILD-TYPE     49
D601V10, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARHGEF3 MUTATED        0      1      0      0      2      0
  ARHGEF3 WILD-TYPE     13     15     14     11      9      9
D601V11, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGEF3 MUTATED        1      0      0      1      0      0      1      0
  ARHGEF3 WILD-TYPE     10      7      7      8      8      7     10      9
                   vv
clus                CLUS_9
  ARHGEF3 MUTATED        0
  ARHGEF3 WILD-TYPE      5
D601V12, multiclass
        clus
vv       ARHGEF3 MUTATED ARHGEF3 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(602) Variable = MRPL13 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPL13 MUTATED        1      0      0      0      0
  MRPL13 WILD-TYPE     31     18     46     27     23
D602V1, multiclass
[1] "Remove cluster labels:" "MRPL13 MUTATED"        
clus
  MRPL13 MUTATED MRPL13 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AY-4071 
"MRPL13 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL13 MUTATED        1      0      0
  MRPL13 WILD-TYPE     42     67     36
D602V2, multiclass
[1] "Remove cluster labels:" "MRPL13 MUTATED"        
clus
  MRPL13 MUTATED MRPL13 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AY-4071 
"MRPL13 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL13 MUTATED        1      2      3
  MRPL13 WILD-TYPE     41    171    144
D602V3, multiclass
        clus
vv       MRPL13 MUTATED MRPL13 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL13 MUTATED        3      1      1
  MRPL13 WILD-TYPE     59     72     74
D602V4, multiclass
        clus
vv       MRPL13 MUTATED MRPL13 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL13 MUTATED        1      1      3
  MRPL13 WILD-TYPE     69    119     97
D602V5, multiclass
        clus
vv       MRPL13 MUTATED MRPL13 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPL13 MUTATED        0      0      0      0      0      3      0      1
  MRPL13 WILD-TYPE     41     26     30     29     39     66     20     13
                  vv
clus               CLUS_9
  MRPL13 MUTATED        1
  MRPL13 WILD-TYPE     21
D602V6, multiclass
        clus
vv       MRPL13 MUTATED MRPL13 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MRPL13 MUTATED        2      1      2      1
  MRPL13 WILD-TYPE     98     71     70    120
D602V7, multiclass
        clus
vv       MRPL13 MUTATED MRPL13 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPL13 MUTATED        1      3      1      0      1
  MRPL13 WILD-TYPE     58     72     73    119     37
D602V8, multiclass
        clus
vv       MRPL13 MUTATED MRPL13 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPL13 MUTATED        2      1      1      0      2
  MRPL13 WILD-TYPE     49     75     60     71     93
D602V9, multiclass
        clus
vv       MRPL13 MUTATED MRPL13 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPL13 MUTATED        0      2      1      0      1      0      0      1
  MRPL13 WILD-TYPE     69     46     38     16     52     20     21     37
                  vv
clus               CLUS_9
  MRPL13 MUTATED        1
  MRPL13 WILD-TYPE     49
D602V10, multiclass
        clus
vv       MRPL13 MUTATED MRPL13 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MRPL13 MUTATED        0      1      0      0      0      0
  MRPL13 WILD-TYPE     13     15     14     11     11      9
D602V11, multiclass
[1] "Remove cluster labels:" "MRPL13 MUTATED"        
clus
  MRPL13 MUTATED MRPL13 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-6598 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-G4-6628 
"MRPL13 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPL13 MUTATED        1      0      0      0      0      0      0      0
  MRPL13 WILD-TYPE     10      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  MRPL13 MUTATED        0
  MRPL13 WILD-TYPE      5
D602V12, multiclass
[1] "Remove cluster labels:" "MRPL13 MUTATED"        
clus
  MRPL13 MUTATED MRPL13 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-6598 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" "MRPL13 WILD-TYPE" 
      TCGA-G4-6628 
"MRPL13 WILD-TYPE" 

Clustering(603) Variable = STK36 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK36 MUTATED        2      0      0      0      0
  STK36 WILD-TYPE     30     18     46     27     23
D603V1, multiclass
[1] "Remove cluster labels:" "STK36 MUTATED"         
clus
  STK36 MUTATED STK36 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK36 MUTATED        2      0      0
  STK36 WILD-TYPE     41     67     36
D603V2, multiclass
[1] "Remove cluster labels:" "STK36 MUTATED"         
clus
  STK36 MUTATED STK36 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" "STK36 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK36 MUTATED        2      1     11
  STK36 WILD-TYPE     40    172    136
D603V3, multiclass
        clus
vv       STK36 MUTATED STK36 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK36 MUTATED        7      0      5
  STK36 WILD-TYPE     55     73     70
D603V4, multiclass
        clus
vv       STK36 MUTATED STK36 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK36 MUTATED        4      1      7
  STK36 WILD-TYPE     66    119     93
D603V5, multiclass
        clus
vv       STK36 MUTATED STK36 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             1             119
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK36 MUTATED        3      0      1      0      1      4      1      2
  STK36 WILD-TYPE     38     26     29     29     38     65     19     12
                 vv
clus              CLUS_9
  STK36 MUTATED        0
  STK36 WILD-TYPE     22
D603V6, multiclass
        clus
vv       STK36 MUTATED STK36 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK36 MUTATED        0      6      6      2
  STK36 WILD-TYPE    100     66     66    119
D603V7, multiclass
        clus
vv       STK36 MUTATED STK36 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             6              66
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK36 MUTATED        4      2      6      0      2
  STK36 WILD-TYPE     55     73     68    119     36
D603V8, multiclass
        clus
vv       STK36 MUTATED STK36 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK36 MUTATED        0      8      3      0      2
  STK36 WILD-TYPE     51     68     58     71     93
D603V9, multiclass
        clus
vv       STK36 MUTATED STK36 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             8              68
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK36 MUTATED        2      5      0      2      2      0      0      1
  STK36 WILD-TYPE     67     43     39     14     51     20     21     37
                 vv
clus              CLUS_9
  STK36 MUTATED        1
  STK36 WILD-TYPE     49
D603V10, multiclass
        clus
vv       STK36 MUTATED STK36 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK36 MUTATED        0      3      0      0      1      0
  STK36 WILD-TYPE     13     13     14     11     10      9
D603V11, multiclass
        clus
vv       STK36 MUTATED STK36 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             3              13
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK36 MUTATED        1      1      0      0      0      0      2      0
  STK36 WILD-TYPE     10      6      7      9      8      7      9      9
                 vv
clus              CLUS_9
  STK36 MUTATED        0
  STK36 WILD-TYPE      5
D603V12, multiclass
        clus
vv       STK36 MUTATED STK36 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(604) Variable = IL13RA2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL13RA2 MUTATED        1      0      0      1      0
  IL13RA2 WILD-TYPE     31     18     46     26     23
D604V1, multiclass
[1] "Remove cluster labels:" "IL13RA2 MUTATED"       
clus
  IL13RA2 MUTATED IL13RA2 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00F        TCGA-AA-A00J 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL13RA2 MUTATED        1      1      0
  IL13RA2 WILD-TYPE     42     66     36
D604V2, multiclass
[1] "Remove cluster labels:" "IL13RA2 MUTATED"       
clus
  IL13RA2 MUTATED IL13RA2 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00F        TCGA-AA-A00J 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL13RA2 MUTATED        1      7      6
  IL13RA2 WILD-TYPE     41    166    141
D604V3, multiclass
        clus
vv       IL13RA2 MUTATED IL13RA2 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               7               166
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL13RA2 MUTATED        3      5      4
  IL13RA2 WILD-TYPE     59     68     71
D604V4, multiclass
        clus
vv       IL13RA2 MUTATED IL13RA2 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               5                68
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL13RA2 MUTATED        0      7      4
  IL13RA2 WILD-TYPE     70    113     96
D604V5, multiclass
        clus
vv       IL13RA2 MUTATED IL13RA2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               7               113
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL13RA2 MUTATED        0      2      2      1      1      2      1      0
  IL13RA2 WILD-TYPE     41     24     28     28     38     67     19     14
                   vv
clus                CLUS_9
  IL13RA2 MUTATED        2
  IL13RA2 WILD-TYPE     20
D604V6, multiclass
        clus
vv       IL13RA2 MUTATED IL13RA2 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               2                24
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               2                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL13RA2 MUTATED        7      2      2      3
  IL13RA2 WILD-TYPE     93     70     70    118
D604V7, multiclass
        clus
vv       IL13RA2 MUTATED IL13RA2 WILD-TYPE
  CLUS_1               7                93
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL13RA2 MUTATED        2      7      2      2      1
  IL13RA2 WILD-TYPE     57     68     72    117     37
D604V8, multiclass
        clus
vv       IL13RA2 MUTATED IL13RA2 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               7                68
  CLUS_3               2                72
  CLUS_4               2               117
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL13RA2 MUTATED        3      6      2      0      2
  IL13RA2 WILD-TYPE     48     70     59     71     93
D604V9, multiclass
        clus
vv       IL13RA2 MUTATED IL13RA2 WILD-TYPE
  CLUS_1               3                48
  CLUS_2               6                70
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL13RA2 MUTATED        2      2      2      1      3      2      0      0
  IL13RA2 WILD-TYPE     67     46     37     15     50     18     21     38
                   vv
clus                CLUS_9
  IL13RA2 MUTATED        1
  IL13RA2 WILD-TYPE     49
D604V10, multiclass
        clus
vv       IL13RA2 MUTATED IL13RA2 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               2                46
  CLUS_3               2                37
  CLUS_4               1                15
  CLUS_5               3                50
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL13RA2 MUTATED        0      0      0      1      0      1
  IL13RA2 WILD-TYPE     13     16     14     10     11      8
D604V11, multiclass
[1] "Remove cluster labels:" "IL13RA2 MUTATED"       
clus
  IL13RA2 MUTATED IL13RA2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL13RA2 MUTATED        0      0      0      0      0      1      1      0
  IL13RA2 WILD-TYPE     11      7      7      9      8      6     10      9
                   vv
clus                CLUS_9
  IL13RA2 MUTATED        0
  IL13RA2 WILD-TYPE      5
D604V12, multiclass
[1] "Remove cluster labels:" "IL13RA2 MUTATED"       
clus
  IL13RA2 MUTATED IL13RA2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" "IL13RA2 WILD-TYPE" 

Clustering(605) Variable = FAM26E MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM26E MUTATED        1      0      0      0      0
  FAM26E WILD-TYPE     31     18     46     27     23
D605V1, multiclass
[1] "Remove cluster labels:" "FAM26E MUTATED"        
clus
  FAM26E MUTATED FAM26E WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AY-4071 
"FAM26E WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM26E MUTATED        1      0      0
  FAM26E WILD-TYPE     42     67     36
D605V2, multiclass
[1] "Remove cluster labels:" "FAM26E MUTATED"        
clus
  FAM26E MUTATED FAM26E WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AY-4071 
"FAM26E WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM26E MUTATED        0      0      5
  FAM26E WILD-TYPE     42    173    142
D605V3, multiclass
        clus
vv       FAM26E MUTATED FAM26E WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM26E MUTATED        1      0      3
  FAM26E WILD-TYPE     61     73     72
D605V4, multiclass
        clus
vv       FAM26E MUTATED FAM26E WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM26E MUTATED        0      1      3
  FAM26E WILD-TYPE     70    119     97
D605V5, multiclass
        clus
vv       FAM26E MUTATED FAM26E WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM26E MUTATED        0      1      0      0      0      2      1      0
  FAM26E WILD-TYPE     41     25     30     29     39     67     19     14
                  vv
clus               CLUS_9
  FAM26E MUTATED        0
  FAM26E WILD-TYPE     22
D605V6, multiclass
        clus
vv       FAM26E MUTATED FAM26E WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM26E MUTATED        0      4      0      1
  FAM26E WILD-TYPE    100     68     72    120
D605V7, multiclass
        clus
vv       FAM26E MUTATED FAM26E WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              0               72
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM26E MUTATED        0      0      4      0      1
  FAM26E WILD-TYPE     59     75     70    119     37
D605V8, multiclass
        clus
vv       FAM26E MUTATED FAM26E WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM26E MUTATED        0      4      0      0      1
  FAM26E WILD-TYPE     51     72     61     71     94
D605V9, multiclass
        clus
vv       FAM26E MUTATED FAM26E WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM26E MUTATED        1      0      0      3      0      0      0      1
  FAM26E WILD-TYPE     68     48     39     13     53     20     21     37
                  vv
clus               CLUS_9
  FAM26E MUTATED        0
  FAM26E WILD-TYPE     50
D605V10, multiclass
        clus
vv       FAM26E MUTATED FAM26E WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM26E MUTATED        0      0      0      0      1      0
  FAM26E WILD-TYPE     13     16     14     11     10      9
D605V11, multiclass
[1] "Remove cluster labels:" "FAM26E MUTATED"        
clus
  FAM26E MUTATED FAM26E WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-G4-6628 
"FAM26E WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM26E MUTATED        0      0      0      1      0      0      0      0
  FAM26E WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  FAM26E MUTATED        0
  FAM26E WILD-TYPE      5
D605V12, multiclass
[1] "Remove cluster labels:" "FAM26E MUTATED"        
clus
  FAM26E MUTATED FAM26E WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" "FAM26E WILD-TYPE" 
      TCGA-G4-6628 
"FAM26E WILD-TYPE" 

Clustering(606) Variable = ZNF182 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF182 MUTATED        3      0      0      1      0
  ZNF182 WILD-TYPE     29     18     46     26     23
D606V1, multiclass
        clus
vv       ZNF182 MUTATED ZNF182 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF182 MUTATED        2      1      1
  ZNF182 WILD-TYPE     41     66     35
D606V2, multiclass
        clus
vv       ZNF182 MUTATED ZNF182 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF182 MUTATED        1      2     10
  ZNF182 WILD-TYPE     41    171    137
D606V3, multiclass
        clus
vv       ZNF182 MUTATED ZNF182 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF182 MUTATED        4      1      4
  ZNF182 WILD-TYPE     58     72     71
D606V4, multiclass
        clus
vv       ZNF182 MUTATED ZNF182 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF182 MUTATED        1      3      6
  ZNF182 WILD-TYPE     69    117     94
D606V5, multiclass
        clus
vv       ZNF182 MUTATED ZNF182 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF182 MUTATED        3      0      1      0      1      1      2      1
  ZNF182 WILD-TYPE     38     26     29     29     38     68     18     13
                  vv
clus               CLUS_9
  ZNF182 MUTATED        1
  ZNF182 WILD-TYPE     21
D606V6, multiclass
        clus
vv       ZNF182 MUTATED ZNF182 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF182 MUTATED        0      4      5      4
  ZNF182 WILD-TYPE    100     68     67    117
D606V7, multiclass
        clus
vv       ZNF182 MUTATED ZNF182 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              5               67
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF182 MUTATED        5      0      4      2      2
  ZNF182 WILD-TYPE     54     75     70    117     36
D606V8, multiclass
        clus
vv       ZNF182 MUTATED ZNF182 WILD-TYPE
  CLUS_1              5               54
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF182 MUTATED        1      4      4      1      3
  ZNF182 WILD-TYPE     50     72     57     70     92
D606V9, multiclass
        clus
vv       ZNF182 MUTATED ZNF182 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              4               57
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF182 MUTATED        0      3      1      3      2      2      0      2
  ZNF182 WILD-TYPE     69     45     38     13     51     18     21     36
                  vv
clus               CLUS_9
  ZNF182 MUTATED        0
  ZNF182 WILD-TYPE     50
D606V10, multiclass
        clus
vv       ZNF182 MUTATED ZNF182 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF182 MUTATED        0      1      0      1      0      0
  ZNF182 WILD-TYPE     13     15     14     10     11      9
D606V11, multiclass
[1] "Remove cluster labels:" "ZNF182 MUTATED"        
clus
  ZNF182 MUTATED ZNF182 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6653       TCGA-A6-6654 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF182 MUTATED        0      1      1      0      0      0      0      0
  ZNF182 WILD-TYPE     11      6      6      9      8      7     11      9
                  vv
clus               CLUS_9
  ZNF182 MUTATED        0
  ZNF182 WILD-TYPE      5
D606V12, multiclass
[1] "Remove cluster labels:" "ZNF182 MUTATED"        
clus
  ZNF182 MUTATED ZNF182 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6653       TCGA-A6-6654 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" "ZNF182 WILD-TYPE" 

Clustering(607) Variable = GNA11 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNA11 MUTATED        0      0      0      1      0
  GNA11 WILD-TYPE     32     18     46     26     23
D607V1, multiclass
[1] "Remove cluster labels:" "GNA11 MUTATED"         
clus
  GNA11 MUTATED GNA11 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AY-4071 
"GNA11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNA11 MUTATED        1      0      0
  GNA11 WILD-TYPE     42     67     36
D607V2, multiclass
[1] "Remove cluster labels:" "GNA11 MUTATED"         
clus
  GNA11 MUTATED GNA11 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" "GNA11 WILD-TYPE" 
     TCGA-AY-4071 
"GNA11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNA11 MUTATED        0      2      5
  GNA11 WILD-TYPE     42    171    142
D607V3, multiclass
        clus
vv       GNA11 MUTATED GNA11 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNA11 MUTATED        4      0      2
  GNA11 WILD-TYPE     58     73     73
D607V4, multiclass
        clus
vv       GNA11 MUTATED GNA11 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNA11 MUTATED        1      1      4
  GNA11 WILD-TYPE     69    119     96
D607V5, multiclass
        clus
vv       GNA11 MUTATED GNA11 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNA11 MUTATED        0      1      0      0      0      2      2      1
  GNA11 WILD-TYPE     41     25     30     29     39     67     18     13
                 vv
clus              CLUS_9
  GNA11 MUTATED        0
  GNA11 WILD-TYPE     22
D607V6, multiclass
        clus
vv       GNA11 MUTATED GNA11 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GNA11 MUTATED        1      3      3      0
  GNA11 WILD-TYPE     99     69     69    121
D607V7, multiclass
        clus
vv       GNA11 MUTATED GNA11 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNA11 MUTATED        2      2      3      0      0
  GNA11 WILD-TYPE     57     73     71    119     38
D607V8, multiclass
        clus
vv       GNA11 MUTATED GNA11 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNA11 MUTATED        0      4      2      0      1
  GNA11 WILD-TYPE     51     72     59     71     94
D607V9, multiclass
        clus
vv       GNA11 MUTATED GNA11 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNA11 MUTATED        1      3      0      1      1      0      0      1
  GNA11 WILD-TYPE     68     45     39     15     52     20     21     37
                 vv
clus              CLUS_9
  GNA11 MUTATED        0
  GNA11 WILD-TYPE     50
D607V10, multiclass
        clus
vv       GNA11 MUTATED GNA11 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GNA11 MUTATED        0      1      1      1      0      0
  GNA11 WILD-TYPE     13     15     13     10     11      9
D607V11, multiclass
        clus
vv       GNA11 MUTATED GNA11 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNA11 MUTATED        0      1      0      0      1      0      1      0
  GNA11 WILD-TYPE     11      6      7      9      7      7     10      9
                 vv
clus              CLUS_9
  GNA11 MUTATED        0
  GNA11 WILD-TYPE      5
D607V12, multiclass
        clus
vv       GNA11 MUTATED GNA11 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(608) Variable = KDM2B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM2B MUTATED        4      0      2      0      0
  KDM2B WILD-TYPE     28     18     44     27     23
D608V1, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM2B MUTATED        4      2      0
  KDM2B WILD-TYPE     39     65     36
D608V2, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             4              39
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM2B MUTATED        2      4     13
  KDM2B WILD-TYPE     40    169    134
D608V3, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4             169
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM2B MUTATED        2      3     10
  KDM2B WILD-TYPE     60     70     65
D608V4, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             2              60
  CLUS_2             3              70
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM2B MUTATED        1      6      8
  KDM2B WILD-TYPE     69    114     92
D608V5, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM2B MUTATED        1      0      1      3      3      5      2      0
  KDM2B WILD-TYPE     40     26     29     26     36     64     18     14
                 vv
clus              CLUS_9
  KDM2B MUTATED        0
  KDM2B WILD-TYPE     22
D608V6, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM2B MUTATED        3      9      2      6
  KDM2B WILD-TYPE     97     63     70    115
D608V7, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             3              97
  CLUS_2             9              63
  CLUS_3             2              70
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM2B MUTATED        1      2     11      3      3
  KDM2B WILD-TYPE     58     73     63    116     35
D608V8, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3            11              63
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM2B MUTATED        1     11      1      0      7
  KDM2B WILD-TYPE     50     65     60     71     88
D608V9, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             1              50
  CLUS_2            11              65
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM2B MUTATED        4      2      1      6      1      0      2      4
  KDM2B WILD-TYPE     65     46     38     10     52     20     19     34
                 vv
clus              CLUS_9
  KDM2B MUTATED        0
  KDM2B WILD-TYPE     50
D608V10, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             4              65
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             6              10
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             2              19
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KDM2B MUTATED        0      0      0      0      3      0
  KDM2B WILD-TYPE     13     16     14     11      8      9
D608V11, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM2B MUTATED        0      0      0      2      0      1      0      0
  KDM2B WILD-TYPE     11      7      7      7      8      6     11      9
                 vv
clus              CLUS_9
  KDM2B MUTATED        0
  KDM2B WILD-TYPE      5
D608V12, multiclass
        clus
vv       KDM2B MUTATED KDM2B WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(609) Variable = C17ORF47 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C17ORF47 MUTATED        0      0      0      1      0
  C17ORF47 WILD-TYPE     32     18     46     26     23
D609V1, multiclass
[1] "Remove cluster labels:" "C17ORF47 MUTATED"      
clus
  C17ORF47 MUTATED C17ORF47 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3980         TCGA-AA-3982 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3984         TCGA-AA-3986         TCGA-AA-3989 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3994         TCGA-AA-A004         TCGA-AA-A00A 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A00D         TCGA-AA-A00E         TCGA-AA-A00F 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A00J         TCGA-AA-A00K         TCGA-AA-A00L 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A00N         TCGA-AA-A00O         TCGA-AA-A00Q 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A017         TCGA-AA-A01D 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AY-4071 
"C17ORF47 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF47 MUTATED        0      1      0
  C17ORF47 WILD-TYPE     43     66     36
D609V2, multiclass
[1] "Remove cluster labels:" "C17ORF47 MUTATED"      
clus
  C17ORF47 MUTATED C17ORF47 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3980         TCGA-AA-3982 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3984         TCGA-AA-3986         TCGA-AA-3989 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-3994         TCGA-AA-A004         TCGA-AA-A00A 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A00D         TCGA-AA-A00E         TCGA-AA-A00F 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A00J         TCGA-AA-A00K         TCGA-AA-A00L 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A00N         TCGA-AA-A00O         TCGA-AA-A00Q 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A017         TCGA-AA-A01D 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AY-4071 
"C17ORF47 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF47 MUTATED        0      2      3
  C17ORF47 WILD-TYPE     42    171    144
D609V3, multiclass
        clus
vv       C17ORF47 MUTATED C17ORF47 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                2                171
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF47 MUTATED        2      2      0
  C17ORF47 WILD-TYPE     60     71     75
D609V4, multiclass
        clus
vv       C17ORF47 MUTATED C17ORF47 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                2                 71
  CLUS_3                0                 75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF47 MUTATED        1      2      2
  C17ORF47 WILD-TYPE     69    118     98
D609V5, multiclass
        clus
vv       C17ORF47 MUTATED C17ORF47 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                2                118
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C17ORF47 MUTATED        2      0      1      1      0      1      0      0
  C17ORF47 WILD-TYPE     39     26     29     28     39     68     20     14
                    vv
clus                 CLUS_9
  C17ORF47 MUTATED        0
  C17ORF47 WILD-TYPE     22
D609V6, multiclass
        clus
vv       C17ORF47 MUTATED C17ORF47 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                1                 68
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C17ORF47 MUTATED        2      1      1      1
  C17ORF47 WILD-TYPE     98     71     71    120
D609V7, multiclass
        clus
vv       C17ORF47 MUTATED C17ORF47 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                1                 71
  CLUS_3                1                 71
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C17ORF47 MUTATED        2      1      1      1      0
  C17ORF47 WILD-TYPE     57     74     73    118     38
D609V8, multiclass
        clus
vv       C17ORF47 MUTATED C17ORF47 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                1                 74
  CLUS_3                1                 73
  CLUS_4                1                118
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C17ORF47 MUTATED        2      0      2      0      1
  C17ORF47 WILD-TYPE     49     76     59     71     94
D609V9, multiclass
        clus
vv       C17ORF47 MUTATED C17ORF47 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                0                 76
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C17ORF47 MUTATED        0      2      0      0      2      1      0      0
  C17ORF47 WILD-TYPE     69     46     39     16     51     19     21     38
                    vv
clus                 CLUS_9
  C17ORF47 MUTATED        0
  C17ORF47 WILD-TYPE     50
D609V10, multiclass
        clus
vv       C17ORF47 MUTATED C17ORF47 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C17ORF47 MUTATED        0      0      0      1      0      0
  C17ORF47 WILD-TYPE     13     16     14     10     11      9
D609V11, multiclass
[1] "Remove cluster labels:" "C17ORF47 MUTATED"      
clus
  C17ORF47 MUTATED C17ORF47 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6651 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6781 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-G4-6628 
"C17ORF47 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C17ORF47 MUTATED        0      0      0      0      0      0      1      0
  C17ORF47 WILD-TYPE     11      7      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  C17ORF47 MUTATED        0
  C17ORF47 WILD-TYPE      5
D609V12, multiclass
[1] "Remove cluster labels:" "C17ORF47 MUTATED"      
clus
  C17ORF47 MUTATED C17ORF47 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6651 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6781 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" "C17ORF47 WILD-TYPE" 
        TCGA-G4-6628 
"C17ORF47 WILD-TYPE" 

Clustering(610) Variable = KCTD16 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCTD16 MUTATED        1      0      1      0      0
  KCTD16 WILD-TYPE     31     18     45     27     23
D610V1, multiclass
[1] "Remove cluster labels:" "KCTD16 MUTATED"        
clus
  KCTD16 MUTATED KCTD16 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2677       TCGA-A6-2678 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3552 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3556 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667       TCGA-AA-3672 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679       TCGA-AA-3680 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685       TCGA-AA-3688 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696       TCGA-AA-3710 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3821 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837       TCGA-AA-3842 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846       TCGA-AA-3848 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KCTD16 MUTATED        1      1      0
  KCTD16 WILD-TYPE     42     66     36
D610V2, multiclass
[1] "Remove cluster labels:" "KCTD16 MUTATED"        
clus
  KCTD16 MUTATED KCTD16 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2677       TCGA-A6-2678 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3552 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3556 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667       TCGA-AA-3672 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679       TCGA-AA-3680 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685       TCGA-AA-3688 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696       TCGA-AA-3710 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3821 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837       TCGA-AA-3842 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846       TCGA-AA-3848 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" "KCTD16 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KCTD16 MUTATED        2      6      4
  KCTD16 WILD-TYPE     40    167    143
D610V3, multiclass
        clus
vv       KCTD16 MUTATED KCTD16 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              6              167
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KCTD16 MUTATED        4      3      3
  KCTD16 WILD-TYPE     58     70     72
D610V4, multiclass
        clus
vv       KCTD16 MUTATED KCTD16 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              3               70
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KCTD16 MUTATED        0      6      3
  KCTD16 WILD-TYPE     70    114     97
D610V5, multiclass
        clus
vv       KCTD16 MUTATED KCTD16 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              6              114
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCTD16 MUTATED        0      0      0      4      1      3      0      1
  KCTD16 WILD-TYPE     41     26     30     25     38     66     20     13
                  vv
clus               CLUS_9
  KCTD16 MUTATED        0
  KCTD16 WILD-TYPE     22
D610V6, multiclass
        clus
vv       KCTD16 MUTATED KCTD16 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              4               25
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCTD16 MUTATED        5      2      3      2
  KCTD16 WILD-TYPE     95     70     69    119
D610V7, multiclass
        clus
vv       KCTD16 MUTATED KCTD16 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCTD16 MUTATED        2      4      4      1      1
  KCTD16 WILD-TYPE     57     71     70    118     37
D610V8, multiclass
        clus
vv       KCTD16 MUTATED KCTD16 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCTD16 MUTATED        1      4      3      2      2
  KCTD16 WILD-TYPE     50     72     58     69     93
D610V9, multiclass
        clus
vv       KCTD16 MUTATED KCTD16 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              3               58
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCTD16 MUTATED        4      1      1      1      2      1      0      1
  KCTD16 WILD-TYPE     65     47     38     15     51     19     21     37
                  vv
clus               CLUS_9
  KCTD16 MUTATED        1
  KCTD16 WILD-TYPE     49
D610V10, multiclass
        clus
vv       KCTD16 MUTATED KCTD16 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KCTD16 MUTATED        2      0      2      1      1      0
  KCTD16 WILD-TYPE     11     16     12     10     10      9
D610V11, multiclass
        clus
vv       KCTD16 MUTATED KCTD16 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCTD16 MUTATED        1      0      0      2      1      0      2      0
  KCTD16 WILD-TYPE     10      7      7      7      7      7      9      9
                  vv
clus               CLUS_9
  KCTD16 MUTATED        0
  KCTD16 WILD-TYPE      5
D610V12, multiclass
        clus
vv       KCTD16 MUTATED KCTD16 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(611) Variable = LNPEP MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LNPEP MUTATED        5      0      0      1      0
  LNPEP WILD-TYPE     27     18     46     26     23
D611V1, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LNPEP MUTATED        4      1      1
  LNPEP WILD-TYPE     39     66     35
D611V2, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LNPEP MUTATED        2      2     14
  LNPEP WILD-TYPE     40    171    133
D611V3, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LNPEP MUTATED        4      2      6
  LNPEP WILD-TYPE     58     71     69
D611V4, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LNPEP MUTATED        4      6      5
  LNPEP WILD-TYPE     66    114     95
D611V5, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             4              66
  CLUS_2             6             114
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LNPEP MUTATED        2      1      1      1      3      4      1      2
  LNPEP WILD-TYPE     39     25     29     28     36     65     19     12
                 vv
clus              CLUS_9
  LNPEP MUTATED        0
  LNPEP WILD-TYPE     22
D611V6, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LNPEP MUTATED        2      8      2      6
  LNPEP WILD-TYPE     98     64     70    115
D611V7, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             2              98
  CLUS_2             8              64
  CLUS_3             2              70
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LNPEP MUTATED        2      3      7      3      3
  LNPEP WILD-TYPE     57     72     67    116     35
D611V8, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LNPEP MUTATED        2      6      1      2      6
  LNPEP WILD-TYPE     49     70     60     69     89
D611V9, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             2              49
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LNPEP MUTATED        3      3      0      3      1      2      0      4
  LNPEP WILD-TYPE     66     45     39     13     52     18     21     34
                 vv
clus              CLUS_9
  LNPEP MUTATED        1
  LNPEP WILD-TYPE     49
D611V10, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LNPEP MUTATED        0      0      0      1      3      0
  LNPEP WILD-TYPE     13     16     14     10      8      9
D611V11, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LNPEP MUTATED        0      0      0      2      0      0      2      0
  LNPEP WILD-TYPE     11      7      7      7      8      7      9      9
                 vv
clus              CLUS_9
  LNPEP MUTATED        0
  LNPEP WILD-TYPE      5
D611V12, multiclass
        clus
vv       LNPEP MUTATED LNPEP WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(612) Variable = RHPN2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RHPN2 MUTATED        2      0      0      2      0
  RHPN2 WILD-TYPE     30     18     46     25     23
D612V1, multiclass
        clus
vv       RHPN2 MUTATED RHPN2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RHPN2 MUTATED        2      2      0
  RHPN2 WILD-TYPE     41     65     36
D612V2, multiclass
        clus
vv       RHPN2 MUTATED RHPN2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RHPN2 MUTATED        0      6      9
  RHPN2 WILD-TYPE     42    167    138
D612V3, multiclass
        clus
vv       RHPN2 MUTATED RHPN2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             6             167
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RHPN2 MUTATED        3      5      3
  RHPN2 WILD-TYPE     59     68     72
D612V4, multiclass
        clus
vv       RHPN2 MUTATED RHPN2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             5              68
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RHPN2 MUTATED        2      7      4
  RHPN2 WILD-TYPE     68    113     96
D612V5, multiclass
        clus
vv       RHPN2 MUTATED RHPN2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             7             113
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RHPN2 MUTATED        2      1      3      1      0      5      1      0
  RHPN2 WILD-TYPE     39     25     27     28     39     64     19     14
                 vv
clus              CLUS_9
  RHPN2 MUTATED        0
  RHPN2 WILD-TYPE     22
D612V6, multiclass
        clus
vv       RHPN2 MUTATED RHPN2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             3              27
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RHPN2 MUTATED        5      4      2      4
  RHPN2 WILD-TYPE     95     68     70    117
D612V7, multiclass
        clus
vv       RHPN2 MUTATED RHPN2 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RHPN2 MUTATED        1      7      3      2      2
  RHPN2 WILD-TYPE     58     68     71    117     36
D612V8, multiclass
        clus
vv       RHPN2 MUTATED RHPN2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             7              68
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RHPN2 MUTATED        3      7      1      0      4
  RHPN2 WILD-TYPE     48     69     60     71     91
D612V9, multiclass
        clus
vv       RHPN2 MUTATED RHPN2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RHPN2 MUTATED        5      2      2      1      0      3      1      1
  RHPN2 WILD-TYPE     64     46     37     15     53     17     20     37
                 vv
clus              CLUS_9
  RHPN2 MUTATED        0
  RHPN2 WILD-TYPE     50
D612V10, multiclass
        clus
vv       RHPN2 MUTATED RHPN2 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             3              17
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RHPN2 MUTATED        0      0      0      1      0      0
  RHPN2 WILD-TYPE     13     16     14     10     11      9
D612V11, multiclass
[1] "Remove cluster labels:" "RHPN2 MUTATED"         
clus
  RHPN2 MUTATED RHPN2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6460 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-G4-6628 
"RHPN2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RHPN2 MUTATED        0      0      1      0      0      0      0      0
  RHPN2 WILD-TYPE     11      7      6      9      8      7     11      9
                 vv
clus              CLUS_9
  RHPN2 MUTATED        0
  RHPN2 WILD-TYPE      5
D612V12, multiclass
[1] "Remove cluster labels:" "RHPN2 MUTATED"         
clus
  RHPN2 MUTATED RHPN2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6460 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" "RHPN2 WILD-TYPE" 
     TCGA-G4-6628 
"RHPN2 WILD-TYPE" 

Clustering(613) Variable = FRS3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRS3 MUTATED        0      0      0      0      0
  FRS3 WILD-TYPE     32     18     46     27     23
D613V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FRS3 MUTATED        0      0      0
  FRS3 WILD-TYPE     43     67     36
D613V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FRS3 MUTATED        1      3      5
  FRS3 WILD-TYPE     41    170    142
D613V3, multiclass
        clus
vv       FRS3 MUTATED FRS3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FRS3 MUTATED        4      1      3
  FRS3 WILD-TYPE     58     72     72
D613V4, multiclass
        clus
vv       FRS3 MUTATED FRS3 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FRS3 MUTATED        1      4      4
  FRS3 WILD-TYPE     69    116     96
D613V5, multiclass
        clus
vv       FRS3 MUTATED FRS3 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FRS3 MUTATED        1      0      2      1      0      3      2      0      0
  FRS3 WILD-TYPE     40     26     28     28     39     66     18     14     22
D613V6, multiclass
        clus
vv       FRS3 MUTATED FRS3 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FRS3 MUTATED        3      3      3      1
  FRS3 WILD-TYPE     97     69     69    120
D613V7, multiclass
        clus
vv       FRS3 MUTATED FRS3 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            3             69
  CLUS_3            3             69
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRS3 MUTATED        3      3      3      0      1
  FRS3 WILD-TYPE     56     72     71    119     37
D613V8, multiclass
        clus
vv       FRS3 MUTATED FRS3 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            3             72
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRS3 MUTATED        0      3      2      2      3
  FRS3 WILD-TYPE     51     73     59     69     92
D613V9, multiclass
        clus
vv       FRS3 MUTATED FRS3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FRS3 MUTATED        2      3      0      1      1      1      0      1      1
  FRS3 WILD-TYPE     67     45     39     15     52     19     21     37     49
D613V10, multiclass
        clus
vv       FRS3 MUTATED FRS3 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FRS3 MUTATED        1      0      0      0      1      1
  FRS3 WILD-TYPE     12     16     14     11     10      8
D613V11, multiclass
        clus
vv       FRS3 MUTATED FRS3 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FRS3 MUTATED        0      0      0      1      0      0      0      2      0
  FRS3 WILD-TYPE     11      7      7      8      8      7     11      7      5
D613V12, multiclass
        clus
vv       FRS3 MUTATED FRS3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            2              7
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(614) Variable = POLE MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLE MUTATED        9      0      1      3      0
  POLE WILD-TYPE     23     18     45     24     23
D614V1, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            9             23
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLE MUTATED       10      1      2
  POLE WILD-TYPE     33     66     34
D614V2, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1           10             33
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLE MUTATED        2      4     24
  POLE WILD-TYPE     40    169    123
D614V3, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            2             40
  CLUS_2            4            169
  CLUS_3           24            123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLE MUTATED        8      4      6
  POLE WILD-TYPE     54     69     69
D614V4, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            8             54
  CLUS_2            4             69
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLE MUTATED        3      8     12
  POLE WILD-TYPE     67    112     88
D614V5, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            3             67
  CLUS_2            8            112
  CLUS_3           12             88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  POLE MUTATED        3      1      1      3      3      8      2      1      1
  POLE WILD-TYPE     38     25     29     26     36     61     18     13     21
D614V6, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            3             38
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            3             36
  CLUS_6            8             61
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  POLE MUTATED        4      8      6     13
  POLE WILD-TYPE     96     64     66    108
D614V7, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            4             96
  CLUS_2            8             64
  CLUS_3            6             66
  CLUS_4           13            108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLE MUTATED        3      4     10      4     10
  POLE WILD-TYPE     56     71     64    115     28
D614V8, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            3             56
  CLUS_2            4             71
  CLUS_3           10             64
  CLUS_4            4            115
  CLUS_5           10             28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLE MUTATED        2      9      5      3     11
  POLE WILD-TYPE     49     67     56     68     84
D614V9, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            2             49
  CLUS_2            9             67
  CLUS_3            5             56
  CLUS_4            3             68
  CLUS_5           11             84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  POLE MUTATED        5      5      2      2      2      4      1      7      2
  POLE WILD-TYPE     64     43     37     14     51     16     20     31     48
D614V10, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            5             64
  CLUS_2            5             43
  CLUS_3            2             37
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            4             16
  CLUS_7            1             20
  CLUS_8            7             31
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  POLE MUTATED        0      0      2      2      4      0
  POLE WILD-TYPE     13     16     12      9      7      9
D614V11, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            2              9
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  POLE MUTATED        0      0      1      1      2      1      3      0      0
  POLE WILD-TYPE     11      7      6      8      6      6      8      9      5
D614V12, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            2              6
  CLUS_6            1              6
  CLUS_7            3              8
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(615) Variable = NIPA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NIPA2 MUTATED        3      0      1      0      0
  NIPA2 WILD-TYPE     29     18     45     27     23
D615V1, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NIPA2 MUTATED        3      1      0
  NIPA2 WILD-TYPE     40     66     36
D615V2, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NIPA2 MUTATED        0      1      6
  NIPA2 WILD-TYPE     42    172    141
D615V3, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NIPA2 MUTATED        0      0      3
  NIPA2 WILD-TYPE     62     73     72
D615V4, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NIPA2 MUTATED        0      2      2
  NIPA2 WILD-TYPE     70    118     98
D615V5, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NIPA2 MUTATED        0      1      0      0      2      1      0      0
  NIPA2 WILD-TYPE     41     25     30     29     37     68     20     14
                 vv
clus              CLUS_9
  NIPA2 MUTATED        0
  NIPA2 WILD-TYPE     22
D615V6, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NIPA2 MUTATED        0      3      0      4
  NIPA2 WILD-TYPE    100     69     72    117
D615V7, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             0              72
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NIPA2 MUTATED        0      0      2      2      3
  NIPA2 WILD-TYPE     59     75     72    117     35
D615V8, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NIPA2 MUTATED        0      2      0      0      5
  NIPA2 WILD-TYPE     51     74     61     71     90
D615V9, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NIPA2 MUTATED        0      0      0      2      0      0      0      4
  NIPA2 WILD-TYPE     69     48     39     14     53     20     21     34
                 vv
clus              CLUS_9
  NIPA2 MUTATED        1
  NIPA2 WILD-TYPE     49
D615V10, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NIPA2 MUTATED        0      0      0      0      0      0
  NIPA2 WILD-TYPE     13     16     14     11     11      9
D615V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NIPA2 MUTATED        0      0      0      0      0      0      0      0
  NIPA2 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  NIPA2 MUTATED        0
  NIPA2 WILD-TYPE      5
D615V12, multiclass

Clustering(616) Variable = CDH10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH10 MUTATED        7      0      1      4      0
  CDH10 WILD-TYPE     25     18     45     23     23
D616V1, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1             7              25
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             4              23
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH10 MUTATED        9      3      0
  CDH10 WILD-TYPE     34     64     36
D616V2, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1             9              34
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH10 MUTATED        2      9     27
  CDH10 WILD-TYPE     40    164    120
D616V3, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             9             164
  CLUS_3            27             120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH10 MUTATED       10      6     10
  CDH10 WILD-TYPE     52     67     65
D616V4, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1            10              52
  CLUS_2             6              67
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH10 MUTATED        4     15     16
  CDH10 WILD-TYPE     66    105     84
D616V5, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1             4              66
  CLUS_2            15             105
  CLUS_3            16              84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDH10 MUTATED        1      4      4      4      3     10      5      2
  CDH10 WILD-TYPE     40     22     26     25     36     59     15     12
                 vv
clus              CLUS_9
  CDH10 MUTATED        2
  CDH10 WILD-TYPE     20
D616V6, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             4              22
  CLUS_3             4              26
  CLUS_4             4              25
  CLUS_5             3              36
  CLUS_6            10              59
  CLUS_7             5              15
  CLUS_8             2              12
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDH10 MUTATED        8     12      9     10
  CDH10 WILD-TYPE     92     60     63    111
D616V7, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1             8              92
  CLUS_2            12              60
  CLUS_3             9              63
  CLUS_4            10             111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH10 MUTATED        5      7     15      4      8
  CDH10 WILD-TYPE     54     68     59    115     30
D616V8, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             7              68
  CLUS_3            15              59
  CLUS_4             4             115
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH10 MUTATED        3     17      3      4     10
  CDH10 WILD-TYPE     48     59     58     67     85
D616V9, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1             3              48
  CLUS_2            17              59
  CLUS_3             3              58
  CLUS_4             4              67
  CLUS_5            10              85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDH10 MUTATED        8      8      2      4      3      3      1      7
  CDH10 WILD-TYPE     61     40     37     12     50     17     20     31
                 vv
clus              CLUS_9
  CDH10 MUTATED        1
  CDH10 WILD-TYPE     49
D616V10, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1             8              61
  CLUS_2             8              40
  CLUS_3             2              37
  CLUS_4             4              12
  CLUS_5             3              50
  CLUS_6             3              17
  CLUS_7             1              20
  CLUS_8             7              31
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDH10 MUTATED        2      1      4      1      3      0
  CDH10 WILD-TYPE     11     15     10     10      8      9
D616V11, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             1              15
  CLUS_3             4              10
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDH10 MUTATED        1      0      1      1      2      1      4      1
  CDH10 WILD-TYPE     10      7      6      8      6      6      7      8
                 vv
clus              CLUS_9
  CDH10 MUTATED        0
  CDH10 WILD-TYPE      5
D616V12, multiclass
        clus
vv       CDH10 MUTATED CDH10 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             2               6
  CLUS_6             1               6
  CLUS_7             4               7
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(617) Variable = CATSPER1 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CATSPER1 MUTATED        4      0      1      0      0
  CATSPER1 WILD-TYPE     28     18     45     27     23
D617V1, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                1                 45
  CLUS_4                0                 27
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CATSPER1 MUTATED        3      1      1
  CATSPER1 WILD-TYPE     40     66     35
D617V2, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CATSPER1 MUTATED        1      6      8
  CATSPER1 WILD-TYPE     41    167    139
D617V3, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                6                167
  CLUS_3                8                139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CATSPER1 MUTATED        1      6      4
  CATSPER1 WILD-TYPE     61     67     71
D617V4, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                6                 67
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CATSPER1 MUTATED        1      6      6
  CATSPER1 WILD-TYPE     69    114     94
D617V5, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                6                114
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CATSPER1 MUTATED        2      0      1      2      3      3      1      0
  CATSPER1 WILD-TYPE     39     26     29     27     36     66     19     14
                    vv
clus                 CLUS_9
  CATSPER1 MUTATED        1
  CATSPER1 WILD-TYPE     21
D617V6, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                2                 27
  CLUS_5                3                 36
  CLUS_6                3                 66
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CATSPER1 MUTATED        8      4      0      4
  CATSPER1 WILD-TYPE     92     68     72    117
D617V7, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                8                 92
  CLUS_2                4                 68
  CLUS_3                0                 72
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CATSPER1 MUTATED        3      5      3      2      3
  CATSPER1 WILD-TYPE     56     70     71    117     35
D617V8, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                5                 70
  CLUS_3                3                 71
  CLUS_4                2                117
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CATSPER1 MUTATED        2      3      3      4      4
  CATSPER1 WILD-TYPE     49     73     58     67     91
D617V9, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                3                 73
  CLUS_3                3                 58
  CLUS_4                4                 67
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CATSPER1 MUTATED        2      3      1      1      5      1      0      3
  CATSPER1 WILD-TYPE     67     45     38     15     48     19     21     35
                    vv
clus                 CLUS_9
  CATSPER1 MUTATED        0
  CATSPER1 WILD-TYPE     50
D617V10, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                3                 45
  CLUS_3                1                 38
  CLUS_4                1                 15
  CLUS_5                5                 48
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                3                 35
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CATSPER1 MUTATED        1      1      1      0      0      0
  CATSPER1 WILD-TYPE     12     15     13     11     11      9
D617V11, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                0                 11
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CATSPER1 MUTATED        1      0      0      1      0      0      0      0
  CATSPER1 WILD-TYPE     10      7      7      8      8      7     11      9
                    vv
clus                 CLUS_9
  CATSPER1 MUTATED        1
  CATSPER1 WILD-TYPE      4
D617V12, multiclass
        clus
vv       CATSPER1 MUTATED CATSPER1 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                0                 11
  CLUS_8                0                  9
  CLUS_9                1                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(618) Variable = FOXN3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOXN3 MUTATED        2      0      0      1      0
  FOXN3 WILD-TYPE     30     18     46     26     23
D618V1, multiclass
        clus
vv       FOXN3 MUTATED FOXN3 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXN3 MUTATED        3      0      0
  FOXN3 WILD-TYPE     40     67     36
D618V2, multiclass
        clus
vv       FOXN3 MUTATED FOXN3 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXN3 MUTATED        1      1      9
  FOXN3 WILD-TYPE     41    172    138
D618V3, multiclass
        clus
vv       FOXN3 MUTATED FOXN3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXN3 MUTATED        3      1      4
  FOXN3 WILD-TYPE     59     72     71
D618V4, multiclass
        clus
vv       FOXN3 MUTATED FOXN3 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXN3 MUTATED        1      2      6
  FOXN3 WILD-TYPE     69    118     94
D618V5, multiclass
        clus
vv       FOXN3 MUTATED FOXN3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOXN3 MUTATED        2      0      0      1      3      3      0      0
  FOXN3 WILD-TYPE     39     26     30     28     36     66     20     14
                 vv
clus              CLUS_9
  FOXN3 MUTATED        0
  FOXN3 WILD-TYPE     22
D618V6, multiclass
        clus
vv       FOXN3 MUTATED FOXN3 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FOXN3 MUTATED        1      4      3      3
  FOXN3 WILD-TYPE     99     68     69    118
D618V7, multiclass
        clus
vv       FOXN3 MUTATED FOXN3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOXN3 MUTATED        2      1      5      0      3
  FOXN3 WILD-TYPE     57     74     69    119     35
D618V8, multiclass
        clus
vv       FOXN3 MUTATED FOXN3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOXN3 MUTATED        2      5      1      1      2
  FOXN3 WILD-TYPE     49     71     60     70     93
D618V9, multiclass
        clus
vv       FOXN3 MUTATED FOXN3 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOXN3 MUTATED        2      2      0      3      1      0      0      3
  FOXN3 WILD-TYPE     67     46     39     13     52     20     21     35
                 vv
clus              CLUS_9
  FOXN3 MUTATED        0
  FOXN3 WILD-TYPE     50
D618V10, multiclass
        clus
vv       FOXN3 MUTATED FOXN3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FOXN3 MUTATED        0      0      0      0      2      0
  FOXN3 WILD-TYPE     13     16     14     11      9      9
D618V11, multiclass
[1] "Remove cluster labels:" "FOXN3 MUTATED"         
clus
  FOXN3 MUTATED FOXN3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511      TCGA-AD-5900 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901      TCGA-AD-6963 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOXN3 MUTATED        0      0      0      1      0      1      0      0
  FOXN3 WILD-TYPE     11      7      7      8      8      6     11      9
                 vv
clus              CLUS_9
  FOXN3 MUTATED        0
  FOXN3 WILD-TYPE      5
D618V12, multiclass
[1] "Remove cluster labels:" "FOXN3 MUTATED"         
clus
  FOXN3 MUTATED FOXN3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511      TCGA-AD-5900 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901      TCGA-AD-6963 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" "FOXN3 WILD-TYPE" 

Clustering(619) Variable = REXO4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  REXO4 MUTATED        2      0      0      0      0
  REXO4 WILD-TYPE     30     18     46     27     23
D619V1, multiclass
[1] "Remove cluster labels:" "REXO4 MUTATED"         
clus
  REXO4 MUTATED REXO4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  REXO4 MUTATED        2      0      0
  REXO4 WILD-TYPE     41     67     36
D619V2, multiclass
[1] "Remove cluster labels:" "REXO4 MUTATED"         
clus
  REXO4 MUTATED REXO4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  REXO4 MUTATED        0      0      5
  REXO4 WILD-TYPE     42    173    142
D619V3, multiclass
        clus
vv       REXO4 MUTATED REXO4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  REXO4 MUTATED        0      0      3
  REXO4 WILD-TYPE     62     73     72
D619V4, multiclass
        clus
vv       REXO4 MUTATED REXO4 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  REXO4 MUTATED        2      3      0
  REXO4 WILD-TYPE     68    117    100
D619V5, multiclass
        clus
vv       REXO4 MUTATED REXO4 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             0             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  REXO4 MUTATED        1      1      0      1      1      0      1      0
  REXO4 WILD-TYPE     40     25     30     28     38     69     19     14
                 vv
clus              CLUS_9
  REXO4 MUTATED        0
  REXO4 WILD-TYPE     22
D619V6, multiclass
        clus
vv       REXO4 MUTATED REXO4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             0              69
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  REXO4 MUTATED        0      2      1      2
  REXO4 WILD-TYPE    100     70     71    119
D619V7, multiclass
        clus
vv       REXO4 MUTATED REXO4 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  REXO4 MUTATED        0      1      2      0      2
  REXO4 WILD-TYPE     59     74     72    119     36
D619V8, multiclass
        clus
vv       REXO4 MUTATED REXO4 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  REXO4 MUTATED        1      2      0      0      2
  REXO4 WILD-TYPE     50     74     61     71     93
D619V9, multiclass
        clus
vv       REXO4 MUTATED REXO4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  REXO4 MUTATED        1      1      0      1      0      0      0      2
  REXO4 WILD-TYPE     68     47     39     15     53     20     21     36
                 vv
clus              CLUS_9
  REXO4 MUTATED        0
  REXO4 WILD-TYPE     50
D619V10, multiclass
        clus
vv       REXO4 MUTATED REXO4 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  REXO4 MUTATED        0      0      0      0      1      0
  REXO4 WILD-TYPE     13     16     14     11     10      9
D619V11, multiclass
[1] "Remove cluster labels:" "REXO4 MUTATED"         
clus
  REXO4 MUTATED REXO4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-G4-6628 
"REXO4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  REXO4 MUTATED        0      0      0      0      1      0      0      0
  REXO4 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  REXO4 MUTATED        0
  REXO4 WILD-TYPE      5
D619V12, multiclass
[1] "Remove cluster labels:" "REXO4 MUTATED"         
clus
  REXO4 MUTATED REXO4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" "REXO4 WILD-TYPE" 
     TCGA-G4-6628 
"REXO4 WILD-TYPE" 

Clustering(620) Variable = OTX2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OTX2 MUTATED        1      0      0      0      0
  OTX2 WILD-TYPE     31     18     46     27     23
D620V1, multiclass
[1] "Remove cluster labels:" "OTX2 MUTATED"          
clus
  OTX2 MUTATED OTX2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AY-4071 
"OTX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OTX2 MUTATED        0      0      1
  OTX2 WILD-TYPE     43     67     35
D620V2, multiclass
[1] "Remove cluster labels:" "OTX2 MUTATED"          
clus
  OTX2 MUTATED OTX2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AY-4071 
"OTX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OTX2 MUTATED        0      1      5
  OTX2 WILD-TYPE     42    172    142
D620V3, multiclass
        clus
vv       OTX2 MUTATED OTX2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OTX2 MUTATED        0      1      4
  OTX2 WILD-TYPE     62     72     71
D620V4, multiclass
        clus
vv       OTX2 MUTATED OTX2 WILD-TYPE
  CLUS_1            0             62
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OTX2 MUTATED        1      2      2
  OTX2 WILD-TYPE     69    118     98
D620V5, multiclass
        clus
vv       OTX2 MUTATED OTX2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OTX2 MUTATED        0      1      0      0      2      2      0      0      0
  OTX2 WILD-TYPE     41     25     30     29     37     67     20     14     22
D620V6, multiclass
        clus
vv       OTX2 MUTATED OTX2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OTX2 MUTATED        1      4      0      1
  OTX2 WILD-TYPE     99     68     72    120
D620V7, multiclass
        clus
vv       OTX2 MUTATED OTX2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            4             68
  CLUS_3            0             72
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OTX2 MUTATED        0      2      3      1      0
  OTX2 WILD-TYPE     59     73     71    118     38
D620V8, multiclass
        clus
vv       OTX2 MUTATED OTX2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OTX2 MUTATED        0      4      0      1      1
  OTX2 WILD-TYPE     51     72     61     70     94
D620V9, multiclass
        clus
vv       OTX2 MUTATED OTX2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OTX2 MUTATED        1      0      0      2      2      0      0      1      0
  OTX2 WILD-TYPE     68     48     39     14     51     20     21     37     50
D620V10, multiclass
        clus
vv       OTX2 MUTATED OTX2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OTX2 MUTATED        0      0      0      0      1      0
  OTX2 WILD-TYPE     13     16     14     11     10      9
D620V11, multiclass
[1] "Remove cluster labels:" "OTX2 MUTATED"          
clus
  OTX2 MUTATED OTX2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-G4-6628 
"OTX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OTX2 MUTATED        0      0      0      1      0      0      0      0      0
  OTX2 WILD-TYPE     11      7      7      8      8      7     11      9      5
D620V12, multiclass
[1] "Remove cluster labels:" "OTX2 MUTATED"          
clus
  OTX2 MUTATED OTX2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" "OTX2 WILD-TYPE" 
    TCGA-G4-6628 
"OTX2 WILD-TYPE" 

Clustering(621) Variable = NGEF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NGEF MUTATED        0      0      0      0      1
  NGEF WILD-TYPE     32     18     46     27     22
D621V1, multiclass
[1] "Remove cluster labels:" "NGEF MUTATED"          
clus
  NGEF MUTATED NGEF WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3851     TCGA-AA-3852 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AY-4071 
"NGEF WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NGEF MUTATED        0      0      1
  NGEF WILD-TYPE     43     67     35
D621V2, multiclass
[1] "Remove cluster labels:" "NGEF MUTATED"          
clus
  NGEF MUTATED NGEF WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3851     TCGA-AA-3852 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" "NGEF WILD-TYPE" 
    TCGA-AY-4071 
"NGEF WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NGEF MUTATED        0     10      6
  NGEF WILD-TYPE     42    163    141
D621V3, multiclass
        clus
vv       NGEF MUTATED NGEF WILD-TYPE
  CLUS_1            0             42
  CLUS_2           10            163
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NGEF MUTATED        3      7      5
  NGEF WILD-TYPE     59     66     70
D621V4, multiclass
        clus
vv       NGEF MUTATED NGEF WILD-TYPE
  CLUS_1            3             59
  CLUS_2            7             66
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NGEF MUTATED        0      6      8
  NGEF WILD-TYPE     70    114     92
D621V5, multiclass
        clus
vv       NGEF MUTATED NGEF WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            114
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NGEF MUTATED        1      2      0      2      1      5      1      1      1
  NGEF WILD-TYPE     40     24     30     27     38     64     19     13     21
D621V6, multiclass
        clus
vv       NGEF MUTATED NGEF WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NGEF MUTATED        7      4      4      1
  NGEF WILD-TYPE     93     68     68    120
D621V7, multiclass
        clus
vv       NGEF MUTATED NGEF WILD-TYPE
  CLUS_1            7             93
  CLUS_2            4             68
  CLUS_3            4             68
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NGEF MUTATED        4      7      4      1      0
  NGEF WILD-TYPE     55     68     70    118     38
D621V8, multiclass
        clus
vv       NGEF MUTATED NGEF WILD-TYPE
  CLUS_1            4             55
  CLUS_2            7             68
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NGEF MUTATED        6      6      1      1      2
  NGEF WILD-TYPE     45     70     60     70     93
D621V9, multiclass
        clus
vv       NGEF MUTATED NGEF WILD-TYPE
  CLUS_1            6             45
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NGEF MUTATED        3      4      0      2      1      4      0      0      2
  NGEF WILD-TYPE     66     44     39     14     52     16     21     38     48
D621V10, multiclass
        clus
vv       NGEF MUTATED NGEF WILD-TYPE
  CLUS_1            3             66
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            4             16
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NGEF MUTATED        1      0      1      1      1      0
  NGEF WILD-TYPE     12     16     13     10     10      9
D621V11, multiclass
        clus
vv       NGEF MUTATED NGEF WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NGEF MUTATED        0      0      0      2      1      0      1      0      0
  NGEF WILD-TYPE     11      7      7      7      7      7     10      9      5
D621V12, multiclass
        clus
vv       NGEF MUTATED NGEF WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(622) Variable = GGT5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGT5 MUTATED        1      0      0      0      0
  GGT5 WILD-TYPE     31     18     46     27     23
D622V1, multiclass
[1] "Remove cluster labels:" "GGT5 MUTATED"          
clus
  GGT5 MUTATED GGT5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00F     TCGA-AA-A00J 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AY-4071 
"GGT5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT5 MUTATED        1      0      0
  GGT5 WILD-TYPE     42     67     36
D622V2, multiclass
[1] "Remove cluster labels:" "GGT5 MUTATED"          
clus
  GGT5 MUTATED GGT5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00F     TCGA-AA-A00J 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" "GGT5 WILD-TYPE" 
    TCGA-AY-4071 
"GGT5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT5 MUTATED        1      3     10
  GGT5 WILD-TYPE     41    170    137
D622V3, multiclass
        clus
vv       GGT5 MUTATED GGT5 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT5 MUTATED        6      1      5
  GGT5 WILD-TYPE     56     72     70
D622V4, multiclass
        clus
vv       GGT5 MUTATED GGT5 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            1             72
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT5 MUTATED        1      6      6
  GGT5 WILD-TYPE     69    114     94
D622V5, multiclass
        clus
vv       GGT5 MUTATED GGT5 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            6            114
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GGT5 MUTATED        1      1      3      2      1      4      1      0      0
  GGT5 WILD-TYPE     40     25     27     27     38     65     19     14     22
D622V6, multiclass
        clus
vv       GGT5 MUTATED GGT5 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            3             27
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGT5 MUTATED        1      7      4      2
  GGT5 WILD-TYPE     99     65     68    119
D622V7, multiclass
        clus
vv       GGT5 MUTATED GGT5 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            7             65
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGT5 MUTATED        2      3      7      0      2
  GGT5 WILD-TYPE     57     72     67    119     36
D622V8, multiclass
        clus
vv       GGT5 MUTATED GGT5 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            7             67
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGT5 MUTATED        1      8      2      0      2
  GGT5 WILD-TYPE     50     68     59     71     93
D622V9, multiclass
        clus
vv       GGT5 MUTATED GGT5 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            8             68
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GGT5 MUTATED        2      4      0      3      1      1      0      1      1
  GGT5 WILD-TYPE     67     44     39     13     52     19     21     37     49
D622V10, multiclass
        clus
vv       GGT5 MUTATED GGT5 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GGT5 MUTATED        0      0      1      0      3      0
  GGT5 WILD-TYPE     13     16     13     11      8      9
D622V11, multiclass
        clus
vv       GGT5 MUTATED GGT5 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GGT5 MUTATED        0      0      0      2      1      0      1      0      0
  GGT5 WILD-TYPE     11      7      7      7      7      7     10      9      5
D622V12, multiclass
        clus
vv       GGT5 MUTATED GGT5 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(623) Variable = CXORF38 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CXORF38 MUTATED        0      0      0      0      0
  CXORF38 WILD-TYPE     32     18     46     27     23
D623V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CXORF38 MUTATED        0      0      0
  CXORF38 WILD-TYPE     43     67     36
D623V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CXORF38 MUTATED        0      1      4
  CXORF38 WILD-TYPE     42    172    143
D623V3, multiclass
        clus
vv       CXORF38 MUTATED CXORF38 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CXORF38 MUTATED        3      0      2
  CXORF38 WILD-TYPE     59     73     73
D623V4, multiclass
        clus
vv       CXORF38 MUTATED CXORF38 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CXORF38 MUTATED        0      2      3
  CXORF38 WILD-TYPE     70    118     97
D623V5, multiclass
        clus
vv       CXORF38 MUTATED CXORF38 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CXORF38 MUTATED        0      0      0      0      0      2      2      1
  CXORF38 WILD-TYPE     41     26     30     29     39     67     18     13
                   vv
clus                CLUS_9
  CXORF38 MUTATED        0
  CXORF38 WILD-TYPE     22
D623V6, multiclass
        clus
vv       CXORF38 MUTATED CXORF38 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               2                18
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CXORF38 MUTATED        0      4      1      0
  CXORF38 WILD-TYPE    100     68     71    121
D623V7, multiclass
        clus
vv       CXORF38 MUTATED CXORF38 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               4                68
  CLUS_3               1                71
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CXORF38 MUTATED        1      1      3      0      0
  CXORF38 WILD-TYPE     58     74     71    119     38
D623V8, multiclass
        clus
vv       CXORF38 MUTATED CXORF38 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CXORF38 MUTATED        0      4      0      0      1
  CXORF38 WILD-TYPE     51     72     61     71     94
D623V9, multiclass
        clus
vv       CXORF38 MUTATED CXORF38 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CXORF38 MUTATED        0      1      0      2      1      0      0      0
  CXORF38 WILD-TYPE     69     47     39     14     52     20     21     38
                   vv
clus                CLUS_9
  CXORF38 MUTATED        1
  CXORF38 WILD-TYPE     49
D623V10, multiclass
        clus
vv       CXORF38 MUTATED CXORF38 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CXORF38 MUTATED        0      0      0      0      1      0
  CXORF38 WILD-TYPE     13     16     14     11     10      9
D623V11, multiclass
[1] "Remove cluster labels:" "CXORF38 MUTATED"       
clus
  CXORF38 MUTATED CXORF38 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-G4-6628 
"CXORF38 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CXORF38 MUTATED        0      0      0      1      0      0      0      0
  CXORF38 WILD-TYPE     11      7      7      8      8      7     11      9
                   vv
clus                CLUS_9
  CXORF38 MUTATED        0
  CXORF38 WILD-TYPE      5
D623V12, multiclass
[1] "Remove cluster labels:" "CXORF38 MUTATED"       
clus
  CXORF38 MUTATED CXORF38 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625 
"CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" "CXORF38 WILD-TYPE" 
       TCGA-G4-6628 
"CXORF38 WILD-TYPE" 

Clustering(624) Variable = BST2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BST2 MUTATED        1      0      0      0      0
  BST2 WILD-TYPE     31     18     46     27     23
D624V1, multiclass
[1] "Remove cluster labels:" "BST2 MUTATED"          
clus
  BST2 MUTATED BST2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3837 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AY-4071 
"BST2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BST2 MUTATED        1      0      0
  BST2 WILD-TYPE     42     67     36
D624V2, multiclass
[1] "Remove cluster labels:" "BST2 MUTATED"          
clus
  BST2 MUTATED BST2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3837 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AY-4071 
"BST2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BST2 MUTATED        0      0      6
  BST2 WILD-TYPE     42    173    141
D624V3, multiclass
        clus
vv       BST2 MUTATED BST2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BST2 MUTATED        3      0      2
  BST2 WILD-TYPE     59     73     73
D624V4, multiclass
        clus
vv       BST2 MUTATED BST2 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BST2 MUTATED        1      1      4
  BST2 WILD-TYPE     69    119     96
D624V5, multiclass
        clus
vv       BST2 MUTATED BST2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BST2 MUTATED        0      0      0      1      0      4      0      1      0
  BST2 WILD-TYPE     41     26     30     28     39     65     20     13     22
D624V6, multiclass
        clus
vv       BST2 MUTATED BST2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BST2 MUTATED        0      3      2      1
  BST2 WILD-TYPE    100     69     70    120
D624V7, multiclass
        clus
vv       BST2 MUTATED BST2 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BST2 MUTATED        0      2      3      0      1
  BST2 WILD-TYPE     59     73     71    119     37
D624V8, multiclass
        clus
vv       BST2 MUTATED BST2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BST2 MUTATED        0      5      1      0      0
  BST2 WILD-TYPE     51     71     60     71     95
D624V9, multiclass
        clus
vv       BST2 MUTATED BST2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            5             71
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BST2 MUTATED        2      2      0      1      0      0      1      0      0
  BST2 WILD-TYPE     67     46     39     15     53     20     20     38     50
D624V10, multiclass
        clus
vv       BST2 MUTATED BST2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BST2 MUTATED        0      0      0      0      1      0
  BST2 WILD-TYPE     13     16     14     11     10      9
D624V11, multiclass
[1] "Remove cluster labels:" "BST2 MUTATED"          
clus
  BST2 MUTATED BST2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-G4-6628 
"BST2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BST2 MUTATED        0      0      0      0      0      0      1      0      0
  BST2 WILD-TYPE     11      7      7      9      8      7     10      9      5
D624V12, multiclass
[1] "Remove cluster labels:" "BST2 MUTATED"          
clus
  BST2 MUTATED BST2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" "BST2 WILD-TYPE" 
    TCGA-G4-6628 
"BST2 WILD-TYPE" 

Clustering(625) Variable = SFRS15 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS15 MUTATED        6      0      1      1      0
  SFRS15 WILD-TYPE     26     18     45     26     23
D625V1, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              6               26
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SFRS15 MUTATED        5      2      1
  SFRS15 WILD-TYPE     38     65     35
D625V2, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SFRS15 MUTATED        2      2     15
  SFRS15 WILD-TYPE     40    171    132
D625V3, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              2              171
  CLUS_3             15              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SFRS15 MUTATED        7      0      5
  SFRS15 WILD-TYPE     55     73     70
D625V4, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              0               73
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SFRS15 MUTATED        0      9      5
  SFRS15 WILD-TYPE     70    111     95
D625V5, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              9              111
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS15 MUTATED        1      2      1      3      2      3      0      1
  SFRS15 WILD-TYPE     40     24     29     26     37     66     20     13
                  vv
clus               CLUS_9
  SFRS15 MUTATED        1
  SFRS15 WILD-TYPE     21
D625V6, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SFRS15 MUTATED        1      5      4      9
  SFRS15 WILD-TYPE     99     67     68    112
D625V7, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              5               67
  CLUS_3              4               68
  CLUS_4              9              112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS15 MUTATED        1      3      6      4      5
  SFRS15 WILD-TYPE     58     72     68    115     33
D625V8, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              6               68
  CLUS_4              4              115
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS15 MUTATED        2      4      3      1      9
  SFRS15 WILD-TYPE     49     72     58     70     86
D625V9, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              4               72
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              9               86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS15 MUTATED        0      3      1      3      2      2      1      4
  SFRS15 WILD-TYPE     69     45     38     13     51     18     20     34
                  vv
clus               CLUS_9
  SFRS15 MUTATED        3
  SFRS15 WILD-TYPE     47
D625V10, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              4               34
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SFRS15 MUTATED        0      0      1      0      3      0
  SFRS15 WILD-TYPE     13     16     13     11      8      9
D625V11, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS15 MUTATED        0      0      0      3      1      0      0      0
  SFRS15 WILD-TYPE     11      7      7      6      7      7     11      9
                  vv
clus               CLUS_9
  SFRS15 MUTATED        0
  SFRS15 WILD-TYPE      5
D625V12, multiclass
        clus
vv       SFRS15 MUTATED SFRS15 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              3                6
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(626) Variable = EIF2AK4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF2AK4 MUTATED        3      0      0      3      0
  EIF2AK4 WILD-TYPE     29     18     46     24     23
D626V1, multiclass
        clus
vv       EIF2AK4 MUTATED EIF2AK4 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               3                24
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EIF2AK4 MUTATED        4      2      0
  EIF2AK4 WILD-TYPE     39     65     36
D626V2, multiclass
        clus
vv       EIF2AK4 MUTATED EIF2AK4 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EIF2AK4 MUTATED        0      4     13
  EIF2AK4 WILD-TYPE     42    169    134
D626V3, multiclass
        clus
vv       EIF2AK4 MUTATED EIF2AK4 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               4               169
  CLUS_3              13               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EIF2AK4 MUTATED        7      0      6
  EIF2AK4 WILD-TYPE     55     73     69
D626V4, multiclass
        clus
vv       EIF2AK4 MUTATED EIF2AK4 WILD-TYPE
  CLUS_1               7                55
  CLUS_2               0                73
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EIF2AK4 MUTATED        0      3     13
  EIF2AK4 WILD-TYPE     70    117     87
D626V5, multiclass
        clus
vv       EIF2AK4 MUTATED EIF2AK4 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3              13                87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF2AK4 MUTATED        3      1      0      0      2      6      4      0
  EIF2AK4 WILD-TYPE     38     25     30     29     37     63     16     14
                   vv
clus                CLUS_9
  EIF2AK4 MUTATED        0
  EIF2AK4 WILD-TYPE     22
D626V6, multiclass
        clus
vv       EIF2AK4 MUTATED EIF2AK4 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               2                37
  CLUS_6               6                63
  CLUS_7               4                16
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF2AK4 MUTATED        1      5      7      5
  EIF2AK4 WILD-TYPE     99     67     65    116
D626V7, multiclass
        clus
vv       EIF2AK4 MUTATED EIF2AK4 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               5                67
  CLUS_3               7                65
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF2AK4 MUTATED        5      1      6      1      5
  EIF2AK4 WILD-TYPE     54     74     68    118     33
D626V8, multiclass
        clus
vv       EIF2AK4 MUTATED EIF2AK4 WILD-TYPE
  CLUS_1               5                54
  CLUS_2               1                74
  CLUS_3               6                68
  CLUS_4               1               118
  CLUS_5               5                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF2AK4 MUTATED        1      7      4      0      6
  EIF2AK4 WILD-TYPE     50     69     57     71     89
D626V9, multiclass
        clus
vv       EIF2AK4 MUTATED EIF2AK4 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               7                69
  CLUS_3               4                57
  CLUS_4               0                71
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF2AK4 MUTATED        2      7      0      2      1      0      0      5
  EIF2AK4 WILD-TYPE     67     41     39     14     52     20     21     33
                   vv
clus                CLUS_9
  EIF2AK4 MUTATED        1
  EIF2AK4 WILD-TYPE     49
D626V10, multiclass
        clus
vv       EIF2AK4 MUTATED EIF2AK4 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               7                41
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               5                33
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EIF2AK4 MUTATED        0      1      0      0      1      0
  EIF2AK4 WILD-TYPE     13     15     14     11     10      9
D626V11, multiclass
[1] "Remove cluster labels:" "EIF2AK4 MUTATED"       
clus
  EIF2AK4 MUTATED EIF2AK4 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6536 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF2AK4 MUTATED        0      0      0      0      0      1      1      0
  EIF2AK4 WILD-TYPE     11      7      7      9      8      6     10      9
                   vv
clus                CLUS_9
  EIF2AK4 MUTATED        0
  EIF2AK4 WILD-TYPE      5
D626V12, multiclass
[1] "Remove cluster labels:" "EIF2AK4 MUTATED"       
clus
  EIF2AK4 MUTATED EIF2AK4 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6536 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" "EIF2AK4 WILD-TYPE" 

Clustering(627) Variable = LAS1L MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAS1L MUTATED        2      0      0      0      0
  LAS1L WILD-TYPE     30     18     46     27     23
D627V1, multiclass
[1] "Remove cluster labels:" "LAS1L MUTATED"         
clus
  LAS1L MUTATED LAS1L WILD-TYPE 
              2             144 
     TCGA-A6-2674      TCGA-A6-2677      TCGA-A6-2678      TCGA-A6-2683 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3809      TCGA-A6-3810 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517      TCGA-AA-3518 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526      TCGA-AA-3527 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531      TCGA-AA-3532 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542      TCGA-AA-3543 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549      TCGA-AA-3552 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3556 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667      TCGA-AA-3672 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAS1L MUTATED        2      0      0
  LAS1L WILD-TYPE     41     67     36
D627V2, multiclass
[1] "Remove cluster labels:" "LAS1L MUTATED"         
clus
  LAS1L MUTATED LAS1L WILD-TYPE 
              2             144 
     TCGA-A6-2674      TCGA-A6-2677      TCGA-A6-2678      TCGA-A6-2683 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3809      TCGA-A6-3810 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517      TCGA-AA-3518 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526      TCGA-AA-3527 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531      TCGA-AA-3532 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542      TCGA-AA-3543 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549      TCGA-AA-3552 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3556 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667      TCGA-AA-3672 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" "LAS1L WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAS1L MUTATED        0      2      7
  LAS1L WILD-TYPE     42    171    140
D627V3, multiclass
        clus
vv       LAS1L MUTATED LAS1L WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAS1L MUTATED        3      1      3
  LAS1L WILD-TYPE     59     72     72
D627V4, multiclass
        clus
vv       LAS1L MUTATED LAS1L WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAS1L MUTATED        1      5      2
  LAS1L WILD-TYPE     69    115     98
D627V5, multiclass
        clus
vv       LAS1L MUTATED LAS1L WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAS1L MUTATED        1      1      0      1      1      2      0      2
  LAS1L WILD-TYPE     40     25     30     28     38     67     20     12
                 vv
clus              CLUS_9
  LAS1L MUTATED        0
  LAS1L WILD-TYPE     22
D627V6, multiclass
        clus
vv       LAS1L MUTATED LAS1L WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LAS1L MUTATED        1      4      2      2
  LAS1L WILD-TYPE     99     68     70    119
D627V7, multiclass
        clus
vv       LAS1L MUTATED LAS1L WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAS1L MUTATED        1      1      5      0      2
  LAS1L WILD-TYPE     58     74     69    119     36
D627V8, multiclass
        clus
vv       LAS1L MUTATED LAS1L WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAS1L MUTATED        2      4      0      1      2
  LAS1L WILD-TYPE     49     72     61     70     93
D627V9, multiclass
        clus
vv       LAS1L MUTATED LAS1L WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAS1L MUTATED        4      1      0      1      0      1      0      2
  LAS1L WILD-TYPE     65     47     39     15     53     19     21     36
                 vv
clus              CLUS_9
  LAS1L MUTATED        0
  LAS1L WILD-TYPE     50
D627V10, multiclass
        clus
vv       LAS1L MUTATED LAS1L WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LAS1L MUTATED        0      0      2      0      1      0
  LAS1L WILD-TYPE     13     16     12     11     10      9
D627V11, multiclass
        clus
vv       LAS1L MUTATED LAS1L WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAS1L MUTATED        0      0      0      1      1      0      1      0
  LAS1L WILD-TYPE     11      7      7      8      7      7     10      9
                 vv
clus              CLUS_9
  LAS1L MUTATED        0
  LAS1L WILD-TYPE      5
D627V12, multiclass
        clus
vv       LAS1L MUTATED LAS1L WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(628) Variable = CATSPER4 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CATSPER4 MUTATED        2      0      1      0      0
  CATSPER4 WILD-TYPE     30     18     45     27     23
D628V1, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                1                 45
  CLUS_4                0                 27
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CATSPER4 MUTATED        2      1      0
  CATSPER4 WILD-TYPE     41     66     36
D628V2, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CATSPER4 MUTATED        0      3      8
  CATSPER4 WILD-TYPE     42    170    139
D628V3, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3                8                139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CATSPER4 MUTATED        3      1      4
  CATSPER4 WILD-TYPE     59     72     71
D628V4, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                1                 72
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CATSPER4 MUTATED        0      4      4
  CATSPER4 WILD-TYPE     70    116     96
D628V5, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                4                116
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CATSPER4 MUTATED        0      1      0      2      1      3      1      0
  CATSPER4 WILD-TYPE     41     25     30     27     38     66     19     14
                    vv
clus                 CLUS_9
  CATSPER4 MUTATED        0
  CATSPER4 WILD-TYPE     22
D628V6, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                2                 27
  CLUS_5                1                 38
  CLUS_6                3                 66
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CATSPER4 MUTATED        0      4      5      2
  CATSPER4 WILD-TYPE    100     68     67    119
D628V7, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                4                 68
  CLUS_3                5                 67
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CATSPER4 MUTATED        2      1      5      1      2
  CATSPER4 WILD-TYPE     57     74     69    118     36
D628V8, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                1                 74
  CLUS_3                5                 69
  CLUS_4                1                118
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CATSPER4 MUTATED        1      4      3      0      3
  CATSPER4 WILD-TYPE     50     72     58     71     92
D628V9, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                4                 72
  CLUS_3                3                 58
  CLUS_4                0                 71
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CATSPER4 MUTATED        1      4      0      1      1      1      1      2
  CATSPER4 WILD-TYPE     68     44     39     15     52     19     20     36
                    vv
clus                 CLUS_9
  CATSPER4 MUTATED        0
  CATSPER4 WILD-TYPE     50
D628V10, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                4                 44
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                1                 52
  CLUS_6                1                 19
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CATSPER4 MUTATED        0      1      0      0      1      1
  CATSPER4 WILD-TYPE     13     15     14     11     10      8
D628V11, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                1                 10
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CATSPER4 MUTATED        1      1      0      0      0      0      1      0
  CATSPER4 WILD-TYPE     10      6      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  CATSPER4 MUTATED        0
  CATSPER4 WILD-TYPE      5
D628V12, multiclass
        clus
vv       CATSPER4 MUTATED CATSPER4 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                1                  6
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(629) Variable = OR4M2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4M2 MUTATED        1      0      0      2      0
  OR4M2 WILD-TYPE     31     18     46     25     23
D629V1, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4M2 MUTATED        2      1      0
  OR4M2 WILD-TYPE     41     66     36
D629V2, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4M2 MUTATED        1      0     13
  OR4M2 WILD-TYPE     41    173    134
D629V3, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4M2 MUTATED        5      0      6
  OR4M2 WILD-TYPE     57     73     69
D629V4, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4M2 MUTATED        0      7      6
  OR4M2 WILD-TYPE     70    113     94
D629V5, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             7             113
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4M2 MUTATED        1      0      1      3      2      5      1      0
  OR4M2 WILD-TYPE     40     26     29     26     37     64     19     14
                 vv
clus              CLUS_9
  OR4M2 MUTATED        0
  OR4M2 WILD-TYPE     22
D629V6, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR4M2 MUTATED        0      6      5      3
  OR4M2 WILD-TYPE    100     66     67    118
D629V7, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             5              67
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4M2 MUTATED        1      0     10      1      2
  OR4M2 WILD-TYPE     58     75     64    118     36
D629V8, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3            10              64
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4M2 MUTATED        1      8      2      0      3
  OR4M2 WILD-TYPE     50     68     59     71     92
D629V9, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             8              68
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4M2 MUTATED        1      5      0      4      1      1      0      2
  OR4M2 WILD-TYPE     68     43     39     12     52     19     21     36
                 vv
clus              CLUS_9
  OR4M2 MUTATED        0
  OR4M2 WILD-TYPE     50
D629V10, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR4M2 MUTATED        0      0      0      0      3      0
  OR4M2 WILD-TYPE     13     16     14     11      8      9
D629V11, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4M2 MUTATED        0      0      0      2      0      0      1      0
  OR4M2 WILD-TYPE     11      7      7      7      8      7     10      9
                 vv
clus              CLUS_9
  OR4M2 MUTATED        0
  OR4M2 WILD-TYPE      5
D629V12, multiclass
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(630) Variable = HIVEP2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIVEP2 MUTATED        5      0      0      1      0
  HIVEP2 WILD-TYPE     27     18     46     26     23
D630V1, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HIVEP2 MUTATED        4      1      1
  HIVEP2 WILD-TYPE     39     66     35
D630V2, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HIVEP2 MUTATED        4      3     12
  HIVEP2 WILD-TYPE     38    170    135
D630V3, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              4               38
  CLUS_2              3              170
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HIVEP2 MUTATED        5      4      4
  HIVEP2 WILD-TYPE     57     69     71
D630V4, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              4               69
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HIVEP2 MUTATED        0      6     10
  HIVEP2 WILD-TYPE     70    114     90
D630V5, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              6              114
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIVEP2 MUTATED        3      2      0      1      3      7      0      0
  HIVEP2 WILD-TYPE     38     24     30     28     36     62     20     14
                  vv
clus               CLUS_9
  HIVEP2 MUTATED        0
  HIVEP2 WILD-TYPE     22
D630V6, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              7               62
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIVEP2 MUTATED        5      3      4      7
  HIVEP2 WILD-TYPE     95     69     68    114
D630V7, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              3               69
  CLUS_3              4               68
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIVEP2 MUTATED        5      2      5      2      5
  HIVEP2 WILD-TYPE     54     73     69    117     33
D630V8, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              5               54
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              2              117
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIVEP2 MUTATED        3      4      2      4      6
  HIVEP2 WILD-TYPE     48     72     59     67     89
D630V9, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              4               72
  CLUS_3              2               59
  CLUS_4              4               67
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIVEP2 MUTATED        3      4      0      2      3      0      1      5
  HIVEP2 WILD-TYPE     66     44     39     14     50     20     20     33
                  vv
clus               CLUS_9
  HIVEP2 MUTATED        1
  HIVEP2 WILD-TYPE     49
D630V10, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              5               33
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIVEP2 MUTATED        0      1      0      1      2      0
  HIVEP2 WILD-TYPE     13     15     14     10      9      9
D630V11, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIVEP2 MUTATED        0      0      0      1      0      2      1      0
  HIVEP2 WILD-TYPE     11      7      7      8      8      5     10      9
                  vv
clus               CLUS_9
  HIVEP2 MUTATED        0
  HIVEP2 WILD-TYPE      5
D630V12, multiclass
        clus
vv       HIVEP2 MUTATED HIVEP2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              2                5
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(631) Variable = ZC3H13 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZC3H13 MUTATED       10      0      2      4      1
  ZC3H13 WILD-TYPE     22     18     44     23     22
D631V1, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1             10               22
  CLUS_2              0               18
  CLUS_3              2               44
  CLUS_4              4               23
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZC3H13 MUTATED       13      3      1
  ZC3H13 WILD-TYPE     30     64     35
D631V2, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1             13               30
  CLUS_2              3               64
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZC3H13 MUTATED        3      6     24
  ZC3H13 WILD-TYPE     39    167    123
D631V3, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              6              167
  CLUS_3             24              123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZC3H13 MUTATED        6      4      7
  ZC3H13 WILD-TYPE     56     69     68
D631V4, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              4               69
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZC3H13 MUTATED        5      8     16
  ZC3H13 WILD-TYPE     65    112     84
D631V5, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1              5               65
  CLUS_2              8              112
  CLUS_3             16               84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZC3H13 MUTATED        4      1      3      1      4      9      5      0
  ZC3H13 WILD-TYPE     37     25     27     28     35     60     15     14
                  vv
clus               CLUS_9
  ZC3H13 MUTATED        2
  ZC3H13 WILD-TYPE     20
D631V6, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1              4               37
  CLUS_2              1               25
  CLUS_3              3               27
  CLUS_4              1               28
  CLUS_5              4               35
  CLUS_6              9               60
  CLUS_7              5               15
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZC3H13 MUTATED        3      9      5     17
  ZC3H13 WILD-TYPE     97     63     67    104
D631V7, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              9               63
  CLUS_3              5               67
  CLUS_4             17              104
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZC3H13 MUTATED        2      3      9      6     14
  ZC3H13 WILD-TYPE     57     72     65    113     24
D631V8, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              9               65
  CLUS_4              6              113
  CLUS_5             14               24
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZC3H13 MUTATED        0      7      4      5     15
  ZC3H13 WILD-TYPE     51     69     57     66     80
D631V9, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              7               69
  CLUS_3              4               57
  CLUS_4              5               66
  CLUS_5             15               80
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZC3H13 MUTATED        3      5      2      2      1      3      1     10
  ZC3H13 WILD-TYPE     66     43     37     14     52     17     20     28
                  vv
clus               CLUS_9
  ZC3H13 MUTATED        4
  ZC3H13 WILD-TYPE     46
D631V10, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              5               43
  CLUS_3              2               37
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              3               17
  CLUS_7              1               20
  CLUS_8             10               28
  CLUS_9              4               46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZC3H13 MUTATED        0      1      0      1      2      1
  ZC3H13 WILD-TYPE     13     15     14     10      9      8
D631V11, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZC3H13 MUTATED        1      0      1      0      1      0      1      1
  ZC3H13 WILD-TYPE     10      7      6      9      7      7     10      8
                  vv
clus               CLUS_9
  ZC3H13 MUTATED        0
  ZC3H13 WILD-TYPE      5
D631V12, multiclass
        clus
vv       ZC3H13 MUTATED ZC3H13 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(632) Variable = GPR115 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR115 MUTATED        3      0      0      0      0
  GPR115 WILD-TYPE     29     18     46     27     23
D632V1, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR115 MUTATED        3      0      0
  GPR115 WILD-TYPE     40     67     36
D632V2, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR115 MUTATED        3      3     11
  GPR115 WILD-TYPE     39    170    136
D632V3, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              3              170
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR115 MUTATED        4      4      7
  GPR115 WILD-TYPE     58     69     68
D632V4, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              4               69
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR115 MUTATED        2      7      7
  GPR115 WILD-TYPE     68    113     93
D632V5, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              7              113
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR115 MUTATED        1      1      1      3      4      4      2      0
  GPR115 WILD-TYPE     40     25     29     26     35     65     18     14
                  vv
clus               CLUS_9
  GPR115 MUTATED        0
  GPR115 WILD-TYPE     22
D632V6, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              4               35
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR115 MUTATED        4      6      3      5
  GPR115 WILD-TYPE     96     66     69    116
D632V7, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              6               66
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR115 MUTATED        2      4      7      2      3
  GPR115 WILD-TYPE     57     71     67    117     35
D632V8, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              7               67
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR115 MUTATED        1      7      3      3      4
  GPR115 WILD-TYPE     50     69     58     68     91
D632V9, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              7               69
  CLUS_3              3               58
  CLUS_4              3               68
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR115 MUTATED        4      3      0      2      4      0      0      2
  GPR115 WILD-TYPE     65     45     39     14     49     20     21     36
                  vv
clus               CLUS_9
  GPR115 MUTATED        3
  GPR115 WILD-TYPE     47
D632V10, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              4               49
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR115 MUTATED        3      0      1      0      1      0
  GPR115 WILD-TYPE     10     16     13     11     10      9
D632V11, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              3               10
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR115 MUTATED        0      0      1      2      1      0      1      0
  GPR115 WILD-TYPE     11      7      6      7      7      7     10      9
                  vv
clus               CLUS_9
  GPR115 MUTATED        0
  GPR115 WILD-TYPE      5
D632V12, multiclass
        clus
vv       GPR115 MUTATED GPR115 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(633) Variable = NCOA6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCOA6 MUTATED        4      0      0      2      0
  NCOA6 WILD-TYPE     28     18     46     25     23
D633V1, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA6 MUTATED        5      1      0
  NCOA6 WILD-TYPE     38     66     36
D633V2, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA6 MUTATED        2      5     17
  NCOA6 WILD-TYPE     40    168    130
D633V3, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3            17             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA6 MUTATED        8      3      7
  NCOA6 WILD-TYPE     54     70     68
D633V4, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             3              70
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA6 MUTATED        3      8      9
  NCOA6 WILD-TYPE     67    112     91
D633V5, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             8             112
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCOA6 MUTATED        2      1      2      1      2      7      2      1
  NCOA6 WILD-TYPE     39     25     28     28     37     62     18     13
                 vv
clus              CLUS_9
  NCOA6 MUTATED        2
  NCOA6 WILD-TYPE     20
D633V6, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             7              62
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NCOA6 MUTATED        4      4     10      6
  NCOA6 WILD-TYPE     96     68     62    115
D633V7, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             4              68
  CLUS_3            10              62
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCOA6 MUTATED        3      4     10      2      5
  NCOA6 WILD-TYPE     56     71     64    117     33
D633V8, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             4              71
  CLUS_3            10              64
  CLUS_4             2             117
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCOA6 MUTATED        2     10      4      1      6
  NCOA6 WILD-TYPE     49     66     57     70     89
D633V9, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             2              49
  CLUS_2            10              66
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCOA6 MUTATED        3      5      1      4      3      2      0      4
  NCOA6 WILD-TYPE     66     43     38     12     50     18     21     34
                 vv
clus              CLUS_9
  NCOA6 MUTATED        1
  NCOA6 WILD-TYPE     49
D633V10, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NCOA6 MUTATED        0      1      2      0      3      1
  NCOA6 WILD-TYPE     13     15     12     11      8      8
D633V11, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCOA6 MUTATED        1      0      0      0      2      2      2      0
  NCOA6 WILD-TYPE     10      7      7      9      6      5      9      9
                 vv
clus              CLUS_9
  NCOA6 MUTATED        0
  NCOA6 WILD-TYPE      5
D633V12, multiclass
        clus
vv       NCOA6 MUTATED NCOA6 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             2               6
  CLUS_6             2               5
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(634) Variable = LAMC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAMC1 MUTATED        3      0      1      3      0
  LAMC1 WILD-TYPE     29     18     45     24     23
D634V1, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMC1 MUTATED        4      3      0
  LAMC1 WILD-TYPE     39     64     36
D634V2, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMC1 MUTATED        1      8     12
  LAMC1 WILD-TYPE     41    165    135
D634V3, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             8             165
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMC1 MUTATED        7      4      3
  LAMC1 WILD-TYPE     55     69     72
D634V4, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             4              69
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMC1 MUTATED        2     12      5
  LAMC1 WILD-TYPE     68    108     95
D634V5, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2            12             108
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAMC1 MUTATED        0      3      4      2      3      3      4      0
  LAMC1 WILD-TYPE     41     23     26     27     36     66     16     14
                 vv
clus              CLUS_9
  LAMC1 MUTATED        0
  LAMC1 WILD-TYPE     22
D634V6, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             3              23
  CLUS_3             4              26
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6             3              66
  CLUS_7             4              16
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LAMC1 MUTATED        6      3      4      8
  LAMC1 WILD-TYPE     94     69     68    113
D634V7, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             6              94
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAMC1 MUTATED        3      5      5      4      4
  LAMC1 WILD-TYPE     56     70     69    115     34
D634V8, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             5              70
  CLUS_3             5              69
  CLUS_4             4             115
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAMC1 MUTATED        2      7      2      2      6
  LAMC1 WILD-TYPE     49     69     59     69     89
D634V9, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAMC1 MUTATED        3      5      2      1      2      1      0      3
  LAMC1 WILD-TYPE     66     43     37     15     51     19     21     35
                 vv
clus              CLUS_9
  LAMC1 MUTATED        2
  LAMC1 WILD-TYPE     48
D634V10, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             5              43
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LAMC1 MUTATED        1      0      0      0      1      1
  LAMC1 WILD-TYPE     12     16     14     11     10      8
D634V11, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAMC1 MUTATED        0      0      1      0      1      0      0      1
  LAMC1 WILD-TYPE     11      7      6      9      7      7     11      8
                 vv
clus              CLUS_9
  LAMC1 MUTATED        0
  LAMC1 WILD-TYPE      5
D634V12, multiclass
        clus
vv       LAMC1 MUTATED LAMC1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(635) Variable = CYP1B1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP1B1 MUTATED        2      0      0      1      0
  CYP1B1 WILD-TYPE     30     18     46     26     23
D635V1, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP1B1 MUTATED        1      1      1
  CYP1B1 WILD-TYPE     42     66     35
D635V2, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP1B1 MUTATED        1      3      6
  CYP1B1 WILD-TYPE     41    170    141
D635V3, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP1B1 MUTATED        3      2      3
  CYP1B1 WILD-TYPE     59     71     72
D635V4, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP1B1 MUTATED        1      4      5
  CYP1B1 WILD-TYPE     69    116     95
D635V5, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP1B1 MUTATED        2      1      0      1      2      3      1      0
  CYP1B1 WILD-TYPE     39     25     30     28     37     66     19     14
                  vv
clus               CLUS_9
  CYP1B1 MUTATED        0
  CYP1B1 WILD-TYPE     22
D635V6, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYP1B1 MUTATED        1      4      4      2
  CYP1B1 WILD-TYPE     99     68     68    119
D635V7, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              4               68
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP1B1 MUTATED        4      1      3      2      1
  CYP1B1 WILD-TYPE     55     74     71    117     37
D635V8, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP1B1 MUTATED        0      4      4      1      2
  CYP1B1 WILD-TYPE     51     72     57     70     93
D635V9, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              4               57
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP1B1 MUTATED        2      3      1      1      2      1      0      1
  CYP1B1 WILD-TYPE     67     45     38     15     51     19     21     37
                  vv
clus               CLUS_9
  CYP1B1 MUTATED        0
  CYP1B1 WILD-TYPE     50
D635V10, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CYP1B1 MUTATED        1      1      0      1      0      0
  CYP1B1 WILD-TYPE     12     15     14     10     11      9
D635V11, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP1B1 MUTATED        0      1      1      0      0      0      0      1
  CYP1B1 WILD-TYPE     11      6      6      9      8      7     11      8
                  vv
clus               CLUS_9
  CYP1B1 MUTATED        0
  CYP1B1 WILD-TYPE      5
D635V12, multiclass
        clus
vv       CYP1B1 MUTATED CYP1B1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              1                6
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(636) Variable = AFM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AFM MUTATED        3      0      0      1      0
  AFM WILD-TYPE     29     18     46     26     23
D636V1, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           3            29
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  AFM MUTATED        3      1      0
  AFM WILD-TYPE     40     66     36
D636V2, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           3            40
  CLUS_2           1            66
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  AFM MUTATED        0      5      8
  AFM WILD-TYPE     42    168    139
D636V3, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           0            42
  CLUS_2           5           168
  CLUS_3           8           139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  AFM MUTATED        1      3      6
  AFM WILD-TYPE     61     70     69
D636V4, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           1            61
  CLUS_2           3            70
  CLUS_3           6            69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  AFM MUTATED        2      8      2
  AFM WILD-TYPE     68    112     98
D636V5, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           2            68
  CLUS_2           8           112
  CLUS_3           2            98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AFM MUTATED        1      0      2      2      2      2      1      0      2
  AFM WILD-TYPE     40     26     28     27     37     67     19     14     20
D636V6, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           2            28
  CLUS_4           2            27
  CLUS_5           2            37
  CLUS_6           2            67
  CLUS_7           1            19
  CLUS_8           0            14
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AFM MUTATED        4      3      2      4
  AFM WILD-TYPE     96     69     70    117
D636V7, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           4            96
  CLUS_2           3            69
  CLUS_3           2            70
  CLUS_4           4           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AFM MUTATED        2      2      5      1      3
  AFM WILD-TYPE     57     73     69    118     35
D636V8, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           2            57
  CLUS_2           2            73
  CLUS_3           5            69
  CLUS_4           1           118
  CLUS_5           3            35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AFM MUTATED        5      3      1      0      3
  AFM WILD-TYPE     46     73     60     71     92
D636V9, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           5            46
  CLUS_2           3            73
  CLUS_3           1            60
  CLUS_4           0            71
  CLUS_5           3            92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AFM MUTATED        2      3      0      0      3      3      0      1      0
  AFM WILD-TYPE     67     45     39     16     50     17     21     37     50
D636V10, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           2            67
  CLUS_2           3            45
  CLUS_3           0            39
  CLUS_4           0            16
  CLUS_5           3            50
  CLUS_6           3            17
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AFM MUTATED        1      0      0      0      2      0
  AFM WILD-TYPE     12     16     14     11      9      9
D636V11, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           1            12
  CLUS_2           0            16
  CLUS_3           0            14
  CLUS_4           0            11
  CLUS_5           2             9
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AFM MUTATED        0      0      0      1      0      0      1      0      1
  AFM WILD-TYPE     11      7      7      8      8      7     10      9      4
D636V12, multiclass
        clus
vv       AFM MUTATED AFM WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           1            10
  CLUS_8           0             9
  CLUS_9           1             4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(637) Variable = SLC22A9 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A9 MUTATED        2      0      0      0      0
  SLC22A9 WILD-TYPE     30     18     46     27     23
D637V1, multiclass
[1] "Remove cluster labels:" "SLC22A9 MUTATED"       
clus
  SLC22A9 MUTATED SLC22A9 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A9 MUTATED        1      0      1
  SLC22A9 WILD-TYPE     42     67     35
D637V2, multiclass
[1] "Remove cluster labels:" "SLC22A9 MUTATED"       
clus
  SLC22A9 MUTATED SLC22A9 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" "SLC22A9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A9 MUTATED        0      2      7
  SLC22A9 WILD-TYPE     42    171    140
D637V3, multiclass
        clus
vv       SLC22A9 MUTATED SLC22A9 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A9 MUTATED        5      1      1
  SLC22A9 WILD-TYPE     57     72     74
D637V4, multiclass
        clus
vv       SLC22A9 MUTATED SLC22A9 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               1                72
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A9 MUTATED        1      1      4
  SLC22A9 WILD-TYPE     69    119     96
D637V5, multiclass
        clus
vv       SLC22A9 MUTATED SLC22A9 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A9 MUTATED        1      0      0      0      0      5      0      0
  SLC22A9 WILD-TYPE     40     26     30     29     39     64     20     14
                   vv
clus                CLUS_9
  SLC22A9 MUTATED        0
  SLC22A9 WILD-TYPE     22
D637V6, multiclass
        clus
vv       SLC22A9 MUTATED SLC22A9 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               5                64
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC22A9 MUTATED        1      1      5      2
  SLC22A9 WILD-TYPE     99     71     67    119
D637V7, multiclass
        clus
vv       SLC22A9 MUTATED SLC22A9 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               5                67
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A9 MUTATED        3      1      3      1      1
  SLC22A9 WILD-TYPE     56     74     71    118     37
D637V8, multiclass
        clus
vv       SLC22A9 MUTATED SLC22A9 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A9 MUTATED        0      4      2      2      1
  SLC22A9 WILD-TYPE     51     72     59     69     94
D637V9, multiclass
        clus
vv       SLC22A9 MUTATED SLC22A9 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A9 MUTATED        4      1      0      1      2      0      0      1
  SLC22A9 WILD-TYPE     65     47     39     15     51     20     21     37
                   vv
clus                CLUS_9
  SLC22A9 MUTATED        0
  SLC22A9 WILD-TYPE     50
D637V10, multiclass
        clus
vv       SLC22A9 MUTATED SLC22A9 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC22A9 MUTATED        0      1      0      1      1      1
  SLC22A9 WILD-TYPE     13     15     14     10     10      8
D637V11, multiclass
        clus
vv       SLC22A9 MUTATED SLC22A9 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A9 MUTATED        1      0      0      0      0      2      0      1
  SLC22A9 WILD-TYPE     10      7      7      9      8      5     11      8
                   vv
clus                CLUS_9
  SLC22A9 MUTATED        0
  SLC22A9 WILD-TYPE      5
D637V12, multiclass
        clus
vv       SLC22A9 MUTATED SLC22A9 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               2                 5
  CLUS_7               0                11
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(638) Variable = DDX59 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX59 MUTATED        0      0      0      0      0
  DDX59 WILD-TYPE     32     18     46     27     23
D638V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX59 MUTATED        0      0      0
  DDX59 WILD-TYPE     43     67     36
D638V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX59 MUTATED        1      1      9
  DDX59 WILD-TYPE     41    172    138
D638V3, multiclass
        clus
vv       DDX59 MUTATED DDX59 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX59 MUTATED        5      1      5
  DDX59 WILD-TYPE     57     72     70
D638V4, multiclass
        clus
vv       DDX59 MUTATED DDX59 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX59 MUTATED        0      2      7
  DDX59 WILD-TYPE     70    118     93
D638V5, multiclass
        clus
vv       DDX59 MUTATED DDX59 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX59 MUTATED        2      1      0      1      0      5      0      0
  DDX59 WILD-TYPE     39     25     30     28     39     64     20     14
                 vv
clus              CLUS_9
  DDX59 MUTATED        0
  DDX59 WILD-TYPE     22
D638V6, multiclass
        clus
vv       DDX59 MUTATED DDX59 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDX59 MUTATED        1      6      3      1
  DDX59 WILD-TYPE     99     66     69    120
D638V7, multiclass
        clus
vv       DDX59 MUTATED DDX59 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX59 MUTATED        1      3      6      1      0
  DDX59 WILD-TYPE     58     72     68    118     38
D638V8, multiclass
        clus
vv       DDX59 MUTATED DDX59 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX59 MUTATED        0      5      3      1      2
  DDX59 WILD-TYPE     51     71     58     70     93
D638V9, multiclass
        clus
vv       DDX59 MUTATED DDX59 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX59 MUTATED        5      3      0      1      0      0      0      0
  DDX59 WILD-TYPE     64     45     39     15     53     20     21     38
                 vv
clus              CLUS_9
  DDX59 MUTATED        2
  DDX59 WILD-TYPE     48
D638V10, multiclass
        clus
vv       DDX59 MUTATED DDX59 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDX59 MUTATED        1      1      0      0      0      0
  DDX59 WILD-TYPE     12     15     14     11     11      9
D638V11, multiclass
[1] "Remove cluster labels:" "DDX59 MUTATED"         
clus
  DDX59 MUTATED DDX59 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX59 MUTATED        1      0      0      1      0      0      0      0
  DDX59 WILD-TYPE     10      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  DDX59 MUTATED        0
  DDX59 WILD-TYPE      5
D638V12, multiclass
[1] "Remove cluster labels:" "DDX59 MUTATED"         
clus
  DDX59 MUTATED DDX59 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" "DDX59 WILD-TYPE" 

Clustering(639) Variable = SLC25A13 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC25A13 MUTATED        0      1      1      2      1
  SLC25A13 WILD-TYPE     32     17     45     25     22
D639V1, multiclass
        clus
vv       SLC25A13 MUTATED SLC25A13 WILD-TYPE
  CLUS_1                0                 32
  CLUS_2                1                 17
  CLUS_3                1                 45
  CLUS_4                2                 25
  CLUS_5                1                 22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A13 MUTATED        1      2      2
  SLC25A13 WILD-TYPE     42     65     34
D639V2, multiclass
        clus
vv       SLC25A13 MUTATED SLC25A13 WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                2                 65
  CLUS_3                2                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A13 MUTATED        1      5      8
  SLC25A13 WILD-TYPE     41    168    139
D639V3, multiclass
        clus
vv       SLC25A13 MUTATED SLC25A13 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                5                168
  CLUS_3                8                139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A13 MUTATED        2      2      6
  SLC25A13 WILD-TYPE     60     71     69
D639V4, multiclass
        clus
vv       SLC25A13 MUTATED SLC25A13 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                2                 71
  CLUS_3                6                 69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A13 MUTATED        2      6      5
  SLC25A13 WILD-TYPE     68    114     95
D639V5, multiclass
        clus
vv       SLC25A13 MUTATED SLC25A13 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                6                114
  CLUS_3                5                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC25A13 MUTATED        2      0      1      1      2      3      2      1
  SLC25A13 WILD-TYPE     39     26     29     28     37     66     18     13
                    vv
clus                 CLUS_9
  SLC25A13 MUTATED        1
  SLC25A13 WILD-TYPE     21
D639V6, multiclass
        clus
vv       SLC25A13 MUTATED SLC25A13 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                2                 37
  CLUS_6                3                 66
  CLUS_7                2                 18
  CLUS_8                1                 13
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC25A13 MUTATED        1      6      4      3
  SLC25A13 WILD-TYPE     99     66     68    118
D639V7, multiclass
        clus
vv       SLC25A13 MUTATED SLC25A13 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                6                 66
  CLUS_3                4                 68
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC25A13 MUTATED        3      1      5      4      1
  SLC25A13 WILD-TYPE     56     74     69    115     37
D639V8, multiclass
        clus
vv       SLC25A13 MUTATED SLC25A13 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                1                 74
  CLUS_3                5                 69
  CLUS_4                4                115
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC25A13 MUTATED        4      4      0      2      3
  SLC25A13 WILD-TYPE     47     72     61     69     92
D639V9, multiclass
        clus
vv       SLC25A13 MUTATED SLC25A13 WILD-TYPE
  CLUS_1                4                 47
  CLUS_2                4                 72
  CLUS_3                0                 61
  CLUS_4                2                 69
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC25A13 MUTATED        1      2      0      2      1      3      1      0
  SLC25A13 WILD-TYPE     68     46     39     14     52     17     20     38
                    vv
clus                 CLUS_9
  SLC25A13 MUTATED        3
  SLC25A13 WILD-TYPE     47
D639V10, multiclass
        clus
vv       SLC25A13 MUTATED SLC25A13 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                1                 52
  CLUS_6                3                 17
  CLUS_7                1                 20
  CLUS_8                0                 38
  CLUS_9                3                 47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC25A13 MUTATED        0      1      0      0      1      0
  SLC25A13 WILD-TYPE     13     15     14     11     10      9
D639V11, multiclass
[1] "Remove cluster labels:" "SLC25A13 MUTATED"      
clus
  SLC25A13 MUTATED SLC25A13 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC25A13 MUTATED        0      0      1      1      0      0      0      0
  SLC25A13 WILD-TYPE     11      7      6      8      8      7     11      9
                    vv
clus                 CLUS_9
  SLC25A13 MUTATED        0
  SLC25A13 WILD-TYPE      5
D639V12, multiclass
[1] "Remove cluster labels:" "SLC25A13 MUTATED"      
clus
  SLC25A13 MUTATED SLC25A13 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" "SLC25A13 WILD-TYPE" 

Clustering(640) Variable = EXD2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXD2 MUTATED        1      0      0      1      0
  EXD2 WILD-TYPE     31     18     46     26     23
D640V1, multiclass
[1] "Remove cluster labels:" "EXD2 MUTATED"          
clus
  EXD2 MUTATED EXD2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EXD2 MUTATED        2      0      0
  EXD2 WILD-TYPE     41     67     36
D640V2, multiclass
[1] "Remove cluster labels:" "EXD2 MUTATED"          
clus
  EXD2 MUTATED EXD2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" "EXD2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EXD2 MUTATED        2      1      7
  EXD2 WILD-TYPE     40    172    140
D640V3, multiclass
        clus
vv       EXD2 MUTATED EXD2 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1            172
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EXD2 MUTATED        4      2      2
  EXD2 WILD-TYPE     58     71     73
D640V4, multiclass
        clus
vv       EXD2 MUTATED EXD2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            2             71
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EXD2 MUTATED        3      1      5
  EXD2 WILD-TYPE     67    119     95
D640V5, multiclass
        clus
vv       EXD2 MUTATED EXD2 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            1            119
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EXD2 MUTATED        3      0      0      1      1      3      0      1      0
  EXD2 WILD-TYPE     38     26     30     28     38     66     20     13     22
D640V6, multiclass
        clus
vv       EXD2 MUTATED EXD2 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EXD2 MUTATED        2      3      3      2
  EXD2 WILD-TYPE     98     69     69    119
D640V7, multiclass
        clus
vv       EXD2 MUTATED EXD2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            3             69
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXD2 MUTATED        3      1      4      0      2
  EXD2 WILD-TYPE     56     74     70    119     36
D640V8, multiclass
        clus
vv       EXD2 MUTATED EXD2 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            1             74
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXD2 MUTATED        1      3      4      0      1
  EXD2 WILD-TYPE     50     73     57     71     94
D640V9, multiclass
        clus
vv       EXD2 MUTATED EXD2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            4             57
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EXD2 MUTATED        2      3      0      0      3      0      0      1      0
  EXD2 WILD-TYPE     67     45     39     16     50     20     21     37     50
D640V10, multiclass
        clus
vv       EXD2 MUTATED EXD2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EXD2 MUTATED        0      1      1      1      0      0
  EXD2 WILD-TYPE     13     15     13     10     11      9
D640V11, multiclass
        clus
vv       EXD2 MUTATED EXD2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EXD2 MUTATED        0      0      1      0      1      1      0      0      0
  EXD2 WILD-TYPE     11      7      6      9      7      6     11      9      5
D640V12, multiclass
        clus
vv       EXD2 MUTATED EXD2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(641) Variable = ATP8B2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP8B2 MUTATED        3      0      0      1      0
  ATP8B2 WILD-TYPE     29     18     46     26     23
D641V1, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B2 MUTATED        3      1      0
  ATP8B2 WILD-TYPE     40     66     36
D641V2, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B2 MUTATED        0      2     15
  ATP8B2 WILD-TYPE     42    171    132
D641V3, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3             15              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B2 MUTATED        3      3      7
  ATP8B2 WILD-TYPE     59     70     68
D641V4, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              3               70
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B2 MUTATED        1      8      6
  ATP8B2 WILD-TYPE     69    112     94
D641V5, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              8              112
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP8B2 MUTATED        1      2      1      3      0      7      1      0
  ATP8B2 WILD-TYPE     40     24     29     26     39     62     19     14
                  vv
clus               CLUS_9
  ATP8B2 MUTATED        0
  ATP8B2 WILD-TYPE     22
D641V6, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              0               39
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP8B2 MUTATED        3      5      4      5
  ATP8B2 WILD-TYPE     97     67     68    116
D641V7, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              5               67
  CLUS_3              4               68
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP8B2 MUTATED        1      3      7      3      3
  ATP8B2 WILD-TYPE     58     72     67    116     35
D641V8, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              3              116
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP8B2 MUTATED        1      7      3      2      4
  ATP8B2 WILD-TYPE     50     69     58     69     91
D641V9, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              7               69
  CLUS_3              3               58
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP8B2 MUTATED        2      4      1      2      3      1      1      3
  ATP8B2 WILD-TYPE     67     44     38     14     50     19     20     35
                  vv
clus               CLUS_9
  ATP8B2 MUTATED        0
  ATP8B2 WILD-TYPE     50
D641V10, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP8B2 MUTATED        2      0      0      0      2      0
  ATP8B2 WILD-TYPE     11     16     14     11      9      9
D641V11, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP8B2 MUTATED        0      0      0      1      1      0      1      1
  ATP8B2 WILD-TYPE     11      7      7      8      7      7     10      8
                  vv
clus               CLUS_9
  ATP8B2 MUTATED        0
  ATP8B2 WILD-TYPE      5
D641V12, multiclass
        clus
vv       ATP8B2 MUTATED ATP8B2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(642) Variable = TBL1XR1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBL1XR1 MUTATED        3      0      0      2      0
  TBL1XR1 WILD-TYPE     29     18     46     25     23
D642V1, multiclass
        clus
vv       TBL1XR1 MUTATED TBL1XR1 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBL1XR1 MUTATED        3      1      1
  TBL1XR1 WILD-TYPE     40     66     35
D642V2, multiclass
        clus
vv       TBL1XR1 MUTATED TBL1XR1 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBL1XR1 MUTATED        0      2     11
  TBL1XR1 WILD-TYPE     42    171    136
D642V3, multiclass
        clus
vv       TBL1XR1 MUTATED TBL1XR1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3              11               136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBL1XR1 MUTATED        5      1      1
  TBL1XR1 WILD-TYPE     57     72     74
D642V4, multiclass
        clus
vv       TBL1XR1 MUTATED TBL1XR1 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               1                72
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBL1XR1 MUTATED        3      3      4
  TBL1XR1 WILD-TYPE     67    117     96
D642V5, multiclass
        clus
vv       TBL1XR1 MUTATED TBL1XR1 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               3               117
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TBL1XR1 MUTATED        1      2      2      0      1      4      0      0
  TBL1XR1 WILD-TYPE     40     24     28     29     38     65     20     14
                   vv
clus                CLUS_9
  TBL1XR1 MUTATED        0
  TBL1XR1 WILD-TYPE     22
D642V6, multiclass
        clus
vv       TBL1XR1 MUTATED TBL1XR1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               2                24
  CLUS_3               2                28
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TBL1XR1 MUTATED        0      2      4      7
  TBL1XR1 WILD-TYPE    100     70     68    114
D642V7, multiclass
        clus
vv       TBL1XR1 MUTATED TBL1XR1 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               4                68
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBL1XR1 MUTATED        2      0      4      3      4
  TBL1XR1 WILD-TYPE     57     75     70    116     34
D642V8, multiclass
        clus
vv       TBL1XR1 MUTATED TBL1XR1 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               0                75
  CLUS_3               4                70
  CLUS_4               3               116
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBL1XR1 MUTATED        1      3      2      1      5
  TBL1XR1 WILD-TYPE     50     73     59     70     90
D642V9, multiclass
        clus
vv       TBL1XR1 MUTATED TBL1XR1 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TBL1XR1 MUTATED        2      4      0      0      1      1      1      2
  TBL1XR1 WILD-TYPE     67     44     39     16     52     19     20     36
                   vv
clus                CLUS_9
  TBL1XR1 MUTATED        1
  TBL1XR1 WILD-TYPE     49
D642V10, multiclass
        clus
vv       TBL1XR1 MUTATED TBL1XR1 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TBL1XR1 MUTATED        0      1      0      1      0      0
  TBL1XR1 WILD-TYPE     13     15     14     10     11      9
D642V11, multiclass
[1] "Remove cluster labels:" "TBL1XR1 MUTATED"       
clus
  TBL1XR1 MUTATED TBL1XR1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TBL1XR1 MUTATED        0      1      1      0      0      0      0      0
  TBL1XR1 WILD-TYPE     11      6      6      9      8      7     11      9
                   vv
clus                CLUS_9
  TBL1XR1 MUTATED        0
  TBL1XR1 WILD-TYPE      5
D642V12, multiclass
[1] "Remove cluster labels:" "TBL1XR1 MUTATED"       
clus
  TBL1XR1 MUTATED TBL1XR1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" "TBL1XR1 WILD-TYPE" 

Clustering(643) Variable = SPANXC MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPANXC MUTATED        0      1      0      0      0
  SPANXC WILD-TYPE     32     17     46     27     23
D643V1, multiclass
[1] "Remove cluster labels:" "SPANXC MUTATED"        
clus
  SPANXC MUTATED SPANXC WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AY-4071 
"SPANXC WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPANXC MUTATED        0      1      0
  SPANXC WILD-TYPE     43     66     36
D643V2, multiclass
[1] "Remove cluster labels:" "SPANXC MUTATED"        
clus
  SPANXC MUTATED SPANXC WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AY-4071 
"SPANXC WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPANXC MUTATED        0      1      3
  SPANXC WILD-TYPE     42    172    144
D643V3, multiclass
        clus
vv       SPANXC MUTATED SPANXC WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPANXC MUTATED        0      0      3
  SPANXC WILD-TYPE     62     73     72
D643V4, multiclass
        clus
vv       SPANXC MUTATED SPANXC WILD-TYPE
  CLUS_1              0               62
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPANXC MUTATED        1      0      2
  SPANXC WILD-TYPE     69    120     98
D643V5, multiclass
        clus
vv       SPANXC MUTATED SPANXC WILD-TYPE
  CLUS_1              1               69
  CLUS_2              0              120
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPANXC MUTATED        1      0      0      0      0      1      1      0
  SPANXC WILD-TYPE     40     26     30     29     39     68     19     14
                  vv
clus               CLUS_9
  SPANXC MUTATED        0
  SPANXC WILD-TYPE     22
D643V6, multiclass
        clus
vv       SPANXC MUTATED SPANXC WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPANXC MUTATED        0      3      1      0
  SPANXC WILD-TYPE    100     69     71    121
D643V7, multiclass
        clus
vv       SPANXC MUTATED SPANXC WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPANXC MUTATED        0      0      3      1      0
  SPANXC WILD-TYPE     59     75     71    118     38
D643V8, multiclass
        clus
vv       SPANXC MUTATED SPANXC WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPANXC MUTATED        0      3      1      0      0
  SPANXC WILD-TYPE     51     73     60     71     95
D643V9, multiclass
        clus
vv       SPANXC MUTATED SPANXC WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPANXC MUTATED        0      0      0      3      1      0      0      0
  SPANXC WILD-TYPE     69     48     39     13     52     20     21     38
                  vv
clus               CLUS_9
  SPANXC MUTATED        0
  SPANXC WILD-TYPE     50
D643V10, multiclass
        clus
vv       SPANXC MUTATED SPANXC WILD-TYPE
  CLUS_1              0               69
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPANXC MUTATED        0      0      0      0      1      0
  SPANXC WILD-TYPE     13     16     14     11     10      9
D643V11, multiclass
[1] "Remove cluster labels:" "SPANXC MUTATED"        
clus
  SPANXC MUTATED SPANXC WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-G4-6628 
"SPANXC WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPANXC MUTATED        0      0      0      1      0      0      0      0
  SPANXC WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  SPANXC MUTATED        0
  SPANXC WILD-TYPE      5
D643V12, multiclass
[1] "Remove cluster labels:" "SPANXC MUTATED"        
clus
  SPANXC MUTATED SPANXC WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" "SPANXC WILD-TYPE" 
      TCGA-G4-6628 
"SPANXC WILD-TYPE" 

Clustering(644) Variable = HORMAD1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HORMAD1 MUTATED        0      0      0      2      0
  HORMAD1 WILD-TYPE     32     18     46     25     23
D644V1, multiclass
[1] "Remove cluster labels:" "HORMAD1 MUTATED"       
clus
  HORMAD1 MUTATED HORMAD1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HORMAD1 MUTATED        1      1      0
  HORMAD1 WILD-TYPE     42     66     36
D644V2, multiclass
[1] "Remove cluster labels:" "HORMAD1 MUTATED"       
clus
  HORMAD1 MUTATED HORMAD1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" "HORMAD1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HORMAD1 MUTATED        1      3      9
  HORMAD1 WILD-TYPE     41    170    138
D644V3, multiclass
        clus
vv       HORMAD1 MUTATED HORMAD1 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HORMAD1 MUTATED        3      2      6
  HORMAD1 WILD-TYPE     59     71     69
D644V4, multiclass
        clus
vv       HORMAD1 MUTATED HORMAD1 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               2                71
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HORMAD1 MUTATED        1      6      4
  HORMAD1 WILD-TYPE     69    114     96
D644V5, multiclass
        clus
vv       HORMAD1 MUTATED HORMAD1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               6               114
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HORMAD1 MUTATED        1      1      1      1      0      4      1      1
  HORMAD1 WILD-TYPE     40     25     29     28     39     65     19     13
                   vv
clus                CLUS_9
  HORMAD1 MUTATED        1
  HORMAD1 WILD-TYPE     21
D644V6, multiclass
        clus
vv       HORMAD1 MUTATED HORMAD1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HORMAD1 MUTATED        3      4      4      2
  HORMAD1 WILD-TYPE     97     68     68    119
D644V7, multiclass
        clus
vv       HORMAD1 MUTATED HORMAD1 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               4                68
  CLUS_3               4                68
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HORMAD1 MUTATED        0      2      9      1      1
  HORMAD1 WILD-TYPE     59     73     65    118     37
D644V8, multiclass
        clus
vv       HORMAD1 MUTATED HORMAD1 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               9                65
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HORMAD1 MUTATED        2      5      2      2      1
  HORMAD1 WILD-TYPE     49     71     59     69     94
D644V9, multiclass
        clus
vv       HORMAD1 MUTATED HORMAD1 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               5                71
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HORMAD1 MUTATED        3      2      0      3      3      1      0      0
  HORMAD1 WILD-TYPE     66     46     39     13     50     19     21     38
                   vv
clus                CLUS_9
  HORMAD1 MUTATED        0
  HORMAD1 WILD-TYPE     50
D644V10, multiclass
        clus
vv       HORMAD1 MUTATED HORMAD1 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               3                50
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HORMAD1 MUTATED        2      1      1      0      4      0
  HORMAD1 WILD-TYPE     11     15     13     11      7      9
D644V11, multiclass
        clus
vv       HORMAD1 MUTATED HORMAD1 WILD-TYPE
  CLUS_1               2                11
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               4                 7
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HORMAD1 MUTATED        0      0      0      4      1      1      1      0
  HORMAD1 WILD-TYPE     11      7      7      5      7      6     10      9
                   vv
clus                CLUS_9
  HORMAD1 MUTATED        1
  HORMAD1 WILD-TYPE      4
D644V12, multiclass
        clus
vv       HORMAD1 MUTATED HORMAD1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               4                 5
  CLUS_5               1                 7
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(645) Variable = TMEM131 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM131 MUTATED        3      0      0      1      0
  TMEM131 WILD-TYPE     29     18     46     26     23
D645V1, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM131 MUTATED        2      1      1
  TMEM131 WILD-TYPE     41     66     35
D645V2, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM131 MUTATED        1      6     13
  TMEM131 WILD-TYPE     41    167    134
D645V3, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               6               167
  CLUS_3              13               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM131 MUTATED        6      5      6
  TMEM131 WILD-TYPE     56     68     69
D645V4, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               6                56
  CLUS_2               5                68
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM131 MUTATED        4      8      7
  TMEM131 WILD-TYPE     66    112     93
D645V5, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               4                66
  CLUS_2               8               112
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM131 MUTATED        2      2      1      2      1      4      3      1
  TMEM131 WILD-TYPE     39     24     29     27     38     65     17     13
                   vv
clus                CLUS_9
  TMEM131 MUTATED        3
  TMEM131 WILD-TYPE     19
D645V6, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               2                24
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               3                17
  CLUS_8               1                13
  CLUS_9               3                19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM131 MUTATED        4      9      4      4
  TMEM131 WILD-TYPE     96     63     68    117
D645V7, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               4                96
  CLUS_2               9                63
  CLUS_3               4                68
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM131 MUTATED        2      6      8      4      1
  TMEM131 WILD-TYPE     57     69     66    115     37
D645V8, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               6                69
  CLUS_3               8                66
  CLUS_4               4               115
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM131 MUTATED        2      8      2      4      5
  TMEM131 WILD-TYPE     49     68     59     67     90
D645V9, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               8                68
  CLUS_3               2                59
  CLUS_4               4                67
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM131 MUTATED        4      1      1      5      5      2      1      0
  TMEM131 WILD-TYPE     65     47     38     11     48     18     20     38
                   vv
clus                CLUS_9
  TMEM131 MUTATED        2
  TMEM131 WILD-TYPE     48
D645V10, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               5                11
  CLUS_5               5                48
  CLUS_6               2                18
  CLUS_7               1                20
  CLUS_8               0                38
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM131 MUTATED        0      0      0      0      2      1
  TMEM131 WILD-TYPE     13     16     14     11      9      8
D645V11, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM131 MUTATED        0      0      0      1      1      0      0      1
  TMEM131 WILD-TYPE     11      7      7      8      7      7     11      8
                   vv
clus                CLUS_9
  TMEM131 MUTATED        0
  TMEM131 WILD-TYPE      5
D645V12, multiclass
        clus
vv       TMEM131 MUTATED TMEM131 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(646) Variable = PVRL4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PVRL4 MUTATED        4      0      0      0      0
  PVRL4 WILD-TYPE     28     18     46     27     23
D646V1, multiclass
        clus
vv       PVRL4 MUTATED PVRL4 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PVRL4 MUTATED        4      0      0
  PVRL4 WILD-TYPE     39     67     36
D646V2, multiclass
        clus
vv       PVRL4 MUTATED PVRL4 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PVRL4 MUTATED        0      2      7
  PVRL4 WILD-TYPE     42    171    140
D646V3, multiclass
        clus
vv       PVRL4 MUTATED PVRL4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PVRL4 MUTATED        2      1      2
  PVRL4 WILD-TYPE     60     72     73
D646V4, multiclass
        clus
vv       PVRL4 MUTATED PVRL4 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PVRL4 MUTATED        2      2      3
  PVRL4 WILD-TYPE     68    118     97
D646V5, multiclass
        clus
vv       PVRL4 MUTATED PVRL4 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PVRL4 MUTATED        2      0      0      0      1      1      2      1
  PVRL4 WILD-TYPE     39     26     30     29     38     68     18     13
                 vv
clus              CLUS_9
  PVRL4 MUTATED        0
  PVRL4 WILD-TYPE     22
D646V6, multiclass
        clus
vv       PVRL4 MUTATED PVRL4 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PVRL4 MUTATED        1      3      1      4
  PVRL4 WILD-TYPE     99     69     71    117
D646V7, multiclass
        clus
vv       PVRL4 MUTATED PVRL4 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PVRL4 MUTATED        2      1      2      0      4
  PVRL4 WILD-TYPE     57     74     72    119     34
D646V8, multiclass
        clus
vv       PVRL4 MUTATED PVRL4 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PVRL4 MUTATED        1      2      2      0      4
  PVRL4 WILD-TYPE     50     74     59     71     91
D646V9, multiclass
        clus
vv       PVRL4 MUTATED PVRL4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PVRL4 MUTATED        1      2      0      1      0      1      1      3
  PVRL4 WILD-TYPE     68     46     39     15     53     19     20     35
                 vv
clus              CLUS_9
  PVRL4 MUTATED        0
  PVRL4 WILD-TYPE     50
D646V10, multiclass
        clus
vv       PVRL4 MUTATED PVRL4 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PVRL4 MUTATED        0      0      1      0      0      0
  PVRL4 WILD-TYPE     13     16     13     11     11      9
D646V11, multiclass
[1] "Remove cluster labels:" "PVRL4 MUTATED"         
clus
  PVRL4 MUTATED PVRL4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-G4-6628 
"PVRL4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PVRL4 MUTATED        0      0      0      0      1      0      0      0
  PVRL4 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  PVRL4 MUTATED        0
  PVRL4 WILD-TYPE      5
D646V12, multiclass
[1] "Remove cluster labels:" "PVRL4 MUTATED"         
clus
  PVRL4 MUTATED PVRL4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" "PVRL4 WILD-TYPE" 
     TCGA-G4-6628 
"PVRL4 WILD-TYPE" 

Clustering(647) Variable = C12ORF49 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF49 MUTATED        0      0      0      0      0
  C12ORF49 WILD-TYPE     32     18     46     27     23
D647V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF49 MUTATED        0      0      0
  C12ORF49 WILD-TYPE     43     67     36
D647V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF49 MUTATED        3      0      1
  C12ORF49 WILD-TYPE     39    173    146
D647V3, multiclass
        clus
vv       C12ORF49 MUTATED C12ORF49 WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                0                173
  CLUS_3                1                146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF49 MUTATED        0      1      3
  C12ORF49 WILD-TYPE     62     72     72
D647V4, multiclass
        clus
vv       C12ORF49 MUTATED C12ORF49 WILD-TYPE
  CLUS_1                0                 62
  CLUS_2                1                 72
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF49 MUTATED        0      2      1
  C12ORF49 WILD-TYPE     70    118     99
D647V5, multiclass
        clus
vv       C12ORF49 MUTATED C12ORF49 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                118
  CLUS_3                1                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF49 MUTATED        0      0      0      2      0      1      0      0
  C12ORF49 WILD-TYPE     41     26     30     27     39     68     20     14
                    vv
clus                 CLUS_9
  C12ORF49 MUTATED        0
  C12ORF49 WILD-TYPE     22
D647V6, multiclass
        clus
vv       C12ORF49 MUTATED C12ORF49 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                2                 27
  CLUS_5                0                 39
  CLUS_6                1                 68
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C12ORF49 MUTATED        1      3      0      0
  C12ORF49 WILD-TYPE     99     69     72    121
D647V7, multiclass
        clus
vv       C12ORF49 MUTATED C12ORF49 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                3                 69
  CLUS_3                0                 72
  CLUS_4                0                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF49 MUTATED        0      1      3      0      0
  C12ORF49 WILD-TYPE     59     74     71    119     38
D647V8, multiclass
        clus
vv       C12ORF49 MUTATED C12ORF49 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                3                 71
  CLUS_4                0                119
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF49 MUTATED        0      3      0      1      0
  C12ORF49 WILD-TYPE     51     73     61     70     95
D647V9, multiclass
        clus
vv       C12ORF49 MUTATED C12ORF49 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                3                 73
  CLUS_3                0                 61
  CLUS_4                1                 70
  CLUS_5                0                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF49 MUTATED        1      0      0      3      0      0      0      0
  C12ORF49 WILD-TYPE     68     48     39     13     53     20     21     38
                    vv
clus                 CLUS_9
  C12ORF49 MUTATED        0
  C12ORF49 WILD-TYPE     50
D647V10, multiclass
        clus
vv       C12ORF49 MUTATED C12ORF49 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                0                 48
  CLUS_3                0                 39
  CLUS_4                3                 13
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C12ORF49 MUTATED        1      0      0      0      1      0
  C12ORF49 WILD-TYPE     12     16     14     11     10      9
D647V11, multiclass
[1] "Remove cluster labels:" "C12ORF49 MUTATED"      
clus
  C12ORF49 MUTATED C12ORF49 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1HA 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF49 MUTATED        0      0      0      2      0      0      0      0
  C12ORF49 WILD-TYPE     11      7      7      7      8      7     11      9
                    vv
clus                 CLUS_9
  C12ORF49 MUTATED        0
  C12ORF49 WILD-TYPE      5
D647V12, multiclass
[1] "Remove cluster labels:" "C12ORF49 MUTATED"      
clus
  C12ORF49 MUTATED C12ORF49 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1HA 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" "C12ORF49 WILD-TYPE" 

Clustering(648) Variable = CWF19L2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CWF19L2 MUTATED        4      0      0      1      0
  CWF19L2 WILD-TYPE     28     18     46     26     23
D648V1, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CWF19L2 MUTATED        3      1      1
  CWF19L2 WILD-TYPE     40     66     35
D648V2, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CWF19L2 MUTATED        0      2     13
  CWF19L2 WILD-TYPE     42    171    134
D648V3, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3              13               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CWF19L2 MUTATED        5      1      4
  CWF19L2 WILD-TYPE     57     72     71
D648V4, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CWF19L2 MUTATED        2      1      7
  CWF19L2 WILD-TYPE     68    119     93
D648V5, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               1               119
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CWF19L2 MUTATED        4      0      1      0      0      5      0      0
  CWF19L2 WILD-TYPE     37     26     29     29     39     64     20     14
                   vv
clus                CLUS_9
  CWF19L2 MUTATED        0
  CWF19L2 WILD-TYPE     22
D648V6, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               4                37
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               5                64
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CWF19L2 MUTATED        2      4      4      5
  CWF19L2 WILD-TYPE     98     68     68    116
D648V7, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               4                68
  CLUS_3               4                68
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CWF19L2 MUTATED        3      0      7      2      3
  CWF19L2 WILD-TYPE     56     75     67    117     35
D648V8, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               0                75
  CLUS_3               7                67
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CWF19L2 MUTATED        1      7      2      1      4
  CWF19L2 WILD-TYPE     50     69     59     70     91
D648V9, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               7                69
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CWF19L2 MUTATED        1      5      0      4      1      1      0      3
  CWF19L2 WILD-TYPE     68     43     39     12     52     19     21     35
                   vv
clus                CLUS_9
  CWF19L2 MUTATED        0
  CWF19L2 WILD-TYPE     50
D648V10, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               5                43
  CLUS_3               0                39
  CLUS_4               4                12
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CWF19L2 MUTATED        0      0      0      0      3      0
  CWF19L2 WILD-TYPE     13     16     14     11      8      9
D648V11, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CWF19L2 MUTATED        0      0      0      1      0      1      1      0
  CWF19L2 WILD-TYPE     11      7      7      8      8      6     10      9
                   vv
clus                CLUS_9
  CWF19L2 MUTATED        0
  CWF19L2 WILD-TYPE      5
D648V12, multiclass
        clus
vv       CWF19L2 MUTATED CWF19L2 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(649) Variable = ATAD5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD5 MUTATED        4      0      0      2      0
  ATAD5 WILD-TYPE     28     18     46     25     23
D649V1, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD5 MUTATED        4      1      1
  ATAD5 WILD-TYPE     39     66     35
D649V2, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD5 MUTATED        2      1     18
  ATAD5 WILD-TYPE     40    172    129
D649V3, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3            18             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD5 MUTATED        5      2      7
  ATAD5 WILD-TYPE     57     71     68
D649V4, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             2              71
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD5 MUTATED        2      7      9
  ATAD5 WILD-TYPE     68    113     91
D649V5, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             7             113
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATAD5 MUTATED        2      2      1      1      2      5      2      2
  ATAD5 WILD-TYPE     39     24     29     28     37     64     18     12
                 vv
clus              CLUS_9
  ATAD5 MUTATED        1
  ATAD5 WILD-TYPE     21
D649V6, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATAD5 MUTATED        2      8      5      6
  ATAD5 WILD-TYPE     98     64     67    115
D649V7, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             8              64
  CLUS_3             5              67
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD5 MUTATED        2      1     12      2      4
  ATAD5 WILD-TYPE     57     74     62    117     34
D649V8, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3            12              62
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD5 MUTATED        1     10      2      2      6
  ATAD5 WILD-TYPE     50     66     59     69     89
D649V9, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             1              50
  CLUS_2            10              66
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATAD5 MUTATED        3      3      0      7      1      2      1      4
  ATAD5 WILD-TYPE     66     45     39      9     52     18     20     34
                 vv
clus              CLUS_9
  ATAD5 MUTATED        0
  ATAD5 WILD-TYPE     50
D649V10, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             7               9
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATAD5 MUTATED        0      0      1      0      5      0
  ATAD5 WILD-TYPE     13     16     13     11      6      9
D649V11, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             5               6
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATAD5 MUTATED        0      0      0      3      1      0      2      0
  ATAD5 WILD-TYPE     11      7      7      6      7      7      9      9
                 vv
clus              CLUS_9
  ATAD5 MUTATED        0
  ATAD5 WILD-TYPE      5
D649V12, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(650) Variable = PHF21A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHF21A MUTATED        4      0      0      0      0
  PHF21A WILD-TYPE     28     18     46     27     23
D650V1, multiclass
        clus
vv       PHF21A MUTATED PHF21A WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PHF21A MUTATED        4      0      0
  PHF21A WILD-TYPE     39     67     36
D650V2, multiclass
        clus
vv       PHF21A MUTATED PHF21A WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PHF21A MUTATED        0      1     10
  PHF21A WILD-TYPE     42    172    137
D650V3, multiclass
        clus
vv       PHF21A MUTATED PHF21A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PHF21A MUTATED        3      1      3
  PHF21A WILD-TYPE     59     72     72
D650V4, multiclass
        clus
vv       PHF21A MUTATED PHF21A WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PHF21A MUTATED        1      1      6
  PHF21A WILD-TYPE     69    119     94
D650V5, multiclass
        clus
vv       PHF21A MUTATED PHF21A WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PHF21A MUTATED        0      0      0      0      2      4      2      0
  PHF21A WILD-TYPE     41     26     30     29     37     65     18     14
                  vv
clus               CLUS_9
  PHF21A MUTATED        0
  PHF21A WILD-TYPE     22
D650V6, multiclass
        clus
vv       PHF21A MUTATED PHF21A WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PHF21A MUTATED        0      4      3      4
  PHF21A WILD-TYPE    100     68     69    117
D650V7, multiclass
        clus
vv       PHF21A MUTATED PHF21A WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              3               69
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHF21A MUTATED        0      0      6      2      3
  PHF21A WILD-TYPE     59     75     68    117     35
D650V8, multiclass
        clus
vv       PHF21A MUTATED PHF21A WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              6               68
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHF21A MUTATED        0      3      2      0      6
  PHF21A WILD-TYPE     51     73     59     71     89
D650V9, multiclass
        clus
vv       PHF21A MUTATED PHF21A WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PHF21A MUTATED        0      2      0      1      1      1      2      3
  PHF21A WILD-TYPE     69     46     39     15     52     19     19     35
                  vv
clus               CLUS_9
  PHF21A MUTATED        1
  PHF21A WILD-TYPE     49
D650V10, multiclass
        clus
vv       PHF21A MUTATED PHF21A WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              2               19
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PHF21A MUTATED        0      0      1      0      1      0
  PHF21A WILD-TYPE     13     16     13     11     10      9
D650V11, multiclass
[1] "Remove cluster labels:" "PHF21A MUTATED"        
clus
  PHF21A MUTATED PHF21A WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AY-6196 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-6748 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PHF21A MUTATED        0      0      0      0      1      0      1      0
  PHF21A WILD-TYPE     11      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  PHF21A MUTATED        0
  PHF21A WILD-TYPE      5
D650V12, multiclass
[1] "Remove cluster labels:" "PHF21A MUTATED"        
clus
  PHF21A MUTATED PHF21A WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AY-6196 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-6748 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" "PHF21A WILD-TYPE" 

Clustering(651) Variable = BMPR1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BMPR1A MUTATED        4      0      0      1      0
  BMPR1A WILD-TYPE     28     18     46     26     23
D651V1, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BMPR1A MUTATED        4      1      0
  BMPR1A WILD-TYPE     39     66     36
D651V2, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BMPR1A MUTATED        2      3     13
  BMPR1A WILD-TYPE     40    170    134
D651V3, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3              170
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BMPR1A MUTATED        8      1      4
  BMPR1A WILD-TYPE     54     72     71
D651V4, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              8               54
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BMPR1A MUTATED        2      4      8
  BMPR1A WILD-TYPE     68    116     92
D651V5, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BMPR1A MUTATED        2      1      1      0      2      6      1      1
  BMPR1A WILD-TYPE     39     25     29     29     37     63     19     13
                  vv
clus               CLUS_9
  BMPR1A MUTATED        0
  BMPR1A WILD-TYPE     22
D651V6, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BMPR1A MUTATED        3      5      4      6
  BMPR1A WILD-TYPE     97     67     68    115
D651V7, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              3               97
  CLUS_2              5               67
  CLUS_3              4               68
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BMPR1A MUTATED        1      3      8      1      5
  BMPR1A WILD-TYPE     58     72     66    118     33
D651V8, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              8               66
  CLUS_4              1              118
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BMPR1A MUTATED        1      8      3      1      5
  BMPR1A WILD-TYPE     50     68     58     70     90
D651V9, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              1               50
  CLUS_2              8               68
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BMPR1A MUTATED        4      4      0      2      1      1      1      4
  BMPR1A WILD-TYPE     65     44     39     14     52     19     20     34
                  vv
clus               CLUS_9
  BMPR1A MUTATED        1
  BMPR1A WILD-TYPE     49
D651V10, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              4               65
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              4               34
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BMPR1A MUTATED        1      0      1      0      1      1
  BMPR1A WILD-TYPE     12     16     13     11     10      8
D651V11, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BMPR1A MUTATED        0      0      0      0      1      1      1      1
  BMPR1A WILD-TYPE     11      7      7      9      7      6     10      8
                  vv
clus               CLUS_9
  BMPR1A MUTATED        0
  BMPR1A WILD-TYPE      5
D651V12, multiclass
        clus
vv       BMPR1A MUTATED BMPR1A WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(652) Variable = C14ORF39 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF39 MUTATED        1      0      0      1      0
  C14ORF39 WILD-TYPE     31     18     46     26     23
D652V1, multiclass
[1] "Remove cluster labels:" "C14ORF39 MUTATED"      
clus
  C14ORF39 MUTATED C14ORF39 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3979 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF39 MUTATED        1      1      0
  C14ORF39 WILD-TYPE     42     66     36
D652V2, multiclass
[1] "Remove cluster labels:" "C14ORF39 MUTATED"      
clus
  C14ORF39 MUTATED C14ORF39 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3979 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF39 MUTATED        0      4      9
  C14ORF39 WILD-TYPE     42    169    138
D652V3, multiclass
        clus
vv       C14ORF39 MUTATED C14ORF39 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                4                169
  CLUS_3                9                138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF39 MUTATED        6      2      3
  C14ORF39 WILD-TYPE     56     71     72
D652V4, multiclass
        clus
vv       C14ORF39 MUTATED C14ORF39 WILD-TYPE
  CLUS_1                6                 56
  CLUS_2                2                 71
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF39 MUTATED        1      5      5
  C14ORF39 WILD-TYPE     69    115     95
D652V5, multiclass
        clus
vv       C14ORF39 MUTATED C14ORF39 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                5                115
  CLUS_3                5                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF39 MUTATED        1      1      2      2      0      4      0      0
  C14ORF39 WILD-TYPE     40     25     28     27     39     65     20     14
                    vv
clus                 CLUS_9
  C14ORF39 MUTATED        1
  C14ORF39 WILD-TYPE     21
D652V6, multiclass
        clus
vv       C14ORF39 MUTATED C14ORF39 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                2                 28
  CLUS_4                2                 27
  CLUS_5                0                 39
  CLUS_6                4                 65
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF39 MUTATED        2      3      5      3
  C14ORF39 WILD-TYPE     98     69     67    118
D652V7, multiclass
        clus
vv       C14ORF39 MUTATED C14ORF39 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                3                 69
  CLUS_3                5                 67
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF39 MUTATED        1      5      4      2      1
  C14ORF39 WILD-TYPE     58     70     70    117     37
D652V8, multiclass
        clus
vv       C14ORF39 MUTATED C14ORF39 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                5                 70
  CLUS_3                4                 70
  CLUS_4                2                117
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF39 MUTATED        3      3      2      1      4
  C14ORF39 WILD-TYPE     48     73     59     70     91
D652V9, multiclass
        clus
vv       C14ORF39 MUTATED C14ORF39 WILD-TYPE
  CLUS_1                3                 48
  CLUS_2                3                 73
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF39 MUTATED        2      4      0      1      1      2      0      1
  C14ORF39 WILD-TYPE     67     44     39     15     52     18     21     37
                    vv
clus                 CLUS_9
  C14ORF39 MUTATED        2
  C14ORF39 WILD-TYPE     48
D652V10, multiclass
        clus
vv       C14ORF39 MUTATED C14ORF39 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                4                 44
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                1                 52
  CLUS_6                2                 18
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C14ORF39 MUTATED        1      0      0      0      1      0
  C14ORF39 WILD-TYPE     12     16     14     11     10      9
D652V11, multiclass
[1] "Remove cluster labels:" "C14ORF39 MUTATED"      
clus
  C14ORF39 MUTATED C14ORF39 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-6533 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF39 MUTATED        0      0      0      0      0      0      1      0
  C14ORF39 WILD-TYPE     11      7      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  C14ORF39 MUTATED        1
  C14ORF39 WILD-TYPE      4
D652V12, multiclass
[1] "Remove cluster labels:" "C14ORF39 MUTATED"      
clus
  C14ORF39 MUTATED C14ORF39 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-6533 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" "C14ORF39 WILD-TYPE" 

Clustering(653) Variable = TAT MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAT MUTATED        4      0      0      0      0
  TAT WILD-TYPE     28     18     46     27     23
D653V1, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           4            28
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           0            27
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TAT MUTATED        3      0      1
  TAT WILD-TYPE     40     67     35
D653V2, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           3            40
  CLUS_2           0            67
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TAT MUTATED        3      0     11
  TAT WILD-TYPE     39    173    136
D653V3, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           3            39
  CLUS_2           0           173
  CLUS_3          11           136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TAT MUTATED        4      1      5
  TAT WILD-TYPE     58     72     70
D653V4, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           4            58
  CLUS_2           1            72
  CLUS_3           5            70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TAT MUTATED        2      2      6
  TAT WILD-TYPE     68    118     94
D653V5, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           2            68
  CLUS_2           2           118
  CLUS_3           6            94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAT MUTATED        0      0      0      1      2      5      1      1      0
  TAT WILD-TYPE     41     26     30     28     37     64     19     13     22
D653V6, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           1            28
  CLUS_5           2            37
  CLUS_6           5            64
  CLUS_7           1            19
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAT MUTATED        1      5      4      4
  TAT WILD-TYPE     99     67     68    117
D653V7, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           1            99
  CLUS_2           5            67
  CLUS_3           4            68
  CLUS_4           4           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAT MUTATED        1      1      8      1      3
  TAT WILD-TYPE     58     74     66    118     35
D653V8, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           1            58
  CLUS_2           1            74
  CLUS_3           8            66
  CLUS_4           1           118
  CLUS_5           3            35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAT MUTATED        1      8      1      1      2
  TAT WILD-TYPE     50     68     60     70     93
D653V9, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           1            50
  CLUS_2           8            68
  CLUS_3           1            60
  CLUS_4           1            70
  CLUS_5           2            93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAT MUTATED        2      3      1      2      2      1      0      2      0
  TAT WILD-TYPE     67     45     38     14     51     19     21     36     50
D653V10, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           2            67
  CLUS_2           3            45
  CLUS_3           1            38
  CLUS_4           2            14
  CLUS_5           2            51
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           2            36
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAT MUTATED        0      0      0      0      3      0
  TAT WILD-TYPE     13     16     14     11      8      9
D653V11, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           0            13
  CLUS_2           0            16
  CLUS_3           0            14
  CLUS_4           0            11
  CLUS_5           3             8
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAT MUTATED        0      0      0      1      0      0      2      0      0
  TAT WILD-TYPE     11      7      7      8      8      7      9      9      5
D653V12, multiclass
        clus
vv       TAT MUTATED TAT WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           2             9
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(654) Variable = FAS MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAS MUTATED        0      0      0      0      0
  FAS WILD-TYPE     32     18     46     27     23
D654V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FAS MUTATED        0      0      0
  FAS WILD-TYPE     43     67     36
D654V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FAS MUTATED        0      1      6
  FAS WILD-TYPE     42    172    141
D654V3, multiclass
        clus
vv       FAS MUTATED FAS WILD-TYPE
  CLUS_1           0            42
  CLUS_2           1           172
  CLUS_3           6           141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FAS MUTATED        3      1      3
  FAS WILD-TYPE     59     72     72
D654V4, multiclass
        clus
vv       FAS MUTATED FAS WILD-TYPE
  CLUS_1           3            59
  CLUS_2           1            72
  CLUS_3           3            72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FAS MUTATED        0      1      5
  FAS WILD-TYPE     70    119     95
D654V5, multiclass
        clus
vv       FAS MUTATED FAS WILD-TYPE
  CLUS_1           0            70
  CLUS_2           1           119
  CLUS_3           5            95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FAS MUTATED        1      1      0      0      0      4      0      0      0
  FAS WILD-TYPE     40     25     30     29     39     65     20     14     22
D654V6, multiclass
        clus
vv       FAS MUTATED FAS WILD-TYPE
  CLUS_1           1            40
  CLUS_2           1            25
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           0            39
  CLUS_6           4            65
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAS MUTATED        1      4      2      0
  FAS WILD-TYPE     99     68     70    121
D654V7, multiclass
        clus
vv       FAS MUTATED FAS WILD-TYPE
  CLUS_1           1            99
  CLUS_2           4            68
  CLUS_3           2            70
  CLUS_4           0           121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAS MUTATED        2      3      2      0      0
  FAS WILD-TYPE     57     72     72    119     38
D654V8, multiclass
        clus
vv       FAS MUTATED FAS WILD-TYPE
  CLUS_1           2            57
  CLUS_2           3            72
  CLUS_3           2            72
  CLUS_4           0           119
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAS MUTATED        1      4      1      0      1
  FAS WILD-TYPE     50     72     60     71     94
D654V9, multiclass
        clus
vv       FAS MUTATED FAS WILD-TYPE
  CLUS_1           1            50
  CLUS_2           4            72
  CLUS_3           1            60
  CLUS_4           0            71
  CLUS_5           1            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FAS MUTATED        1      2      0      1      2      0      0      0      1
  FAS WILD-TYPE     68     46     39     15     51     20     21     38     49
D654V10, multiclass
        clus
vv       FAS MUTATED FAS WILD-TYPE
  CLUS_1           1            68
  CLUS_2           2            46
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           2            51
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAS MUTATED        0      0      0      0      1      0
  FAS WILD-TYPE     13     16     14     11     10      9
D654V11, multiclass
[1] "Remove cluster labels:" "FAS MUTATED"           
clus
  FAS MUTATED FAS WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FAS MUTATED        0      0      0      1      0      0      0      0      0
  FAS WILD-TYPE     11      7      7      8      8      7     11      9      5
D654V12, multiclass
[1] "Remove cluster labels:" "FAS MUTATED"           
clus
  FAS MUTATED FAS WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"FAS WILD-TYPE" "FAS WILD-TYPE" "FAS WILD-TYPE" 

Clustering(655) Variable = TXNDC17 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC17 MUTATED        0      0      0      0      0
  TXNDC17 WILD-TYPE     32     18     46     27     23
D655V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TXNDC17 MUTATED        0      0      0
  TXNDC17 WILD-TYPE     43     67     36
D655V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TXNDC17 MUTATED        0      2      3
  TXNDC17 WILD-TYPE     42    171    144
D655V3, multiclass
        clus
vv       TXNDC17 MUTATED TXNDC17 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TXNDC17 MUTATED        0      2      3
  TXNDC17 WILD-TYPE     62     71     72
D655V4, multiclass
        clus
vv       TXNDC17 MUTATED TXNDC17 WILD-TYPE
  CLUS_1               0                62
  CLUS_2               2                71
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TXNDC17 MUTATED        0      3      1
  TXNDC17 WILD-TYPE     70    117     99
D655V5, multiclass
        clus
vv       TXNDC17 MUTATED TXNDC17 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC17 MUTATED        0      0      0      2      0      1      0      0
  TXNDC17 WILD-TYPE     41     26     30     27     39     68     20     14
                   vv
clus                CLUS_9
  TXNDC17 MUTATED        1
  TXNDC17 WILD-TYPE     21
D655V6, multiclass
        clus
vv       TXNDC17 MUTATED TXNDC17 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TXNDC17 MUTATED        1      3      1      0
  TXNDC17 WILD-TYPE     99     69     71    121
D655V7, multiclass
        clus
vv       TXNDC17 MUTATED TXNDC17 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               1                71
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC17 MUTATED        1      1      3      0      0
  TXNDC17 WILD-TYPE     58     74     71    119     38
D655V8, multiclass
        clus
vv       TXNDC17 MUTATED TXNDC17 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC17 MUTATED        1      4      0      0      0
  TXNDC17 WILD-TYPE     50     72     61     71     95
D655V9, multiclass
        clus
vv       TXNDC17 MUTATED TXNDC17 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               4                72
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC17 MUTATED        2      1      1      1      0      0      0      0
  TXNDC17 WILD-TYPE     67     47     38     15     53     20     21     38
                   vv
clus                CLUS_9
  TXNDC17 MUTATED        0
  TXNDC17 WILD-TYPE     50
D655V10, multiclass
        clus
vv       TXNDC17 MUTATED TXNDC17 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TXNDC17 MUTATED        1      0      0      0      0      0
  TXNDC17 WILD-TYPE     12     16     14     11     11      9
D655V11, multiclass
[1] "Remove cluster labels:" "TXNDC17 MUTATED"       
clus
  TXNDC17 MUTATED TXNDC17 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6534 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-G4-6628 
"TXNDC17 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC17 MUTATED        0      0      0      0      0      0      0      1
  TXNDC17 WILD-TYPE     11      7      7      9      8      7     11      8
                   vv
clus                CLUS_9
  TXNDC17 MUTATED        0
  TXNDC17 WILD-TYPE      5
D655V12, multiclass
[1] "Remove cluster labels:" "TXNDC17 MUTATED"       
clus
  TXNDC17 MUTATED TXNDC17 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6534 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" "TXNDC17 WILD-TYPE" 
       TCGA-G4-6628 
"TXNDC17 WILD-TYPE" 

Clustering(656) Variable = SMTN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMTN MUTATED        2      0      0      0      0
  SMTN WILD-TYPE     30     18     46     27     23
D656V1, multiclass
[1] "Remove cluster labels:" "SMTN MUTATED"          
clus
  SMTN MUTATED SMTN WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3846 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00D 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMTN MUTATED        2      0      0
  SMTN WILD-TYPE     41     67     36
D656V2, multiclass
[1] "Remove cluster labels:" "SMTN MUTATED"          
clus
  SMTN MUTATED SMTN WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3846 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00D 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" "SMTN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMTN MUTATED        0      0     14
  SMTN WILD-TYPE     42    173    133
D656V3, multiclass
        clus
vv       SMTN MUTATED SMTN WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3           14            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMTN MUTATED        8      0      3
  SMTN WILD-TYPE     54     73     72
D656V4, multiclass
        clus
vv       SMTN MUTATED SMTN WILD-TYPE
  CLUS_1            8             54
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMTN MUTATED        2      2      9
  SMTN WILD-TYPE     68    118     91
D656V5, multiclass
        clus
vv       SMTN MUTATED SMTN WILD-TYPE
  CLUS_1            2             68
  CLUS_2            2            118
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMTN MUTATED        0      1      1      1      2      7      1      0      0
  SMTN WILD-TYPE     41     25     29     28     37     62     19     14     22
D656V6, multiclass
        clus
vv       SMTN MUTATED SMTN WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            7             62
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMTN MUTATED        0      5      6      3
  SMTN WILD-TYPE    100     67     66    118
D656V7, multiclass
        clus
vv       SMTN MUTATED SMTN WILD-TYPE
  CLUS_1            0            100
  CLUS_2            5             67
  CLUS_3            6             66
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMTN MUTATED        0      0     11      1      2
  SMTN WILD-TYPE     59     75     63    118     36
D656V8, multiclass
        clus
vv       SMTN MUTATED SMTN WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3           11             63
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMTN MUTATED        0      7      3      0      3
  SMTN WILD-TYPE     51     69     58     71     92
D656V9, multiclass
        clus
vv       SMTN MUTATED SMTN WILD-TYPE
  CLUS_1            0             51
  CLUS_2            7             69
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMTN MUTATED        3      4      0      1      2      1      0      2      0
  SMTN WILD-TYPE     66     44     39     15     51     19     21     36     50
D656V10, multiclass
        clus
vv       SMTN MUTATED SMTN WILD-TYPE
  CLUS_1            3             66
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMTN MUTATED        0      0      3      0      0      0
  SMTN WILD-TYPE     13     16     11     11     11      9
D656V11, multiclass
        clus
vv       SMTN MUTATED SMTN WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            3             11
  CLUS_4            0             11
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMTN MUTATED        0      0      0      0      1      1      1      0      0
  SMTN WILD-TYPE     11      7      7      9      7      6     10      9      5
D656V12, multiclass
        clus
vv       SMTN MUTATED SMTN WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(657) Variable = STRADB MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STRADB MUTATED        0      0      0      0      0
  STRADB WILD-TYPE     32     18     46     27     23
D657V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STRADB MUTATED        0      0      0
  STRADB WILD-TYPE     43     67     36
D657V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STRADB MUTATED        0      0      5
  STRADB WILD-TYPE     42    173    142
D657V3, multiclass
        clus
vv       STRADB MUTATED STRADB WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STRADB MUTATED        2      0      3
  STRADB WILD-TYPE     60     73     72
D657V4, multiclass
        clus
vv       STRADB MUTATED STRADB WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STRADB MUTATED        3      0      0
  STRADB WILD-TYPE     67    120    100
D657V5, multiclass
        clus
vv       STRADB MUTATED STRADB WILD-TYPE
  CLUS_1              3               67
  CLUS_2              0              120
  CLUS_3              0              100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STRADB MUTATED        0      0      0      0      2      1      0      0
  STRADB WILD-TYPE     41     26     30     29     37     68     20     14
                  vv
clus               CLUS_9
  STRADB MUTATED        0
  STRADB WILD-TYPE     22
D657V6, multiclass
        clus
vv       STRADB MUTATED STRADB WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STRADB MUTATED        1      2      2      0
  STRADB WILD-TYPE     99     70     70    121
D657V7, multiclass
        clus
vv       STRADB MUTATED STRADB WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STRADB MUTATED        0      1      4      0      0
  STRADB WILD-TYPE     59     74     70    119     38
D657V8, multiclass
        clus
vv       STRADB MUTATED STRADB WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STRADB MUTATED        0      3      1      0      1
  STRADB WILD-TYPE     51     73     60     71     94
D657V9, multiclass
        clus
vv       STRADB MUTATED STRADB WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STRADB MUTATED        2      0      0      0      2      0      0      1
  STRADB WILD-TYPE     67     48     39     16     51     20     21     37
                  vv
clus               CLUS_9
  STRADB MUTATED        0
  STRADB WILD-TYPE     50
D657V10, multiclass
        clus
vv       STRADB MUTATED STRADB WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STRADB MUTATED        0      1      1      0      0      0
  STRADB WILD-TYPE     13     15     13     11     11      9
D657V11, multiclass
[1] "Remove cluster labels:" "STRADB MUTATED"        
clus
  STRADB MUTATED STRADB WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AZ-4323 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STRADB MUTATED        1      0      0      0      1      0      0      0
  STRADB WILD-TYPE     10      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  STRADB MUTATED        0
  STRADB WILD-TYPE      5
D657V12, multiclass
[1] "Remove cluster labels:" "STRADB MUTATED"        
clus
  STRADB MUTATED STRADB WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AZ-4323 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" "STRADB WILD-TYPE" 

Clustering(658) Variable = ACVR2A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACVR2A MUTATED        3      0      1      1      0
  ACVR2A WILD-TYPE     29     18     45     26     23
D658V1, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR2A MUTATED        2      2      1
  ACVR2A WILD-TYPE     41     65     35
D658V2, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              2               41
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR2A MUTATED        3      2     12
  ACVR2A WILD-TYPE     39    171    135
D658V3, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              3               39
  CLUS_2              2              171
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR2A MUTATED        3      1      7
  ACVR2A WILD-TYPE     59     72     68
D658V4, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR2A MUTATED        1      9      5
  ACVR2A WILD-TYPE     69    111     95
D658V5, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              1               69
  CLUS_2              9              111
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACVR2A MUTATED        2      2      2      3      3      2      0      1
  ACVR2A WILD-TYPE     39     24     28     26     36     67     20     13
                  vv
clus               CLUS_9
  ACVR2A MUTATED        0
  ACVR2A WILD-TYPE     22
D658V6, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              3               36
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR2A MUTATED        1      6      4      6
  ACVR2A WILD-TYPE     99     66     68    115
D658V7, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              1               99
  CLUS_2              6               66
  CLUS_3              4               68
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACVR2A MUTATED        2      1      7      5      2
  ACVR2A WILD-TYPE     57     74     67    114     36
D658V8, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              7               67
  CLUS_4              5              114
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACVR2A MUTATED        1      5      2      3      6
  ACVR2A WILD-TYPE     50     71     59     68     89
D658V9, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              3               68
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACVR2A MUTATED        4      2      0      2      2      2      0      3
  ACVR2A WILD-TYPE     65     46     39     14     51     18     21     35
                  vv
clus               CLUS_9
  ACVR2A MUTATED        2
  ACVR2A WILD-TYPE     48
D658V10, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              4               65
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACVR2A MUTATED        1      0      1      0      2      1
  ACVR2A WILD-TYPE     12     16     13     11      9      8
D658V11, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACVR2A MUTATED        2      0      0      2      0      0      1      0
  ACVR2A WILD-TYPE      9      7      7      7      8      7     10      9
                  vv
clus               CLUS_9
  ACVR2A MUTATED        0
  ACVR2A WILD-TYPE      5
D658V12, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(659) Variable = WT1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WT1 MUTATED        3      0      0      1      0
  WT1 WILD-TYPE     29     18     46     26     23
D659V1, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           3            29
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  WT1 MUTATED        3      1      0
  WT1 WILD-TYPE     40     66     36
D659V2, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           3            40
  CLUS_2           1            66
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  WT1 MUTATED        3     10     13
  WT1 WILD-TYPE     39    163    134
D659V3, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           3            39
  CLUS_2          10           163
  CLUS_3          13           134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  WT1 MUTATED        7      7      8
  WT1 WILD-TYPE     55     66     67
D659V4, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           7            55
  CLUS_2           7            66
  CLUS_3           8            67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  WT1 MUTATED        1     12      7
  WT1 WILD-TYPE     69    108     93
D659V5, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           1            69
  CLUS_2          12           108
  CLUS_3           7            93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WT1 MUTATED        2      1      0      5      2      5      1      2      2
  WT1 WILD-TYPE     39     25     30     24     37     64     19     12     20
D659V6, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           2            39
  CLUS_2           1            25
  CLUS_3           0            30
  CLUS_4           5            24
  CLUS_5           2            37
  CLUS_6           5            64
  CLUS_7           1            19
  CLUS_8           2            12
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WT1 MUTATED        8      7      7      4
  WT1 WILD-TYPE     92     65     65    117
D659V7, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           8            92
  CLUS_2           7            65
  CLUS_3           7            65
  CLUS_4           4           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WT1 MUTATED        5      9      8      2      2
  WT1 WILD-TYPE     54     66     66    117     36
D659V8, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           5            54
  CLUS_2           9            66
  CLUS_3           8            66
  CLUS_4           2           117
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WT1 MUTATED        6      9      5      3      3
  WT1 WILD-TYPE     45     67     56     68     92
D659V9, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           6            45
  CLUS_2           9            67
  CLUS_3           5            56
  CLUS_4           3            68
  CLUS_5           3            92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WT1 MUTATED        7      5      2      2      6      0      0      4      0
  WT1 WILD-TYPE     62     43     37     14     47     20     21     34     50
D659V10, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           7            62
  CLUS_2           5            43
  CLUS_3           2            37
  CLUS_4           2            14
  CLUS_5           6            47
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           4            34
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WT1 MUTATED        1      2      1      0      1      0
  WT1 WILD-TYPE     12     14     13     11     10      9
D659V11, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           1            12
  CLUS_2           2            14
  CLUS_3           1            13
  CLUS_4           0            11
  CLUS_5           1            10
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WT1 MUTATED        1      1      0      1      0      0      2      0      0
  WT1 WILD-TYPE     10      6      7      8      8      7      9      9      5
D659V12, multiclass
        clus
vv       WT1 MUTATED WT1 WILD-TYPE
  CLUS_1           1            10
  CLUS_2           1             6
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           2             9
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(660) Variable = EFHC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFHC1 MUTATED        1      0      1      1      1
  EFHC1 WILD-TYPE     31     18     45     26     22
D660V1, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFHC1 MUTATED        1      1      2
  EFHC1 WILD-TYPE     42     66     34
D660V2, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFHC1 MUTATED        0      5      6
  EFHC1 WILD-TYPE     42    168    141
D660V3, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFHC1 MUTATED        4      1      2
  EFHC1 WILD-TYPE     58     72     73
D660V4, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFHC1 MUTATED        1      4      4
  EFHC1 WILD-TYPE     69    116     96
D660V5, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFHC1 MUTATED        1      1      1      1      1      4      0      0
  EFHC1 WILD-TYPE     40     25     29     28     38     65     20     14
                 vv
clus              CLUS_9
  EFHC1 MUTATED        0
  EFHC1 WILD-TYPE     22
D660V6, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EFHC1 MUTATED        3      1      4      3
  EFHC1 WILD-TYPE     97     71     68    118
D660V7, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             1              71
  CLUS_3             4              68
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFHC1 MUTATED        2      1      4      3      1
  EFHC1 WILD-TYPE     57     74     70    116     37
D660V8, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFHC1 MUTATED        1      5      1      2      2
  EFHC1 WILD-TYPE     50     71     60     69     93
D660V9, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFHC1 MUTATED        2      3      0      1      0      2      1      1
  EFHC1 WILD-TYPE     67     45     39     15     53     18     20     37
                 vv
clus              CLUS_9
  EFHC1 MUTATED        1
  EFHC1 WILD-TYPE     49
D660V10, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EFHC1 MUTATED        0      1      1      0      1      0
  EFHC1 WILD-TYPE     13     15     13     11     10      9
D660V11, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFHC1 MUTATED        0      0      1      0      0      0      2      0
  EFHC1 WILD-TYPE     11      7      6      9      8      7      9      9
                 vv
clus              CLUS_9
  EFHC1 MUTATED        0
  EFHC1 WILD-TYPE      5
D660V12, multiclass
        clus
vv       EFHC1 MUTATED EFHC1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(661) Variable = MTMR8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTMR8 MUTATED        2      1      0      0      0
  MTMR8 WILD-TYPE     30     17     46     27     23
D661V1, multiclass
        clus
vv       MTMR8 MUTATED MTMR8 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MTMR8 MUTATED        3      0      0
  MTMR8 WILD-TYPE     40     67     36
D661V2, multiclass
        clus
vv       MTMR8 MUTATED MTMR8 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MTMR8 MUTATED        0      5      6
  MTMR8 WILD-TYPE     42    168    141
D661V3, multiclass
        clus
vv       MTMR8 MUTATED MTMR8 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MTMR8 MUTATED        4      2      2
  MTMR8 WILD-TYPE     58     71     73
D661V4, multiclass
        clus
vv       MTMR8 MUTATED MTMR8 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MTMR8 MUTATED        1      3      5
  MTMR8 WILD-TYPE     69    117     95
D661V5, multiclass
        clus
vv       MTMR8 MUTATED MTMR8 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MTMR8 MUTATED        0      1      1      1      3      3      0      0
  MTMR8 WILD-TYPE     41     25     29     28     36     66     20     14
                 vv
clus              CLUS_9
  MTMR8 MUTATED        0
  MTMR8 WILD-TYPE     22
D661V6, multiclass
        clus
vv       MTMR8 MUTATED MTMR8 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTMR8 MUTATED        5      2      1      3
  MTMR8 WILD-TYPE     95     70     71    118
D661V7, multiclass
        clus
vv       MTMR8 MUTATED MTMR8 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTMR8 MUTATED        4      2      2      1      2
  MTMR8 WILD-TYPE     55     73     72    118     36
D661V8, multiclass
        clus
vv       MTMR8 MUTATED MTMR8 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTMR8 MUTATED        1      4      3      0      3
  MTMR8 WILD-TYPE     50     72     58     71     92
D661V9, multiclass
        clus
vv       MTMR8 MUTATED MTMR8 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MTMR8 MUTATED        5      3      0      0      0      0      0      3
  MTMR8 WILD-TYPE     64     45     39     16     53     20     21     35
                 vv
clus              CLUS_9
  MTMR8 MUTATED        0
  MTMR8 WILD-TYPE     50
D661V10, multiclass
        clus
vv       MTMR8 MUTATED MTMR8 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MTMR8 MUTATED        1      1      0      0      0      0
  MTMR8 WILD-TYPE     12     15     14     11     11      9
D661V11, multiclass
[1] "Remove cluster labels:" "MTMR8 MUTATED"         
clus
  MTMR8 MUTATED MTMR8 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-6598 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605      TCGA-AZ-6607 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MTMR8 MUTATED        1      0      1      0      0      0      0      0
  MTMR8 WILD-TYPE     10      7      6      9      8      7     11      9
                 vv
clus              CLUS_9
  MTMR8 MUTATED        0
  MTMR8 WILD-TYPE      5
D661V12, multiclass
[1] "Remove cluster labels:" "MTMR8 MUTATED"         
clus
  MTMR8 MUTATED MTMR8 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-6598 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605      TCGA-AZ-6607 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" "MTMR8 WILD-TYPE" 

Clustering(662) Variable = ACTL6A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL6A MUTATED        3      0      0      1      0
  ACTL6A WILD-TYPE     29     18     46     26     23
D662V1, multiclass
        clus
vv       ACTL6A MUTATED ACTL6A WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL6A MUTATED        4      0      0
  ACTL6A WILD-TYPE     39     67     36
D662V2, multiclass
        clus
vv       ACTL6A MUTATED ACTL6A WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL6A MUTATED        0      0      5
  ACTL6A WILD-TYPE     42    173    142
D662V3, multiclass
        clus
vv       ACTL6A MUTATED ACTL6A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL6A MUTATED        1      0      1
  ACTL6A WILD-TYPE     61     73     74
D662V4, multiclass
[1] "Remove cluster labels:" "ACTL6A MUTATED"        
clus
  ACTL6A MUTATED ACTL6A WILD-TYPE 
               2              208 
      TCGA-A6-2671       TCGA-A6-2677       TCGA-A6-3809       TCGA-A6-3810 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-A6-4105       TCGA-A6-5656       TCGA-A6-5657       TCGA-A6-5659 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662       TCGA-A6-5664 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137       TCGA-A6-6138 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648       TCGA-A6-6649 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653       TCGA-A6-6654 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-A6-6780       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3492 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AA-3496       TCGA-AA-3502       TCGA-AA-3510       TCGA-AA-3511 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AA-3655       TCGA-AA-3660       TCGA-AA-3662       TCGA-AA-3663 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AA-3697       TCGA-AA-3712       TCGA-AA-3713       TCGA-AD-5900 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6888       TCGA-AD-6889       TCGA-AD-6890 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AD-6895       TCGA-AD-6899       TCGA-AD-6901       TCGA-AD-6963 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AU-3779       TCGA-AU-6004 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4681 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AZ-4682       TCGA-AZ-5403       TCGA-AZ-5407       TCGA-AZ-6598 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AZ-6599       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6606       TCGA-AZ-6607       TCGA-AZ-6608 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796       TCGA-CA-5797 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6717       TCGA-CA-6718 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CA-6719       TCGA-CK-4947       TCGA-CK-4948       TCGA-CK-4950 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CK-4952       TCGA-CK-5912       TCGA-CK-5913       TCGA-CK-5914 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CK-5915       TCGA-CK-6746       TCGA-CK-6747       TCGA-CK-6748 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744       TCGA-CM-4746 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341       TCGA-CM-5344 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-D5-5538       TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-D5-6529       TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-D5-6535       TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-D5-6539       TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-D5-6920       TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-D5-6926       TCGA-D5-6927       TCGA-D5-6928       TCGA-D5-6929 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932       TCGA-D5-7000 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A1D4       TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A1HB       TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28C 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A28E       TCGA-DM-A28F       TCGA-DM-A28G       TCGA-DM-A28H 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A28K       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL6A MUTATED        0      1      5
  ACTL6A WILD-TYPE     70    119     95
D662V5, multiclass
        clus
vv       ACTL6A MUTATED ACTL6A WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL6A MUTATED        0      0      0      0      2      3      1      0
  ACTL6A WILD-TYPE     41     26     30     29     37     66     19     14
                  vv
clus               CLUS_9
  ACTL6A MUTATED        0
  ACTL6A WILD-TYPE     22
D662V6, multiclass
        clus
vv       ACTL6A MUTATED ACTL6A WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACTL6A MUTATED        0      0      2      4
  ACTL6A WILD-TYPE    100     72     70    117
D662V7, multiclass
        clus
vv       ACTL6A MUTATED ACTL6A WILD-TYPE
  CLUS_1              0              100
  CLUS_2              0               72
  CLUS_3              2               70
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL6A MUTATED        0      0      2      0      4
  ACTL6A WILD-TYPE     59     75     72    119     34
D662V8, multiclass
        clus
vv       ACTL6A MUTATED ACTL6A WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL6A MUTATED        0      2      0      0      3
  ACTL6A WILD-TYPE     51     74     61     71     92
D662V9, multiclass
        clus
vv       ACTL6A MUTATED ACTL6A WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL6A MUTATED        1      1      0      0      0      0      0      3
  ACTL6A WILD-TYPE     68     47     39     16     53     20     21     35
                  vv
clus               CLUS_9
  ACTL6A MUTATED        0
  ACTL6A WILD-TYPE     50
D662V10, multiclass
        clus
vv       ACTL6A MUTATED ACTL6A WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACTL6A MUTATED        0      0      0      0      2      0
  ACTL6A WILD-TYPE     13     16     14     11      9      9
D662V11, multiclass
[1] "Remove cluster labels:" "ACTL6A MUTATED"        
clus
  ACTL6A MUTATED ACTL6A WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-6748 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL6A MUTATED        0      0      0      0      0      1      1      0
  ACTL6A WILD-TYPE     11      7      7      9      8      6     10      9
                  vv
clus               CLUS_9
  ACTL6A MUTATED        0
  ACTL6A WILD-TYPE      5
D662V12, multiclass
[1] "Remove cluster labels:" "ACTL6A MUTATED"        
clus
  ACTL6A MUTATED ACTL6A WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-6748 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" "ACTL6A WILD-TYPE" 

Clustering(663) Variable = FAM163B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM163B MUTATED        0      0      0      0      1
  FAM163B WILD-TYPE     32     18     46     27     22
D663V1, multiclass
[1] "Remove cluster labels:" "FAM163B MUTATED"       
clus
  FAM163B MUTATED FAM163B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3858 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AY-4071 
"FAM163B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM163B MUTATED        0      0      1
  FAM163B WILD-TYPE     43     67     35
D663V2, multiclass
[1] "Remove cluster labels:" "FAM163B MUTATED"       
clus
  FAM163B MUTATED FAM163B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3858 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AY-4071 
"FAM163B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM163B MUTATED        0      1      3
  FAM163B WILD-TYPE     42    172    144
D663V3, multiclass
        clus
vv       FAM163B MUTATED FAM163B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM163B MUTATED        1      1      1
  FAM163B WILD-TYPE     61     72     74
D663V4, multiclass
        clus
vv       FAM163B MUTATED FAM163B WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM163B MUTATED        0      1      2
  FAM163B WILD-TYPE     70    119     98
D663V5, multiclass
        clus
vv       FAM163B MUTATED FAM163B WILD-TYPE
  CLUS_1               0                70
  CLUS_2               1               119
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM163B MUTATED        0      0      0      1      0      1      1      0
  FAM163B WILD-TYPE     41     26     30     28     39     68     19     14
                   vv
clus                CLUS_9
  FAM163B MUTATED        0
  FAM163B WILD-TYPE     22
D663V6, multiclass
        clus
vv       FAM163B MUTATED FAM163B WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM163B MUTATED        1      1      1      1
  FAM163B WILD-TYPE     99     71     71    120
D663V7, multiclass
        clus
vv       FAM163B MUTATED FAM163B WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM163B MUTATED        0      1      2      1      0
  FAM163B WILD-TYPE     59     74     72    118     38
D663V8, multiclass
        clus
vv       FAM163B MUTATED FAM163B WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM163B MUTATED        0      2      0      2      0
  FAM163B WILD-TYPE     51     74     61     69     95
D663V9, multiclass
        clus
vv       FAM163B MUTATED FAM163B WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               2                69
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM163B MUTATED        1      1      0      1      0      0      0      0
  FAM163B WILD-TYPE     68     47     39     15     53     20     21     38
                   vv
clus                CLUS_9
  FAM163B MUTATED        1
  FAM163B WILD-TYPE     49
D663V10, multiclass
        clus
vv       FAM163B MUTATED FAM163B WILD-TYPE
  CLUS_1               1                68
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM163B MUTATED        0      0      0      0      1      0
  FAM163B WILD-TYPE     13     16     14     11     10      9
D663V11, multiclass
[1] "Remove cluster labels:" "FAM163B MUTATED"       
clus
  FAM163B MUTATED FAM163B WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-G4-6628 
"FAM163B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM163B MUTATED        0      0      0      0      0      0      1      0
  FAM163B WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  FAM163B MUTATED        0
  FAM163B WILD-TYPE      5
D663V12, multiclass
[1] "Remove cluster labels:" "FAM163B MUTATED"       
clus
  FAM163B MUTATED FAM163B WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" "FAM163B WILD-TYPE" 
       TCGA-G4-6628 
"FAM163B WILD-TYPE" 

Clustering(664) Variable = GPR22 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR22 MUTATED        1      0      0      1      0
  GPR22 WILD-TYPE     31     18     46     26     23
D664V1, multiclass
[1] "Remove cluster labels:" "GPR22 MUTATED"         
clus
  GPR22 MUTATED GPR22 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3837 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR22 MUTATED        2      0      0
  GPR22 WILD-TYPE     41     67     36
D664V2, multiclass
[1] "Remove cluster labels:" "GPR22 MUTATED"         
clus
  GPR22 MUTATED GPR22 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3837 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR22 MUTATED        0      1      8
  GPR22 WILD-TYPE     42    172    139
D664V3, multiclass
        clus
vv       GPR22 MUTATED GPR22 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR22 MUTATED        3      1      3
  GPR22 WILD-TYPE     59     72     72
D664V4, multiclass
        clus
vv       GPR22 MUTATED GPR22 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR22 MUTATED        2      0      7
  GPR22 WILD-TYPE     68    120     93
D664V5, multiclass
        clus
vv       GPR22 MUTATED GPR22 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             0             120
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR22 MUTATED        1      0      0      0      2      6      0      0
  GPR22 WILD-TYPE     40     26     30     29     37     63     20     14
                 vv
clus              CLUS_9
  GPR22 MUTATED        0
  GPR22 WILD-TYPE     22
D664V6, multiclass
        clus
vv       GPR22 MUTATED GPR22 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR22 MUTATED        1      3      3      2
  GPR22 WILD-TYPE     99     69     69    119
D664V7, multiclass
        clus
vv       GPR22 MUTATED GPR22 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR22 MUTATED        1      1      5      0      2
  GPR22 WILD-TYPE     58     74     69    119     36
D664V8, multiclass
        clus
vv       GPR22 MUTATED GPR22 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR22 MUTATED        0      4      2      1      1
  GPR22 WILD-TYPE     51     72     59     70     94
D664V9, multiclass
        clus
vv       GPR22 MUTATED GPR22 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR22 MUTATED        3      3      0      0      0      0      1      1
  GPR22 WILD-TYPE     66     45     39     16     53     20     20     37
                 vv
clus              CLUS_9
  GPR22 MUTATED        0
  GPR22 WILD-TYPE     50
D664V10, multiclass
        clus
vv       GPR22 MUTATED GPR22 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR22 MUTATED        1      0      0      0      1      0
  GPR22 WILD-TYPE     12     16     14     11     10      9
D664V11, multiclass
[1] "Remove cluster labels:" "GPR22 MUTATED"         
clus
  GPR22 MUTATED GPR22 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR22 MUTATED        0      0      0      1      0      0      1      0
  GPR22 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  GPR22 MUTATED        0
  GPR22 WILD-TYPE      5
D664V12, multiclass
[1] "Remove cluster labels:" "GPR22 MUTATED"         
clus
  GPR22 MUTATED GPR22 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" "GPR22 WILD-TYPE" 

Clustering(665) Variable = MAPK9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAPK9 MUTATED        1      0      1      1      0
  MAPK9 WILD-TYPE     31     18     45     26     23
D665V1, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK9 MUTATED        0      2      1
  MAPK9 WILD-TYPE     43     65     35
D665V2, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             0              43
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK9 MUTATED        1      3      6
  MAPK9 WILD-TYPE     41    170    141
D665V3, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK9 MUTATED        3      1      3
  MAPK9 WILD-TYPE     59     72     72
D665V4, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK9 MUTATED        2      3      3
  MAPK9 WILD-TYPE     68    117     97
D665V5, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAPK9 MUTATED        0      0      2      1      0      3      1      1
  MAPK9 WILD-TYPE     41     26     28     28     39     66     19     13
                 vv
clus              CLUS_9
  MAPK9 MUTATED        0
  MAPK9 WILD-TYPE     22
D665V6, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAPK9 MUTATED        3      2      3      2
  MAPK9 WILD-TYPE     97     70     69    119
D665V7, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAPK9 MUTATED        1      3      3      3      0
  MAPK9 WILD-TYPE     58     72     71    116     38
D665V8, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             3             116
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAPK9 MUTATED        1      4      1      3      1
  MAPK9 WILD-TYPE     50     72     60     68     94
D665V9, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             3              68
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAPK9 MUTATED        2      2      1      2      1      1      0      0
  MAPK9 WILD-TYPE     67     46     38     14     52     19     21     38
                 vv
clus              CLUS_9
  MAPK9 MUTATED        1
  MAPK9 WILD-TYPE     49
D665V10, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAPK9 MUTATED        1      0      0      0      3      0
  MAPK9 WILD-TYPE     12     16     14     11      8      9
D665V11, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAPK9 MUTATED        0      0      0      2      1      0      1      0
  MAPK9 WILD-TYPE     11      7      7      7      7      7     10      9
                 vv
clus              CLUS_9
  MAPK9 MUTATED        0
  MAPK9 WILD-TYPE      5
D665V12, multiclass
        clus
vv       MAPK9 MUTATED MAPK9 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(666) Variable = APOB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APOB MUTATED        9      0      2      4      0
  APOB WILD-TYPE     23     18     44     23     23
D666V1, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1            9             23
  CLUS_2            0             18
  CLUS_3            2             44
  CLUS_4            4             23
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  APOB MUTATED       10      4      1
  APOB WILD-TYPE     33     63     35
D666V2, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1           10             33
  CLUS_2            4             63
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  APOB MUTATED        9     15     30
  APOB WILD-TYPE     33    158    117
D666V3, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1            9             33
  CLUS_2           15            158
  CLUS_3           30            117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  APOB MUTATED       15      7     16
  APOB WILD-TYPE     47     66     59
D666V4, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1           15             47
  CLUS_2            7             66
  CLUS_3           16             59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  APOB MUTATED        8     21     18
  APOB WILD-TYPE     62     99     82
D666V5, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1            8             62
  CLUS_2           21             99
  CLUS_3           18             82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  APOB MUTATED        7      1      4      8      6     12      1      3      5
  APOB WILD-TYPE     34     25     26     21     33     57     19     11     17
D666V6, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1            7             34
  CLUS_2            1             25
  CLUS_3            4             26
  CLUS_4            8             21
  CLUS_5            6             33
  CLUS_6           12             57
  CLUS_7            1             19
  CLUS_8            3             11
  CLUS_9            5             17
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APOB MUTATED       11     14     16     13
  APOB WILD-TYPE     89     58     56    108
D666V7, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1           11             89
  CLUS_2           14             58
  CLUS_3           16             56
  CLUS_4           13            108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APOB MUTATED       13      9     16      5     11
  APOB WILD-TYPE     46     66     58    114     27
D666V8, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1           13             46
  CLUS_2            9             66
  CLUS_3           16             58
  CLUS_4            5            114
  CLUS_5           11             27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APOB MUTATED        9     15     12      3     13
  APOB WILD-TYPE     42     61     49     68     82
D666V9, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1            9             42
  CLUS_2           15             61
  CLUS_3           12             49
  CLUS_4            3             68
  CLUS_5           13             82
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  APOB MUTATED        9     10      6      4      9      2      1      8      3
  APOB WILD-TYPE     60     38     33     12     44     18     20     30     47
D666V10, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1            9             60
  CLUS_2           10             38
  CLUS_3            6             33
  CLUS_4            4             12
  CLUS_5            9             44
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            8             30
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  APOB MUTATED        1      5      2      1      1      1
  APOB WILD-TYPE     12     11     12     10     10      8
D666V11, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1            1             12
  CLUS_2            5             11
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  APOB MUTATED        4      0      1      1      1      1      2      0      1
  APOB WILD-TYPE      7      7      6      8      7      6      9      9      4
D666V12, multiclass
        clus
vv       APOB MUTATED APOB WILD-TYPE
  CLUS_1            4              7
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(667) Variable = OR4D2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4D2 MUTATED        0      0      0      0      0
  OR4D2 WILD-TYPE     32     18     46     27     23
D667V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4D2 MUTATED        0      0      0
  OR4D2 WILD-TYPE     43     67     36
D667V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4D2 MUTATED        0      1      3
  OR4D2 WILD-TYPE     42    172    144
D667V3, multiclass
        clus
vv       OR4D2 MUTATED OR4D2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4D2 MUTATED        1      1      2
  OR4D2 WILD-TYPE     61     72     73
D667V4, multiclass
        clus
vv       OR4D2 MUTATED OR4D2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4D2 MUTATED        0      1      3
  OR4D2 WILD-TYPE     70    119     97
D667V5, multiclass
        clus
vv       OR4D2 MUTATED OR4D2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4D2 MUTATED        0      0      0      0      0      3      0      0
  OR4D2 WILD-TYPE     41     26     30     29     39     66     20     14
                 vv
clus              CLUS_9
  OR4D2 MUTATED        1
  OR4D2 WILD-TYPE     21
D667V6, multiclass
        clus
vv       OR4D2 MUTATED OR4D2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR4D2 MUTATED        0      2      2      0
  OR4D2 WILD-TYPE    100     70     70    121
D667V7, multiclass
        clus
vv       OR4D2 MUTATED OR4D2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4D2 MUTATED        0      1      3      0      0
  OR4D2 WILD-TYPE     59     74     71    119     38
D667V8, multiclass
        clus
vv       OR4D2 MUTATED OR4D2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4D2 MUTATED        1      3      0      0      0
  OR4D2 WILD-TYPE     50     73     61     71     95
D667V9, multiclass
        clus
vv       OR4D2 MUTATED OR4D2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4D2 MUTATED        0      1      0      2      1      0      0      0
  OR4D2 WILD-TYPE     69     47     39     14     52     20     21     38
                 vv
clus              CLUS_9
  OR4D2 MUTATED        0
  OR4D2 WILD-TYPE     50
D667V10, multiclass
        clus
vv       OR4D2 MUTATED OR4D2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR4D2 MUTATED        0      0      0      0      2      0
  OR4D2 WILD-TYPE     13     16     14     11      9      9
D667V11, multiclass
[1] "Remove cluster labels:" "OR4D2 MUTATED"         
clus
  OR4D2 MUTATED OR4D2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4D2 MUTATED        0      0      0      1      0      0      1      0
  OR4D2 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  OR4D2 MUTATED        0
  OR4D2 WILD-TYPE      5
D667V12, multiclass
[1] "Remove cluster labels:" "OR4D2 MUTATED"         
clus
  OR4D2 MUTATED OR4D2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" "OR4D2 WILD-TYPE" 

Clustering(668) Variable = DSG4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DSG4 MUTATED        4      0      0      1      0
  DSG4 WILD-TYPE     28     18     46     26     23
D668V1, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG4 MUTATED        5      0      0
  DSG4 WILD-TYPE     38     67     36
D668V2, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG4 MUTATED        0      3     18
  DSG4 WILD-TYPE     42    170    129
D668V3, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3           18            129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG4 MUTATED        7      3      6
  DSG4 WILD-TYPE     55     70     69
D668V4, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            3             70
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG4 MUTATED        4      5      9
  DSG4 WILD-TYPE     66    115     91
D668V5, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            4             66
  CLUS_2            5            115
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DSG4 MUTATED        1      3      0      0      1     10      1      1      1
  DSG4 WILD-TYPE     40     23     30     29     38     59     19     13     21
D668V6, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            3             23
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6           10             59
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DSG4 MUTATED        4      6      5      6
  DSG4 WILD-TYPE     96     66     67    115
D668V7, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            6             66
  CLUS_3            5             67
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DSG4 MUTATED        0      6      9      2      4
  DSG4 WILD-TYPE     59     69     65    117     34
D668V8, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            6             69
  CLUS_3            9             65
  CLUS_4            2            117
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DSG4 MUTATED        2     11      1      1      6
  DSG4 WILD-TYPE     49     65     60     70     89
D668V9, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            2             49
  CLUS_2           11             65
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DSG4 MUTATED        6      2      3      2      1      1      1      4      1
  DSG4 WILD-TYPE     63     46     36     14     52     19     20     34     49
D668V10, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            2             46
  CLUS_3            3             36
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DSG4 MUTATED        2      1      0      0      3      0
  DSG4 WILD-TYPE     11     15     14     11      8      9
D668V11, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DSG4 MUTATED        1      0      0      0      1      1      1      2      0
  DSG4 WILD-TYPE     10      7      7      9      7      6     10      7      5
D668V12, multiclass
        clus
vv       DSG4 MUTATED DSG4 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            2              7
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(669) Variable = KIAA0319L MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0319L MUTATED        4      0      0      1      1
  KIAA0319L WILD-TYPE     28     18     46     26     22
D669V1, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 4                  28
  CLUS_2                 0                  18
  CLUS_3                 0                  46
  CLUS_4                 1                  26
  CLUS_5                 1                  22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KIAA0319L MUTATED        4      1      1
  KIAA0319L WILD-TYPE     39     66     35
D669V2, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 4                  39
  CLUS_2                 1                  66
  CLUS_3                 1                  35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KIAA0319L MUTATED        1      3     15
  KIAA0319L WILD-TYPE     41    170    132
D669V3, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 1                  41
  CLUS_2                 3                 170
  CLUS_3                15                 132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KIAA0319L MUTATED        4      1      8
  KIAA0319L WILD-TYPE     58     72     67
D669V4, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 4                  58
  CLUS_2                 1                  72
  CLUS_3                 8                  67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KIAA0319L MUTATED        4      4      8
  KIAA0319L WILD-TYPE     66    116     92
D669V5, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 4                  66
  CLUS_2                 4                 116
  CLUS_3                 8                  92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0319L MUTATED        2      1      1      2      1      7      1      1
  KIAA0319L WILD-TYPE     39     25     29     27     38     62     19     13
                     vv
clus                  CLUS_9
  KIAA0319L MUTATED        0
  KIAA0319L WILD-TYPE     22
D669V6, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 2                  39
  CLUS_2                 1                  25
  CLUS_3                 1                  29
  CLUS_4                 2                  27
  CLUS_5                 1                  38
  CLUS_6                 7                  62
  CLUS_7                 1                  19
  CLUS_8                 1                  13
  CLUS_9                 0                  22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0319L MUTATED        2      7      4      6
  KIAA0319L WILD-TYPE     98     65     68    115
D669V7, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 2                  98
  CLUS_2                 7                  65
  CLUS_3                 4                  68
  CLUS_4                 6                 115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0319L MUTATED        2      3      7      3      4
  KIAA0319L WILD-TYPE     57     72     67    116     34
D669V8, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 2                  57
  CLUS_2                 3                  72
  CLUS_3                 7                  67
  CLUS_4                 3                 116
  CLUS_5                 4                  34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0319L MUTATED        1      8      1      1      7
  KIAA0319L WILD-TYPE     50     68     60     70     88
D669V9, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 1                  50
  CLUS_2                 8                  68
  CLUS_3                 1                  60
  CLUS_4                 1                  70
  CLUS_5                 7                  88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0319L MUTATED        2      3      1      4      1      1      1      4
  KIAA0319L WILD-TYPE     67     45     38     12     52     19     20     34
                     vv
clus                  CLUS_9
  KIAA0319L MUTATED        1
  KIAA0319L WILD-TYPE     49
D669V10, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 2                  67
  CLUS_2                 3                  45
  CLUS_3                 1                  38
  CLUS_4                 4                  12
  CLUS_5                 1                  52
  CLUS_6                 1                  19
  CLUS_7                 1                  20
  CLUS_8                 4                  34
  CLUS_9                 1                  49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA0319L MUTATED        0      0      0      0      3      0
  KIAA0319L WILD-TYPE     13     16     14     11      8      9
D669V11, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 0                  13
  CLUS_2                 0                  16
  CLUS_3                 0                  14
  CLUS_4                 0                  11
  CLUS_5                 3                   8
  CLUS_6                 0                   9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0319L MUTATED        0      0      0      1      1      1      0      0
  KIAA0319L WILD-TYPE     11      7      7      8      7      6     11      9
                     vv
clus                  CLUS_9
  KIAA0319L MUTATED        0
  KIAA0319L WILD-TYPE      5
D669V12, multiclass
        clus
vv       KIAA0319L MUTATED KIAA0319L WILD-TYPE
  CLUS_1                 0                  11
  CLUS_2                 0                   7
  CLUS_3                 0                   7
  CLUS_4                 1                   8
  CLUS_5                 1                   7
  CLUS_6                 1                   6
  CLUS_7                 0                  11
  CLUS_8                 0                   9
  CLUS_9                 0                   5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(670) Variable = TXNDC6 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC6 MUTATED        1      0      1      0      0
  TXNDC6 WILD-TYPE     31     18     45     27     23
D670V1, multiclass
[1] "Remove cluster labels:" "TXNDC6 MUTATED"        
clus
  TXNDC6 MUTATED TXNDC6 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2678 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837       TCGA-AA-3842 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846       TCGA-AA-3848 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNDC6 MUTATED        1      1      0
  TXNDC6 WILD-TYPE     42     66     36
D670V2, multiclass
[1] "Remove cluster labels:" "TXNDC6 MUTATED"        
clus
  TXNDC6 MUTATED TXNDC6 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2678 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837       TCGA-AA-3842 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846       TCGA-AA-3848 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNDC6 MUTATED        1      3      4
  TXNDC6 WILD-TYPE     41    170    143
D670V3, multiclass
        clus
vv       TXNDC6 MUTATED TXNDC6 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNDC6 MUTATED        3      1      3
  TXNDC6 WILD-TYPE     59     72     72
D670V4, multiclass
        clus
vv       TXNDC6 MUTATED TXNDC6 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNDC6 MUTATED        1      3      3
  TXNDC6 WILD-TYPE     69    117     97
D670V5, multiclass
        clus
vv       TXNDC6 MUTATED TXNDC6 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC6 MUTATED        1      1      0      1      0      2      1      1
  TXNDC6 WILD-TYPE     40     25     30     28     39     67     19     13
                  vv
clus               CLUS_9
  TXNDC6 MUTATED        0
  TXNDC6 WILD-TYPE     22
D670V6, multiclass
        clus
vv       TXNDC6 MUTATED TXNDC6 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TXNDC6 MUTATED        1      3      1      3
  TXNDC6 WILD-TYPE     99     69     71    118
D670V7, multiclass
        clus
vv       TXNDC6 MUTATED TXNDC6 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC6 MUTATED        1      0      3      3      1
  TXNDC6 WILD-TYPE     58     75     71    116     37
D670V8, multiclass
        clus
vv       TXNDC6 MUTATED TXNDC6 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              3              116
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNDC6 MUTATED        2      3      0      1      2
  TXNDC6 WILD-TYPE     49     73     61     70     93
D670V9, multiclass
        clus
vv       TXNDC6 MUTATED TXNDC6 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC6 MUTATED        0      1      1      2      1      1      0      1
  TXNDC6 WILD-TYPE     69     47     38     14     52     19     21     37
                  vv
clus               CLUS_9
  TXNDC6 MUTATED        1
  TXNDC6 WILD-TYPE     49
D670V10, multiclass
        clus
vv       TXNDC6 MUTATED TXNDC6 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TXNDC6 MUTATED        1      0      0      1      0      0
  TXNDC6 WILD-TYPE     12     16     14     10     11      9
D670V11, multiclass
[1] "Remove cluster labels:" "TXNDC6 MUTATED"        
clus
  TXNDC6 MUTATED TXNDC6 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TXNDC6 MUTATED        0      0      0      1      0      0      1      0
  TXNDC6 WILD-TYPE     11      7      7      8      8      7     10      9
                  vv
clus               CLUS_9
  TXNDC6 MUTATED        0
  TXNDC6 WILD-TYPE      5
D670V12, multiclass
[1] "Remove cluster labels:" "TXNDC6 MUTATED"        
clus
  TXNDC6 MUTATED TXNDC6 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" "TXNDC6 WILD-TYPE" 

Clustering(671) Variable = PFN4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PFN4 MUTATED        1      0      0      0      0
  PFN4 WILD-TYPE     31     18     46     27     23
D671V1, multiclass
[1] "Remove cluster labels:" "PFN4 MUTATED"          
clus
  PFN4 MUTATED PFN4 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AY-4071 
"PFN4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PFN4 MUTATED        1      0      0
  PFN4 WILD-TYPE     42     67     36
D671V2, multiclass
[1] "Remove cluster labels:" "PFN4 MUTATED"          
clus
  PFN4 MUTATED PFN4 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" "PFN4 WILD-TYPE" 
    TCGA-AY-4071 
"PFN4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PFN4 MUTATED        0      1      5
  PFN4 WILD-TYPE     42    172    142
D671V3, multiclass
        clus
vv       PFN4 MUTATED PFN4 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PFN4 MUTATED        1      0      4
  PFN4 WILD-TYPE     61     73     71
D671V4, multiclass
        clus
vv       PFN4 MUTATED PFN4 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PFN4 MUTATED        1      2      1
  PFN4 WILD-TYPE     69    118     99
D671V5, multiclass
        clus
vv       PFN4 MUTATED PFN4 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PFN4 MUTATED        0      0      0      1      1      0      2      0      0
  PFN4 WILD-TYPE     41     26     30     28     38     69     18     14     22
D671V6, multiclass
        clus
vv       PFN4 MUTATED PFN4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            0             69
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PFN4 MUTATED        0      4      1      1
  PFN4 WILD-TYPE    100     68     71    120
D671V7, multiclass
        clus
vv       PFN4 MUTATED PFN4 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PFN4 MUTATED        1      0      4      0      1
  PFN4 WILD-TYPE     58     75     70    119     37
D671V8, multiclass
        clus
vv       PFN4 MUTATED PFN4 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PFN4 MUTATED        0      4      0      0      2
  PFN4 WILD-TYPE     51     72     61     71     93
D671V9, multiclass
        clus
vv       PFN4 MUTATED PFN4 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PFN4 MUTATED        0      2      0      1      1      0      0      2      0
  PFN4 WILD-TYPE     69     46     39     15     52     20     21     36     50
D671V10, multiclass
        clus
vv       PFN4 MUTATED PFN4 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PFN4 MUTATED        0      0      0      0      0      0
  PFN4 WILD-TYPE     13     16     14     11     11      9
D671V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PFN4 MUTATED        0      0      0      0      0      0      0      0      0
  PFN4 WILD-TYPE     11      7      7      9      8      7     11      9      5
D671V12, multiclass

Clustering(672) Variable = NOS3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOS3 MUTATED        1      0      1      0      0
  NOS3 WILD-TYPE     31     18     45     27     23
D672V1, multiclass
[1] "Remove cluster labels:" "NOS3 MUTATED"          
clus
  NOS3 MUTATED NOS3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3979     TCGA-AA-3980 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOS3 MUTATED        1      1      0
  NOS3 WILD-TYPE     42     66     36
D672V2, multiclass
[1] "Remove cluster labels:" "NOS3 MUTATED"          
clus
  NOS3 MUTATED NOS3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3979     TCGA-AA-3980 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" "NOS3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOS3 MUTATED        2      4     12
  NOS3 WILD-TYPE     40    169    135
D672V3, multiclass
        clus
vv       NOS3 MUTATED NOS3 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            4            169
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOS3 MUTATED        4      1     11
  NOS3 WILD-TYPE     58     72     64
D672V4, multiclass
        clus
vv       NOS3 MUTATED NOS3 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3           11             64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOS3 MUTATED        1      7      6
  NOS3 WILD-TYPE     69    113     94
D672V5, multiclass
        clus
vv       NOS3 MUTATED NOS3 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            7            113
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOS3 MUTATED        1      2      1      3      0      5      2      0      0
  NOS3 WILD-TYPE     40     24     29     26     39     64     18     14     22
D672V6, multiclass
        clus
vv       NOS3 MUTATED NOS3 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOS3 MUTATED        3      9      5      1
  NOS3 WILD-TYPE     97     63     67    120
D672V7, multiclass
        clus
vv       NOS3 MUTATED NOS3 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            9             63
  CLUS_3            5             67
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOS3 MUTATED        1      3     11      2      1
  NOS3 WILD-TYPE     58     72     63    117     37
D672V8, multiclass
        clus
vv       NOS3 MUTATED NOS3 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3           11             63
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOS3 MUTATED        1     13      1      1      2
  NOS3 WILD-TYPE     50     63     60     70     93
D672V9, multiclass
        clus
vv       NOS3 MUTATED NOS3 WILD-TYPE
  CLUS_1            1             50
  CLUS_2           13             63
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOS3 MUTATED        4      4      1      4      3      0      0      2      0
  NOS3 WILD-TYPE     65     44     38     12     50     20     21     36     50
D672V10, multiclass
        clus
vv       NOS3 MUTATED NOS3 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            4             44
  CLUS_3            1             38
  CLUS_4            4             12
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NOS3 MUTATED        0      0      1      0      5      0
  NOS3 WILD-TYPE     13     16     13     11      6      9
D672V11, multiclass
        clus
vv       NOS3 MUTATED NOS3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            5              6
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOS3 MUTATED        0      0      0      2      1      2      1      0      0
  NOS3 WILD-TYPE     11      7      7      7      7      5     10      9      5
D672V12, multiclass
        clus
vv       NOS3 MUTATED NOS3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            2              5
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(673) Variable = MUC7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUC7 MUTATED        1      0      0      0      0
  MUC7 WILD-TYPE     31     18     46     27     23
D673V1, multiclass
[1] "Remove cluster labels:" "MUC7 MUTATED"          
clus
  MUC7 MUTATED MUC7 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AY-4071 
"MUC7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MUC7 MUTATED        1      0      0
  MUC7 WILD-TYPE     42     67     36
D673V2, multiclass
[1] "Remove cluster labels:" "MUC7 MUTATED"          
clus
  MUC7 MUTATED MUC7 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" "MUC7 WILD-TYPE" 
    TCGA-AY-4071 
"MUC7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MUC7 MUTATED        1      2      6
  MUC7 WILD-TYPE     41    171    141
D673V3, multiclass
        clus
vv       MUC7 MUTATED MUC7 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MUC7 MUTATED        5      1      2
  MUC7 WILD-TYPE     57     72     73
D673V4, multiclass
        clus
vv       MUC7 MUTATED MUC7 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MUC7 MUTATED        2      5      2
  MUC7 WILD-TYPE     68    115     98
D673V5, multiclass
        clus
vv       MUC7 MUTATED MUC7 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MUC7 MUTATED        0      0      1      1      1      2      1      3      0
  MUC7 WILD-TYPE     41     26     29     28     38     67     19     11     22
D673V6, multiclass
        clus
vv       MUC7 MUTATED MUC7 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            3             11
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUC7 MUTATED        1      5      2      1
  MUC7 WILD-TYPE     99     67     70    120
D673V7, multiclass
        clus
vv       MUC7 MUTATED MUC7 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUC7 MUTATED        2      1      5      0      1
  MUC7 WILD-TYPE     57     74     69    119     37
D673V8, multiclass
        clus
vv       MUC7 MUTATED MUC7 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUC7 MUTATED        1      4      2      0      2
  MUC7 WILD-TYPE     50     72     59     71     93
D673V9, multiclass
        clus
vv       MUC7 MUTATED MUC7 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MUC7 MUTATED        2      2      0      2      0      1      0      1      1
  MUC7 WILD-TYPE     67     46     39     14     53     19     21     37     49
D673V10, multiclass
        clus
vv       MUC7 MUTATED MUC7 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MUC7 MUTATED        2      1      1      1      1      0
  MUC7 WILD-TYPE     11     15     13     10     10      9
D673V11, multiclass
        clus
vv       MUC7 MUTATED MUC7 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MUC7 MUTATED        1      0      1      2      1      0      1      0      0
  MUC7 WILD-TYPE     10      7      6      7      7      7     10      9      5
D673V12, multiclass
        clus
vv       MUC7 MUTATED MUC7 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(674) Variable = BCHE MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCHE MUTATED        5      0      1      1      0
  BCHE WILD-TYPE     27     18     45     26     23
D674V1, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCHE MUTATED        5      1      1
  BCHE WILD-TYPE     38     66     35
D674V2, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            5             38
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCHE MUTATED        1      8     15
  BCHE WILD-TYPE     41    165    132
D674V3, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            1             41
  CLUS_2            8            165
  CLUS_3           15            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCHE MUTATED        7      4      6
  BCHE WILD-TYPE     55     69     69
D674V4, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            7             55
  CLUS_2            4             69
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCHE MUTATED        3      7     10
  BCHE WILD-TYPE     67    113     90
D674V5, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            3             67
  CLUS_2            7            113
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BCHE MUTATED        4      4      1      1      3      5      1      0      1
  BCHE WILD-TYPE     37     22     29     28     36     64     19     14     21
D674V6, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            4             37
  CLUS_2            4             22
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            3             36
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCHE MUTATED        4      6      8      7
  BCHE WILD-TYPE     96     66     64    114
D674V7, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            4             96
  CLUS_2            6             66
  CLUS_3            8             64
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCHE MUTATED        4      4      9      3      5
  BCHE WILD-TYPE     55     71     65    116     33
D674V8, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            4             55
  CLUS_2            4             71
  CLUS_3            9             65
  CLUS_4            3            116
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCHE MUTATED        2      8      4      2      8
  BCHE WILD-TYPE     49     68     57     69     87
D674V9, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            2             49
  CLUS_2            8             68
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BCHE MUTATED        2      7      2      2      4      1      0      5      1
  BCHE WILD-TYPE     67     41     37     14     49     19     21     33     49
D674V10, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            2             67
  CLUS_2            7             41
  CLUS_3            2             37
  CLUS_4            2             14
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            5             33
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BCHE MUTATED        1      0      1      2      1      2
  BCHE WILD-TYPE     12     16     13      9     10      7
D674V11, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            2              9
  CLUS_5            1             10
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BCHE MUTATED        1      0      2      1      1      0      0      2      0
  BCHE WILD-TYPE     10      7      5      8      7      7     11      7      5
D674V12, multiclass
        clus
vv       BCHE MUTATED BCHE WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            2              5
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            2              7
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(675) Variable = SLC27A2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC27A2 MUTATED        1      1      0      0      0
  SLC27A2 WILD-TYPE     31     17     46     27     23
D675V1, multiclass
[1] "Remove cluster labels:" "SLC27A2 MUTATED"       
clus
  SLC27A2 MUTATED SLC27A2 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01F 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC27A2 MUTATED        1      0      1
  SLC27A2 WILD-TYPE     42     67     35
D675V2, multiclass
[1] "Remove cluster labels:" "SLC27A2 MUTATED"       
clus
  SLC27A2 MUTATED SLC27A2 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01F 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC27A2 MUTATED        0      1      5
  SLC27A2 WILD-TYPE     42    172    142
D675V3, multiclass
        clus
vv       SLC27A2 MUTATED SLC27A2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC27A2 MUTATED        3      1      0
  SLC27A2 WILD-TYPE     59     72     75
D675V4, multiclass
        clus
vv       SLC27A2 MUTATED SLC27A2 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               0                75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC27A2 MUTATED        1      1      3
  SLC27A2 WILD-TYPE     69    119     97
D675V5, multiclass
        clus
vv       SLC27A2 MUTATED SLC27A2 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC27A2 MUTATED        0      2      0      0      0      3      0      0
  SLC27A2 WILD-TYPE     41     24     30     29     39     66     20     14
                   vv
clus                CLUS_9
  SLC27A2 MUTATED        0
  SLC27A2 WILD-TYPE     22
D675V6, multiclass
        clus
vv       SLC27A2 MUTATED SLC27A2 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               2                24
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC27A2 MUTATED        1      1      1      3
  SLC27A2 WILD-TYPE     99     71     71    118
D675V7, multiclass
        clus
vv       SLC27A2 MUTATED SLC27A2 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               1                71
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC27A2 MUTATED        1      1      1      3      0
  SLC27A2 WILD-TYPE     58     74     73    116     38
D675V8, multiclass
        clus
vv       SLC27A2 MUTATED SLC27A2 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               1                73
  CLUS_4               3               116
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC27A2 MUTATED        0      2      1      1      2
  SLC27A2 WILD-TYPE     51     74     60     70     93
D675V9, multiclass
        clus
vv       SLC27A2 MUTATED SLC27A2 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC27A2 MUTATED        1      1      1      0      1      0      0      1
  SLC27A2 WILD-TYPE     68     47     38     16     52     20     21     37
                   vv
clus                CLUS_9
  SLC27A2 MUTATED        1
  SLC27A2 WILD-TYPE     49
D675V10, multiclass
        clus
vv       SLC27A2 MUTATED SLC27A2 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC27A2 MUTATED        1      1      0      0      0      0
  SLC27A2 WILD-TYPE     12     15     14     11     11      9
D675V11, multiclass
[1] "Remove cluster labels:" "SLC27A2 MUTATED"       
clus
  SLC27A2 MUTATED SLC27A2 WILD-TYPE 
                2                72 
       TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6534        TCGA-D5-6536 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC27A2 MUTATED        0      1      0      0      0      0      0      1
  SLC27A2 WILD-TYPE     11      6      7      9      8      7     11      8
                   vv
clus                CLUS_9
  SLC27A2 MUTATED        0
  SLC27A2 WILD-TYPE      5
D675V12, multiclass
[1] "Remove cluster labels:" "SLC27A2 MUTATED"       
clus
  SLC27A2 MUTATED SLC27A2 WILD-TYPE 
                2                72 
       TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6534        TCGA-D5-6536 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" "SLC27A2 WILD-TYPE" 

Clustering(676) Variable = KRT19 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT19 MUTATED        1      0      0      1      0
  KRT19 WILD-TYPE     31     18     46     26     23
D676V1, multiclass
[1] "Remove cluster labels:" "KRT19 MUTATED"         
clus
  KRT19 MUTATED KRT19 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT19 MUTATED        1      1      0
  KRT19 WILD-TYPE     42     66     36
D676V2, multiclass
[1] "Remove cluster labels:" "KRT19 MUTATED"         
clus
  KRT19 MUTATED KRT19 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT19 MUTATED        1      0      3
  KRT19 WILD-TYPE     41    173    144
D676V3, multiclass
        clus
vv       KRT19 MUTATED KRT19 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT19 MUTATED        1      0      1
  KRT19 WILD-TYPE     61     73     74
D676V4, multiclass
[1] "Remove cluster labels:" "KRT19 MUTATED"         
clus
  KRT19 MUTATED KRT19 WILD-TYPE 
              2             208 
     TCGA-A6-2671      TCGA-A6-2677      TCGA-A6-3809      TCGA-A6-3810 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-4105      TCGA-A6-5656      TCGA-A6-5657      TCGA-A6-5659 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662      TCGA-A6-5664 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502      TCGA-AA-3510 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AA-3655      TCGA-AA-3660      TCGA-AA-3662 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3663      TCGA-AA-3697      TCGA-AA-3712      TCGA-AA-3713 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6888      TCGA-AD-6889 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AD-6890      TCGA-AD-6895      TCGA-AD-6899      TCGA-AD-6901 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AU-3779 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AZ-4681      TCGA-AZ-4682      TCGA-AZ-5403      TCGA-AZ-5407 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AZ-6599      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6606      TCGA-AZ-6607      TCGA-AZ-6608 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CA-5254      TCGA-CA-5255      TCGA-CA-5796      TCGA-CA-5797 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CA-6715      TCGA-CA-6716      TCGA-CA-6717      TCGA-CA-6718 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CA-6719      TCGA-CK-4947      TCGA-CK-4948      TCGA-CK-4950 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CK-4952      TCGA-CK-5912      TCGA-CK-5913      TCGA-CK-5914 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CK-5915      TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CK-6751      TCGA-CM-4744      TCGA-CM-4746 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-D5-5538      TCGA-D5-5539      TCGA-D5-5540      TCGA-D5-5541 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-D5-6529      TCGA-D5-6532      TCGA-D5-6533      TCGA-D5-6534 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-D5-6535      TCGA-D5-6536      TCGA-D5-6537      TCGA-D5-6538 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-D5-6539      TCGA-D5-6540      TCGA-D5-6541      TCGA-D5-6898 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-D5-6920      TCGA-D5-6922      TCGA-D5-6923      TCGA-D5-6924 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-D5-6926      TCGA-D5-6927      TCGA-D5-6928      TCGA-D5-6929 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932      TCGA-D5-7000 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A0X9      TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28C 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A28E      TCGA-DM-A28F      TCGA-DM-A28G      TCGA-DM-A28H 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A28K      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704      TCGA-F4-6805 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856      TCGA-G4-6293 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304      TCGA-G4-6306 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310      TCGA-G4-6315 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323      TCGA-G4-6586 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT19 MUTATED        0      2      2
  KRT19 WILD-TYPE     70    118     98
D676V5, multiclass
        clus
vv       KRT19 MUTATED KRT19 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT19 MUTATED        0      0      1      1      0      2      0      0
  KRT19 WILD-TYPE     41     26     29     28     39     67     20     14
                 vv
clus              CLUS_9
  KRT19 MUTATED        0
  KRT19 WILD-TYPE     22
D676V6, multiclass
        clus
vv       KRT19 MUTATED KRT19 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRT19 MUTATED        0      2      0      2
  KRT19 WILD-TYPE    100     70     72    119
D676V7, multiclass
        clus
vv       KRT19 MUTATED KRT19 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT19 MUTATED        0      0      2      2      0
  KRT19 WILD-TYPE     59     75     72    117     38
D676V8, multiclass
        clus
vv       KRT19 MUTATED KRT19 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT19 MUTATED        0      2      0      0      2
  KRT19 WILD-TYPE     51     74     61     71     93
D676V9, multiclass
        clus
vv       KRT19 MUTATED KRT19 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT19 MUTATED        0      0      0      2      0      1      1      0
  KRT19 WILD-TYPE     69     48     39     14     53     19     20     38
                 vv
clus              CLUS_9
  KRT19 MUTATED        0
  KRT19 WILD-TYPE     50
D676V10, multiclass
        clus
vv       KRT19 MUTATED KRT19 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRT19 MUTATED        0      0      0      0      1      0
  KRT19 WILD-TYPE     13     16     14     11     10      9
D676V11, multiclass
[1] "Remove cluster labels:" "KRT19 MUTATED"         
clus
  KRT19 MUTATED KRT19 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-G4-6628 
"KRT19 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT19 MUTATED        0      0      0      1      0      0      0      0
  KRT19 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  KRT19 MUTATED        0
  KRT19 WILD-TYPE      5
D676V12, multiclass
[1] "Remove cluster labels:" "KRT19 MUTATED"         
clus
  KRT19 MUTATED KRT19 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" "KRT19 WILD-TYPE" 
     TCGA-G4-6628 
"KRT19 WILD-TYPE" 

Clustering(677) Variable = LASS3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LASS3 MUTATED        3      0      0      3      0
  LASS3 WILD-TYPE     29     18     46     24     23
D677V1, multiclass
        clus
vv       LASS3 MUTATED LASS3 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LASS3 MUTATED        3      3      0
  LASS3 WILD-TYPE     40     64     36
D677V2, multiclass
        clus
vv       LASS3 MUTATED LASS3 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LASS3 MUTATED        2      4      8
  LASS3 WILD-TYPE     40    169    139
D677V3, multiclass
        clus
vv       LASS3 MUTATED LASS3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4             169
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LASS3 MUTATED        2      2      4
  LASS3 WILD-TYPE     60     71     71
D677V4, multiclass
        clus
vv       LASS3 MUTATED LASS3 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LASS3 MUTATED        4      6      3
  LASS3 WILD-TYPE     66    114     97
D677V5, multiclass
        clus
vv       LASS3 MUTATED LASS3 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             6             114
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LASS3 MUTATED        1      1      3      1      4      2      0      1
  LASS3 WILD-TYPE     40     25     27     28     35     67     20     13
                 vv
clus              CLUS_9
  LASS3 MUTATED        0
  LASS3 WILD-TYPE     22
D677V6, multiclass
        clus
vv       LASS3 MUTATED LASS3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             3              27
  CLUS_4             1              28
  CLUS_5             4              35
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LASS3 MUTATED        4      3      1      6
  LASS3 WILD-TYPE     96     69     71    115
D677V7, multiclass
        clus
vv       LASS3 MUTATED LASS3 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LASS3 MUTATED        2      4      1      4      3
  LASS3 WILD-TYPE     57     71     73    115     35
D677V8, multiclass
        clus
vv       LASS3 MUTATED LASS3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             1              73
  CLUS_4             4             115
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LASS3 MUTATED        1      4      2      0      6
  LASS3 WILD-TYPE     50     72     59     71     89
D677V9, multiclass
        clus
vv       LASS3 MUTATED LASS3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LASS3 MUTATED        3      1      2      0      1      1      1      3
  LASS3 WILD-TYPE     66     47     37     16     52     19     20     35
                 vv
clus              CLUS_9
  LASS3 MUTATED        1
  LASS3 WILD-TYPE     49
D677V10, multiclass
        clus
vv       LASS3 MUTATED LASS3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LASS3 MUTATED        1      0      0      1      0      0
  LASS3 WILD-TYPE     12     16     14     10     11      9
D677V11, multiclass
[1] "Remove cluster labels:" "LASS3 MUTATED"         
clus
  LASS3 MUTATED LASS3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6460      TCGA-F4-6569 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LASS3 MUTATED        0      0      1      0      0      0      0      1
  LASS3 WILD-TYPE     11      7      6      9      8      7     11      8
                 vv
clus              CLUS_9
  LASS3 MUTATED        0
  LASS3 WILD-TYPE      5
D677V12, multiclass
[1] "Remove cluster labels:" "LASS3 MUTATED"         
clus
  LASS3 MUTATED LASS3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6460      TCGA-F4-6569 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" "LASS3 WILD-TYPE" 

Clustering(678) Variable = GAB1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAB1 MUTATED        3      0      0      3      0
  GAB1 WILD-TYPE     29     18     46     24     23
D678V1, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB1 MUTATED        4      1      1
  GAB1 WILD-TYPE     39     66     35
D678V2, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB1 MUTATED        0      4     11
  GAB1 WILD-TYPE     42    169    136
D678V3, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            4            169
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB1 MUTATED        2      2      5
  GAB1 WILD-TYPE     60     71     70
D678V4, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB1 MUTATED        3      6      5
  GAB1 WILD-TYPE     67    114     95
D678V5, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            6            114
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAB1 MUTATED        1      2      2      3      2      3      1      0      0
  GAB1 WILD-TYPE     40     24     28     26     37     66     19     14     22
D678V6, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            2             28
  CLUS_4            3             26
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAB1 MUTATED        1      5      4      5
  GAB1 WILD-TYPE     99     67     68    116
D678V7, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            4             68
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAB1 MUTATED        4      1      4      2      4
  GAB1 WILD-TYPE     55     74     70    117     34
D678V8, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            1             74
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAB1 MUTATED        1      4      2      2      5
  GAB1 WILD-TYPE     50     72     59     69     90
D678V9, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAB1 MUTATED        5      1      0      2      1      1      0      4      0
  GAB1 WILD-TYPE     64     47     39     14     52     19     21     34     50
D678V10, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            4             34
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GAB1 MUTATED        0      0      1      0      1      2
  GAB1 WILD-TYPE     13     16     13     11     10      7
D678V11, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAB1 MUTATED        3      0      0      1      0      0      0      0      0
  GAB1 WILD-TYPE      8      7      7      8      8      7     11      9      5
D678V12, multiclass
        clus
vv       GAB1 MUTATED GAB1 WILD-TYPE
  CLUS_1            3              8
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(679) Variable = ZNF518B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF518B MUTATED        0      0      0      0      0
  ZNF518B WILD-TYPE     32     18     46     27     23
D679V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF518B MUTATED        0      0      0
  ZNF518B WILD-TYPE     43     67     36
D679V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF518B MUTATED        1      5      4
  ZNF518B WILD-TYPE     41    168    143
D679V3, multiclass
        clus
vv       ZNF518B MUTATED ZNF518B WILD-TYPE
  CLUS_1               1                41
  CLUS_2               5               168
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF518B MUTATED        4      4      2
  ZNF518B WILD-TYPE     58     69     73
D679V4, multiclass
        clus
vv       ZNF518B MUTATED ZNF518B WILD-TYPE
  CLUS_1               4                58
  CLUS_2               4                69
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF518B MUTATED        0      2      5
  ZNF518B WILD-TYPE     70    118     95
D679V5, multiclass
        clus
vv       ZNF518B MUTATED ZNF518B WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF518B MUTATED        1      1      0      0      0      4      0      1
  ZNF518B WILD-TYPE     40     25     30     29     39     65     20     13
                   vv
clus                CLUS_9
  ZNF518B MUTATED        0
  ZNF518B WILD-TYPE     22
D679V6, multiclass
        clus
vv       ZNF518B MUTATED ZNF518B WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF518B MUTATED        4      3      3      0
  ZNF518B WILD-TYPE     96     69     69    121
D679V7, multiclass
        clus
vv       ZNF518B MUTATED ZNF518B WILD-TYPE
  CLUS_1               4                96
  CLUS_2               3                69
  CLUS_3               3                69
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF518B MUTATED        3      4      3      0      0
  ZNF518B WILD-TYPE     56     71     71    119     38
D679V8, multiclass
        clus
vv       ZNF518B MUTATED ZNF518B WILD-TYPE
  CLUS_1               3                56
  CLUS_2               4                71
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF518B MUTATED        3      3      3      1      0
  ZNF518B WILD-TYPE     48     73     58     70     95
D679V9, multiclass
        clus
vv       ZNF518B MUTATED ZNF518B WILD-TYPE
  CLUS_1               3                48
  CLUS_2               3                73
  CLUS_3               3                58
  CLUS_4               1                70
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF518B MUTATED        4      1      2      2      0      1      0      0
  ZNF518B WILD-TYPE     65     47     37     14     53     19     21     38
                   vv
clus                CLUS_9
  ZNF518B MUTATED        0
  ZNF518B WILD-TYPE     50
D679V10, multiclass
        clus
vv       ZNF518B MUTATED ZNF518B WILD-TYPE
  CLUS_1               4                65
  CLUS_2               1                47
  CLUS_3               2                37
  CLUS_4               2                14
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF518B MUTATED        1      0      0      0      2      1
  ZNF518B WILD-TYPE     12     16     14     11      9      8
D679V11, multiclass
        clus
vv       ZNF518B MUTATED ZNF518B WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF518B MUTATED        1      0      0      2      0      1      0      0
  ZNF518B WILD-TYPE     10      7      7      7      8      6     11      9
                   vv
clus                CLUS_9
  ZNF518B MUTATED        0
  ZNF518B WILD-TYPE      5
D679V12, multiclass
        clus
vv       ZNF518B MUTATED ZNF518B WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(680) Variable = C14ORF159 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF159 MUTATED        0      0      0      1      0
  C14ORF159 WILD-TYPE     32     18     46     26     23
D680V1, multiclass
[1] "Remove cluster labels:" "C14ORF159 MUTATED"     
clus
  C14ORF159 MUTATED C14ORF159 WILD-TYPE 
                  1                 145 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3984          TCGA-AA-3986          TCGA-AA-3989 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3994          TCGA-AA-A004          TCGA-AA-A00A 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A00D          TCGA-AA-A00E          TCGA-AA-A00F 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A00J          TCGA-AA-A00K          TCGA-AA-A00L 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A00N          TCGA-AA-A00O          TCGA-AA-A00Q 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A00R          TCGA-AA-A00U          TCGA-AA-A00W 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A00Z          TCGA-AA-A017          TCGA-AA-A01D 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A01F          TCGA-AA-A01G          TCGA-AA-A01I 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A01K          TCGA-AA-A01Q          TCGA-AA-A024 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A029          TCGA-AA-A02F          TCGA-AA-A02H 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A02J          TCGA-AA-A02W          TCGA-AY-4070 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AY-4071 
"C14ORF159 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF159 MUTATED        0      1      0
  C14ORF159 WILD-TYPE     43     66     36
D680V2, multiclass
[1] "Remove cluster labels:" "C14ORF159 MUTATED"     
clus
  C14ORF159 MUTATED C14ORF159 WILD-TYPE 
                  1                 145 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3984          TCGA-AA-3986          TCGA-AA-3989 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-3994          TCGA-AA-A004          TCGA-AA-A00A 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A00D          TCGA-AA-A00E          TCGA-AA-A00F 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A00J          TCGA-AA-A00K          TCGA-AA-A00L 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A00N          TCGA-AA-A00O          TCGA-AA-A00Q 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A00R          TCGA-AA-A00U          TCGA-AA-A00W 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A00Z          TCGA-AA-A017          TCGA-AA-A01D 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A01F          TCGA-AA-A01G          TCGA-AA-A01I 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A01K          TCGA-AA-A01Q          TCGA-AA-A024 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A029          TCGA-AA-A02F          TCGA-AA-A02H 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AA-A02J          TCGA-AA-A02W          TCGA-AY-4070 
"C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" "C14ORF159 WILD-TYPE" 
         TCGA-AY-4071 
"C14ORF159 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF159 MUTATED        1      4      4
  C14ORF159 WILD-TYPE     41    169    143
D680V3, multiclass
        clus
vv       C14ORF159 MUTATED C14ORF159 WILD-TYPE
  CLUS_1                 1                  41
  CLUS_2                 4                 169
  CLUS_3                 4                 143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF159 MUTATED        2      4      2
  C14ORF159 WILD-TYPE     60     69     73
D680V4, multiclass
        clus
vv       C14ORF159 MUTATED C14ORF159 WILD-TYPE
  CLUS_1                 2                  60
  CLUS_2                 4                  69
  CLUS_3                 2                  73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF159 MUTATED        0      2      5
  C14ORF159 WILD-TYPE     70    118     95
D680V5, multiclass
        clus
vv       C14ORF159 MUTATED C14ORF159 WILD-TYPE
  CLUS_1                 0                  70
  CLUS_2                 2                 118
  CLUS_3                 5                  95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF159 MUTATED        0      0      2      0      0      5      0      0
  C14ORF159 WILD-TYPE     41     26     28     29     39     64     20     14
                     vv
clus                  CLUS_9
  C14ORF159 MUTATED        0
  C14ORF159 WILD-TYPE     22
D680V6, multiclass
        clus
vv       C14ORF159 MUTATED C14ORF159 WILD-TYPE
  CLUS_1                 0                  41
  CLUS_2                 0                  26
  CLUS_3                 2                  28
  CLUS_4                 0                  29
  CLUS_5                 0                  39
  CLUS_6                 5                  64
  CLUS_7                 0                  20
  CLUS_8                 0                  14
  CLUS_9                 0                  22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF159 MUTATED        5      1      2      1
  C14ORF159 WILD-TYPE     95     71     70    120
D680V7, multiclass
        clus
vv       C14ORF159 MUTATED C14ORF159 WILD-TYPE
  CLUS_1                 5                  95
  CLUS_2                 1                  71
  CLUS_3                 2                  70
  CLUS_4                 1                 120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF159 MUTATED        0      5      3      1      0
  C14ORF159 WILD-TYPE     59     70     71    118     38
D680V8, multiclass
        clus
vv       C14ORF159 MUTATED C14ORF159 WILD-TYPE
  CLUS_1                 0                  59
  CLUS_2                 5                  70
  CLUS_3                 3                  71
  CLUS_4                 1                 118
  CLUS_5                 0                  38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF159 MUTATED        4      3      0      1      1
  C14ORF159 WILD-TYPE     47     73     61     70     94
D680V9, multiclass
        clus
vv       C14ORF159 MUTATED C14ORF159 WILD-TYPE
  CLUS_1                 4                  47
  CLUS_2                 3                  73
  CLUS_3                 0                  61
  CLUS_4                 1                  70
  CLUS_5                 1                  94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF159 MUTATED        2      2      2      1      0      2      0      0
  C14ORF159 WILD-TYPE     67     46     37     15     53     18     21     38
                     vv
clus                  CLUS_9
  C14ORF159 MUTATED        0
  C14ORF159 WILD-TYPE     50
D680V10, multiclass
        clus
vv       C14ORF159 MUTATED C14ORF159 WILD-TYPE
  CLUS_1                 2                  67
  CLUS_2                 2                  46
  CLUS_3                 2                  37
  CLUS_4                 1                  15
  CLUS_5                 0                  53
  CLUS_6                 2                  18
  CLUS_7                 0                  21
  CLUS_8                 0                  38
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C14ORF159 MUTATED        2      0      0      0      1      0
  C14ORF159 WILD-TYPE     11     16     14     11     10      9
D680V11, multiclass
        clus
vv       C14ORF159 MUTATED C14ORF159 WILD-TYPE
  CLUS_1                 2                  11
  CLUS_2                 0                  16
  CLUS_3                 0                  14
  CLUS_4                 0                  11
  CLUS_5                 1                  10
  CLUS_6                 0                   9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF159 MUTATED        0      0      0      0      0      0      1      1
  C14ORF159 WILD-TYPE     11      7      7      9      8      7     10      8
                     vv
clus                  CLUS_9
  C14ORF159 MUTATED        1
  C14ORF159 WILD-TYPE      4
D680V12, multiclass
        clus
vv       C14ORF159 MUTATED C14ORF159 WILD-TYPE
  CLUS_1                 0                  11
  CLUS_2                 0                   7
  CLUS_3                 0                   7
  CLUS_4                 0                   9
  CLUS_5                 0                   8
  CLUS_6                 0                   7
  CLUS_7                 1                  10
  CLUS_8                 1                   8
  CLUS_9                 1                   4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(681) Variable = EFEMP1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFEMP1 MUTATED        2      0      1      0      0
  EFEMP1 WILD-TYPE     30     18     45     27     23
D681V1, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        2      1      0
  EFEMP1 WILD-TYPE     41     66     36
D681V2, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        0      9     11
  EFEMP1 WILD-TYPE     42    164    136
D681V3, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              9              164
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        8      3      6
  EFEMP1 WILD-TYPE     54     70     69
D681V4, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              8               54
  CLUS_2              3               70
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        2      6     12
  EFEMP1 WILD-TYPE     68    114     88
D681V5, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              6              114
  CLUS_3             12               88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFEMP1 MUTATED        1      0      2      2      0     11      0      1
  EFEMP1 WILD-TYPE     40     26     28     27     39     58     20     13
                  vv
clus               CLUS_9
  EFEMP1 MUTATED        3
  EFEMP1 WILD-TYPE     19
D681V6, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6             11               58
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              3               19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EFEMP1 MUTATED        4      3      9      4
  EFEMP1 WILD-TYPE     96     69     63    117
D681V7, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              3               69
  CLUS_3              9               63
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFEMP1 MUTATED        4      6      6      3      1
  EFEMP1 WILD-TYPE     55     69     68    116     37
D681V8, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              6               69
  CLUS_3              6               68
  CLUS_4              3              116
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFEMP1 MUTATED        6      6      3      2      3
  EFEMP1 WILD-TYPE     45     70     58     69     92
D681V9, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              6               45
  CLUS_2              6               70
  CLUS_3              3               58
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFEMP1 MUTATED        5      5      1      1      4      1      1      1
  EFEMP1 WILD-TYPE     64     43     38     15     49     19     20     37
                  vv
clus               CLUS_9
  EFEMP1 MUTATED        1
  EFEMP1 WILD-TYPE     49
D681V10, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              5               43
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              4               49
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EFEMP1 MUTATED        2      2      0      0      3      1
  EFEMP1 WILD-TYPE     11     14     14     11      8      8
D681V11, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFEMP1 MUTATED        2      1      0      0      0      0      3      1
  EFEMP1 WILD-TYPE      9      6      7      9      8      7      8      8
                  vv
clus               CLUS_9
  EFEMP1 MUTATED        1
  EFEMP1 WILD-TYPE      4
D681V12, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              3                8
  CLUS_8              1                8
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(682) Variable = PDP2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDP2 MUTATED        0      0      0      0      0
  PDP2 WILD-TYPE     32     18     46     27     23
D682V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PDP2 MUTATED        0      0      0
  PDP2 WILD-TYPE     43     67     36
D682V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PDP2 MUTATED        1      0      4
  PDP2 WILD-TYPE     41    173    143
D682V3, multiclass
        clus
vv       PDP2 MUTATED PDP2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PDP2 MUTATED        1      1      3
  PDP2 WILD-TYPE     61     72     72
D682V4, multiclass
        clus
vv       PDP2 MUTATED PDP2 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PDP2 MUTATED        1      1      2
  PDP2 WILD-TYPE     69    119     98
D682V5, multiclass
        clus
vv       PDP2 MUTATED PDP2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PDP2 MUTATED        1      1      0      0      1      0      0      0      1
  PDP2 WILD-TYPE     40     25     30     29     38     69     20     14     21
D682V6, multiclass
        clus
vv       PDP2 MUTATED PDP2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            0             69
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PDP2 MUTATED        0      2      3      0
  PDP2 WILD-TYPE    100     70     69    121
D682V7, multiclass
        clus
vv       PDP2 MUTATED PDP2 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            3             69
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDP2 MUTATED        2      0      3      0      0
  PDP2 WILD-TYPE     57     75     71    119     38
D682V8, multiclass
        clus
vv       PDP2 MUTATED PDP2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            0             75
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDP2 MUTATED        0      2      3      0      0
  PDP2 WILD-TYPE     51     74     58     71     95
D682V9, multiclass
        clus
vv       PDP2 MUTATED PDP2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PDP2 MUTATED        1      3      0      1      0      0      0      0      0
  PDP2 WILD-TYPE     68     45     39     15     53     20     21     38     50
D682V10, multiclass
        clus
vv       PDP2 MUTATED PDP2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PDP2 MUTATED        0      0      0      0      1      0
  PDP2 WILD-TYPE     13     16     14     11     10      9
D682V11, multiclass
[1] "Remove cluster labels:" "PDP2 MUTATED"          
clus
  PDP2 MUTATED PDP2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-G4-6628 
"PDP2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PDP2 MUTATED        0      0      0      1      0      0      0      0      0
  PDP2 WILD-TYPE     11      7      7      8      8      7     11      9      5
D682V12, multiclass
[1] "Remove cluster labels:" "PDP2 MUTATED"          
clus
  PDP2 MUTATED PDP2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" "PDP2 WILD-TYPE" 
    TCGA-G4-6628 
"PDP2 WILD-TYPE" 

Clustering(683) Variable = ENSA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENSA MUTATED        0      0      0      0      0
  ENSA WILD-TYPE     32     18     46     27     23
D683V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ENSA MUTATED        0      0      0
  ENSA WILD-TYPE     43     67     36
D683V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ENSA MUTATED        0      2      3
  ENSA WILD-TYPE     42    171    144
D683V3, multiclass
        clus
vv       ENSA MUTATED ENSA WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ENSA MUTATED        2      1      2
  ENSA WILD-TYPE     60     72     73
D683V4, multiclass
        clus
vv       ENSA MUTATED ENSA WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ENSA MUTATED        1      2      1
  ENSA WILD-TYPE     69    118     99
D683V5, multiclass
        clus
vv       ENSA MUTATED ENSA WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ENSA MUTATED        0      0      0      1      1      1      0      1      0
  ENSA WILD-TYPE     41     26     30     28     38     68     20     13     22
D683V6, multiclass
        clus
vv       ENSA MUTATED ENSA WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ENSA MUTATED        2      2      1      0
  ENSA WILD-TYPE     98     70     71    121
D683V7, multiclass
        clus
vv       ENSA MUTATED ENSA WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENSA MUTATED        0      2      3      0      0
  ENSA WILD-TYPE     59     73     71    119     38
D683V8, multiclass
        clus
vv       ENSA MUTATED ENSA WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENSA MUTATED        2      2      0      0      1
  ENSA WILD-TYPE     49     74     61     71     94
D683V9, multiclass
        clus
vv       ENSA MUTATED ENSA WILD-TYPE
  CLUS_1            2             49
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ENSA MUTATED        2      1      0      1      0      0      0      1      0
  ENSA WILD-TYPE     67     47     39     15     53     20     21     37     50
D683V10, multiclass
        clus
vv       ENSA MUTATED ENSA WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ENSA MUTATED        1      0      0      0      2      0
  ENSA WILD-TYPE     12     16     14     11      9      9
D683V11, multiclass
        clus
vv       ENSA MUTATED ENSA WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ENSA MUTATED        0      0      0      1      0      0      1      0      1
  ENSA WILD-TYPE     11      7      7      8      8      7     10      9      4
D683V12, multiclass
        clus
vv       ENSA MUTATED ENSA WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(684) Variable = C20ORF177 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C20ORF177 MUTATED        0      0      0      1      0
  C20ORF177 WILD-TYPE     32     18     46     26     23
D684V1, multiclass
[1] "Remove cluster labels:" "C20ORF177 MUTATED"     
clus
  C20ORF177 MUTATED C20ORF177 WILD-TYPE 
                  1                 145 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3984          TCGA-AA-3986          TCGA-AA-3989 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3994          TCGA-AA-A004          TCGA-AA-A00A 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A00D          TCGA-AA-A00E          TCGA-AA-A00F 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A00J          TCGA-AA-A00K          TCGA-AA-A00L 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A00O          TCGA-AA-A00Q          TCGA-AA-A00R 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A00U          TCGA-AA-A00W          TCGA-AA-A00Z 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A010          TCGA-AA-A017          TCGA-AA-A01D 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A01F          TCGA-AA-A01G          TCGA-AA-A01I 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A01K          TCGA-AA-A01Q          TCGA-AA-A024 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A029          TCGA-AA-A02F          TCGA-AA-A02H 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A02J          TCGA-AA-A02W          TCGA-AY-4070 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AY-4071 
"C20ORF177 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C20ORF177 MUTATED        1      0      0
  C20ORF177 WILD-TYPE     42     67     36
D684V2, multiclass
[1] "Remove cluster labels:" "C20ORF177 MUTATED"     
clus
  C20ORF177 MUTATED C20ORF177 WILD-TYPE 
                  1                 145 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3984          TCGA-AA-3986          TCGA-AA-3989 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-3994          TCGA-AA-A004          TCGA-AA-A00A 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A00D          TCGA-AA-A00E          TCGA-AA-A00F 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A00J          TCGA-AA-A00K          TCGA-AA-A00L 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A00O          TCGA-AA-A00Q          TCGA-AA-A00R 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A00U          TCGA-AA-A00W          TCGA-AA-A00Z 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A010          TCGA-AA-A017          TCGA-AA-A01D 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A01F          TCGA-AA-A01G          TCGA-AA-A01I 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A01K          TCGA-AA-A01Q          TCGA-AA-A024 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A029          TCGA-AA-A02F          TCGA-AA-A02H 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AA-A02J          TCGA-AA-A02W          TCGA-AY-4070 
"C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" "C20ORF177 WILD-TYPE" 
         TCGA-AY-4071 
"C20ORF177 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C20ORF177 MUTATED        1      3      5
  C20ORF177 WILD-TYPE     41    170    142
D684V3, multiclass
        clus
vv       C20ORF177 MUTATED C20ORF177 WILD-TYPE
  CLUS_1                 1                  41
  CLUS_2                 3                 170
  CLUS_3                 5                 142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C20ORF177 MUTATED        4      1      2
  C20ORF177 WILD-TYPE     58     72     73
D684V4, multiclass
        clus
vv       C20ORF177 MUTATED C20ORF177 WILD-TYPE
  CLUS_1                 4                  58
  CLUS_2                 1                  72
  CLUS_3                 2                  73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C20ORF177 MUTATED        0      2      7
  C20ORF177 WILD-TYPE     70    118     93
D684V5, multiclass
        clus
vv       C20ORF177 MUTATED C20ORF177 WILD-TYPE
  CLUS_1                 0                  70
  CLUS_2                 2                 118
  CLUS_3                 7                  93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C20ORF177 MUTATED        2      0      1      0      0      3      2      0
  C20ORF177 WILD-TYPE     39     26     29     29     39     66     18     14
                     vv
clus                  CLUS_9
  C20ORF177 MUTATED        1
  C20ORF177 WILD-TYPE     21
D684V6, multiclass
        clus
vv       C20ORF177 MUTATED C20ORF177 WILD-TYPE
  CLUS_1                 2                  39
  CLUS_2                 0                  26
  CLUS_3                 1                  29
  CLUS_4                 0                  29
  CLUS_5                 0                  39
  CLUS_6                 3                  66
  CLUS_7                 2                  18
  CLUS_8                 0                  14
  CLUS_9                 1                  21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C20ORF177 MUTATED        1      2      4      2
  C20ORF177 WILD-TYPE     99     70     68    119
D684V7, multiclass
        clus
vv       C20ORF177 MUTATED C20ORF177 WILD-TYPE
  CLUS_1                 1                  99
  CLUS_2                 2                  70
  CLUS_3                 4                  68
  CLUS_4                 2                 119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C20ORF177 MUTATED        2      1      4      0      2
  C20ORF177 WILD-TYPE     57     74     70    119     36
D684V8, multiclass
        clus
vv       C20ORF177 MUTATED C20ORF177 WILD-TYPE
  CLUS_1                 2                  57
  CLUS_2                 1                  74
  CLUS_3                 4                  70
  CLUS_4                 0                 119
  CLUS_5                 2                  36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C20ORF177 MUTATED        2      4      1      0      1
  C20ORF177 WILD-TYPE     49     72     60     71     94
D684V9, multiclass
        clus
vv       C20ORF177 MUTATED C20ORF177 WILD-TYPE
  CLUS_1                 2                  49
  CLUS_2                 4                  72
  CLUS_3                 1                  60
  CLUS_4                 0                  71
  CLUS_5                 1                  94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C20ORF177 MUTATED        0      4      0      1      1      1      0      1
  C20ORF177 WILD-TYPE     69     44     39     15     52     19     21     37
                     vv
clus                  CLUS_9
  C20ORF177 MUTATED        0
  C20ORF177 WILD-TYPE     50
D684V10, multiclass
        clus
vv       C20ORF177 MUTATED C20ORF177 WILD-TYPE
  CLUS_1                 0                  69
  CLUS_2                 4                  44
  CLUS_3                 0                  39
  CLUS_4                 1                  15
  CLUS_5                 1                  52
  CLUS_6                 1                  19
  CLUS_7                 0                  21
  CLUS_8                 1                  37
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C20ORF177 MUTATED        1      1      0      1      1      1
  C20ORF177 WILD-TYPE     12     15     14     10     10      8
D684V11, multiclass
        clus
vv       C20ORF177 MUTATED C20ORF177 WILD-TYPE
  CLUS_1                 1                  12
  CLUS_2                 1                  15
  CLUS_3                 0                  14
  CLUS_4                 1                  10
  CLUS_5                 1                  10
  CLUS_6                 1                   8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C20ORF177 MUTATED        0      0      1      0      0      1      2      0
  C20ORF177 WILD-TYPE     11      7      6      9      8      6      9      9
                     vv
clus                  CLUS_9
  C20ORF177 MUTATED        1
  C20ORF177 WILD-TYPE      4
D684V12, multiclass
        clus
vv       C20ORF177 MUTATED C20ORF177 WILD-TYPE
  CLUS_1                 0                  11
  CLUS_2                 0                   7
  CLUS_3                 1                   6
  CLUS_4                 0                   9
  CLUS_5                 0                   8
  CLUS_6                 1                   6
  CLUS_7                 2                   9
  CLUS_8                 0                   9
  CLUS_9                 1                   4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(685) Variable = POMGNT1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POMGNT1 MUTATED        2      0      0      0      0
  POMGNT1 WILD-TYPE     30     18     46     27     23
D685V1, multiclass
[1] "Remove cluster labels:" "POMGNT1 MUTATED"       
clus
  POMGNT1 MUTATED POMGNT1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3968 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  POMGNT1 MUTATED        2      0      0
  POMGNT1 WILD-TYPE     41     67     36
D685V2, multiclass
[1] "Remove cluster labels:" "POMGNT1 MUTATED"       
clus
  POMGNT1 MUTATED POMGNT1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3968 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" "POMGNT1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  POMGNT1 MUTATED        0      1      7
  POMGNT1 WILD-TYPE     42    172    140
D685V3, multiclass
        clus
vv       POMGNT1 MUTATED POMGNT1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  POMGNT1 MUTATED        3      1      2
  POMGNT1 WILD-TYPE     59     72     73
D685V4, multiclass
        clus
vv       POMGNT1 MUTATED POMGNT1 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  POMGNT1 MUTATED        0      2      5
  POMGNT1 WILD-TYPE     70    118     95
D685V5, multiclass
        clus
vv       POMGNT1 MUTATED POMGNT1 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POMGNT1 MUTATED        0      0      0      0      1      5      1      0
  POMGNT1 WILD-TYPE     41     26     30     29     38     64     19     14
                   vv
clus                CLUS_9
  POMGNT1 MUTATED        0
  POMGNT1 WILD-TYPE     22
D685V6, multiclass
        clus
vv       POMGNT1 MUTATED POMGNT1 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  POMGNT1 MUTATED        1      3      2      2
  POMGNT1 WILD-TYPE     99     69     70    119
D685V7, multiclass
        clus
vv       POMGNT1 MUTATED POMGNT1 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               2                70
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POMGNT1 MUTATED        1      1      4      0      2
  POMGNT1 WILD-TYPE     58     74     70    119     36
D685V8, multiclass
        clus
vv       POMGNT1 MUTATED POMGNT1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               4                70
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POMGNT1 MUTATED        0      5      1      0      2
  POMGNT1 WILD-TYPE     51     71     60     71     93
D685V9, multiclass
        clus
vv       POMGNT1 MUTATED POMGNT1 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               5                71
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POMGNT1 MUTATED        1      2      0      3      0      0      0      2
  POMGNT1 WILD-TYPE     68     46     39     13     53     20     21     36
                   vv
clus                CLUS_9
  POMGNT1 MUTATED        0
  POMGNT1 WILD-TYPE     50
D685V10, multiclass
        clus
vv       POMGNT1 MUTATED POMGNT1 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  POMGNT1 MUTATED        0      0      0      0      0      0
  POMGNT1 WILD-TYPE     13     16     14     11     11      9
D685V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POMGNT1 MUTATED        0      0      0      0      0      0      0      0
  POMGNT1 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  POMGNT1 MUTATED        0
  POMGNT1 WILD-TYPE      5
D685V12, multiclass

Clustering(686) Variable = SMG1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMG1 MUTATED        2      0      0      4      0
  SMG1 WILD-TYPE     30     18     46     23     23
D686V1, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            4             23
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMG1 MUTATED        4      2      0
  SMG1 WILD-TYPE     39     65     36
D686V2, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMG1 MUTATED        4      6     15
  SMG1 WILD-TYPE     38    167    132
D686V3, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            4             38
  CLUS_2            6            167
  CLUS_3           15            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMG1 MUTATED        8      2      8
  SMG1 WILD-TYPE     54     71     67
D686V4, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            8             54
  CLUS_2            2             71
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMG1 MUTATED        3     10      8
  SMG1 WILD-TYPE     67    110     92
D686V5, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            3             67
  CLUS_2           10            110
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMG1 MUTATED        1      2      4      1      5      5      0      1      2
  SMG1 WILD-TYPE     40     24     26     28     34     64     20     13     20
D686V6, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            4             26
  CLUS_4            1             28
  CLUS_5            5             34
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMG1 MUTATED        7      7      5      6
  SMG1 WILD-TYPE     93     65     67    115
D686V7, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            7             93
  CLUS_2            7             65
  CLUS_3            5             67
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMG1 MUTATED        4      7      6      3      5
  SMG1 WILD-TYPE     55     68     68    116     33
D686V8, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            7             68
  CLUS_3            6             68
  CLUS_4            3            116
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMG1 MUTATED        3      8      4      2      6
  SMG1 WILD-TYPE     48     68     57     69     89
D686V9, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            8             68
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMG1 MUTATED        4      3      3      2      3      2      1      5      0
  SMG1 WILD-TYPE     65     45     36     14     50     18     20     33     50
D686V10, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            3             45
  CLUS_3            3             36
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            5             33
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMG1 MUTATED        0      0      0      1      3      1
  SMG1 WILD-TYPE     13     16     14     10      8      8
D686V11, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            3              8
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMG1 MUTATED        0      0      0      1      0      1      2      1      0
  SMG1 WILD-TYPE     11      7      7      8      8      6      9      8      5
D686V12, multiclass
        clus
vv       SMG1 MUTATED SMG1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(687) Variable = HMCN1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HMCN1 MUTATED       13      1      2      4      2
  HMCN1 WILD-TYPE     19     17     44     23     21
D687V1, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1            13              19
  CLUS_2             1              17
  CLUS_3             2              44
  CLUS_4             4              23
  CLUS_5             2              21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HMCN1 MUTATED       15      4      3
  HMCN1 WILD-TYPE     28     63     33
D687V2, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1            15              28
  CLUS_2             4              63
  CLUS_3             3              33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HMCN1 MUTATED        4     20     47
  HMCN1 WILD-TYPE     38    153    100
D687V3, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1             4              38
  CLUS_2            20             153
  CLUS_3            47             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HMCN1 MUTATED       19     11     20
  HMCN1 WILD-TYPE     43     62     55
D687V4, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1            19              43
  CLUS_2            11              62
  CLUS_3            20              55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HMCN1 MUTATED        7     21     35
  HMCN1 WILD-TYPE     63     99     65
D687V5, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1             7              63
  CLUS_2            21              99
  CLUS_3            35              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HMCN1 MUTATED        7      5      5      6      6     23      7      2
  HMCN1 WILD-TYPE     34     21     25     23     33     46     13     12
                 vv
clus              CLUS_9
  HMCN1 MUTATED        2
  HMCN1 WILD-TYPE     20
D687V6, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1             7              34
  CLUS_2             5              21
  CLUS_3             5              25
  CLUS_4             6              23
  CLUS_5             6              33
  CLUS_6            23              46
  CLUS_7             7              13
  CLUS_8             2              12
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HMCN1 MUTATED       10     19     21     22
  HMCN1 WILD-TYPE     90     53     51     99
D687V7, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1            10              90
  CLUS_2            19              53
  CLUS_3            21              51
  CLUS_4            22              99
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HMCN1 MUTATED       14      9     25     11     13
  HMCN1 WILD-TYPE     45     66     49    108     25
D687V8, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1            14              45
  CLUS_2             9              66
  CLUS_3            25              49
  CLUS_4            11             108
  CLUS_5            13              25
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HMCN1 MUTATED        8     28     11      4     17
  HMCN1 WILD-TYPE     43     48     50     67     78
D687V9, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1             8              43
  CLUS_2            28              48
  CLUS_3            11              50
  CLUS_4             4              67
  CLUS_5            17              78
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HMCN1 MUTATED       13     14      5      7      9      4      3      8
  HMCN1 WILD-TYPE     56     34     34      9     44     16     18     30
                 vv
clus              CLUS_9
  HMCN1 MUTATED        5
  HMCN1 WILD-TYPE     45
D687V10, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1            13              56
  CLUS_2            14              34
  CLUS_3             5              34
  CLUS_4             7               9
  CLUS_5             9              44
  CLUS_6             4              16
  CLUS_7             3              18
  CLUS_8             8              30
  CLUS_9             5              45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HMCN1 MUTATED        1      1      2      4      4      2
  HMCN1 WILD-TYPE     12     15     12      7      7      7
D687V11, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             4               7
  CLUS_5             4               7
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HMCN1 MUTATED        2      1      2      0      1      2      5      0
  HMCN1 WILD-TYPE      9      6      5      9      7      5      6      9
                 vv
clus              CLUS_9
  HMCN1 MUTATED        1
  HMCN1 WILD-TYPE      4
D687V12, multiclass
        clus
vv       HMCN1 MUTATED HMCN1 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             1               6
  CLUS_3             2               5
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             2               5
  CLUS_7             5               6
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(688) Variable = CHUK MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHUK MUTATED        2      0      0      1      0
  CHUK WILD-TYPE     30     18     46     26     23
D688V1, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHUK MUTATED        2      1      0
  CHUK WILD-TYPE     41     66     36
D688V2, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHUK MUTATED        5      4     11
  CHUK WILD-TYPE     37    169    136
D688V3, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            5             37
  CLUS_2            4            169
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHUK MUTATED        8      1      8
  CHUK WILD-TYPE     54     72     67
D688V4, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            8             54
  CLUS_2            1             72
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHUK MUTATED        2     10      8
  CHUK WILD-TYPE     68    110     92
D688V5, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            2             68
  CLUS_2           10            110
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHUK MUTATED        5      1      1      1      0      4      5      2      1
  CHUK WILD-TYPE     36     25     29     28     39     65     15     12     21
D688V6, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            5             36
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            5             15
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHUK MUTATED        5      6      6      4
  CHUK WILD-TYPE     95     66     66    117
D688V7, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            5             95
  CLUS_2            6             66
  CLUS_3            6             66
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHUK MUTATED        4      5      8      3      1
  CHUK WILD-TYPE     55     70     66    116     37
D688V8, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            4             55
  CLUS_2            5             70
  CLUS_3            8             66
  CLUS_4            3            116
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHUK MUTATED        6      6      2      2      4
  CHUK WILD-TYPE     45     70     59     69     91
D688V9, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            6             45
  CLUS_2            6             70
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHUK MUTATED        3      6      1      2      3      3      0      1      1
  CHUK WILD-TYPE     66     42     38     14     50     17     21     37     49
D688V10, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            3             66
  CLUS_2            6             42
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            3             17
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHUK MUTATED        1      3      1      0      2      0
  CHUK WILD-TYPE     12     13     13     11      9      9
D688V11, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            1             12
  CLUS_2            3             13
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHUK MUTATED        1      0      1      1      0      2      1      1      0
  CHUK WILD-TYPE     10      7      6      8      8      5     10      8      5
D688V12, multiclass
        clus
vv       CHUK MUTATED CHUK WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            2              5
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(689) Variable = MYH3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYH3 MUTATED        5      0      0      1      0
  MYH3 WILD-TYPE     27     18     46     26     23
D689V1, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH3 MUTATED        5      0      1
  MYH3 WILD-TYPE     38     67     35
D689V2, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH3 MUTATED        5      8     20
  MYH3 WILD-TYPE     37    165    127
D689V3, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1            5             37
  CLUS_2            8            165
  CLUS_3           20            127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH3 MUTATED        9      5     13
  MYH3 WILD-TYPE     53     68     62
D689V4, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1            9             53
  CLUS_2            5             68
  CLUS_3           13             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH3 MUTATED        2      7     17
  MYH3 WILD-TYPE     68    113     83
D689V5, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            7            113
  CLUS_3           17             83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYH3 MUTATED        3      2      2      1      1     14      0      1      2
  MYH3 WILD-TYPE     38     24     28     28     38     55     20     13     20
D689V6, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            2             24
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6           14             55
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYH3 MUTATED        7     11      8      7
  MYH3 WILD-TYPE     93     61     64    114
D689V7, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1            7             93
  CLUS_2           11             61
  CLUS_3            8             64
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYH3 MUTATED        3     11     12      1      6
  MYH3 WILD-TYPE     56     64     62    118     32
D689V8, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1            3             56
  CLUS_2           11             64
  CLUS_3           12             62
  CLUS_4            1            118
  CLUS_5            6             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYH3 MUTATED        7     13      4      2      6
  MYH3 WILD-TYPE     44     63     57     69     89
D689V9, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1            7             44
  CLUS_2           13             63
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYH3 MUTATED       10      5      3      1      3      3      0      5      2
  MYH3 WILD-TYPE     59     43     36     15     50     17     21     33     48
D689V10, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1           10             59
  CLUS_2            5             43
  CLUS_3            3             36
  CLUS_4            1             15
  CLUS_5            3             50
  CLUS_6            3             17
  CLUS_7            0             21
  CLUS_8            5             33
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MYH3 MUTATED        3      1      3      0      2      0
  MYH3 WILD-TYPE     10     15     11     11      9      9
D689V11, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1            3             10
  CLUS_2            1             15
  CLUS_3            3             11
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYH3 MUTATED        1      0      0      2      2      1      1      1      1
  MYH3 WILD-TYPE     10      7      7      7      6      6     10      8      4
D689V12, multiclass
        clus
vv       MYH3 MUTATED MYH3 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            2              6
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(690) Variable = ING2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ING2 MUTATED        0      0      0      0      0
  ING2 WILD-TYPE     32     18     46     27     23
D690V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ING2 MUTATED        0      0      0
  ING2 WILD-TYPE     43     67     36
D690V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ING2 MUTATED        0      0      6
  ING2 WILD-TYPE     42    173    141
D690V3, multiclass
        clus
vv       ING2 MUTATED ING2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ING2 MUTATED        2      0      4
  ING2 WILD-TYPE     60     73     71
D690V4, multiclass
        clus
vv       ING2 MUTATED ING2 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ING2 MUTATED        1      1      3
  ING2 WILD-TYPE     69    119     97
D690V5, multiclass
        clus
vv       ING2 MUTATED ING2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ING2 MUTATED        1      0      0      0      0      3      0      1      0
  ING2 WILD-TYPE     40     26     30     29     39     66     20     13     22
D690V6, multiclass
        clus
vv       ING2 MUTATED ING2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ING2 MUTATED        0      4      2      0
  ING2 WILD-TYPE    100     68     70    121
D690V7, multiclass
        clus
vv       ING2 MUTATED ING2 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            4             68
  CLUS_3            2             70
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ING2 MUTATED        0      1      5      0      0
  ING2 WILD-TYPE     59     74     69    119     38
D690V8, multiclass
        clus
vv       ING2 MUTATED ING2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ING2 MUTATED        1      3      1      0      1
  ING2 WILD-TYPE     50     73     60     71     94
D690V9, multiclass
        clus
vv       ING2 MUTATED ING2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ING2 MUTATED        1      2      0      1      0      1      0      0      1
  ING2 WILD-TYPE     68     46     39     15     53     19     21     38     49
D690V10, multiclass
        clus
vv       ING2 MUTATED ING2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ING2 MUTATED        0      1      0      0      0      0
  ING2 WILD-TYPE     13     15     14     11     11      9
D690V11, multiclass
[1] "Remove cluster labels:" "ING2 MUTATED"          
clus
  ING2 MUTATED ING2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-G4-6628 
"ING2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ING2 MUTATED        0      0      0      0      0      0      1      0      0
  ING2 WILD-TYPE     11      7      7      9      8      7     10      9      5
D690V12, multiclass
[1] "Remove cluster labels:" "ING2 MUTATED"          
clus
  ING2 MUTATED ING2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" "ING2 WILD-TYPE" 
    TCGA-G4-6628 
"ING2 WILD-TYPE" 

Clustering(691) Variable = VAV3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VAV3 MUTATED        4      1      0      1      0
  VAV3 WILD-TYPE     28     17     46     26     23
D691V1, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV3 MUTATED        3      1      2
  VAV3 WILD-TYPE     40     66     34
D691V2, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV3 MUTATED        2      5     17
  VAV3 WILD-TYPE     40    168    130
D691V3, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            5            168
  CLUS_3           17            130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV3 MUTATED        7      3      7
  VAV3 WILD-TYPE     55     70     68
D691V4, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            3             70
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV3 MUTATED        2      5     13
  VAV3 WILD-TYPE     68    115     87
D691V5, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3           13             87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VAV3 MUTATED        3      0      3      0      2      9      1      1      1
  VAV3 WILD-TYPE     38     26     27     29     37     60     19     13     21
D691V6, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            3             27
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            9             60
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VAV3 MUTATED        4     11      3      6
  VAV3 WILD-TYPE     96     61     69    115
D691V7, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            4             96
  CLUS_2           11             61
  CLUS_3            3             69
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VAV3 MUTATED        3      4     10      4      3
  VAV3 WILD-TYPE     56     71     64    115     35
D691V8, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            4             71
  CLUS_3           10             64
  CLUS_4            4            115
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VAV3 MUTATED        1      9      5      3      6
  VAV3 WILD-TYPE     50     67     56     68     89
D691V9, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            9             67
  CLUS_3            5             56
  CLUS_4            3             68
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VAV3 MUTATED        6      5      0      3      2      3      2      2      1
  VAV3 WILD-TYPE     63     43     39     13     51     17     19     36     49
D691V10, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            5             43
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            2             51
  CLUS_6            3             17
  CLUS_7            2             19
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VAV3 MUTATED        1      0      2      0      1      0
  VAV3 WILD-TYPE     12     16     12     11     10      9
D691V11, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VAV3 MUTATED        1      0      1      0      1      0      1      0      0
  VAV3 WILD-TYPE     10      7      6      9      7      7     10      9      5
D691V12, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(692) Variable = UIMC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UIMC1 MUTATED        0      0      0      0      0
  UIMC1 WILD-TYPE     32     18     46     27     23
D692V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UIMC1 MUTATED        0      0      0
  UIMC1 WILD-TYPE     43     67     36
D692V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UIMC1 MUTATED        0      2      4
  UIMC1 WILD-TYPE     42    171    143
D692V3, multiclass
        clus
vv       UIMC1 MUTATED UIMC1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UIMC1 MUTATED        3      1      1
  UIMC1 WILD-TYPE     59     72     74
D692V4, multiclass
        clus
vv       UIMC1 MUTATED UIMC1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UIMC1 MUTATED        2      0      3
  UIMC1 WILD-TYPE     68    120     97
D692V5, multiclass
        clus
vv       UIMC1 MUTATED UIMC1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             0             120
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UIMC1 MUTATED        1      1      0      0      0      2      0      1
  UIMC1 WILD-TYPE     40     25     30     29     39     67     20     13
                 vv
clus              CLUS_9
  UIMC1 MUTATED        0
  UIMC1 WILD-TYPE     22
D692V6, multiclass
        clus
vv       UIMC1 MUTATED UIMC1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UIMC1 MUTATED        2      1      3      0
  UIMC1 WILD-TYPE     98     71     69    121
D692V7, multiclass
        clus
vv       UIMC1 MUTATED UIMC1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UIMC1 MUTATED        2      1      3      0      0
  UIMC1 WILD-TYPE     57     74     71    119     38
D692V8, multiclass
        clus
vv       UIMC1 MUTATED UIMC1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UIMC1 MUTATED        1      3      1      0      1
  UIMC1 WILD-TYPE     50     73     60     71     94
D692V9, multiclass
        clus
vv       UIMC1 MUTATED UIMC1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UIMC1 MUTATED        0      2      0      0      3      0      1      0
  UIMC1 WILD-TYPE     69     46     39     16     50     20     20     38
                 vv
clus              CLUS_9
  UIMC1 MUTATED        0
  UIMC1 WILD-TYPE     50
D692V10, multiclass
        clus
vv       UIMC1 MUTATED UIMC1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UIMC1 MUTATED        0      0      0      0      0      0
  UIMC1 WILD-TYPE     13     16     14     11     11      9
D692V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UIMC1 MUTATED        0      0      0      0      0      0      0      0
  UIMC1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  UIMC1 MUTATED        0
  UIMC1 WILD-TYPE      5
D692V12, multiclass

Clustering(693) Variable = LAMB4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAMB4 MUTATED        6      0      1      4      0
  LAMB4 WILD-TYPE     26     18     45     23     23
D693V1, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             4              23
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMB4 MUTATED        7      2      2
  LAMB4 WILD-TYPE     36     65     34
D693V2, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMB4 MUTATED        2      9     14
  LAMB4 WILD-TYPE     40    164    133
D693V3, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             9             164
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMB4 MUTATED        9      3      3
  LAMB4 WILD-TYPE     53     70     72
D693V4, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             9              53
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMB4 MUTATED        5      4     13
  LAMB4 WILD-TYPE     65    116     87
D693V5, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             5              65
  CLUS_2             4             116
  CLUS_3            13              87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAMB4 MUTATED        4      1      0      0      6      7      1      1
  LAMB4 WILD-TYPE     37     25     30     29     33     62     19     13
                 vv
clus              CLUS_9
  LAMB4 MUTATED        2
  LAMB4 WILD-TYPE     20
D693V6, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             6              33
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LAMB4 MUTATED        5      6      5     10
  LAMB4 WILD-TYPE     95     66     67    111
D693V7, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             6              66
  CLUS_3             5              67
  CLUS_4            10             111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAMB4 MUTATED        5      5      5      3      8
  LAMB4 WILD-TYPE     54     70     69    116     30
D693V8, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             5              70
  CLUS_3             5              69
  CLUS_4             3             116
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAMB4 MUTATED        1      7      5      3      9
  LAMB4 WILD-TYPE     50     69     56     68     86
D693V9, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             5              56
  CLUS_4             3              68
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAMB4 MUTATED        5      6      2      0      2      0      1      7
  LAMB4 WILD-TYPE     64     42     37     16     51     20     20     31
                 vv
clus              CLUS_9
  LAMB4 MUTATED        2
  LAMB4 WILD-TYPE     48
D693V10, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             6              42
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             7              31
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LAMB4 MUTATED        0      2      2      1      1      1
  LAMB4 WILD-TYPE     13     14     12     10     10      8
D693V11, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAMB4 MUTATED        1      1      1      0      1      0      2      1
  LAMB4 WILD-TYPE     10      6      6      9      7      7      9      8
                 vv
clus              CLUS_9
  LAMB4 MUTATED        0
  LAMB4 WILD-TYPE      5
D693V12, multiclass
        clus
vv       LAMB4 MUTATED LAMB4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(694) Variable = MOV10L1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOV10L1 MUTATED        4      1      0      1      0
  MOV10L1 WILD-TYPE     28     17     46     26     23
D694V1, multiclass
        clus
vv       MOV10L1 MUTATED MOV10L1 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               1                17
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MOV10L1 MUTATED        5      1      0
  MOV10L1 WILD-TYPE     38     66     36
D694V2, multiclass
        clus
vv       MOV10L1 MUTATED MOV10L1 WILD-TYPE
  CLUS_1               5                38
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MOV10L1 MUTATED        0      5     10
  MOV10L1 WILD-TYPE     42    168    137
D694V3, multiclass
        clus
vv       MOV10L1 MUTATED MOV10L1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               5               168
  CLUS_3              10               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MOV10L1 MUTATED        2      4      4
  MOV10L1 WILD-TYPE     60     69     71
D694V4, multiclass
        clus
vv       MOV10L1 MUTATED MOV10L1 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               4                69
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MOV10L1 MUTATED        0      4      9
  MOV10L1 WILD-TYPE     70    116     91
D694V5, multiclass
        clus
vv       MOV10L1 MUTATED MOV10L1 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               4               116
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOV10L1 MUTATED        1      0      0      1      2      7      1      1
  MOV10L1 WILD-TYPE     40     26     30     28     37     62     19     13
                   vv
clus                CLUS_9
  MOV10L1 MUTATED        0
  MOV10L1 WILD-TYPE     22
D694V6, multiclass
        clus
vv       MOV10L1 MUTATED MOV10L1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               7                62
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MOV10L1 MUTATED        3      3      3      6
  MOV10L1 WILD-TYPE     97     69     69    115
D694V7, multiclass
        clus
vv       MOV10L1 MUTATED MOV10L1 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               3                69
  CLUS_3               3                69
  CLUS_4               6               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOV10L1 MUTATED        1      5      3      2      4
  MOV10L1 WILD-TYPE     58     70     71    117     34
D694V8, multiclass
        clus
vv       MOV10L1 MUTATED MOV10L1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               5                70
  CLUS_3               3                71
  CLUS_4               2               117
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOV10L1 MUTATED        3      5      0      1      5
  MOV10L1 WILD-TYPE     48     71     61     70     90
D694V9, multiclass
        clus
vv       MOV10L1 MUTATED MOV10L1 WILD-TYPE
  CLUS_1               3                48
  CLUS_2               5                71
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOV10L1 MUTATED        4      1      0      1      1      2      1      3
  MOV10L1 WILD-TYPE     65     47     39     15     52     18     20     35
                   vv
clus                CLUS_9
  MOV10L1 MUTATED        1
  MOV10L1 WILD-TYPE     49
D694V10, multiclass
        clus
vv       MOV10L1 MUTATED MOV10L1 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               2                18
  CLUS_7               1                20
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MOV10L1 MUTATED        0      0      1      0      0      1
  MOV10L1 WILD-TYPE     13     16     13     11     11      8
D694V11, multiclass
[1] "Remove cluster labels:" "MOV10L1 MUTATED"       
clus
  MOV10L1 MUTATED MOV10L1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-6167        TCGA-CM-6674 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XF 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOV10L1 MUTATED        1      0      0      0      0      0      0      0
  MOV10L1 WILD-TYPE     10      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  MOV10L1 MUTATED        1
  MOV10L1 WILD-TYPE      4
D694V12, multiclass
[1] "Remove cluster labels:" "MOV10L1 MUTATED"       
clus
  MOV10L1 MUTATED MOV10L1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-6167        TCGA-CM-6674 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XF 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" "MOV10L1 WILD-TYPE" 

Clustering(695) Variable = CTBP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTBP2 MUTATED        0      0      0      0      0
  CTBP2 WILD-TYPE     32     18     46     27     23
D695V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CTBP2 MUTATED        0      0      0
  CTBP2 WILD-TYPE     43     67     36
D695V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CTBP2 MUTATED        0      0      6
  CTBP2 WILD-TYPE     42    173    141
D695V3, multiclass
        clus
vv       CTBP2 MUTATED CTBP2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CTBP2 MUTATED        2      0      4
  CTBP2 WILD-TYPE     60     73     71
D695V4, multiclass
        clus
vv       CTBP2 MUTATED CTBP2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CTBP2 MUTATED        1      2      2
  CTBP2 WILD-TYPE     69    118     98
D695V5, multiclass
        clus
vv       CTBP2 MUTATED CTBP2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTBP2 MUTATED        0      0      0      2      1      2      0      0
  CTBP2 WILD-TYPE     41     26     30     27     38     67     20     14
                 vv
clus              CLUS_9
  CTBP2 MUTATED        0
  CTBP2 WILD-TYPE     22
D695V6, multiclass
        clus
vv       CTBP2 MUTATED CTBP2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTBP2 MUTATED        0      4      2      0
  CTBP2 WILD-TYPE    100     68     70    121
D695V7, multiclass
        clus
vv       CTBP2 MUTATED CTBP2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTBP2 MUTATED        1      0      5      0      0
  CTBP2 WILD-TYPE     58     75     69    119     38
D695V8, multiclass
        clus
vv       CTBP2 MUTATED CTBP2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTBP2 MUTATED        0      4      2      0      0
  CTBP2 WILD-TYPE     51     72     59     71     95
D695V9, multiclass
        clus
vv       CTBP2 MUTATED CTBP2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTBP2 MUTATED        1      1      0      2      2      0      0      0
  CTBP2 WILD-TYPE     68     47     39     14     51     20     21     38
                 vv
clus              CLUS_9
  CTBP2 MUTATED        0
  CTBP2 WILD-TYPE     50
D695V10, multiclass
        clus
vv       CTBP2 MUTATED CTBP2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTBP2 MUTATED        0      0      1      0      0      0
  CTBP2 WILD-TYPE     13     16     13     11     11      9
D695V11, multiclass
[1] "Remove cluster labels:" "CTBP2 MUTATED"         
clus
  CTBP2 MUTATED CTBP2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-G4-6628 
"CTBP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTBP2 MUTATED        0      0      0      0      1      0      0      0
  CTBP2 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  CTBP2 MUTATED        0
  CTBP2 WILD-TYPE      5
D695V12, multiclass
[1] "Remove cluster labels:" "CTBP2 MUTATED"         
clus
  CTBP2 MUTATED CTBP2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" "CTBP2 WILD-TYPE" 
     TCGA-G4-6628 
"CTBP2 WILD-TYPE" 

Clustering(696) Variable = TM9SF2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TM9SF2 MUTATED        1      0      0      0      0
  TM9SF2 WILD-TYPE     31     18     46     27     23
D696V1, multiclass
[1] "Remove cluster labels:" "TM9SF2 MUTATED"        
clus
  TM9SF2 MUTATED TM9SF2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00U       TCGA-AA-A00W 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AY-4071 
"TM9SF2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TM9SF2 MUTATED        1      0      0
  TM9SF2 WILD-TYPE     42     67     36
D696V2, multiclass
[1] "Remove cluster labels:" "TM9SF2 MUTATED"        
clus
  TM9SF2 MUTATED TM9SF2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00U       TCGA-AA-A00W 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" "TM9SF2 WILD-TYPE" 
      TCGA-AY-4071 
"TM9SF2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TM9SF2 MUTATED        1      1      8
  TM9SF2 WILD-TYPE     41    172    139
D696V3, multiclass
        clus
vv       TM9SF2 MUTATED TM9SF2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TM9SF2 MUTATED        2      1      5
  TM9SF2 WILD-TYPE     60     72     70
D696V4, multiclass
        clus
vv       TM9SF2 MUTATED TM9SF2 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TM9SF2 MUTATED        0      6      2
  TM9SF2 WILD-TYPE     70    114     98
D696V5, multiclass
        clus
vv       TM9SF2 MUTATED TM9SF2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              6              114
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TM9SF2 MUTATED        0      2      1      2      0      2      1      0
  TM9SF2 WILD-TYPE     41     24     29     27     39     67     19     14
                  vv
clus               CLUS_9
  TM9SF2 MUTATED        0
  TM9SF2 WILD-TYPE     22
D696V6, multiclass
        clus
vv       TM9SF2 MUTATED TM9SF2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TM9SF2 MUTATED        1      4      2      3
  TM9SF2 WILD-TYPE     99     68     70    118
D696V7, multiclass
        clus
vv       TM9SF2 MUTATED TM9SF2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TM9SF2 MUTATED        0      2      5      1      2
  TM9SF2 WILD-TYPE     59     73     69    118     36
D696V8, multiclass
        clus
vv       TM9SF2 MUTATED TM9SF2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TM9SF2 MUTATED        1      5      1      0      2
  TM9SF2 WILD-TYPE     50     71     60     71     93
D696V9, multiclass
        clus
vv       TM9SF2 MUTATED TM9SF2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TM9SF2 MUTATED        3      0      0      1      3      0      0      1
  TM9SF2 WILD-TYPE     66     48     39     15     50     20     21     37
                  vv
clus               CLUS_9
  TM9SF2 MUTATED        1
  TM9SF2 WILD-TYPE     49
D696V10, multiclass
        clus
vv       TM9SF2 MUTATED TM9SF2 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TM9SF2 MUTATED        0      0      2      0      2      0
  TM9SF2 WILD-TYPE     13     16     12     11      9      9
D696V11, multiclass
        clus
vv       TM9SF2 MUTATED TM9SF2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TM9SF2 MUTATED        0      0      1      1      1      0      1      0
  TM9SF2 WILD-TYPE     11      7      6      8      7      7     10      9
                  vv
clus               CLUS_9
  TM9SF2 MUTATED        0
  TM9SF2 WILD-TYPE      5
D696V12, multiclass
        clus
vv       TM9SF2 MUTATED TM9SF2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(697) Variable = CCDC88A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC88A MUTATED        7      0      1      2      0
  CCDC88A WILD-TYPE     25     18     45     25     23
D697V1, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               7                25
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC88A MUTATED        6      3      1
  CCDC88A WILD-TYPE     37     64     35
D697V2, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               6                37
  CLUS_2               3                64
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC88A MUTATED        2      5     23
  CCDC88A WILD-TYPE     40    168    124
D697V3, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               2                40
  CLUS_2               5               168
  CLUS_3              23               124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC88A MUTATED        8      2     10
  CCDC88A WILD-TYPE     54     71     65
D697V4, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               8                54
  CLUS_2               2                71
  CLUS_3              10                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC88A MUTATED        2     12      8
  CCDC88A WILD-TYPE     68    108     92
D697V5, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               2                68
  CLUS_2              12               108
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC88A MUTATED        1      2      3      4      3      7      0      0
  CCDC88A WILD-TYPE     40     24     27     25     36     62     20     14
                   vv
clus                CLUS_9
  CCDC88A MUTATED        2
  CCDC88A WILD-TYPE     20
D697V6, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               1                40
  CLUS_2               2                24
  CLUS_3               3                27
  CLUS_4               4                25
  CLUS_5               3                36
  CLUS_6               7                62
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               2                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC88A MUTATED        3      9      6     11
  CCDC88A WILD-TYPE     97     63     66    110
D697V7, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               3                97
  CLUS_2               9                63
  CLUS_3               6                66
  CLUS_4              11               110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC88A MUTATED        5      1     11      6      6
  CCDC88A WILD-TYPE     54     74     63    113     32
D697V8, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               5                54
  CLUS_2               1                74
  CLUS_3              11                63
  CLUS_4               6               113
  CLUS_5               6                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC88A MUTATED        2      9      4      4     11
  CCDC88A WILD-TYPE     49     67     57     67     84
D697V9, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               2                49
  CLUS_2               9                67
  CLUS_3               4                57
  CLUS_4               4                67
  CLUS_5              11                84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC88A MUTATED        4      3      3      3      4      4      0      6
  CCDC88A WILD-TYPE     65     45     36     13     49     16     21     32
                   vv
clus                CLUS_9
  CCDC88A MUTATED        3
  CCDC88A WILD-TYPE     47
D697V10, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               4                65
  CLUS_2               3                45
  CLUS_3               3                36
  CLUS_4               3                13
  CLUS_5               4                49
  CLUS_6               4                16
  CLUS_7               0                21
  CLUS_8               6                32
  CLUS_9               3                47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC88A MUTATED        1      0      3      0      4      0
  CCDC88A WILD-TYPE     12     16     11     11      7      9
D697V11, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               3                11
  CLUS_4               0                11
  CLUS_5               4                 7
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC88A MUTATED        0      0      1      2      0      1      3      0
  CCDC88A WILD-TYPE     11      7      6      7      8      6      8      9
                   vv
clus                CLUS_9
  CCDC88A MUTATED        1
  CCDC88A WILD-TYPE      4
D697V12, multiclass
        clus
vv       CCDC88A MUTATED CCDC88A WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               3                 8
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(698) Variable = ART5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ART5 MUTATED        0      0      0      1      0
  ART5 WILD-TYPE     32     18     46     26     23
D698V1, multiclass
[1] "Remove cluster labels:" "ART5 MUTATED"          
clus
  ART5 MUTATED ART5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AY-4071 
"ART5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ART5 MUTATED        1      0      0
  ART5 WILD-TYPE     42     67     36
D698V2, multiclass
[1] "Remove cluster labels:" "ART5 MUTATED"          
clus
  ART5 MUTATED ART5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" "ART5 WILD-TYPE" 
    TCGA-AY-4071 
"ART5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ART5 MUTATED        1      1      7
  ART5 WILD-TYPE     41    172    140
D698V3, multiclass
        clus
vv       ART5 MUTATED ART5 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ART5 MUTATED        4      0      4
  ART5 WILD-TYPE     58     73     71
D698V4, multiclass
        clus
vv       ART5 MUTATED ART5 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ART5 MUTATED        0      4      4
  ART5 WILD-TYPE     70    116     96
D698V5, multiclass
        clus
vv       ART5 MUTATED ART5 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ART5 MUTATED        0      1      0      1      1      4      1      0      0
  ART5 WILD-TYPE     41     25     30     28     38     65     19     14     22
D698V6, multiclass
        clus
vv       ART5 MUTATED ART5 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ART5 MUTATED        0      5      2      2
  ART5 WILD-TYPE    100     67     70    119
D698V7, multiclass
        clus
vv       ART5 MUTATED ART5 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ART5 MUTATED        0      2      5      1      1
  ART5 WILD-TYPE     59     73     69    118     37
D698V8, multiclass
        clus
vv       ART5 MUTATED ART5 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ART5 MUTATED        1      4      2      0      2
  ART5 WILD-TYPE     50     72     59     71     93
D698V9, multiclass
        clus
vv       ART5 MUTATED ART5 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ART5 MUTATED        0      1      0      2      4      0      0      1      1
  ART5 WILD-TYPE     69     47     39     14     49     20     21     37     49
D698V10, multiclass
        clus
vv       ART5 MUTATED ART5 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            4             49
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ART5 MUTATED        0      0      1      0      2      0
  ART5 WILD-TYPE     13     16     13     11      9      9
D698V11, multiclass
        clus
vv       ART5 MUTATED ART5 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ART5 MUTATED        0      0      0      2      1      0      0      0      0
  ART5 WILD-TYPE     11      7      7      7      7      7     11      9      5
D698V12, multiclass
        clus
vv       ART5 MUTATED ART5 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(699) Variable = ASPG MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASPG MUTATED        1      0      0      0      0
  ASPG WILD-TYPE     31     18     46     27     23
D699V1, multiclass
[1] "Remove cluster labels:" "ASPG MUTATED"          
clus
  ASPG MUTATED ASPG WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3930     TCGA-AA-3939 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AY-4071 
"ASPG WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPG MUTATED        1      0      0
  ASPG WILD-TYPE     42     67     36
D699V2, multiclass
[1] "Remove cluster labels:" "ASPG MUTATED"          
clus
  ASPG MUTATED ASPG WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3930     TCGA-AA-3939 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AY-4071 
"ASPG WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPG MUTATED        0      1      6
  ASPG WILD-TYPE     42    172    141
D699V3, multiclass
        clus
vv       ASPG MUTATED ASPG WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPG MUTATED        3      1      2
  ASPG WILD-TYPE     59     72     73
D699V4, multiclass
        clus
vv       ASPG MUTATED ASPG WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPG MUTATED        0      1      4
  ASPG WILD-TYPE     70    119     96
D699V5, multiclass
        clus
vv       ASPG MUTATED ASPG WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ASPG MUTATED        0      0      0      1      0      3      1      0      0
  ASPG WILD-TYPE     41     26     30     28     39     66     19     14     22
D699V6, multiclass
        clus
vv       ASPG MUTATED ASPG WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASPG MUTATED        1      3      2      1
  ASPG WILD-TYPE     99     69     70    120
D699V7, multiclass
        clus
vv       ASPG MUTATED ASPG WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASPG MUTATED        0      2      4      0      1
  ASPG WILD-TYPE     59     73     70    119     37
D699V8, multiclass
        clus
vv       ASPG MUTATED ASPG WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASPG MUTATED        1      4      0      0      2
  ASPG WILD-TYPE     50     72     61     71     93
D699V9, multiclass
        clus
vv       ASPG MUTATED ASPG WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ASPG MUTATED        1      3      0      1      0      0      1      0      1
  ASPG WILD-TYPE     68     45     39     15     53     20     20     38     49
D699V10, multiclass
        clus
vv       ASPG MUTATED ASPG WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ASPG MUTATED        0      0      1      0      1      0
  ASPG WILD-TYPE     13     16     13     11     10      9
D699V11, multiclass
[1] "Remove cluster labels:" "ASPG MUTATED"          
clus
  ASPG MUTATED ASPG WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6676 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ASPG MUTATED        0      0      0      0      0      1      1      0      0
  ASPG WILD-TYPE     11      7      7      9      8      6     10      9      5
D699V12, multiclass
[1] "Remove cluster labels:" "ASPG MUTATED"          
clus
  ASPG MUTATED ASPG WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6676 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" "ASPG WILD-TYPE" 

Clustering(700) Variable = PLEKHB2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHB2 MUTATED        1      0      0      0      0
  PLEKHB2 WILD-TYPE     31     18     46     27     23
D700V1, multiclass
[1] "Remove cluster labels:" "PLEKHB2 MUTATED"       
clus
  PLEKHB2 MUTATED PLEKHB2 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AY-4071 
"PLEKHB2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHB2 MUTATED        1      0      0
  PLEKHB2 WILD-TYPE     42     67     36
D700V2, multiclass
[1] "Remove cluster labels:" "PLEKHB2 MUTATED"       
clus
  PLEKHB2 MUTATED PLEKHB2 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AY-4071 
"PLEKHB2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHB2 MUTATED        0      3      3
  PLEKHB2 WILD-TYPE     42    170    144
D700V3, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHB2 MUTATED        2      2      1
  PLEKHB2 WILD-TYPE     60     71     74
D700V4, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               2                71
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHB2 MUTATED        0      2      1
  PLEKHB2 WILD-TYPE     70    118     99
D700V5, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHB2 MUTATED        0      1      0      1      0      1      0      0
  PLEKHB2 WILD-TYPE     41     25     30     28     39     68     20     14
                   vv
clus                CLUS_9
  PLEKHB2 MUTATED        0
  PLEKHB2 WILD-TYPE     22
D700V6, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLEKHB2 MUTATED        3      0      2      1
  PLEKHB2 WILD-TYPE     97     72     70    120
D700V7, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               0                72
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHB2 MUTATED        0      3      2      0      1
  PLEKHB2 WILD-TYPE     59     72     72    119     37
D700V8, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               3                72
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHB2 MUTATED        2      2      1      0      1
  PLEKHB2 WILD-TYPE     49     74     60     71     94
D700V9, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHB2 MUTATED        0      1      0      0      3      1      0      1
  PLEKHB2 WILD-TYPE     69     47     39     16     50     19     21     37
                   vv
clus                CLUS_9
  PLEKHB2 MUTATED        0
  PLEKHB2 WILD-TYPE     50
D700V10, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               3                50
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLEKHB2 MUTATED        0      0      1      0      1      0
  PLEKHB2 WILD-TYPE     13     16     13     11     10      9
D700V11, multiclass
[1] "Remove cluster labels:" "PLEKHB2 MUTATED"       
clus
  PLEKHB2 MUTATED PLEKHB2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHB2 MUTATED        0      0      0      0      1      0      1      0
  PLEKHB2 WILD-TYPE     11      7      7      9      7      7     10      9
                   vv
clus                CLUS_9
  PLEKHB2 MUTATED        0
  PLEKHB2 WILD-TYPE      5
D700V12, multiclass
[1] "Remove cluster labels:" "PLEKHB2 MUTATED"       
clus
  PLEKHB2 MUTATED PLEKHB2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" "PLEKHB2 WILD-TYPE" 

Clustering(701) Variable = TMTC4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMTC4 MUTATED        1      0      1      1      0
  TMTC4 WILD-TYPE     31     18     45     26     23
D701V1, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMTC4 MUTATED        2      0      1
  TMTC4 WILD-TYPE     41     67     35
D701V2, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMTC4 MUTATED        1      5      7
  TMTC4 WILD-TYPE     41    168    140
D701V3, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMTC4 MUTATED        4      1      5
  TMTC4 WILD-TYPE     58     72     70
D701V4, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMTC4 MUTATED        3      3      5
  TMTC4 WILD-TYPE     67    117     95
D701V5, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMTC4 MUTATED        2      1      0      0      2      3      0      2
  TMTC4 WILD-TYPE     39     25     30     29     37     66     20     12
                 vv
clus              CLUS_9
  TMTC4 MUTATED        1
  TMTC4 WILD-TYPE     21
D701V6, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMTC4 MUTATED        2      3      5      3
  TMTC4 WILD-TYPE     98     69     67    118
D701V7, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             5              67
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMTC4 MUTATED        3      3      4      1      2
  TMTC4 WILD-TYPE     56     72     70    118     36
D701V8, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMTC4 MUTATED        3      4      3      0      3
  TMTC4 WILD-TYPE     48     72     58     71     92
D701V9, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMTC4 MUTATED        5      2      0      1      3      0      0      2
  TMTC4 WILD-TYPE     64     46     39     15     50     20     21     36
                 vv
clus              CLUS_9
  TMTC4 MUTATED        0
  TMTC4 WILD-TYPE     50
D701V10, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMTC4 MUTATED        2      0      2      0      2      1
  TMTC4 WILD-TYPE     11     16     12     11      9      8
D701V11, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMTC4 MUTATED        1      0      0      1      2      0      1      0
  TMTC4 WILD-TYPE     10      7      7      8      6      7     10      9
                 vv
clus              CLUS_9
  TMTC4 MUTATED        2
  TMTC4 WILD-TYPE      3
D701V12, multiclass
        clus
vv       TMTC4 MUTATED TMTC4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             2               3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(702) Variable = DOCK5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK5 MUTATED        7      0      0      3      0
  DOCK5 WILD-TYPE     25     18     46     24     23
D702V1, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             7              25
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK5 MUTATED        9      1      0
  DOCK5 WILD-TYPE     34     66     36
D702V2, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             9              34
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK5 MUTATED        1      2     23
  DOCK5 WILD-TYPE     41    171    124
D702V3, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            23             124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK5 MUTATED        8      2      6
  DOCK5 WILD-TYPE     54     71     69
D702V4, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             2              71
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK5 MUTATED        3      9     12
  DOCK5 WILD-TYPE     67    111     88
D702V5, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             9             111
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK5 MUTATED        3      0      2      1      3      9      3      1
  DOCK5 WILD-TYPE     38     26     28     28     36     60     17     13
                 vv
clus              CLUS_9
  DOCK5 MUTATED        2
  DOCK5 WILD-TYPE     20
D702V6, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             9              60
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DOCK5 MUTATED        3      8      5     10
  DOCK5 WILD-TYPE     97     64     67    111
D702V7, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             8              64
  CLUS_3             5              67
  CLUS_4            10             111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK5 MUTATED        1      5     10      2      8
  DOCK5 WILD-TYPE     58     70     64    117     30
D702V8, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             5              70
  CLUS_3            10              64
  CLUS_4             2             117
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK5 MUTATED        3      9      2      1      9
  DOCK5 WILD-TYPE     48     67     59     70     86
D702V9, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             9              67
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK5 MUTATED        3      4      3      0      4      2      2      5
  DOCK5 WILD-TYPE     66     44     36     16     49     18     19     33
                 vv
clus              CLUS_9
  DOCK5 MUTATED        1
  DOCK5 WILD-TYPE     49
D702V10, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             4              44
  CLUS_3             3              36
  CLUS_4             0              16
  CLUS_5             4              49
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             5              33
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DOCK5 MUTATED        0      1      2      0      1      1
  DOCK5 WILD-TYPE     13     15     12     11     10      8
D702V11, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK5 MUTATED        0      0      0      0      1      0      3      1
  DOCK5 WILD-TYPE     11      7      7      9      7      7      8      8
                 vv
clus              CLUS_9
  DOCK5 MUTATED        0
  DOCK5 WILD-TYPE      5
D702V12, multiclass
        clus
vv       DOCK5 MUTATED DOCK5 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(703) Variable = DNAJC16 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC16 MUTATED        1      0      1      1      0
  DNAJC16 WILD-TYPE     31     18     45     26     23
D703V1, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC16 MUTATED        1      1      1
  DNAJC16 WILD-TYPE     42     66     35
D703V2, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC16 MUTATED        1      1      7
  DNAJC16 WILD-TYPE     41    172    140
D703V3, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC16 MUTATED        4      0      3
  DNAJC16 WILD-TYPE     58     73     72
D703V4, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC16 MUTATED        1      3      4
  DNAJC16 WILD-TYPE     69    117     96
D703V5, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC16 MUTATED        2      0      1      0      1      3      0      1
  DNAJC16 WILD-TYPE     39     26     29     29     38     66     20     13
                   vv
clus                CLUS_9
  DNAJC16 MUTATED        0
  DNAJC16 WILD-TYPE     22
D703V6, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNAJC16 MUTATED        0      4      2      3
  DNAJC16 WILD-TYPE    100     68     70    118
D703V7, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               4                68
  CLUS_3               2                70
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC16 MUTATED        0      1      5      2      1
  DNAJC16 WILD-TYPE     59     74     69    117     37
D703V8, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               5                69
  CLUS_4               2               117
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC16 MUTATED        1      4      0      0      4
  DNAJC16 WILD-TYPE     50     72     61     71     91
D703V9, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               4                72
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC16 MUTATED        2      1      0      1      0      2      0      1
  DNAJC16 WILD-TYPE     67     47     39     15     53     18     21     37
                   vv
clus                CLUS_9
  DNAJC16 MUTATED        2
  DNAJC16 WILD-TYPE     48
D703V10, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNAJC16 MUTATED        0      1      1      0      1      0
  DNAJC16 WILD-TYPE     13     15     13     11     10      9
D703V11, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC16 MUTATED        1      0      0      0      0      0      2      0
  DNAJC16 WILD-TYPE     10      7      7      9      8      7      9      9
                   vv
clus                CLUS_9
  DNAJC16 MUTATED        0
  DNAJC16 WILD-TYPE      5
D703V12, multiclass
        clus
vv       DNAJC16 MUTATED DNAJC16 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(704) Variable = PHF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHF1 MUTATED        0      0      0      0      0
  PHF1 WILD-TYPE     32     18     46     27     23
D704V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHF1 MUTATED        0      0      0
  PHF1 WILD-TYPE     43     67     36
D704V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHF1 MUTATED        1      1      4
  PHF1 WILD-TYPE     41    172    143
D704V3, multiclass
        clus
vv       PHF1 MUTATED PHF1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHF1 MUTATED        2      1      3
  PHF1 WILD-TYPE     60     72     72
D704V4, multiclass
        clus
vv       PHF1 MUTATED PHF1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHF1 MUTATED        1      3      2
  PHF1 WILD-TYPE     69    117     98
D704V5, multiclass
        clus
vv       PHF1 MUTATED PHF1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PHF1 MUTATED        1      0      0      3      0      1      1      0      0
  PHF1 WILD-TYPE     40     26     30     26     39     68     19     14     22
D704V6, multiclass
        clus
vv       PHF1 MUTATED PHF1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            3             26
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PHF1 MUTATED        1      2      3      0
  PHF1 WILD-TYPE     99     70     69    121
D704V7, multiclass
        clus
vv       PHF1 MUTATED PHF1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            3             69
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHF1 MUTATED        1      1      4      0      0
  PHF1 WILD-TYPE     58     74     70    119     38
D704V8, multiclass
        clus
vv       PHF1 MUTATED PHF1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHF1 MUTATED        0      5      1      0      0
  PHF1 WILD-TYPE     51     71     60     71     95
D704V9, multiclass
        clus
vv       PHF1 MUTATED PHF1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            5             71
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PHF1 MUTATED        2      1      1      2      0      0      0      0      0
  PHF1 WILD-TYPE     67     47     38     14     53     20     21     38     50
D704V10, multiclass
        clus
vv       PHF1 MUTATED PHF1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PHF1 MUTATED        0      0      0      0      3      0
  PHF1 WILD-TYPE     13     16     14     11      8      9
D704V11, multiclass
        clus
vv       PHF1 MUTATED PHF1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PHF1 MUTATED        0      0      0      1      1      1      0      0      0
  PHF1 WILD-TYPE     11      7      7      8      7      6     11      9      5
D704V12, multiclass
        clus
vv       PHF1 MUTATED PHF1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(705) Variable = OR2V2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2V2 MUTATED        1      0      0      0      0
  OR2V2 WILD-TYPE     31     18     46     27     23
D705V1, multiclass
[1] "Remove cluster labels:" "OR2V2 MUTATED"         
clus
  OR2V2 MUTATED OR2V2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AY-4071 
"OR2V2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2V2 MUTATED        1      0      0
  OR2V2 WILD-TYPE     42     67     36
D705V2, multiclass
[1] "Remove cluster labels:" "OR2V2 MUTATED"         
clus
  OR2V2 MUTATED OR2V2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" "OR2V2 WILD-TYPE" 
     TCGA-AY-4071 
"OR2V2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2V2 MUTATED        1      3      2
  OR2V2 WILD-TYPE     41    170    145
D705V3, multiclass
        clus
vv       OR2V2 MUTATED OR2V2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2V2 MUTATED        2      1      3
  OR2V2 WILD-TYPE     60     72     72
D705V4, multiclass
        clus
vv       OR2V2 MUTATED OR2V2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2V2 MUTATED        1      2      3
  OR2V2 WILD-TYPE     69    118     97
D705V5, multiclass
        clus
vv       OR2V2 MUTATED OR2V2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2V2 MUTATED        0      0      0      1      1      2      1      0
  OR2V2 WILD-TYPE     41     26     30     28     38     67     19     14
                 vv
clus              CLUS_9
  OR2V2 MUTATED        1
  OR2V2 WILD-TYPE     21
D705V6, multiclass
        clus
vv       OR2V2 MUTATED OR2V2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2V2 MUTATED        1      2      2      1
  OR2V2 WILD-TYPE     99     70     70    120
D705V7, multiclass
        clus
vv       OR2V2 MUTATED OR2V2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2V2 MUTATED        2      1      2      0      1
  OR2V2 WILD-TYPE     57     74     72    119     37
D705V8, multiclass
        clus
vv       OR2V2 MUTATED OR2V2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2V2 MUTATED        0      3      2      0      1
  OR2V2 WILD-TYPE     51     73     59     71     94
D705V9, multiclass
        clus
vv       OR2V2 MUTATED OR2V2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2V2 MUTATED        1      1      0      2      1      0      0      1
  OR2V2 WILD-TYPE     68     47     39     14     52     20     21     37
                 vv
clus              CLUS_9
  OR2V2 MUTATED        0
  OR2V2 WILD-TYPE     50
D705V10, multiclass
        clus
vv       OR2V2 MUTATED OR2V2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR2V2 MUTATED        0      1      0      1      1      0
  OR2V2 WILD-TYPE     13     15     14     10     10      9
D705V11, multiclass
        clus
vv       OR2V2 MUTATED OR2V2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2V2 MUTATED        0      1      0      1      0      1      0      0
  OR2V2 WILD-TYPE     11      6      7      8      8      6     11      9
                 vv
clus              CLUS_9
  OR2V2 MUTATED        0
  OR2V2 WILD-TYPE      5
D705V12, multiclass
        clus
vv       OR2V2 MUTATED OR2V2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(706) Variable = EIF2B5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF2B5 MUTATED        3      0      1      1      0
  EIF2B5 WILD-TYPE     29     18     45     26     23
D706V1, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF2B5 MUTATED        3      1      1
  EIF2B5 WILD-TYPE     40     66     35
D706V2, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF2B5 MUTATED        3      5      7
  EIF2B5 WILD-TYPE     39    168    140
D706V3, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              5              168
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF2B5 MUTATED        3      3      4
  EIF2B5 WILD-TYPE     59     70     71
D706V4, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              3               70
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF2B5 MUTATED        2      6      6
  EIF2B5 WILD-TYPE     68    114     94
D706V5, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              6              114
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF2B5 MUTATED        2      0      2      2      2      3      3      0
  EIF2B5 WILD-TYPE     39     26     28     27     37     66     17     14
                  vv
clus               CLUS_9
  EIF2B5 MUTATED        0
  EIF2B5 WILD-TYPE     22
D706V6, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF2B5 MUTATED        2      8      1      4
  EIF2B5 WILD-TYPE     98     64     71    117
D706V7, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              8               64
  CLUS_3              1               71
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF2B5 MUTATED        2      3      5      2      3
  EIF2B5 WILD-TYPE     57     72     69    117     35
D706V8, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              5               69
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF2B5 MUTATED        2      7      0      1      5
  EIF2B5 WILD-TYPE     49     69     61     70     90
D706V9, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              7               69
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF2B5 MUTATED        5      1      0      1      3      2      0      2
  EIF2B5 WILD-TYPE     64     47     39     15     50     18     21     36
                  vv
clus               CLUS_9
  EIF2B5 MUTATED        1
  EIF2B5 WILD-TYPE     49
D706V10, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EIF2B5 MUTATED        0      1      0      1      1      0
  EIF2B5 WILD-TYPE     13     15     14     10     10      9
D706V11, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF2B5 MUTATED        1      0      0      1      0      0      1      0
  EIF2B5 WILD-TYPE     10      7      7      8      8      7     10      9
                  vv
clus               CLUS_9
  EIF2B5 MUTATED        0
  EIF2B5 WILD-TYPE      5
D706V12, multiclass
        clus
vv       EIF2B5 MUTATED EIF2B5 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(707) Variable = SR140 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SR140 MUTATED        1      0      0      1      0
  SR140 WILD-TYPE     31     18     46     26     23
D707V1, multiclass
[1] "Remove cluster labels:" "SR140 MUTATED"         
clus
  SR140 MUTATED SR140 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SR140 MUTATED        1      0      1
  SR140 WILD-TYPE     42     67     35
D707V2, multiclass
[1] "Remove cluster labels:" "SR140 MUTATED"         
clus
  SR140 MUTATED SR140 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" "SR140 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SR140 MUTATED        0      1     10
  SR140 WILD-TYPE     42    172    137
D707V3, multiclass
        clus
vv       SR140 MUTATED SR140 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SR140 MUTATED        4      1      4
  SR140 WILD-TYPE     58     72     71
D707V4, multiclass
        clus
vv       SR140 MUTATED SR140 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SR140 MUTATED        1      1      7
  SR140 WILD-TYPE     69    119     93
D707V5, multiclass
        clus
vv       SR140 MUTATED SR140 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SR140 MUTATED        1      1      0      0      0      7      0      0
  SR140 WILD-TYPE     40     25     30     29     39     62     20     14
                 vv
clus              CLUS_9
  SR140 MUTATED        0
  SR140 WILD-TYPE     22
D707V6, multiclass
        clus
vv       SR140 MUTATED SR140 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             7              62
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SR140 MUTATED        0      4      4      3
  SR140 WILD-TYPE    100     68     68    118
D707V7, multiclass
        clus
vv       SR140 MUTATED SR140 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SR140 MUTATED        0      2      6      2      1
  SR140 WILD-TYPE     59     73     68    117     37
D707V8, multiclass
        clus
vv       SR140 MUTATED SR140 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SR140 MUTATED        2      5      1      1      1
  SR140 WILD-TYPE     49     71     60     70     94
D707V9, multiclass
        clus
vv       SR140 MUTATED SR140 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SR140 MUTATED        2      3      0      2      1      0      1      0
  SR140 WILD-TYPE     67     45     39     14     52     20     20     38
                 vv
clus              CLUS_9
  SR140 MUTATED        1
  SR140 WILD-TYPE     49
D707V10, multiclass
        clus
vv       SR140 MUTATED SR140 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SR140 MUTATED        0      0      1      0      3      0
  SR140 WILD-TYPE     13     16     13     11      8      9
D707V11, multiclass
        clus
vv       SR140 MUTATED SR140 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SR140 MUTATED        0      0      0      1      0      2      1      0
  SR140 WILD-TYPE     11      7      7      8      8      5     10      9
                 vv
clus              CLUS_9
  SR140 MUTATED        0
  SR140 WILD-TYPE      5
D707V12, multiclass
        clus
vv       SR140 MUTATED SR140 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             2               5
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(708) Variable = ABI3BP MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABI3BP MUTATED        2      0      0      2      1
  ABI3BP WILD-TYPE     30     18     46     25     22
D708V1, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ABI3BP MUTATED        2      1      2
  ABI3BP WILD-TYPE     41     66     34
D708V2, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ABI3BP MUTATED        1     11      9
  ABI3BP WILD-TYPE     41    162    138
D708V3, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              1               41
  CLUS_2             11              162
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ABI3BP MUTATED        9      3      3
  ABI3BP WILD-TYPE     53     70     72
D708V4, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              9               53
  CLUS_2              3               70
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ABI3BP MUTATED        1      5     11
  ABI3BP WILD-TYPE     69    115     89
D708V5, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3             11               89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABI3BP MUTATED        2      1      2      1      1      6      2      0
  ABI3BP WILD-TYPE     39     25     28     28     38     63     18     14
                  vv
clus               CLUS_9
  ABI3BP MUTATED        2
  ABI3BP WILD-TYPE     20
D708V6, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              6               63
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABI3BP MUTATED        6      2      6      7
  ABI3BP WILD-TYPE     94     70     66    114
D708V7, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              6               94
  CLUS_2              2               70
  CLUS_3              6               66
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABI3BP MUTATED        6      4      4      4      3
  ABI3BP WILD-TYPE     53     71     70    115     35
D708V8, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              6               53
  CLUS_2              4               71
  CLUS_3              4               70
  CLUS_4              4              115
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABI3BP MUTATED        3      8      3      3      3
  ABI3BP WILD-TYPE     48     68     58     68     92
D708V9, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              3               48
  CLUS_2              8               68
  CLUS_3              3               58
  CLUS_4              3               68
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABI3BP MUTATED        2      6      2      2      4      1      0      2
  ABI3BP WILD-TYPE     67     42     37     14     49     19     21     36
                  vv
clus               CLUS_9
  ABI3BP MUTATED        1
  ABI3BP WILD-TYPE     49
D708V10, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              2               67
  CLUS_2              6               42
  CLUS_3              2               37
  CLUS_4              2               14
  CLUS_5              4               49
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABI3BP MUTATED        0      1      0      1      3      1
  ABI3BP WILD-TYPE     13     15     14     10      8      8
D708V11, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              3                8
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABI3BP MUTATED        0      1      0      1      1      0      2      1
  ABI3BP WILD-TYPE     11      6      7      8      7      7      9      8
                  vv
clus               CLUS_9
  ABI3BP MUTATED        0
  ABI3BP WILD-TYPE      5
D708V12, multiclass
        clus
vv       ABI3BP MUTATED ABI3BP WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(709) Variable = FBN2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBN2 MUTATED       10      0      0      4      2
  FBN2 WILD-TYPE     22     18     46     23     21
D709V1, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1           10             22
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            4             23
  CLUS_5            2             21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FBN2 MUTATED       11      2      3
  FBN2 WILD-TYPE     32     65     33
D709V2, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1           11             32
  CLUS_2            2             65
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FBN2 MUTATED        2     10     31
  FBN2 WILD-TYPE     40    163    116
D709V3, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1            2             40
  CLUS_2           10            163
  CLUS_3           31            116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FBN2 MUTATED       12      4     10
  FBN2 WILD-TYPE     50     69     65
D709V4, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1           12             50
  CLUS_2            4             69
  CLUS_3           10             65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FBN2 MUTATED        5     11     19
  FBN2 WILD-TYPE     65    109     81
D709V5, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1            5             65
  CLUS_2           11            109
  CLUS_3           19             81
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FBN2 MUTATED        5      2      1      3      3     15      2      1      3
  FBN2 WILD-TYPE     36     24     29     26     36     54     18     13     19
D709V6, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1            5             36
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            3             36
  CLUS_6           15             54
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBN2 MUTATED        6      8     11     18
  FBN2 WILD-TYPE     94     64     61    103
D709V7, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1            6             94
  CLUS_2            8             64
  CLUS_3           11             61
  CLUS_4           18            103
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBN2 MUTATED        4      6     14      8     11
  FBN2 WILD-TYPE     55     69     60    111     27
D709V8, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            6             69
  CLUS_3           14             60
  CLUS_4            8            111
  CLUS_5           11             27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBN2 MUTATED        1     14      6      4     16
  FBN2 WILD-TYPE     50     62     55     67     79
D709V9, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2           14             62
  CLUS_3            6             55
  CLUS_4            4             67
  CLUS_5           16             79
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FBN2 MUTATED        5     10      4      3      3      1      0     10      5
  FBN2 WILD-TYPE     64     38     35     13     50     19     21     28     45
D709V10, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1            5             64
  CLUS_2           10             38
  CLUS_3            4             35
  CLUS_4            3             13
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8           10             28
  CLUS_9            5             45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FBN2 MUTATED        1      2      1      2      4      2
  FBN2 WILD-TYPE     12     14     13      9      7      7
D709V11, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            2              9
  CLUS_5            4              7
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FBN2 MUTATED        1      0      0      2      1      2      5      1      0
  FBN2 WILD-TYPE     10      7      7      7      7      5      6      8      5
D709V12, multiclass
        clus
vv       FBN2 MUTATED FBN2 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            2              5
  CLUS_7            5              6
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(710) Variable = FAM98B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM98B MUTATED        1      0      0      0      0
  FAM98B WILD-TYPE     31     18     46     27     23
D710V1, multiclass
[1] "Remove cluster labels:" "FAM98B MUTATED"        
clus
  FAM98B MUTATED FAM98B WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AY-4071 
"FAM98B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM98B MUTATED        1      0      0
  FAM98B WILD-TYPE     42     67     36
D710V2, multiclass
[1] "Remove cluster labels:" "FAM98B MUTATED"        
clus
  FAM98B MUTATED FAM98B WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AY-4071 
"FAM98B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM98B MUTATED        0      1      3
  FAM98B WILD-TYPE     42    172    144
D710V3, multiclass
        clus
vv       FAM98B MUTATED FAM98B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM98B MUTATED        1      1      1
  FAM98B WILD-TYPE     61     72     74
D710V4, multiclass
        clus
vv       FAM98B MUTATED FAM98B WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM98B MUTATED        0      1      1
  FAM98B WILD-TYPE     70    119     99
D710V5, multiclass
[1] "Remove cluster labels:" "FAM98B MUTATED"        
clus
  FAM98B MUTATED FAM98B WILD-TYPE 
               2              288 
      TCGA-A6-2671       TCGA-A6-2672       TCGA-A6-2676       TCGA-A6-2677 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-A6-5656       TCGA-A6-5657 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-5659       TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-5664       TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3489       TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3510       TCGA-AA-3511       TCGA-AA-3514       TCGA-AA-3517 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521       TCGA-AA-3522 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3525       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3548       TCGA-AA-3552 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3558 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3655 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3697 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3712       TCGA-AA-3713       TCGA-AA-3715 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3930       TCGA-AA-3947       TCGA-AA-3950 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3982       TCGA-AA-3986 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00E 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00N       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A01P       TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A01T       TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02K       TCGA-AA-A02O       TCGA-AA-A02W 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A02Y       TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AD-5900 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6899       TCGA-AD-6965 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AU-6004       TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AY-6386       TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AZ-4682       TCGA-AZ-5407       TCGA-AZ-6598       TCGA-AZ-6599 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AZ-6606       TCGA-AZ-6607       TCGA-AZ-6608       TCGA-CA-5254 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CA-5255       TCGA-CA-5796       TCGA-CA-5797       TCGA-CA-6715 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CA-6716       TCGA-CA-6717       TCGA-CA-6718       TCGA-CA-6719 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CK-5914       TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-4746       TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-5344       TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-5861       TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-5868       TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6164       TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6168       TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6172       TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5538 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541       TCGA-D5-6529 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6535 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538       TCGA-D5-6539 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898       TCGA-D5-6920 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-D5-6926       TCGA-D5-6927 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6928       TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D4 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA       TCGA-DM-A1HB 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A28C       TCGA-DM-A28E       TCGA-DM-A28F 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A28G       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM98B MUTATED        0      0      0      0      0      1      0      0
  FAM98B WILD-TYPE     41     26     30     29     39     68     20     14
                  vv
clus               CLUS_9
  FAM98B MUTATED        1
  FAM98B WILD-TYPE     21
D710V6, multiclass
[1] "Remove cluster labels:" "FAM98B MUTATED"        
clus
  FAM98B MUTATED FAM98B WILD-TYPE 
               2              288 
      TCGA-A6-2671       TCGA-A6-2672       TCGA-A6-2676       TCGA-A6-2677 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-A6-5656       TCGA-A6-5657 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-5659       TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-5664       TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3489       TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3510       TCGA-AA-3511       TCGA-AA-3514       TCGA-AA-3517 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521       TCGA-AA-3522 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3525       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3548       TCGA-AA-3552 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3558 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3655 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3697 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3712       TCGA-AA-3713       TCGA-AA-3715 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3930       TCGA-AA-3947       TCGA-AA-3950 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3982       TCGA-AA-3986 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00E 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00N       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A01P       TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A01T       TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02K       TCGA-AA-A02O       TCGA-AA-A02W 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-A02Y       TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AD-5900 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6899       TCGA-AD-6965 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AU-6004       TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AY-6386       TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AZ-4682       TCGA-AZ-5407       TCGA-AZ-6598       TCGA-AZ-6599 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AZ-6606       TCGA-AZ-6607       TCGA-AZ-6608       TCGA-CA-5254 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CA-5255       TCGA-CA-5796       TCGA-CA-5797       TCGA-CA-6715 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CA-6716       TCGA-CA-6717       TCGA-CA-6718       TCGA-CA-6719 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CK-5914       TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-4746       TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-5344       TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-5861       TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-5868       TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6164       TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6168       TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6172       TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5538 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541       TCGA-D5-6529 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6535 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538       TCGA-D5-6539 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898       TCGA-D5-6920 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-D5-6926       TCGA-D5-6927 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6928       TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D4 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA       TCGA-DM-A1HB 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A28C       TCGA-DM-A28E       TCGA-DM-A28F 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A28G       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM98B MUTATED        0      1      2      1
  FAM98B WILD-TYPE    100     71     70    120
D710V7, multiclass
        clus
vv       FAM98B MUTATED FAM98B WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM98B MUTATED        1      1      1      0      1
  FAM98B WILD-TYPE     58     74     73    119     37
D710V8, multiclass
        clus
vv       FAM98B MUTATED FAM98B WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM98B MUTATED        1      2      0      0      1
  FAM98B WILD-TYPE     50     74     61     71     94
D710V9, multiclass
        clus
vv       FAM98B MUTATED FAM98B WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM98B MUTATED        2      1      0      0      0      0      0      1
  FAM98B WILD-TYPE     67     47     39     16     53     20     21     37
                  vv
clus               CLUS_9
  FAM98B MUTATED        0
  FAM98B WILD-TYPE     50
D710V10, multiclass
        clus
vv       FAM98B MUTATED FAM98B WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM98B MUTATED        0      0      1      0      0      0
  FAM98B WILD-TYPE     13     16     13     11     11      9
D710V11, multiclass
[1] "Remove cluster labels:" "FAM98B MUTATED"        
clus
  FAM98B MUTATED FAM98B WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6628 
"FAM98B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM98B MUTATED        0      0      0      0      0      1      0      0
  FAM98B WILD-TYPE     11      7      7      9      8      6     11      9
                  vv
clus               CLUS_9
  FAM98B MUTATED        0
  FAM98B WILD-TYPE      5
D710V12, multiclass
[1] "Remove cluster labels:" "FAM98B MUTATED"        
clus
  FAM98B MUTATED FAM98B WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" "FAM98B WILD-TYPE" 
      TCGA-G4-6628 
"FAM98B WILD-TYPE" 

Clustering(711) Variable = KDM5C MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM5C MUTATED        7      0      1      0      0
  KDM5C WILD-TYPE     25     18     45     27     23
D711V1, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             7              25
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED        7      1      0
  KDM5C WILD-TYPE     36     66     36
D711V2, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             7              36
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED        1      7     13
  KDM5C WILD-TYPE     41    166    134
D711V3, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             1              41
  CLUS_2             7             166
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED        5      3      5
  KDM5C WILD-TYPE     57     70     70
D711V4, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             5              57
  CLUS_2             3              70
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED        3      8      6
  KDM5C WILD-TYPE     67    112     94
D711V5, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             3              67
  CLUS_2             8             112
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM5C MUTATED        1      0      0      4      5      1      2      0
  KDM5C WILD-TYPE     40     26     30     25     34     68     18     14
                 vv
clus              CLUS_9
  KDM5C MUTATED        4
  KDM5C WILD-TYPE     18
D711V6, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             4              25
  CLUS_5             5              34
  CLUS_6             1              68
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             4              18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM5C MUTATED        4      5      3      9
  KDM5C WILD-TYPE     96     67     69    112
D711V7, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             4              96
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM5C MUTATED        3      4      5      2      7
  KDM5C WILD-TYPE     56     71     69    117     31
D711V8, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             3              56
  CLUS_2             4              71
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM5C MUTATED        3      6      3      2      7
  KDM5C WILD-TYPE     48     70     58     69     88
D711V9, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             3              48
  CLUS_2             6              70
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM5C MUTATED        3      4      0      1      3      2      0      7
  KDM5C WILD-TYPE     66     44     39     15     50     18     21     31
                 vv
clus              CLUS_9
  KDM5C MUTATED        1
  KDM5C WILD-TYPE     49
D711V10, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             3              66
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             7              31
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KDM5C MUTATED        1      1      0      0      0      0
  KDM5C WILD-TYPE     12     15     14     11     11      9
D711V11, multiclass
[1] "Remove cluster labels:" "KDM5C MUTATED"         
clus
  KDM5C MUTATED KDM5C WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-G4-6299      TCGA-G4-6303 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KDM5C MUTATED        0      1      0      0      0      0      0      0
  KDM5C WILD-TYPE     11      6      7      9      8      7     11      9
                 vv
clus              CLUS_9
  KDM5C MUTATED        1
  KDM5C WILD-TYPE      4
D711V12, multiclass
[1] "Remove cluster labels:" "KDM5C MUTATED"         
clus
  KDM5C MUTATED KDM5C WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-G4-6299      TCGA-G4-6303 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 

Clustering(712) Variable = ARAP3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARAP3 MUTATED        4      0      0      1      0
  ARAP3 WILD-TYPE     28     18     46     26     23
D712V1, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        5      0      0
  ARAP3 WILD-TYPE     38     67     36
D712V2, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        1      4     15
  ARAP3 WILD-TYPE     41    169    132
D712V3, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        7      2      6
  ARAP3 WILD-TYPE     55     71     69
D712V4, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             2              71
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        0      4     12
  ARAP3 WILD-TYPE     70    116     88
D712V5, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARAP3 MUTATED        1      0      1      1      1      9      2      1
  ARAP3 WILD-TYPE     40     26     29     28     38     60     18     13
                 vv
clus              CLUS_9
  ARAP3 MUTATED        0
  ARAP3 WILD-TYPE     22
D712V6, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             9              60
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARAP3 MUTATED        4      5      6      6
  ARAP3 WILD-TYPE     96     67     66    115
D712V7, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             5              67
  CLUS_3             6              66
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARAP3 MUTATED        3      3      9      0      6
  ARAP3 WILD-TYPE     56     72     65    119     32
D712V8, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             9              65
  CLUS_4             0             119
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARAP3 MUTATED        3      9      3      0      5
  ARAP3 WILD-TYPE     48     67     58     71     90
D712V9, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             9              67
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARAP3 MUTATED        4      5      2      3      0      1      1      3
  ARAP3 WILD-TYPE     65     43     37     13     53     19     20     35
                 vv
clus              CLUS_9
  ARAP3 MUTATED        1
  ARAP3 WILD-TYPE     49
D712V10, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             5              43
  CLUS_3             2              37
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARAP3 MUTATED        0      1      1      1      2      1
  ARAP3 WILD-TYPE     13     15     13     10      9      8
D712V11, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARAP3 MUTATED        2      0      0      0      0      0      4      0
  ARAP3 WILD-TYPE      9      7      7      9      8      7      7      9
                 vv
clus              CLUS_9
  ARAP3 MUTATED        0
  ARAP3 WILD-TYPE      5
D712V12, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             4               7
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(713) Variable = CHRNA3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHRNA3 MUTATED        1      0      0      0      0
  CHRNA3 WILD-TYPE     31     18     46     27     23
D713V1, multiclass
[1] "Remove cluster labels:" "CHRNA3 MUTATED"        
clus
  CHRNA3 MUTATED CHRNA3 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3812 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AY-4071 
"CHRNA3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHRNA3 MUTATED        1      0      0
  CHRNA3 WILD-TYPE     42     67     36
D713V2, multiclass
[1] "Remove cluster labels:" "CHRNA3 MUTATED"        
clus
  CHRNA3 MUTATED CHRNA3 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3812 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" "CHRNA3 WILD-TYPE" 
      TCGA-AY-4071 
"CHRNA3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHRNA3 MUTATED        3      2      5
  CHRNA3 WILD-TYPE     39    171    142
D713V3, multiclass
        clus
vv       CHRNA3 MUTATED CHRNA3 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              2              171
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHRNA3 MUTATED        4      2      3
  CHRNA3 WILD-TYPE     58     71     72
D713V4, multiclass
        clus
vv       CHRNA3 MUTATED CHRNA3 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHRNA3 MUTATED        3      2      3
  CHRNA3 WILD-TYPE     67    118     97
D713V5, multiclass
        clus
vv       CHRNA3 MUTATED CHRNA3 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHRNA3 MUTATED        1      0      0      1      3      3      0      0
  CHRNA3 WILD-TYPE     40     26     30     28     36     66     20     14
                  vv
clus               CLUS_9
  CHRNA3 MUTATED        0
  CHRNA3 WILD-TYPE     22
D713V6, multiclass
        clus
vv       CHRNA3 MUTATED CHRNA3 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHRNA3 MUTATED        2      4      3      1
  CHRNA3 WILD-TYPE     98     68     69    120
D713V7, multiclass
        clus
vv       CHRNA3 MUTATED CHRNA3 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              3               69
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHRNA3 MUTATED        2      2      5      0      1
  CHRNA3 WILD-TYPE     57     73     69    119     37
D713V8, multiclass
        clus
vv       CHRNA3 MUTATED CHRNA3 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHRNA3 MUTATED        2      5      2      1      0
  CHRNA3 WILD-TYPE     49     71     59     70     95
D713V9, multiclass
        clus
vv       CHRNA3 MUTATED CHRNA3 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHRNA3 MUTATED        2      2      0      2      3      1      0      0
  CHRNA3 WILD-TYPE     67     46     39     14     50     19     21     38
                  vv
clus               CLUS_9
  CHRNA3 MUTATED        0
  CHRNA3 WILD-TYPE     50
D713V10, multiclass
        clus
vv       CHRNA3 MUTATED CHRNA3 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHRNA3 MUTATED        1      0      1      0      2      0
  CHRNA3 WILD-TYPE     12     16     13     11      9      9
D713V11, multiclass
        clus
vv       CHRNA3 MUTATED CHRNA3 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHRNA3 MUTATED        0      0      0      1      1      0      1      0
  CHRNA3 WILD-TYPE     11      7      7      8      7      7     10      9
                  vv
clus               CLUS_9
  CHRNA3 MUTATED        1
  CHRNA3 WILD-TYPE      4
D713V12, multiclass
        clus
vv       CHRNA3 MUTATED CHRNA3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(714) Variable = FLT3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLT3 MUTATED        2      0      0      2      0
  FLT3 WILD-TYPE     30     18     46     25     23
D714V1, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT3 MUTATED        2      1      1
  FLT3 WILD-TYPE     41     66     35
D714V2, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT3 MUTATED        1     10     12
  FLT3 WILD-TYPE     41    163    135
D714V3, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2           10            163
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT3 MUTATED        4     10      5
  FLT3 WILD-TYPE     58     63     70
D714V4, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            4             58
  CLUS_2           10             63
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT3 MUTATED        4     12      7
  FLT3 WILD-TYPE     66    108     93
D714V5, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            4             66
  CLUS_2           12            108
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLT3 MUTATED        4      1      3      4      1      5      2      2      1
  FLT3 WILD-TYPE     37     25     27     25     38     64     18     12     21
D714V6, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            4             37
  CLUS_2            1             25
  CLUS_3            3             27
  CLUS_4            4             25
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLT3 MUTATED        8      5      7      4
  FLT3 WILD-TYPE     92     67     65    117
D714V7, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            8             92
  CLUS_2            5             67
  CLUS_3            7             65
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLT3 MUTATED        5     10      5      2      2
  FLT3 WILD-TYPE     54     65     69    117     36
D714V8, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            5             54
  CLUS_2           10             65
  CLUS_3            5             69
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLT3 MUTATED        8      6      3      3      4
  FLT3 WILD-TYPE     43     70     58     68     91
D714V9, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            8             43
  CLUS_2            6             70
  CLUS_3            3             58
  CLUS_4            3             68
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLT3 MUTATED        7      5      1      1      5      3      0      2      0
  FLT3 WILD-TYPE     62     43     38     15     48     17     21     36     50
D714V10, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            7             62
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            5             48
  CLUS_6            3             17
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FLT3 MUTATED        0      0      1      1      0      2
  FLT3 WILD-TYPE     13     16     13     10     11      7
D714V11, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLT3 MUTATED        1      0      1      0      1      0      0      1      0
  FLT3 WILD-TYPE     10      7      6      9      7      7     11      8      5
D714V12, multiclass
        clus
vv       FLT3 MUTATED FLT3 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(715) Variable = STX16 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STX16 MUTATED        2      0      1      0      0
  STX16 WILD-TYPE     30     18     45     27     23
D715V1, multiclass
        clus
vv       STX16 MUTATED STX16 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STX16 MUTATED        2      0      1
  STX16 WILD-TYPE     41     67     35
D715V2, multiclass
        clus
vv       STX16 MUTATED STX16 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STX16 MUTATED        0      3      4
  STX16 WILD-TYPE     42    170    143
D715V3, multiclass
        clus
vv       STX16 MUTATED STX16 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STX16 MUTATED        3      1      0
  STX16 WILD-TYPE     59     72     75
D715V4, multiclass
        clus
vv       STX16 MUTATED STX16 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STX16 MUTATED        1      1      4
  STX16 WILD-TYPE     69    119     96
D715V5, multiclass
        clus
vv       STX16 MUTATED STX16 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STX16 MUTATED        0      0      0      1      1      2      1      0
  STX16 WILD-TYPE     41     26     30     28     38     67     19     14
                 vv
clus              CLUS_9
  STX16 MUTATED        1
  STX16 WILD-TYPE     21
D715V6, multiclass
        clus
vv       STX16 MUTATED STX16 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STX16 MUTATED        1      0      3      3
  STX16 WILD-TYPE     99     72     69    118
D715V7, multiclass
        clus
vv       STX16 MUTATED STX16 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             0              72
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STX16 MUTATED        2      1      1      1      2
  STX16 WILD-TYPE     57     74     73    118     36
D715V8, multiclass
        clus
vv       STX16 MUTATED STX16 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STX16 MUTATED        1      1      2      1      2
  STX16 WILD-TYPE     50     75     59     70     93
D715V9, multiclass
        clus
vv       STX16 MUTATED STX16 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STX16 MUTATED        1      3      0      0      0      0      0      2
  STX16 WILD-TYPE     68     45     39     16     53     20     21     36
                 vv
clus              CLUS_9
  STX16 MUTATED        1
  STX16 WILD-TYPE     49
D715V10, multiclass
        clus
vv       STX16 MUTATED STX16 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STX16 MUTATED        0      2      0      0      0      0
  STX16 WILD-TYPE     13     14     14     11     11      9
D715V11, multiclass
[1] "Remove cluster labels:" "STX16 MUTATED"         
clus
  STX16 MUTATED STX16 WILD-TYPE 
              2              72 
     TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-G4-6299      TCGA-G4-6303 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STX16 MUTATED        0      2      0      0      0      0      0      0
  STX16 WILD-TYPE     11      5      7      9      8      7     11      9
                 vv
clus              CLUS_9
  STX16 MUTATED        0
  STX16 WILD-TYPE      5
D715V12, multiclass
[1] "Remove cluster labels:" "STX16 MUTATED"         
clus
  STX16 MUTATED STX16 WILD-TYPE 
              2              72 
     TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-G4-6299      TCGA-G4-6303 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" "STX16 WILD-TYPE" 

Clustering(716) Variable = ERBB2IP MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB2IP MUTATED        1      0      0      3      0
  ERBB2IP WILD-TYPE     31     18     46     24     23
D716V1, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               3                24
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ERBB2IP MUTATED        3      1      0
  ERBB2IP WILD-TYPE     40     66     36
D716V2, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ERBB2IP MUTATED        1      2     12
  ERBB2IP WILD-TYPE     41    171    135
D716V3, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3              12               135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ERBB2IP MUTATED        7      1      3
  ERBB2IP WILD-TYPE     55     72     72
D716V4, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               7                55
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ERBB2IP MUTATED        1      5      8
  ERBB2IP WILD-TYPE     69    115     92
D716V5, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               115
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB2IP MUTATED        2      1      1      2      2      6      0      0
  ERBB2IP WILD-TYPE     39     25     29     27     37     63     20     14
                   vv
clus                CLUS_9
  ERBB2IP MUTATED        0
  ERBB2IP WILD-TYPE     22
D716V6, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               2                37
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB2IP MUTATED        1      3      6      5
  ERBB2IP WILD-TYPE     99     69     66    116
D716V7, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               6                66
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB2IP MUTATED        2      2      6      2      3
  ERBB2IP WILD-TYPE     57     73     68    117     35
D716V8, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               6                68
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB2IP MUTATED        1      6      2      1      4
  ERBB2IP WILD-TYPE     50     70     59     70     91
D716V9, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               1                50
  CLUS_2               6                70
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB2IP MUTATED        4      3      0      1      2      1      0      2
  ERBB2IP WILD-TYPE     65     45     39     15     51     19     21     36
                   vv
clus                CLUS_9
  ERBB2IP MUTATED        1
  ERBB2IP WILD-TYPE     49
D716V10, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               4                65
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERBB2IP MUTATED        0      0      3      1      1      0
  ERBB2IP WILD-TYPE     13     16     11     10     10      9
D716V11, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               3                11
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB2IP MUTATED        1      0      0      1      0      2      1      0
  ERBB2IP WILD-TYPE     10      7      7      8      8      5     10      9
                   vv
clus                CLUS_9
  ERBB2IP MUTATED        0
  ERBB2IP WILD-TYPE      5
D716V12, multiclass
        clus
vv       ERBB2IP MUTATED ERBB2IP WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               2                 5
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(717) Variable = RNF145 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF145 MUTATED        1      0      0      0      0
  RNF145 WILD-TYPE     31     18     46     27     23
D717V1, multiclass
[1] "Remove cluster labels:" "RNF145 MUTATED"        
clus
  RNF145 MUTATED RNF145 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AY-4071 
"RNF145 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF145 MUTATED        1      0      0
  RNF145 WILD-TYPE     42     67     36
D717V2, multiclass
[1] "Remove cluster labels:" "RNF145 MUTATED"        
clus
  RNF145 MUTATED RNF145 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" "RNF145 WILD-TYPE" 
      TCGA-AY-4071 
"RNF145 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF145 MUTATED        2      2     10
  RNF145 WILD-TYPE     40    171    137
D717V3, multiclass
        clus
vv       RNF145 MUTATED RNF145 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              2              171
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF145 MUTATED        9      0      3
  RNF145 WILD-TYPE     53     73     72
D717V4, multiclass
        clus
vv       RNF145 MUTATED RNF145 WILD-TYPE
  CLUS_1              9               53
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF145 MUTATED        2      4      7
  RNF145 WILD-TYPE     68    116     93
D717V5, multiclass
        clus
vv       RNF145 MUTATED RNF145 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF145 MUTATED        0      1      2      2      1      6      1      0
  RNF145 WILD-TYPE     41     25     28     27     38     63     19     14
                  vv
clus               CLUS_9
  RNF145 MUTATED        0
  RNF145 WILD-TYPE     22
D717V6, multiclass
        clus
vv       RNF145 MUTATED RNF145 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              6               63
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF145 MUTATED        2      3      6      3
  RNF145 WILD-TYPE     98     69     66    118
D717V7, multiclass
        clus
vv       RNF145 MUTATED RNF145 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              6               66
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF145 MUTATED        1      2      8      1      2
  RNF145 WILD-TYPE     58     73     66    118     36
D717V8, multiclass
        clus
vv       RNF145 MUTATED RNF145 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              8               66
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF145 MUTATED        1      5      3      1      4
  RNF145 WILD-TYPE     50     71     58     70     91
D717V9, multiclass
        clus
vv       RNF145 MUTATED RNF145 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF145 MUTATED        3      3      0      1      3      0      0      2
  RNF145 WILD-TYPE     66     45     39     15     50     20     21     36
                  vv
clus               CLUS_9
  RNF145 MUTATED        2
  RNF145 WILD-TYPE     48
D717V10, multiclass
        clus
vv       RNF145 MUTATED RNF145 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF145 MUTATED        1      1      2      0      3      0
  RNF145 WILD-TYPE     12     15     12     11      8      9
D717V11, multiclass
        clus
vv       RNF145 MUTATED RNF145 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF145 MUTATED        1      0      0      2      1      0      2      1
  RNF145 WILD-TYPE     10      7      7      7      7      7      9      8
                  vv
clus               CLUS_9
  RNF145 MUTATED        0
  RNF145 WILD-TYPE      5
D717V12, multiclass
        clus
vv       RNF145 MUTATED RNF145 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(718) Variable = KTN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KTN1 MUTATED        4      0      0      1      0
  KTN1 WILD-TYPE     28     18     46     26     23
D718V1, multiclass
        clus
vv       KTN1 MUTATED KTN1 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KTN1 MUTATED        5      0      0
  KTN1 WILD-TYPE     38     67     36
D718V2, multiclass
        clus
vv       KTN1 MUTATED KTN1 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KTN1 MUTATED        0      3     15
  KTN1 WILD-TYPE     42    170    132
D718V3, multiclass
        clus
vv       KTN1 MUTATED KTN1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3           15            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KTN1 MUTATED        3      3      6
  KTN1 WILD-TYPE     59     70     69
D718V4, multiclass
        clus
vv       KTN1 MUTATED KTN1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            3             70
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KTN1 MUTATED        0      7      9
  KTN1 WILD-TYPE     70    113     91
D718V5, multiclass
        clus
vv       KTN1 MUTATED KTN1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            7            113
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KTN1 MUTATED        1      2      2      1      2      5      2      1      0
  KTN1 WILD-TYPE     40     24     28     28     37     64     18     13     22
D718V6, multiclass
        clus
vv       KTN1 MUTATED KTN1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KTN1 MUTATED        2      6      4      6
  KTN1 WILD-TYPE     98     66     68    115
D718V7, multiclass
        clus
vv       KTN1 MUTATED KTN1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            6             66
  CLUS_3            4             68
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KTN1 MUTATED        2      2      8      0      6
  KTN1 WILD-TYPE     57     73     66    119     32
D718V8, multiclass
        clus
vv       KTN1 MUTATED KTN1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            8             66
  CLUS_4            0            119
  CLUS_5            6             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KTN1 MUTATED        0      7      4      0      5
  KTN1 WILD-TYPE     51     69     57     71     90
D718V9, multiclass
        clus
vv       KTN1 MUTATED KTN1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            7             69
  CLUS_3            4             57
  CLUS_4            0             71
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KTN1 MUTATED        1      5      0      4      0      2      0      3      1
  KTN1 WILD-TYPE     68     43     39     12     53     18     21     35     49
D718V10, multiclass
        clus
vv       KTN1 MUTATED KTN1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            5             43
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KTN1 MUTATED        0      0      0      1      1      0
  KTN1 WILD-TYPE     13     16     14     10     10      9
D718V11, multiclass
[1] "Remove cluster labels:" "KTN1 MUTATED"          
clus
  KTN1 MUTATED KTN1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KTN1 MUTATED        0      0      1      1      0      0      0      0      0
  KTN1 WILD-TYPE     11      7      6      8      8      7     11      9      5
D718V12, multiclass
[1] "Remove cluster labels:" "KTN1 MUTATED"          
clus
  KTN1 MUTATED KTN1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" "KTN1 WILD-TYPE" 

Clustering(719) Variable = NIPBL MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NIPBL MUTATED        8      0      0      1      0
  NIPBL WILD-TYPE     24     18     46     26     23
D719V1, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1             8              24
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NIPBL MUTATED        7      1      1
  NIPBL WILD-TYPE     36     66     35
D719V2, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1             7              36
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NIPBL MUTATED        4      5     23
  NIPBL WILD-TYPE     38    168    124
D719V3, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1             4              38
  CLUS_2             5             168
  CLUS_3            23             124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NIPBL MUTATED       13      4      5
  NIPBL WILD-TYPE     49     69     70
D719V4, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1            13              49
  CLUS_2             4              69
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NIPBL MUTATED        1     11     16
  NIPBL WILD-TYPE     69    109     84
D719V5, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1             1              69
  CLUS_2            11             109
  CLUS_3            16              84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NIPBL MUTATED        4      2      2      2      5     10      2      1
  NIPBL WILD-TYPE     37     24     28     27     34     59     18     13
                 vv
clus              CLUS_9
  NIPBL MUTATED        0
  NIPBL WILD-TYPE     22
D719V6, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1             4              37
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             5              34
  CLUS_6            10              59
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NIPBL MUTATED        5      9      7     11
  NIPBL WILD-TYPE     95     63     65    110
D719V7, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1             5              95
  CLUS_2             9              63
  CLUS_3             7              65
  CLUS_4            11             110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NIPBL MUTATED        3      5     13      4      7
  NIPBL WILD-TYPE     56     70     61    115     31
D719V8, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1             3              56
  CLUS_2             5              70
  CLUS_3            13              61
  CLUS_4             4             115
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NIPBL MUTATED        2     14      3      3     10
  NIPBL WILD-TYPE     49     62     58     68     85
D719V9, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1             2              49
  CLUS_2            14              62
  CLUS_3             3              58
  CLUS_4             3              68
  CLUS_5            10              85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NIPBL MUTATED        6      7      2      2      4      2      2      5
  NIPBL WILD-TYPE     63     41     37     14     49     18     19     33
                 vv
clus              CLUS_9
  NIPBL MUTATED        2
  NIPBL WILD-TYPE     48
D719V10, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1             6              63
  CLUS_2             7              41
  CLUS_3             2              37
  CLUS_4             2              14
  CLUS_5             4              49
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             5              33
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NIPBL MUTATED        1      1      1      0      4      0
  NIPBL WILD-TYPE     12     15     13     11      7      9
D719V11, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NIPBL MUTATED        1      0      0      2      1      1      2      0
  NIPBL WILD-TYPE     10      7      7      7      7      6      9      9
                 vv
clus              CLUS_9
  NIPBL MUTATED        0
  NIPBL WILD-TYPE      5
D719V12, multiclass
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(720) Variable = DOCK1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK1 MUTATED        3      0      1      2      0
  DOCK1 WILD-TYPE     29     18     45     25     23
D720V1, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK1 MUTATED        2      3      1
  DOCK1 WILD-TYPE     41     64     35
D720V2, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             3              64
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK1 MUTATED        1      5     18
  DOCK1 WILD-TYPE     41    168    129
D720V3, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3            18             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK1 MUTATED        5      5      8
  DOCK1 WILD-TYPE     57     68     67
D720V4, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             5              68
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK1 MUTATED        4      7      8
  DOCK1 WILD-TYPE     66    113     92
D720V5, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             7             113
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK1 MUTATED        3      3      1      0      2      8      2      0
  DOCK1 WILD-TYPE     38     23     29     29     37     61     18     14
                 vv
clus              CLUS_9
  DOCK1 MUTATED        0
  DOCK1 WILD-TYPE     22
D720V6, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             8              61
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DOCK1 MUTATED        6      8      4      6
  DOCK1 WILD-TYPE     94     64     68    115
D720V7, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             6              94
  CLUS_2             8              64
  CLUS_3             4              68
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK1 MUTATED        1      7      9      4      3
  DOCK1 WILD-TYPE     58     68     65    115     35
D720V8, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             7              68
  CLUS_3             9              65
  CLUS_4             4             115
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK1 MUTATED        3     11      1      2      6
  DOCK1 WILD-TYPE     48     65     60     69     89
D720V9, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2            11              65
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK1 MUTATED        3      2      1      6      3      3      0      4
  DOCK1 WILD-TYPE     66     46     38     10     50     17     21     34
                 vv
clus              CLUS_9
  DOCK1 MUTATED        1
  DOCK1 WILD-TYPE     49
D720V10, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             6              10
  CLUS_5             3              50
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DOCK1 MUTATED        0      2      1      0      2      0
  DOCK1 WILD-TYPE     13     14     13     11      9      9
D720V11, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK1 MUTATED        1      0      0      1      1      0      1      0
  DOCK1 WILD-TYPE     10      7      7      8      7      7     10      9
                 vv
clus              CLUS_9
  DOCK1 MUTATED        1
  DOCK1 WILD-TYPE      4
D720V12, multiclass
        clus
vv       DOCK1 MUTATED DOCK1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(721) Variable = CDH8 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH8 MUTATED        5      1      0      3      0
  CDH8 WILD-TYPE     27     17     46     24     23
D721V1, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH8 MUTATED        8      1      0
  CDH8 WILD-TYPE     35     66     36
D721V2, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            8             35
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH8 MUTATED        1      8     24
  CDH8 WILD-TYPE     41    165    123
D721V3, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            8            165
  CLUS_3           24            123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH8 MUTATED        8      6      9
  CDH8 WILD-TYPE     54     67     66
D721V4, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            8             54
  CLUS_2            6             67
  CLUS_3            9             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH8 MUTATED        5     11     11
  CDH8 WILD-TYPE     65    109     89
D721V5, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            5             65
  CLUS_2           11            109
  CLUS_3           11             89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDH8 MUTATED        2      3      2      3      4     11      2      0      0
  CDH8 WILD-TYPE     39     23     28     26     35     58     18     14     22
D721V6, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            3             23
  CLUS_3            2             28
  CLUS_4            3             26
  CLUS_5            4             35
  CLUS_6           11             58
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDH8 MUTATED        8      9      6      9
  CDH8 WILD-TYPE     92     63     66    112
D721V7, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            8             92
  CLUS_2            9             63
  CLUS_3            6             66
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH8 MUTATED        3      9     10      3      7
  CDH8 WILD-TYPE     56     66     64    116     31
D721V8, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            9             66
  CLUS_3           10             64
  CLUS_4            3            116
  CLUS_5            7             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH8 MUTATED        1     14      4      4      7
  CDH8 WILD-TYPE     50     62     57     67     88
D721V9, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            1             50
  CLUS_2           14             62
  CLUS_3            4             57
  CLUS_4            4             67
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDH8 MUTATED        7      4      2      5      3      0      2      4      3
  CDH8 WILD-TYPE     62     44     37     11     50     20     19     34     47
D721V10, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            7             62
  CLUS_2            4             44
  CLUS_3            2             37
  CLUS_4            5             11
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            2             19
  CLUS_8            4             34
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDH8 MUTATED        0      0      2      0      2      2
  CDH8 WILD-TYPE     13     16     12     11      9      7
D721V11, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDH8 MUTATED        1      0      0      1      1      0      2      1      0
  CDH8 WILD-TYPE     10      7      7      8      7      7      9      8      5
D721V12, multiclass
        clus
vv       CDH8 MUTATED CDH8 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(722) Variable = POLDIP3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLDIP3 MUTATED        2      0      0      0      0
  POLDIP3 WILD-TYPE     30     18     46     27     23
D722V1, multiclass
[1] "Remove cluster labels:" "POLDIP3 MUTATED"       
clus
  POLDIP3 MUTATED POLDIP3 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3812 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3952 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  POLDIP3 MUTATED        2      0      0
  POLDIP3 WILD-TYPE     41     67     36
D722V2, multiclass
[1] "Remove cluster labels:" "POLDIP3 MUTATED"       
clus
  POLDIP3 MUTATED POLDIP3 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3812 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3952 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  POLDIP3 MUTATED        1      0      4
  POLDIP3 WILD-TYPE     41    173    143
D722V3, multiclass
        clus
vv       POLDIP3 MUTATED POLDIP3 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               0               173
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  POLDIP3 MUTATED        0      0      2
  POLDIP3 WILD-TYPE     62     73     73
D722V4, multiclass
[1] "Remove cluster labels:" "POLDIP3 MUTATED"       
clus
  POLDIP3 MUTATED POLDIP3 WILD-TYPE 
                2               208 
       TCGA-A6-2671        TCGA-A6-2677        TCGA-A6-3809        TCGA-A6-3810 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-4105        TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137        TCGA-A6-6138 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AA-3655        TCGA-AA-3660        TCGA-AA-3662 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3663        TCGA-AA-3697        TCGA-AA-3712        TCGA-AA-3713 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6888        TCGA-AD-6890 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AD-6895        TCGA-AD-6899        TCGA-AD-6901        TCGA-AD-6963 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AD-6964        TCGA-AD-6965        TCGA-AU-3779        TCGA-AU-6004 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4681 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AZ-4682        TCGA-AZ-5403        TCGA-AZ-5407        TCGA-AZ-6598 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AZ-6599        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6606        TCGA-AZ-6607        TCGA-AZ-6608 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CA-5254        TCGA-CA-5255        TCGA-CA-5796        TCGA-CA-5797 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CA-6715        TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CA-6719        TCGA-CK-4947        TCGA-CK-4948        TCGA-CK-4950 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CK-4952        TCGA-CK-5912        TCGA-CK-5913        TCGA-CK-5914 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CK-5915        TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-4746        TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-5344        TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-5861        TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-5868        TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-6164        TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-6168        TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-6172        TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-D5-5541        TCGA-D5-6529        TCGA-D5-6532        TCGA-D5-6533 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6535        TCGA-D5-6536        TCGA-D5-6537 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-D5-6538        TCGA-D5-6539        TCGA-D5-6540        TCGA-D5-6541 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-D5-6898        TCGA-D5-6920        TCGA-D5-6922        TCGA-D5-6923 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-D5-6924        TCGA-D5-6926        TCGA-D5-6927        TCGA-D5-6928 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-D5-6929        TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-D5-7000        TCGA-DM-A0X9        TCGA-DM-A0XD        TCGA-DM-A0XF 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-DM-A1HA        TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A285 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-DM-A28H        TCGA-DM-A28K        TCGA-F4-6459        TCGA-F4-6460 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  POLDIP3 MUTATED        1      3      0
  POLDIP3 WILD-TYPE     69    117    100
D722V5, multiclass
        clus
vv       POLDIP3 MUTATED POLDIP3 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               0               100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POLDIP3 MUTATED        0      1      1      0      1      0      1      0
  POLDIP3 WILD-TYPE     41     25     29     29     38     69     19     14
                   vv
clus                CLUS_9
  POLDIP3 MUTATED        0
  POLDIP3 WILD-TYPE     22
D722V6, multiclass
        clus
vv       POLDIP3 MUTATED POLDIP3 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               0                69
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  POLDIP3 MUTATED        0      1      1      3
  POLDIP3 WILD-TYPE    100     71     71    118
D722V7, multiclass
        clus
vv       POLDIP3 MUTATED POLDIP3 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               1                71
  CLUS_3               1                71
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLDIP3 MUTATED        0      0      2      0      3
  POLDIP3 WILD-TYPE     59     75     72    119     35
D722V8, multiclass
        clus
vv       POLDIP3 MUTATED POLDIP3 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLDIP3 MUTATED        0      2      0      1      2
  POLDIP3 WILD-TYPE     51     74     61     70     93
D722V9, multiclass
        clus
vv       POLDIP3 MUTATED POLDIP3 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POLDIP3 MUTATED        0      0      0      2      1      0      1      1
  POLDIP3 WILD-TYPE     69     48     39     14     52     20     20     37
                   vv
clus                CLUS_9
  POLDIP3 MUTATED        0
  POLDIP3 WILD-TYPE     50
D722V10, multiclass
        clus
vv       POLDIP3 MUTATED POLDIP3 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  POLDIP3 MUTATED        0      0      0      0      2      0
  POLDIP3 WILD-TYPE     13     16     14     11      9      9
D722V11, multiclass
[1] "Remove cluster labels:" "POLDIP3 MUTATED"       
clus
  POLDIP3 MUTATED POLDIP3 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6901 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POLDIP3 MUTATED        0      0      0      1      1      0      0      0
  POLDIP3 WILD-TYPE     11      7      7      8      7      7     11      9
                   vv
clus                CLUS_9
  POLDIP3 MUTATED        0
  POLDIP3 WILD-TYPE      5
D722V12, multiclass
[1] "Remove cluster labels:" "POLDIP3 MUTATED"       
clus
  POLDIP3 MUTATED POLDIP3 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6901 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" "POLDIP3 WILD-TYPE" 

Clustering(723) Variable = KLRC3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLRC3 MUTATED        1      0      0      0      0
  KLRC3 WILD-TYPE     31     18     46     27     23
D723V1, multiclass
[1] "Remove cluster labels:" "KLRC3 MUTATED"         
clus
  KLRC3 MUTATED KLRC3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AY-4071 
"KLRC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLRC3 MUTATED        1      0      0
  KLRC3 WILD-TYPE     42     67     36
D723V2, multiclass
[1] "Remove cluster labels:" "KLRC3 MUTATED"         
clus
  KLRC3 MUTATED KLRC3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AY-4071 
"KLRC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLRC3 MUTATED        1      0      4
  KLRC3 WILD-TYPE     41    173    143
D723V3, multiclass
        clus
vv       KLRC3 MUTATED KLRC3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLRC3 MUTATED        2      0      2
  KLRC3 WILD-TYPE     60     73     73
D723V4, multiclass
        clus
vv       KLRC3 MUTATED KLRC3 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLRC3 MUTATED        0      2      2
  KLRC3 WILD-TYPE     70    118     98
D723V5, multiclass
        clus
vv       KLRC3 MUTATED KLRC3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLRC3 MUTATED        1      0      0      1      1      0      0      1
  KLRC3 WILD-TYPE     40     26     30     28     38     69     20     13
                 vv
clus              CLUS_9
  KLRC3 MUTATED        0
  KLRC3 WILD-TYPE     22
D723V6, multiclass
        clus
vv       KLRC3 MUTATED KLRC3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             0              69
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLRC3 MUTATED        0      3      1      1
  KLRC3 WILD-TYPE    100     69     71    120
D723V7, multiclass
        clus
vv       KLRC3 MUTATED KLRC3 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLRC3 MUTATED        0      0      4      0      1
  KLRC3 WILD-TYPE     59     75     70    119     37
D723V8, multiclass
        clus
vv       KLRC3 MUTATED KLRC3 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLRC3 MUTATED        0      3      1      0      1
  KLRC3 WILD-TYPE     51     73     60     71     94
D723V9, multiclass
        clus
vv       KLRC3 MUTATED KLRC3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLRC3 MUTATED        0      1      0      1      2      1      0      0
  KLRC3 WILD-TYPE     69     47     39     15     51     19     21     38
                 vv
clus              CLUS_9
  KLRC3 MUTATED        0
  KLRC3 WILD-TYPE     50
D723V10, multiclass
        clus
vv       KLRC3 MUTATED KLRC3 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLRC3 MUTATED        0      0      0      0      1      1
  KLRC3 WILD-TYPE     13     16     14     11     10      8
D723V11, multiclass
[1] "Remove cluster labels:" "KLRC3 MUTATED"         
clus
  KLRC3 MUTATED KLRC3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6805 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625      TCGA-G4-6628 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLRC3 MUTATED        0      0      0      1      0      1      0      0
  KLRC3 WILD-TYPE     11      7      7      8      8      6     11      9
                 vv
clus              CLUS_9
  KLRC3 MUTATED        0
  KLRC3 WILD-TYPE      5
D723V12, multiclass
[1] "Remove cluster labels:" "KLRC3 MUTATED"         
clus
  KLRC3 MUTATED KLRC3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6805 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625      TCGA-G4-6628 
"KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" "KLRC3 WILD-TYPE" 

Clustering(724) Variable = ARMC9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARMC9 MUTATED        1      0      0      1      0
  ARMC9 WILD-TYPE     31     18     46     26     23
D724V1, multiclass
[1] "Remove cluster labels:" "ARMC9 MUTATED"         
clus
  ARMC9 MUTATED ARMC9 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARMC9 MUTATED        2      0      0
  ARMC9 WILD-TYPE     41     67     36
D724V2, multiclass
[1] "Remove cluster labels:" "ARMC9 MUTATED"         
clus
  ARMC9 MUTATED ARMC9 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARMC9 MUTATED        0      1      6
  ARMC9 WILD-TYPE     42    172    141
D724V3, multiclass
        clus
vv       ARMC9 MUTATED ARMC9 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARMC9 MUTATED        1      1      3
  ARMC9 WILD-TYPE     61     72     72
D724V4, multiclass
        clus
vv       ARMC9 MUTATED ARMC9 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARMC9 MUTATED        0      1      4
  ARMC9 WILD-TYPE     70    119     96
D724V5, multiclass
        clus
vv       ARMC9 MUTATED ARMC9 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARMC9 MUTATED        1      0      0      0      0      3      0      0
  ARMC9 WILD-TYPE     40     26     30     29     39     66     20     14
                 vv
clus              CLUS_9
  ARMC9 MUTATED        1
  ARMC9 WILD-TYPE     21
D724V6, multiclass
        clus
vv       ARMC9 MUTATED ARMC9 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARMC9 MUTATED        0      3      2      2
  ARMC9 WILD-TYPE    100     69     70    119
D724V7, multiclass
        clus
vv       ARMC9 MUTATED ARMC9 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARMC9 MUTATED        1      0      4      0      2
  ARMC9 WILD-TYPE     58     75     70    119     36
D724V8, multiclass
        clus
vv       ARMC9 MUTATED ARMC9 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARMC9 MUTATED        0      4      1      0      1
  ARMC9 WILD-TYPE     51     72     60     71     94
D724V9, multiclass
        clus
vv       ARMC9 MUTATED ARMC9 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARMC9 MUTATED        1      2      0      2      0      0      0      1
  ARMC9 WILD-TYPE     68     46     39     14     53     20     21     37
                 vv
clus              CLUS_9
  ARMC9 MUTATED        0
  ARMC9 WILD-TYPE     50
D724V10, multiclass
        clus
vv       ARMC9 MUTATED ARMC9 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARMC9 MUTATED        0      0      0      1      1      0
  ARMC9 WILD-TYPE     13     16     14     10     10      9
D724V11, multiclass
[1] "Remove cluster labels:" "ARMC9 MUTATED"         
clus
  ARMC9 MUTATED ARMC9 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARMC9 MUTATED        0      0      1      0      0      0      1      0
  ARMC9 WILD-TYPE     11      7      6      9      8      7     10      9
                 vv
clus              CLUS_9
  ARMC9 MUTATED        0
  ARMC9 WILD-TYPE      5
D724V12, multiclass
[1] "Remove cluster labels:" "ARMC9 MUTATED"         
clus
  ARMC9 MUTATED ARMC9 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" "ARMC9 WILD-TYPE" 

Clustering(725) Variable = MAGEB2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEB2 MUTATED        2      0      1      0      0
  MAGEB2 WILD-TYPE     30     18     45     27     23
D725V1, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEB2 MUTATED        1      1      1
  MAGEB2 WILD-TYPE     42     66     35
D725V2, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEB2 MUTATED        1      6      4
  MAGEB2 WILD-TYPE     41    167    143
D725V3, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              6              167
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEB2 MUTATED        5      2      1
  MAGEB2 WILD-TYPE     57     71     74
D725V4, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              2               71
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEB2 MUTATED        1      2      7
  MAGEB2 WILD-TYPE     69    118     93
D725V5, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEB2 MUTATED        0      0      1      0      0      4      2      0
  MAGEB2 WILD-TYPE     41     26     29     29     39     65     18     14
                  vv
clus               CLUS_9
  MAGEB2 MUTATED        3
  MAGEB2 WILD-TYPE     19
D725V6, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              3               19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAGEB2 MUTATED        3      3      3      2
  MAGEB2 WILD-TYPE     97     69     69    119
D725V7, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEB2 MUTATED        3      3      2      2      1
  MAGEB2 WILD-TYPE     56     72     72    117     37
D725V8, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3              2               72
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEB2 MUTATED        1      3      1      4      2
  MAGEB2 WILD-TYPE     50     73     60     67     93
D725V9, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              4               67
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEB2 MUTATED        2      2      2      1      1      1      0      1
  MAGEB2 WILD-TYPE     67     46     37     15     52     19     21     37
                  vv
clus               CLUS_9
  MAGEB2 MUTATED        1
  MAGEB2 WILD-TYPE     49
D725V10, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              2               37
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAGEB2 MUTATED        0      1      0      1      0      1
  MAGEB2 WILD-TYPE     13     15     14     10     11      8
D725V11, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              0               11
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEB2 MUTATED        0      1      0      0      0      0      0      2
  MAGEB2 WILD-TYPE     11      6      7      9      8      7     11      7
                  vv
clus               CLUS_9
  MAGEB2 MUTATED        0
  MAGEB2 WILD-TYPE      5
D725V12, multiclass
        clus
vv       MAGEB2 MUTATED MAGEB2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              2                7
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(726) Variable = ZNF83 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF83 MUTATED        3      0      0      3      0
  ZNF83 WILD-TYPE     29     18     46     24     23
D726V1, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF83 MUTATED        4      1      1
  ZNF83 WILD-TYPE     39     66     35
D726V2, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF83 MUTATED        0      2     14
  ZNF83 WILD-TYPE     42    171    133
D726V3, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF83 MUTATED        6      1      4
  ZNF83 WILD-TYPE     56     72     71
D726V4, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF83 MUTATED        2      6      7
  ZNF83 WILD-TYPE     68    114     93
D726V5, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF83 MUTATED        0      1      1      0      3      7      2      0
  ZNF83 WILD-TYPE     41     25     29     29     36     62     18     14
                 vv
clus              CLUS_9
  ZNF83 MUTATED        1
  ZNF83 WILD-TYPE     21
D726V6, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             3              36
  CLUS_6             7              62
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF83 MUTATED        1      5      4      7
  ZNF83 WILD-TYPE     99     67     68    114
D726V7, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF83 MUTATED        1      2      6      4      4
  ZNF83 WILD-TYPE     58     73     68    115     34
D726V8, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             4             115
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF83 MUTATED        2      5      0      1      8
  ZNF83 WILD-TYPE     49     71     61     70     87
D726V9, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             8              87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF83 MUTATED        3      2      0      0      3      2      0      4
  ZNF83 WILD-TYPE     66     46     39     16     50     18     21     34
                 vv
clus              CLUS_9
  ZNF83 MUTATED        2
  ZNF83 WILD-TYPE     48
D726V10, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF83 MUTATED        0      0      1      0      2      0
  ZNF83 WILD-TYPE     13     16     13     11      9      9
D726V11, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF83 MUTATED        0      0      0      0      0      2      1      0
  ZNF83 WILD-TYPE     11      7      7      9      8      5     10      9
                 vv
clus              CLUS_9
  ZNF83 MUTATED        0
  ZNF83 WILD-TYPE      5
D726V12, multiclass
        clus
vv       ZNF83 MUTATED ZNF83 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             2               5
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(727) Variable = ADAMTS4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAMTS4 MUTATED        0      0      0      1      0
  ADAMTS4 WILD-TYPE     32     18     46     26     23
D727V1, multiclass
[1] "Remove cluster labels:" "ADAMTS4 MUTATED"       
clus
  ADAMTS4 MUTATED ADAMTS4 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AY-4071 
"ADAMTS4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ADAMTS4 MUTATED        0      1      0
  ADAMTS4 WILD-TYPE     43     66     36
D727V2, multiclass
[1] "Remove cluster labels:" "ADAMTS4 MUTATED"       
clus
  ADAMTS4 MUTATED ADAMTS4 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" "ADAMTS4 WILD-TYPE" 
       TCGA-AY-4071 
"ADAMTS4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ADAMTS4 MUTATED        1      2     11
  ADAMTS4 WILD-TYPE     41    171    136
D727V3, multiclass
        clus
vv       ADAMTS4 MUTATED ADAMTS4 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3              11               136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ADAMTS4 MUTATED        2      1     10
  ADAMTS4 WILD-TYPE     60     72     65
D727V4, multiclass
        clus
vv       ADAMTS4 MUTATED ADAMTS4 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3              10                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ADAMTS4 MUTATED        0      5      6
  ADAMTS4 WILD-TYPE     70    115     94
D727V5, multiclass
        clus
vv       ADAMTS4 MUTATED ADAMTS4 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               5               115
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAMTS4 MUTATED        0      0      1      4      0      5      1      0
  ADAMTS4 WILD-TYPE     41     26     29     25     39     64     19     14
                   vv
clus                CLUS_9
  ADAMTS4 MUTATED        0
  ADAMTS4 WILD-TYPE     22
D727V6, multiclass
        clus
vv       ADAMTS4 MUTATED ADAMTS4 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               4                25
  CLUS_5               0                39
  CLUS_6               5                64
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAMTS4 MUTATED        2     10      1      1
  ADAMTS4 WILD-TYPE     98     62     71    120
D727V7, multiclass
        clus
vv       ADAMTS4 MUTATED ADAMTS4 WILD-TYPE
  CLUS_1               2                98
  CLUS_2              10                62
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAMTS4 MUTATED        0      3     10      1      0
  ADAMTS4 WILD-TYPE     59     72     64    118     38
D727V8, multiclass
        clus
vv       ADAMTS4 MUTATED ADAMTS4 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               3                72
  CLUS_3              10                64
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAMTS4 MUTATED        2     10      0      1      1
  ADAMTS4 WILD-TYPE     49     66     61     70     94
D727V9, multiclass
        clus
vv       ADAMTS4 MUTATED ADAMTS4 WILD-TYPE
  CLUS_1               2                49
  CLUS_2              10                66
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAMTS4 MUTATED        2      2      1      5      1      3      0      0
  ADAMTS4 WILD-TYPE     67     46     38     11     52     17     21     38
                   vv
clus                CLUS_9
  ADAMTS4 MUTATED        0
  ADAMTS4 WILD-TYPE     50
D727V10, multiclass
        clus
vv       ADAMTS4 MUTATED ADAMTS4 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               5                11
  CLUS_5               1                52
  CLUS_6               3                17
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADAMTS4 MUTATED        0      0      1      0      2      0
  ADAMTS4 WILD-TYPE     13     16     13     11      9      9
D727V11, multiclass
        clus
vv       ADAMTS4 MUTATED ADAMTS4 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAMTS4 MUTATED        0      0      0      1      0      0      1      0
  ADAMTS4 WILD-TYPE     11      7      7      8      8      7     10      9
                   vv
clus                CLUS_9
  ADAMTS4 MUTATED        1
  ADAMTS4 WILD-TYPE      4
D727V12, multiclass
        clus
vv       ADAMTS4 MUTATED ADAMTS4 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(728) Variable = TMEM50B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM50B MUTATED        0      0      0      0      0
  TMEM50B WILD-TYPE     32     18     46     27     23
D728V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM50B MUTATED        0      0      0
  TMEM50B WILD-TYPE     43     67     36
D728V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM50B MUTATED        2      2      2
  TMEM50B WILD-TYPE     40    171    145
D728V3, multiclass
        clus
vv       TMEM50B MUTATED TMEM50B WILD-TYPE
  CLUS_1               2                40
  CLUS_2               2               171
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM50B MUTATED        5      1      0
  TMEM50B WILD-TYPE     57     72     75
D728V4, multiclass
        clus
vv       TMEM50B MUTATED TMEM50B WILD-TYPE
  CLUS_1               5                57
  CLUS_2               1                72
  CLUS_3               0                75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM50B MUTATED        2      0      4
  TMEM50B WILD-TYPE     68    120     96
D728V5, multiclass
        clus
vv       TMEM50B MUTATED TMEM50B WILD-TYPE
  CLUS_1               2                68
  CLUS_2               0               120
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM50B MUTATED        2      0      0      0      1      2      0      0
  TMEM50B WILD-TYPE     39     26     30     29     38     67     20     14
                   vv
clus                CLUS_9
  TMEM50B MUTATED        1
  TMEM50B WILD-TYPE     21
D728V6, multiclass
        clus
vv       TMEM50B MUTATED TMEM50B WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM50B MUTATED        0      3      3      0
  TMEM50B WILD-TYPE    100     69     69    121
D728V7, multiclass
        clus
vv       TMEM50B MUTATED TMEM50B WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               3                69
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM50B MUTATED        3      1      2      0      0
  TMEM50B WILD-TYPE     56     74     72    119     38
D728V8, multiclass
        clus
vv       TMEM50B MUTATED TMEM50B WILD-TYPE
  CLUS_1               3                56
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM50B MUTATED        0      2      3      0      1
  TMEM50B WILD-TYPE     51     74     58     71     94
D728V9, multiclass
        clus
vv       TMEM50B MUTATED TMEM50B WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM50B MUTATED        1      2      0      1      1      0      0      0
  TMEM50B WILD-TYPE     68     46     39     15     52     20     21     38
                   vv
clus                CLUS_9
  TMEM50B MUTATED        1
  TMEM50B WILD-TYPE     49
D728V10, multiclass
        clus
vv       TMEM50B MUTATED TMEM50B WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM50B MUTATED        0      2      0      1      0      0
  TMEM50B WILD-TYPE     13     14     14     10     11      9
D728V11, multiclass
        clus
vv       TMEM50B MUTATED TMEM50B WILD-TYPE
  CLUS_1               0                13
  CLUS_2               2                14
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM50B MUTATED        1      1      1      0      0      0      0      0
  TMEM50B WILD-TYPE     10      6      6      9      8      7     11      9
                   vv
clus                CLUS_9
  TMEM50B MUTATED        0
  TMEM50B WILD-TYPE      5
D728V12, multiclass
        clus
vv       TMEM50B MUTATED TMEM50B WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 6
  CLUS_3               1                 6
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(729) Variable = CDH22 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH22 MUTATED        3      0      0      2      0
  CDH22 WILD-TYPE     29     18     46     25     23
D729V1, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH22 MUTATED        2      2      1
  CDH22 WILD-TYPE     41     65     35
D729V2, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH22 MUTATED        1      6      9
  CDH22 WILD-TYPE     41    167    138
D729V3, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             6             167
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH22 MUTATED        1      3      7
  CDH22 WILD-TYPE     61     70     68
D729V4, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             3              70
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH22 MUTATED        1      5      8
  CDH22 WILD-TYPE     69    115     92
D729V5, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDH22 MUTATED        2      0      0      4      1      6      1      0
  CDH22 WILD-TYPE     39     26     30     25     38     63     19     14
                 vv
clus              CLUS_9
  CDH22 MUTATED        0
  CDH22 WILD-TYPE     22
D729V6, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             4              25
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDH22 MUTATED        3      5      3      5
  CDH22 WILD-TYPE     97     67     69    116
D729V7, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH22 MUTATED        1      3      7      2      3
  CDH22 WILD-TYPE     58     72     67    117     35
D729V8, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             7              67
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH22 MUTATED        3      5      1      3      4
  CDH22 WILD-TYPE     48     71     60     68     91
D729V9, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             3              68
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDH22 MUTATED        5      1      1      1      4      1      0      3
  CDH22 WILD-TYPE     64     47     38     15     49     19     21     35
                 vv
clus              CLUS_9
  CDH22 MUTATED        0
  CDH22 WILD-TYPE     50
D729V10, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             4              49
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDH22 MUTATED        1      1      1      1      1      0
  CDH22 WILD-TYPE     12     15     13     10     10      9
D729V11, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDH22 MUTATED        2      0      1      2      0      0      0      0
  CDH22 WILD-TYPE      9      7      6      7      8      7     11      9
                 vv
clus              CLUS_9
  CDH22 MUTATED        0
  CDH22 WILD-TYPE      5
D729V12, multiclass
        clus
vv       CDH22 MUTATED CDH22 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(730) Variable = LRRC37B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC37B MUTATED        0      0      0      0      0
  LRRC37B WILD-TYPE     32     18     46     27     23
D730V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRC37B MUTATED        0      0      0
  LRRC37B WILD-TYPE     43     67     36
D730V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRC37B MUTATED        0      5      1
  LRRC37B WILD-TYPE     42    168    146
D730V3, multiclass
        clus
vv       LRRC37B MUTATED LRRC37B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               5               168
  CLUS_3               1               146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRC37B MUTATED        3      2      1
  LRRC37B WILD-TYPE     59     71     74
D730V4, multiclass
        clus
vv       LRRC37B MUTATED LRRC37B WILD-TYPE
  CLUS_1               3                59
  CLUS_2               2                71
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRC37B MUTATED        0      2      2
  LRRC37B WILD-TYPE     70    118     98
D730V5, multiclass
        clus
vv       LRRC37B MUTATED LRRC37B WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC37B MUTATED        1      0      1      1      0      0      0      1
  LRRC37B WILD-TYPE     40     26     29     28     39     69     20     13
                   vv
clus                CLUS_9
  LRRC37B MUTATED        0
  LRRC37B WILD-TYPE     22
D730V6, multiclass
        clus
vv       LRRC37B MUTATED LRRC37B WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               0                69
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRRC37B MUTATED        4      0      2      0
  LRRC37B WILD-TYPE     96     72     70    121
D730V7, multiclass
        clus
vv       LRRC37B MUTATED LRRC37B WILD-TYPE
  CLUS_1               4                96
  CLUS_2               0                72
  CLUS_3               2                70
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC37B MUTATED        4      2      0      0      0
  LRRC37B WILD-TYPE     55     73     74    119     38
D730V8, multiclass
        clus
vv       LRRC37B MUTATED LRRC37B WILD-TYPE
  CLUS_1               4                55
  CLUS_2               2                73
  CLUS_3               0                74
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC37B MUTATED        0      2      4      0      0
  LRRC37B WILD-TYPE     51     74     57     71     95
D730V9, multiclass
        clus
vv       LRRC37B MUTATED LRRC37B WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               4                57
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC37B MUTATED        1      3      1      0      1      0      0      0
  LRRC37B WILD-TYPE     68     45     38     16     52     20     21     38
                   vv
clus                CLUS_9
  LRRC37B MUTATED        0
  LRRC37B WILD-TYPE     50
D730V10, multiclass
        clus
vv       LRRC37B MUTATED LRRC37B WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LRRC37B MUTATED        1      0      0      1      0      0
  LRRC37B WILD-TYPE     12     16     14     10     11      9
D730V11, multiclass
[1] "Remove cluster labels:" "LRRC37B MUTATED"       
clus
  LRRC37B MUTATED LRRC37B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6605 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6569 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC37B MUTATED        0      0      1      0      0      0      1      0
  LRRC37B WILD-TYPE     11      7      6      9      8      7     10      9
                   vv
clus                CLUS_9
  LRRC37B MUTATED        0
  LRRC37B WILD-TYPE      5
D730V12, multiclass
[1] "Remove cluster labels:" "LRRC37B MUTATED"       
clus
  LRRC37B MUTATED LRRC37B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6605 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6569 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" "LRRC37B WILD-TYPE" 

Clustering(731) Variable = C19ORF66 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C19ORF66 MUTATED        1      0      0      0      0
  C19ORF66 WILD-TYPE     31     18     46     27     23
D731V1, multiclass
[1] "Remove cluster labels:" "C19ORF66 MUTATED"      
clus
  C19ORF66 MUTATED C19ORF66 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3950 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AY-4071 
"C19ORF66 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C19ORF66 MUTATED        1      0      0
  C19ORF66 WILD-TYPE     42     67     36
D731V2, multiclass
[1] "Remove cluster labels:" "C19ORF66 MUTATED"      
clus
  C19ORF66 MUTATED C19ORF66 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3950 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AY-4071 
"C19ORF66 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C19ORF66 MUTATED        0      0      4
  C19ORF66 WILD-TYPE     42    173    143
D731V3, multiclass
        clus
vv       C19ORF66 MUTATED C19ORF66 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                4                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C19ORF66 MUTATED        0      0      3
  C19ORF66 WILD-TYPE     62     73     72
D731V4, multiclass
        clus
vv       C19ORF66 MUTATED C19ORF66 WILD-TYPE
  CLUS_1                0                 62
  CLUS_2                0                 73
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C19ORF66 MUTATED        1      0      1
  C19ORF66 WILD-TYPE     69    120     99
D731V5, multiclass
[1] "Remove cluster labels:" "C19ORF66 MUTATED"      
clus
  C19ORF66 MUTATED C19ORF66 WILD-TYPE 
                 2                288 
        TCGA-A6-2671         TCGA-A6-2672         TCGA-A6-2676 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-3810         TCGA-A6-5656         TCGA-A6-5657 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-5659         TCGA-A6-5660         TCGA-A6-5661 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-5662         TCGA-A6-5664         TCGA-A6-5665 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-5666         TCGA-A6-6137         TCGA-A6-6138 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6648 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-6649         TCGA-A6-6651         TCGA-A6-6652 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6780 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3492         TCGA-AA-3496         TCGA-AA-3502 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3510         TCGA-AA-3511         TCGA-AA-3514 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3519         TCGA-AA-3520 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3525 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3548 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3558         TCGA-AA-3560 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3655 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3672         TCGA-AA-3678 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3681         TCGA-AA-3688         TCGA-AA-3695 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3696         TCGA-AA-3697         TCGA-AA-3710 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3712         TCGA-AA-3715         TCGA-AA-3811 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3831 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3844 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3845         TCGA-AA-3848         TCGA-AA-3850 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3856 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3869         TCGA-AA-3872         TCGA-AA-3930 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3950         TCGA-AA-3955 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3968         TCGA-AA-3971         TCGA-AA-3972 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3973         TCGA-AA-3975         TCGA-AA-3982 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-A004 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00E         TCGA-AA-A00F 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00J         TCGA-AA-A00K         TCGA-AA-A00L 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00N         TCGA-AA-A00Q         TCGA-AA-A00R 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01I         TCGA-AA-A01K 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01P         TCGA-AA-A01Q         TCGA-AA-A01R 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01S         TCGA-AA-A01T         TCGA-AA-A01V 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01X         TCGA-AA-A022         TCGA-AA-A024 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02K         TCGA-AA-A02O 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AA-A02Y         TCGA-AA-A03F 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A03J         TCGA-AD-5900         TCGA-AD-6548 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6899         TCGA-AD-6965 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AU-6004         TCGA-AY-5543         TCGA-AY-6196 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AY-6197         TCGA-AY-6386         TCGA-AZ-4315 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-4682 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AZ-5407         TCGA-AZ-6598         TCGA-AZ-6599 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6606         TCGA-AZ-6607 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AZ-6608         TCGA-CA-5254         TCGA-CA-5255 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CA-5796         TCGA-CA-5797         TCGA-CA-6715 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CA-6716         TCGA-CA-6717         TCGA-CA-6718 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5914         TCGA-CK-5916 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CK-6746         TCGA-CK-6747         TCGA-CK-6748 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CK-6751         TCGA-CM-4743         TCGA-CM-4744 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-4746         TCGA-CM-4747         TCGA-CM-4752 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-5341         TCGA-CM-5344         TCGA-CM-5348 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-5349         TCGA-CM-5860         TCGA-CM-5861 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-5862         TCGA-CM-5863         TCGA-CM-5864 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-5868         TCGA-CM-6161         TCGA-CM-6162 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6163         TCGA-CM-6164         TCGA-CM-6165 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6166         TCGA-CM-6167         TCGA-CM-6168 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6169         TCGA-CM-6170         TCGA-CM-6171 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6172         TCGA-CM-6674         TCGA-CM-6675 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5538 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-5539         TCGA-D5-5540         TCGA-D5-5541 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6529         TCGA-D5-6532         TCGA-D5-6533 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6535         TCGA-D5-6536 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6537         TCGA-D5-6538         TCGA-D5-6539 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6541         TCGA-D5-6898         TCGA-D5-6920 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6923         TCGA-D5-6924 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6926         TCGA-D5-6927         TCGA-D5-6928 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6930         TCGA-D5-6931         TCGA-D5-6932 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A0X9         TCGA-DM-A0XF         TCGA-DM-A1D0 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A1D4         TCGA-DM-A1D6         TCGA-DM-A1D7 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A1DB         TCGA-DM-A1HA         TCGA-DM-A1HB 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A28C         TCGA-DM-A28E 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-DM-A28G         TCGA-F4-6459 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6570 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-F4-6703         TCGA-F4-6704         TCGA-F4-6805 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-F4-6806         TCGA-F4-6807         TCGA-F4-6808 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-F4-6809         TCGA-F4-6854         TCGA-F4-6855 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-F4-6856         TCGA-G4-6293         TCGA-G4-6299 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-G4-6303         TCGA-G4-6304         TCGA-G4-6306 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-G4-6307         TCGA-G4-6309         TCGA-G4-6310 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-G4-6315         TCGA-G4-6317         TCGA-G4-6321 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-G4-6323         TCGA-G4-6586         TCGA-G4-6588 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-G4-6625         TCGA-G4-6626         TCGA-G4-6628 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C19ORF66 MUTATED        0      0      0      0      1      1      0      0
  C19ORF66 WILD-TYPE     41     26     30     29     38     68     20     14
                    vv
clus                 CLUS_9
  C19ORF66 MUTATED        0
  C19ORF66 WILD-TYPE     22
D731V6, multiclass
[1] "Remove cluster labels:" "C19ORF66 MUTATED"      
clus
  C19ORF66 MUTATED C19ORF66 WILD-TYPE 
                 2                288 
        TCGA-A6-2671         TCGA-A6-2672         TCGA-A6-2676 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-3810         TCGA-A6-5656         TCGA-A6-5657 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-5659         TCGA-A6-5660         TCGA-A6-5661 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-5662         TCGA-A6-5664         TCGA-A6-5665 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-5666         TCGA-A6-6137         TCGA-A6-6138 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6648 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-6649         TCGA-A6-6651         TCGA-A6-6652 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6780 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3492         TCGA-AA-3496         TCGA-AA-3502 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3510         TCGA-AA-3511         TCGA-AA-3514 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3519         TCGA-AA-3520 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3525 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3548 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3558         TCGA-AA-3560 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3655 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3672         TCGA-AA-3678 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3681         TCGA-AA-3688         TCGA-AA-3695 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3696         TCGA-AA-3697         TCGA-AA-3710 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3712         TCGA-AA-3715         TCGA-AA-3811 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3831 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3844 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3845         TCGA-AA-3848         TCGA-AA-3850 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3856 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3869         TCGA-AA-3872         TCGA-AA-3930 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3950         TCGA-AA-3955 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3968         TCGA-AA-3971         TCGA-AA-3972 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3973         TCGA-AA-3975         TCGA-AA-3982 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-A004 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00E         TCGA-AA-A00F 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00J         TCGA-AA-A00K         TCGA-AA-A00L 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00N         TCGA-AA-A00Q         TCGA-AA-A00R 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01I         TCGA-AA-A01K 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01P         TCGA-AA-A01Q         TCGA-AA-A01R 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01S         TCGA-AA-A01T         TCGA-AA-A01V 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A01X         TCGA-AA-A022         TCGA-AA-A024 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02K         TCGA-AA-A02O 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AA-A02Y         TCGA-AA-A03F 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AA-A03J         TCGA-AD-5900         TCGA-AD-6548 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6899         TCGA-AD-6965 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AU-6004         TCGA-AY-5543         TCGA-AY-6196 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AY-6197         TCGA-AY-6386         TCGA-AZ-4315 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-4682 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AZ-5407         TCGA-AZ-6598         TCGA-AZ-6599 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6606         TCGA-AZ-6607 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-AZ-6608         TCGA-CA-5254         TCGA-CA-5255 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CA-5796         TCGA-CA-5797         TCGA-CA-6715 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CA-6716         TCGA-CA-6717         TCGA-CA-6718 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5914         TCGA-CK-5916 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CK-6746         TCGA-CK-6747         TCGA-CK-6748 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CK-6751         TCGA-CM-4743         TCGA-CM-4744 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-4746         TCGA-CM-4747         TCGA-CM-4752 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-5341         TCGA-CM-5344         TCGA-CM-5348 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-5349         TCGA-CM-5860         TCGA-CM-5861 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-5862         TCGA-CM-5863         TCGA-CM-5864 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-5868         TCGA-CM-6161         TCGA-CM-6162 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6163         TCGA-CM-6164         TCGA-CM-6165 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6166         TCGA-CM-6167         TCGA-CM-6168 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6169         TCGA-CM-6170         TCGA-CM-6171 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6172         TCGA-CM-6674         TCGA-CM-6675 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5538 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-5539         TCGA-D5-5540         TCGA-D5-5541 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6529         TCGA-D5-6532         TCGA-D5-6533 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6535         TCGA-D5-6536 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6537         TCGA-D5-6538         TCGA-D5-6539 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6541         TCGA-D5-6898         TCGA-D5-6920 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6923         TCGA-D5-6924 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6926         TCGA-D5-6927         TCGA-D5-6928 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-D5-6930         TCGA-D5-6931         TCGA-D5-6932 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A0X9         TCGA-DM-A0XF         TCGA-DM-A1D0 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A1D4         TCGA-DM-A1D6         TCGA-DM-A1D7 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A1DB         TCGA-DM-A1HA         TCGA-DM-A1HB 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A28C         TCGA-DM-A28E 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-DM-A28G         TCGA-F4-6459 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6570 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-F4-6703         TCGA-F4-6704         TCGA-F4-6805 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-F4-6806         TCGA-F4-6807         TCGA-F4-6808 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-F4-6809         TCGA-F4-6854         TCGA-F4-6855 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-F4-6856         TCGA-G4-6293         TCGA-G4-6299 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-G4-6303         TCGA-G4-6304         TCGA-G4-6306 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-G4-6307         TCGA-G4-6309         TCGA-G4-6310 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-G4-6315         TCGA-G4-6317         TCGA-G4-6321 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-G4-6323         TCGA-G4-6586         TCGA-G4-6588 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
        TCGA-G4-6625         TCGA-G4-6626         TCGA-G4-6628 
"C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" "C19ORF66 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C19ORF66 MUTATED        0      3      0      1
  C19ORF66 WILD-TYPE    100     69     72    120
D731V7, multiclass
        clus
vv       C19ORF66 MUTATED C19ORF66 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                3                 69
  CLUS_3                0                 72
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C19ORF66 MUTATED        0      0      3      0      1
  C19ORF66 WILD-TYPE     59     75     71    119     37
D731V8, multiclass
        clus
vv       C19ORF66 MUTATED C19ORF66 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                3                 71
  CLUS_4                0                119
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C19ORF66 MUTATED        0      3      0      0      1
  C19ORF66 WILD-TYPE     51     73     61     71     94
D731V9, multiclass
        clus
vv       C19ORF66 MUTATED C19ORF66 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                3                 73
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C19ORF66 MUTATED        1      0      0      2      0      0      1      0
  C19ORF66 WILD-TYPE     68     48     39     14     53     20     20     38
                    vv
clus                 CLUS_9
  C19ORF66 MUTATED        0
  C19ORF66 WILD-TYPE     50
D731V10, multiclass
        clus
vv       C19ORF66 MUTATED C19ORF66 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                0                 48
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                1                 20
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C19ORF66 MUTATED        0      0      0      0      0      0
  C19ORF66 WILD-TYPE     13     16     14     11     11      9
D731V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C19ORF66 MUTATED        0      0      0      0      0      0      0      0
  C19ORF66 WILD-TYPE     11      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  C19ORF66 MUTATED        0
  C19ORF66 WILD-TYPE      5
D731V12, multiclass

Clustering(732) Variable = WWC3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WWC3 MUTATED        4      0      0      2      0
  WWC3 WILD-TYPE     28     18     46     25     23
D732V1, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WWC3 MUTATED        5      0      1
  WWC3 WILD-TYPE     38     67     35
D732V2, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WWC3 MUTATED        3      2     17
  WWC3 WILD-TYPE     39    171    130
D732V3, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            2            171
  CLUS_3           17            130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WWC3 MUTATED        4      3      9
  WWC3 WILD-TYPE     58     70     66
D732V4, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            9             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WWC3 MUTATED        2      5     11
  WWC3 WILD-TYPE     68    115     89
D732V5, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3           11             89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WWC3 MUTATED        2      1      1      1      1      9      2      1      0
  WWC3 WILD-TYPE     39     25     29     28     38     60     18     13     22
D732V6, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            9             60
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WWC3 MUTATED        4      9      2      7
  WWC3 WILD-TYPE     96     63     70    114
D732V7, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            9             63
  CLUS_3            2             70
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WWC3 MUTATED        1      4     10      2      5
  WWC3 WILD-TYPE     58     71     64    117     33
D732V8, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            4             71
  CLUS_3           10             64
  CLUS_4            2            117
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WWC3 MUTATED        2     11      1      3      4
  WWC3 WILD-TYPE     49     65     60     68     91
D732V9, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            2             49
  CLUS_2           11             65
  CLUS_3            1             60
  CLUS_4            3             68
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WWC3 MUTATED        4      1      0      7      2      2      2      2      1
  WWC3 WILD-TYPE     65     47     39      9     51     18     19     36     49
D732V10, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            7              9
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            2             19
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WWC3 MUTATED        2      1      0      0      2      0
  WWC3 WILD-TYPE     11     15     14     11      9      9
D732V11, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WWC3 MUTATED        0      0      0      2      1      0      1      0      1
  WWC3 WILD-TYPE     11      7      7      7      7      7     10      9      4
D732V12, multiclass
        clus
vv       WWC3 MUTATED WWC3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(733) Variable = ZBTB24 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB24 MUTATED        0      0      0      2      0
  ZBTB24 WILD-TYPE     32     18     46     25     23
D733V1, multiclass
[1] "Remove cluster labels:" "ZBTB24 MUTATED"        
clus
  ZBTB24 MUTATED ZBTB24 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB24 MUTATED        1      1      0
  ZBTB24 WILD-TYPE     42     66     36
D733V2, multiclass
[1] "Remove cluster labels:" "ZBTB24 MUTATED"        
clus
  ZBTB24 MUTATED ZBTB24 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" "ZBTB24 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB24 MUTATED        0      2      6
  ZBTB24 WILD-TYPE     42    171    141
D733V3, multiclass
        clus
vv       ZBTB24 MUTATED ZBTB24 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB24 MUTATED        3      1      2
  ZBTB24 WILD-TYPE     59     72     73
D733V4, multiclass
        clus
vv       ZBTB24 MUTATED ZBTB24 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB24 MUTATED        2      2      4
  ZBTB24 WILD-TYPE     68    118     96
D733V5, multiclass
        clus
vv       ZBTB24 MUTATED ZBTB24 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB24 MUTATED        1      0      2      0      1      3      0      0
  ZBTB24 WILD-TYPE     40     26     28     29     38     66     20     14
                  vv
clus               CLUS_9
  ZBTB24 MUTATED        1
  ZBTB24 WILD-TYPE     21
D733V6, multiclass
        clus
vv       ZBTB24 MUTATED ZBTB24 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZBTB24 MUTATED        1      3      2      2
  ZBTB24 WILD-TYPE     99     69     70    119
D733V7, multiclass
        clus
vv       ZBTB24 MUTATED ZBTB24 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB24 MUTATED        1      1      4      1      1
  ZBTB24 WILD-TYPE     58     74     70    118     37
D733V8, multiclass
        clus
vv       ZBTB24 MUTATED ZBTB24 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB24 MUTATED        0      3      2      1      2
  ZBTB24 WILD-TYPE     51     73     59     70     93
D733V9, multiclass
        clus
vv       ZBTB24 MUTATED ZBTB24 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB24 MUTATED        1      2      1      2      0      1      0      1
  ZBTB24 WILD-TYPE     68     46     38     14     53     19     21     37
                  vv
clus               CLUS_9
  ZBTB24 MUTATED        0
  ZBTB24 WILD-TYPE     50
D733V10, multiclass
        clus
vv       ZBTB24 MUTATED ZBTB24 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZBTB24 MUTATED        0      0      0      1      1      2
  ZBTB24 WILD-TYPE     13     16     14     10     10      7
D733V11, multiclass
        clus
vv       ZBTB24 MUTATED ZBTB24 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB24 MUTATED        1      0      0      0      0      0      2      1
  ZBTB24 WILD-TYPE     10      7      7      9      8      7      9      8
                  vv
clus               CLUS_9
  ZBTB24 MUTATED        0
  ZBTB24 WILD-TYPE      5
D733V12, multiclass
        clus
vv       ZBTB24 MUTATED ZBTB24 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(734) Variable = TMEM48 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM48 MUTATED        2      0      0      0      0
  TMEM48 WILD-TYPE     30     18     46     27     23
D734V1, multiclass
[1] "Remove cluster labels:" "TMEM48 MUTATED"        
clus
  TMEM48 MUTATED TMEM48 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3526 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM48 MUTATED        1      0      1
  TMEM48 WILD-TYPE     42     67     35
D734V2, multiclass
[1] "Remove cluster labels:" "TMEM48 MUTATED"        
clus
  TMEM48 MUTATED TMEM48 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3526 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM48 MUTATED        1      1      8
  TMEM48 WILD-TYPE     41    172    139
D734V3, multiclass
        clus
vv       TMEM48 MUTATED TMEM48 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM48 MUTATED        4      1      3
  TMEM48 WILD-TYPE     58     72     72
D734V4, multiclass
        clus
vv       TMEM48 MUTATED TMEM48 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM48 MUTATED        1      3      5
  TMEM48 WILD-TYPE     69    117     95
D734V5, multiclass
        clus
vv       TMEM48 MUTATED TMEM48 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM48 MUTATED        1      1      0      1      1      3      2      0
  TMEM48 WILD-TYPE     40     25     30     28     38     66     18     14
                  vv
clus               CLUS_9
  TMEM48 MUTATED        0
  TMEM48 WILD-TYPE     22
D734V6, multiclass
        clus
vv       TMEM48 MUTATED TMEM48 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM48 MUTATED        1      5      2      2
  TMEM48 WILD-TYPE     99     67     70    119
D734V7, multiclass
        clus
vv       TMEM48 MUTATED TMEM48 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              5               67
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM48 MUTATED        1      2      4      2      1
  TMEM48 WILD-TYPE     58     73     70    117     37
D734V8, multiclass
        clus
vv       TMEM48 MUTATED TMEM48 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM48 MUTATED        1      3      1      1      4
  TMEM48 WILD-TYPE     50     73     60     70     91
D734V9, multiclass
        clus
vv       TMEM48 MUTATED TMEM48 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM48 MUTATED        1      2      0      2      1      0      0      2
  TMEM48 WILD-TYPE     68     46     39     14     52     20     21     36
                  vv
clus               CLUS_9
  TMEM48 MUTATED        2
  TMEM48 WILD-TYPE     48
D734V10, multiclass
        clus
vv       TMEM48 MUTATED TMEM48 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM48 MUTATED        0      0      0      0      2      0
  TMEM48 WILD-TYPE     13     16     14     11      9      9
D734V11, multiclass
[1] "Remove cluster labels:" "TMEM48 MUTATED"        
clus
  TMEM48 MUTATED TMEM48 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM48 MUTATED        0      0      0      1      0      0      1      0
  TMEM48 WILD-TYPE     11      7      7      8      8      7     10      9
                  vv
clus               CLUS_9
  TMEM48 MUTATED        0
  TMEM48 WILD-TYPE      5
D734V12, multiclass
[1] "Remove cluster labels:" "TMEM48 MUTATED"        
clus
  TMEM48 MUTATED TMEM48 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" "TMEM48 WILD-TYPE" 

Clustering(735) Variable = EXPH5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXPH5 MUTATED        5      0      0      1      0
  EXPH5 WILD-TYPE     27     18     46     26     23
D735V1, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EXPH5 MUTATED        5      0      1
  EXPH5 WILD-TYPE     38     67     35
D735V2, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EXPH5 MUTATED        0      6     15
  EXPH5 WILD-TYPE     42    167    132
D735V3, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             6             167
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EXPH5 MUTATED        9      2      3
  EXPH5 WILD-TYPE     53     71     72
D735V4, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             9              53
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EXPH5 MUTATED        2      4     11
  EXPH5 WILD-TYPE     68    116     89
D735V5, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3            11              89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EXPH5 MUTATED        2      0      1      1      0     11      0      1
  EXPH5 WILD-TYPE     39     26     29     28     39     58     20     13
                 vv
clus              CLUS_9
  EXPH5 MUTATED        1
  EXPH5 WILD-TYPE     21
D735V6, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6            11              58
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EXPH5 MUTATED        3      5      6      7
  EXPH5 WILD-TYPE     97     67     66    114
D735V7, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             6              66
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXPH5 MUTATED        5      1      8      1      6
  EXPH5 WILD-TYPE     54     74     66    118     32
D735V8, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             1             118
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXPH5 MUTATED        1      6      6      2      5
  EXPH5 WILD-TYPE     50     70     55     69     90
D735V9, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             6              55
  CLUS_4             2              69
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EXPH5 MUTATED        5      4      0      2      4      0      2      3
  EXPH5 WILD-TYPE     64     44     39     14     49     20     19     35
                 vv
clus              CLUS_9
  EXPH5 MUTATED        0
  EXPH5 WILD-TYPE     50
D735V10, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             4              49
  CLUS_6             0              20
  CLUS_7             2              19
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EXPH5 MUTATED        1      1      3      1      2      0
  EXPH5 WILD-TYPE     12     15     11     10      9      9
D735V11, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             3              11
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EXPH5 MUTATED        2      0      0      1      1      2      2      0
  EXPH5 WILD-TYPE      9      7      7      8      7      5      9      9
                 vv
clus              CLUS_9
  EXPH5 MUTATED        0
  EXPH5 WILD-TYPE      5
D735V12, multiclass
        clus
vv       EXPH5 MUTATED EXPH5 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             2               5
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(736) Variable = MARVELD2 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MARVELD2 MUTATED        1      0      0      1      0
  MARVELD2 WILD-TYPE     31     18     46     26     23
D736V1, multiclass
[1] "Remove cluster labels:" "MARVELD2 MUTATED"      
clus
  MARVELD2 MUTATED MARVELD2 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3854         TCGA-AA-3855 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  MARVELD2 MUTATED        2      0      0
  MARVELD2 WILD-TYPE     41     67     36
D736V2, multiclass
[1] "Remove cluster labels:" "MARVELD2 MUTATED"      
clus
  MARVELD2 MUTATED MARVELD2 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3854         TCGA-AA-3855 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  MARVELD2 MUTATED        0      0     10
  MARVELD2 WILD-TYPE     42    173    137
D736V3, multiclass
        clus
vv       MARVELD2 MUTATED MARVELD2 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3               10                137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  MARVELD2 MUTATED        6      0      2
  MARVELD2 WILD-TYPE     56     73     73
D736V4, multiclass
        clus
vv       MARVELD2 MUTATED MARVELD2 WILD-TYPE
  CLUS_1                6                 56
  CLUS_2                0                 73
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  MARVELD2 MUTATED        1      2      6
  MARVELD2 WILD-TYPE     69    118     94
D736V5, multiclass
        clus
vv       MARVELD2 MUTATED MARVELD2 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                2                118
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MARVELD2 MUTATED        0      0      1      0      1      5      1      1
  MARVELD2 WILD-TYPE     41     26     29     29     38     64     19     13
                    vv
clus                 CLUS_9
  MARVELD2 MUTATED        0
  MARVELD2 WILD-TYPE     22
D736V6, multiclass
        clus
vv       MARVELD2 MUTATED MARVELD2 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                5                 64
  CLUS_7                1                 19
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MARVELD2 MUTATED        0      6      2      2
  MARVELD2 WILD-TYPE    100     66     70    119
D736V7, multiclass
        clus
vv       MARVELD2 MUTATED MARVELD2 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                6                 66
  CLUS_3                2                 70
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MARVELD2 MUTATED        0      1      7      0      2
  MARVELD2 WILD-TYPE     59     74     67    119     36
D736V8, multiclass
        clus
vv       MARVELD2 MUTATED MARVELD2 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                7                 67
  CLUS_4                0                119
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MARVELD2 MUTATED        0      7      0      0      2
  MARVELD2 WILD-TYPE     51     69     61     71     93
D736V9, multiclass
        clus
vv       MARVELD2 MUTATED MARVELD2 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                7                 69
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MARVELD2 MUTATED        1      2      0      4      1      0      0      0
  MARVELD2 WILD-TYPE     68     46     39     12     52     20     21     38
                    vv
clus                 CLUS_9
  MARVELD2 MUTATED        1
  MARVELD2 WILD-TYPE     49
D736V10, multiclass
        clus
vv       MARVELD2 MUTATED MARVELD2 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                4                 12
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MARVELD2 MUTATED        0      0      0      0      2      0
  MARVELD2 WILD-TYPE     13     16     14     11      9      9
D736V11, multiclass
[1] "Remove cluster labels:" "MARVELD2 MUTATED"      
clus
  MARVELD2 MUTATED MARVELD2 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6603 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6625         TCGA-G4-6628 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MARVELD2 MUTATED        0      0      0      1      0      0      1      0
  MARVELD2 WILD-TYPE     11      7      7      8      8      7     10      9
                    vv
clus                 CLUS_9
  MARVELD2 MUTATED        0
  MARVELD2 WILD-TYPE      5
D736V12, multiclass
[1] "Remove cluster labels:" "MARVELD2 MUTATED"      
clus
  MARVELD2 MUTATED MARVELD2 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6603 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6625         TCGA-G4-6628 
"MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" "MARVELD2 WILD-TYPE" 

Clustering(737) Variable = GDE1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GDE1 MUTATED        0      0      0      0      0
  GDE1 WILD-TYPE     32     18     46     27     23
D737V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GDE1 MUTATED        0      0      0
  GDE1 WILD-TYPE     43     67     36
D737V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GDE1 MUTATED        0      2      3
  GDE1 WILD-TYPE     42    171    144
D737V3, multiclass
        clus
vv       GDE1 MUTATED GDE1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GDE1 MUTATED        2      2      1
  GDE1 WILD-TYPE     60     71     74
D737V4, multiclass
        clus
vv       GDE1 MUTATED GDE1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GDE1 MUTATED        1      0      3
  GDE1 WILD-TYPE     69    120     97
D737V5, multiclass
        clus
vv       GDE1 MUTATED GDE1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            0            120
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GDE1 MUTATED        2      0      0      0      0      1      0      0      1
  GDE1 WILD-TYPE     39     26     30     29     39     68     20     14     21
D737V6, multiclass
        clus
vv       GDE1 MUTATED GDE1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GDE1 MUTATED        1      2      2      0
  GDE1 WILD-TYPE     99     70     70    121
D737V7, multiclass
        clus
vv       GDE1 MUTATED GDE1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GDE1 MUTATED        2      2      1      0      0
  GDE1 WILD-TYPE     57     73     73    119     38
D737V8, multiclass
        clus
vv       GDE1 MUTATED GDE1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GDE1 MUTATED        1      1      2      0      1
  GDE1 WILD-TYPE     50     75     59     71     94
D737V9, multiclass
        clus
vv       GDE1 MUTATED GDE1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GDE1 MUTATED        2      2      0      0      0      0      0      0      1
  GDE1 WILD-TYPE     67     46     39     16     53     20     21     38     49
D737V10, multiclass
        clus
vv       GDE1 MUTATED GDE1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GDE1 MUTATED        0      0      0      0      0      0
  GDE1 WILD-TYPE     13     16     14     11     11      9
D737V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GDE1 MUTATED        0      0      0      0      0      0      0      0      0
  GDE1 WILD-TYPE     11      7      7      9      8      7     11      9      5
D737V12, multiclass

Clustering(738) Variable = ZNF721 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF721 MUTATED        4      0      0      2      0
  ZNF721 WILD-TYPE     28     18     46     25     23
D738V1, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF721 MUTATED        4      1      1
  ZNF721 WILD-TYPE     39     66     35
D738V2, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF721 MUTATED        0      1     13
  ZNF721 WILD-TYPE     42    172    134
D738V3, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF721 MUTATED        6      1      1
  ZNF721 WILD-TYPE     56     72     74
D738V4, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF721 MUTATED        1      2     10
  ZNF721 WILD-TYPE     69    118     90
D738V5, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF721 MUTATED        1      1      1      0      1      7      1      1
  ZNF721 WILD-TYPE     40     25     29     29     38     62     19     13
                  vv
clus               CLUS_9
  ZNF721 MUTATED        0
  ZNF721 WILD-TYPE     22
D738V6, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF721 MUTATED        1      4      3      7
  ZNF721 WILD-TYPE     99     68     69    114
D738V7, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              3               69
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF721 MUTATED        2      1      4      4      4
  ZNF721 WILD-TYPE     57     74     70    115     34
D738V8, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              4              115
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF721 MUTATED        1      3      2      1      7
  ZNF721 WILD-TYPE     50     73     59     70     88
D738V9, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF721 MUTATED        1      3      0      1      2      1      0      4
  ZNF721 WILD-TYPE     68     45     39     15     51     19     21     34
                  vv
clus               CLUS_9
  ZNF721 MUTATED        2
  ZNF721 WILD-TYPE     48
D738V10, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              4               34
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF721 MUTATED        0      0      1      0      2      0
  ZNF721 WILD-TYPE     13     16     13     11      9      9
D738V11, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF721 MUTATED        0      0      0      1      1      0      1      0
  ZNF721 WILD-TYPE     11      7      7      8      7      7     10      9
                  vv
clus               CLUS_9
  ZNF721 MUTATED        0
  ZNF721 WILD-TYPE      5
D738V12, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(739) Variable = PAX6 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAX6 MUTATED        4      0      0      0      0
  PAX6 WILD-TYPE     28     18     46     27     23
D739V1, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAX6 MUTATED        4      0      0
  PAX6 WILD-TYPE     39     67     36
D739V2, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAX6 MUTATED        2      2     10
  PAX6 WILD-TYPE     40    171    137
D739V3, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2            171
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAX6 MUTATED        5      1      4
  PAX6 WILD-TYPE     57     72     71
D739V4, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAX6 MUTATED        1      4      8
  PAX6 WILD-TYPE     69    116     92
D739V5, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAX6 MUTATED        3      1      0      0      1      8      0      0      0
  PAX6 WILD-TYPE     38     25     30     29     38     61     20     14     22
D739V6, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            8             61
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAX6 MUTATED        1      6      3      4
  PAX6 WILD-TYPE     99     66     69    117
D739V7, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            6             66
  CLUS_3            3             69
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAX6 MUTATED        2      2      5      1      4
  PAX6 WILD-TYPE     57     73     69    118     34
D739V8, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAX6 MUTATED        0      5      2      2      4
  PAX6 WILD-TYPE     51     71     59     69     91
D739V9, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            5             71
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAX6 MUTATED        3      1      0      2      2      1      0      3      1
  PAX6 WILD-TYPE     66     47     39     14     51     19     21     35     49
D739V10, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAX6 MUTATED        1      0      1      0      1      0
  PAX6 WILD-TYPE     12     16     13     11     10      9
D739V11, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAX6 MUTATED        0      0      0      1      1      1      0      0      0
  PAX6 WILD-TYPE     11      7      7      8      7      6     11      9      5
D739V12, multiclass
        clus
vv       PAX6 MUTATED PAX6 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(740) Variable = ENPP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENPP1 MUTATED        1      0      1      1      0
  ENPP1 WILD-TYPE     31     18     45     26     23
D740V1, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPP1 MUTATED        1      1      1
  ENPP1 WILD-TYPE     42     66     35
D740V2, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPP1 MUTATED        1      5      8
  ENPP1 WILD-TYPE     41    168    139
D740V3, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPP1 MUTATED        3      3      5
  ENPP1 WILD-TYPE     59     70     70
D740V4, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPP1 MUTATED        1      6      6
  ENPP1 WILD-TYPE     69    114     94
D740V5, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENPP1 MUTATED        1      0      1      3      0      5      1      1
  ENPP1 WILD-TYPE     40     26     29     26     39     64     19     13
                 vv
clus              CLUS_9
  ENPP1 MUTATED        1
  ENPP1 WILD-TYPE     21
D740V6, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ENPP1 MUTATED        2      5      4      3
  ENPP1 WILD-TYPE     98     67     68    118
D740V7, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENPP1 MUTATED        2      4      5      2      1
  ENPP1 WILD-TYPE     57     71     69    117     37
D740V8, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENPP1 MUTATED        3      5      1      2      2
  ENPP1 WILD-TYPE     48     71     60     69     93
D740V9, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENPP1 MUTATED        2      3      1      2      2      1      0      1
  ENPP1 WILD-TYPE     67     45     38     14     51     19     21     37
                 vv
clus              CLUS_9
  ENPP1 MUTATED        1
  ENPP1 WILD-TYPE     49
D740V10, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ENPP1 MUTATED        1      0      0      0      2      0
  ENPP1 WILD-TYPE     12     16     14     11      9      9
D740V11, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENPP1 MUTATED        0      0      0      1      1      0      1      0
  ENPP1 WILD-TYPE     11      7      7      8      7      7     10      9
                 vv
clus              CLUS_9
  ENPP1 MUTATED        0
  ENPP1 WILD-TYPE      5
D740V12, multiclass
        clus
vv       ENPP1 MUTATED ENPP1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(741) Variable = CHM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHM MUTATED        0      0      0      0      0
  CHM WILD-TYPE     32     18     46     27     23
D741V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CHM MUTATED        0      0      0
  CHM WILD-TYPE     43     67     36
D741V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CHM MUTATED        1      1      2
  CHM WILD-TYPE     41    172    145
D741V3, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           1            41
  CLUS_2           1           172
  CLUS_3           2           145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CHM MUTATED        2      1      1
  CHM WILD-TYPE     60     72     74
D741V4, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           2            60
  CLUS_2           1            72
  CLUS_3           1            74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CHM MUTATED        1      0      2
  CHM WILD-TYPE     69    120     98
D741V5, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           1            69
  CLUS_2           0           120
  CLUS_3           2            98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHM MUTATED        1      0      0      0      0      1      0      0      1
  CHM WILD-TYPE     40     26     30     29     39     68     20     14     21
D741V6, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           0            39
  CLUS_6           1            68
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           1            21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHM MUTATED        2      2      0      0
  CHM WILD-TYPE     98     70     72    121
D741V7, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           2            98
  CLUS_2           2            70
  CLUS_3           0            72
  CLUS_4           0           121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHM MUTATED        1      1      2      0      0
  CHM WILD-TYPE     58     74     72    119     38
D741V8, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           1            58
  CLUS_2           1            74
  CLUS_3           2            72
  CLUS_4           0           119
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHM MUTATED        0      2      1      1      0
  CHM WILD-TYPE     51     74     60     70     95
D741V9, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           0            51
  CLUS_2           2            74
  CLUS_3           1            60
  CLUS_4           1            70
  CLUS_5           0            95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHM MUTATED        3      0      0      0      1      0      0      0      0
  CHM WILD-TYPE     66     48     39     16     52     20     21     38     50
D741V10, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           3            66
  CLUS_2           0            48
  CLUS_3           0            39
  CLUS_4           0            16
  CLUS_5           1            52
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHM MUTATED        0      1      0      1      0      1
  CHM WILD-TYPE     13     15     14     10     11      8
D741V11, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           0            13
  CLUS_2           1            15
  CLUS_3           0            14
  CLUS_4           1            10
  CLUS_5           0            11
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHM MUTATED        1      0      0      0      0      1      1      0      0
  CHM WILD-TYPE     10      7      7      9      8      6     10      9      5
D741V12, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           1            10
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           0             9
  CLUS_5           0             8
  CLUS_6           1             6
  CLUS_7           1            10
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(742) Variable = THAP9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THAP9 MUTATED        3      0      1      2      0
  THAP9 WILD-TYPE     29     18     45     25     23
D742V1, multiclass
        clus
vv       THAP9 MUTATED THAP9 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THAP9 MUTATED        4      2      0
  THAP9 WILD-TYPE     39     65     36
D742V2, multiclass
        clus
vv       THAP9 MUTATED THAP9 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THAP9 MUTATED        1      3      8
  THAP9 WILD-TYPE     41    170    139
D742V3, multiclass
        clus
vv       THAP9 MUTATED THAP9 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THAP9 MUTATED        1      1      4
  THAP9 WILD-TYPE     61     72     71
D742V4, multiclass
        clus
vv       THAP9 MUTATED THAP9 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THAP9 MUTATED        2      5      3
  THAP9 WILD-TYPE     68    115     97
D742V5, multiclass
        clus
vv       THAP9 MUTATED THAP9 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THAP9 MUTATED        0      0      2      2      2      2      0      2
  THAP9 WILD-TYPE     41     26     28     27     37     67     20     12
                 vv
clus              CLUS_9
  THAP9 MUTATED        0
  THAP9 WILD-TYPE     22
D742V6, multiclass
        clus
vv       THAP9 MUTATED THAP9 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  THAP9 MUTATED        2      4      0      6
  THAP9 WILD-TYPE     98     68     72    115
D742V7, multiclass
        clus
vv       THAP9 MUTATED THAP9 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             0              72
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THAP9 MUTATED        0      3      3      2      4
  THAP9 WILD-TYPE     59     72     71    117     34
D742V8, multiclass
        clus
vv       THAP9 MUTATED THAP9 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THAP9 MUTATED        3      3      0      0      4
  THAP9 WILD-TYPE     48     73     61     71     91
D742V9, multiclass
        clus
vv       THAP9 MUTATED THAP9 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THAP9 MUTATED        2      0      1      1      1      2      1      2
  THAP9 WILD-TYPE     67     48     38     15     52     18     20     36
                 vv
clus              CLUS_9
  THAP9 MUTATED        0
  THAP9 WILD-TYPE     50
D742V10, multiclass
        clus
vv       THAP9 MUTATED THAP9 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  THAP9 MUTATED        1      0      0      0      0      0
  THAP9 WILD-TYPE     12     16     14     11     11      9
D742V11, multiclass
[1] "Remove cluster labels:" "THAP9 MUTATED"         
clus
  THAP9 MUTATED THAP9 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1HA      TCGA-DM-A282 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-G4-6628 
"THAP9 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THAP9 MUTATED        0      0      0      1      0      0      0      0
  THAP9 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  THAP9 MUTATED        0
  THAP9 WILD-TYPE      5
D742V12, multiclass
[1] "Remove cluster labels:" "THAP9 MUTATED"         
clus
  THAP9 MUTATED THAP9 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1HA      TCGA-DM-A282 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" "THAP9 WILD-TYPE" 
     TCGA-G4-6628 
"THAP9 WILD-TYPE" 

Clustering(743) Variable = C1QL3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1QL3 MUTATED        0      0      0      0      0
  C1QL3 WILD-TYPE     32     18     46     27     23
D743V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C1QL3 MUTATED        0      0      0
  C1QL3 WILD-TYPE     43     67     36
D743V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C1QL3 MUTATED        0      3      1
  C1QL3 WILD-TYPE     42    170    146
D743V3, multiclass
        clus
vv       C1QL3 MUTATED C1QL3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             1             146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C1QL3 MUTATED        0      2      2
  C1QL3 WILD-TYPE     62     71     73
D743V4, multiclass
        clus
vv       C1QL3 MUTATED C1QL3 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C1QL3 MUTATED        0      3      1
  C1QL3 WILD-TYPE     70    117     99
D743V5, multiclass
        clus
vv       C1QL3 MUTATED C1QL3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1QL3 MUTATED        2      0      0      1      0      1      0      0
  C1QL3 WILD-TYPE     39     26     30     28     39     68     20     14
                 vv
clus              CLUS_9
  C1QL3 MUTATED        0
  C1QL3 WILD-TYPE     22
D743V6, multiclass
        clus
vv       C1QL3 MUTATED C1QL3 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1QL3 MUTATED        2      1      1      0
  C1QL3 WILD-TYPE     98     71     71    121
D743V7, multiclass
        clus
vv       C1QL3 MUTATED C1QL3 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1QL3 MUTATED        1      2      1      0      0
  C1QL3 WILD-TYPE     58     73     73    119     38
D743V8, multiclass
        clus
vv       C1QL3 MUTATED C1QL3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1QL3 MUTATED        1      2      1      0      0
  C1QL3 WILD-TYPE     50     74     60     71     95
D743V9, multiclass
        clus
vv       C1QL3 MUTATED C1QL3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1QL3 MUTATED        2      0      2      0      0      0      0      0
  C1QL3 WILD-TYPE     67     48     37     16     53     20     21     38
                 vv
clus              CLUS_9
  C1QL3 MUTATED        0
  C1QL3 WILD-TYPE     50
D743V10, multiclass
        clus
vv       C1QL3 MUTATED C1QL3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C1QL3 MUTATED        1      0      1      0      0      0
  C1QL3 WILD-TYPE     12     16     13     11     11      9
D743V11, multiclass
[1] "Remove cluster labels:" "C1QL3 MUTATED"         
clus
  C1QL3 MUTATED C1QL3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6141      TCGA-A6-6142 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1QL3 MUTATED        0      0      0      0      1      0      0      1
  C1QL3 WILD-TYPE     11      7      7      9      7      7     11      8
                 vv
clus              CLUS_9
  C1QL3 MUTATED        0
  C1QL3 WILD-TYPE      5
D743V12, multiclass
[1] "Remove cluster labels:" "C1QL3 MUTATED"         
clus
  C1QL3 MUTATED C1QL3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6141      TCGA-A6-6142 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" "C1QL3 WILD-TYPE" 

Clustering(744) Variable = HCRTR2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HCRTR2 MUTATED        2      0      0      1      0
  HCRTR2 WILD-TYPE     30     18     46     26     23
D744V1, multiclass
        clus
vv       HCRTR2 MUTATED HCRTR2 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HCRTR2 MUTATED        2      1      0
  HCRTR2 WILD-TYPE     41     66     36
D744V2, multiclass
        clus
vv       HCRTR2 MUTATED HCRTR2 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HCRTR2 MUTATED        1      0      4
  HCRTR2 WILD-TYPE     41    173    143
D744V3, multiclass
        clus
vv       HCRTR2 MUTATED HCRTR2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HCRTR2 MUTATED        0      0      4
  HCRTR2 WILD-TYPE     62     73     71
D744V4, multiclass
        clus
vv       HCRTR2 MUTATED HCRTR2 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HCRTR2 MUTATED        0      5      1
  HCRTR2 WILD-TYPE     70    115     99
D744V5, multiclass
        clus
vv       HCRTR2 MUTATED HCRTR2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              115
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HCRTR2 MUTATED        0      1      0      2      0      0      2      1
  HCRTR2 WILD-TYPE     41     25     30     27     39     69     18     13
                  vv
clus               CLUS_9
  HCRTR2 MUTATED        0
  HCRTR2 WILD-TYPE     22
D744V6, multiclass
        clus
vv       HCRTR2 MUTATED HCRTR2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              0               69
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HCRTR2 MUTATED        0      5      0      2
  HCRTR2 WILD-TYPE    100     67     72    119
D744V7, multiclass
        clus
vv       HCRTR2 MUTATED HCRTR2 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              5               67
  CLUS_3              0               72
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HCRTR2 MUTATED        0      0      3      2      2
  HCRTR2 WILD-TYPE     59     75     71    117     36
D744V8, multiclass
        clus
vv       HCRTR2 MUTATED HCRTR2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HCRTR2 MUTATED        1      2      0      0      4
  HCRTR2 WILD-TYPE     50     74     61     71     91
D744V9, multiclass
        clus
vv       HCRTR2 MUTATED HCRTR2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HCRTR2 MUTATED        0      1      0      1      0      2      0      3
  HCRTR2 WILD-TYPE     69     47     39     15     53     18     21     35
                  vv
clus               CLUS_9
  HCRTR2 MUTATED        0
  HCRTR2 WILD-TYPE     50
D744V10, multiclass
        clus
vv       HCRTR2 MUTATED HCRTR2 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HCRTR2 MUTATED        1      0      0      0      0      0
  HCRTR2 WILD-TYPE     12     16     14     11     11      9
D744V11, multiclass
[1] "Remove cluster labels:" "HCRTR2 MUTATED"        
clus
  HCRTR2 MUTATED HCRTR2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1HA       TCGA-DM-A282 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-G4-6628 
"HCRTR2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HCRTR2 MUTATED        0      0      0      1      0      0      0      0
  HCRTR2 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  HCRTR2 MUTATED        0
  HCRTR2 WILD-TYPE      5
D744V12, multiclass
[1] "Remove cluster labels:" "HCRTR2 MUTATED"        
clus
  HCRTR2 MUTATED HCRTR2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1HA       TCGA-DM-A282 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" "HCRTR2 WILD-TYPE" 
      TCGA-G4-6628 
"HCRTR2 WILD-TYPE" 

Clustering(745) Variable = C9ORF71 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF71 MUTATED        0      0      0      0      0
  C9ORF71 WILD-TYPE     32     18     46     27     23
D745V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF71 MUTATED        0      0      0
  C9ORF71 WILD-TYPE     43     67     36
D745V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF71 MUTATED        0      0      4
  C9ORF71 WILD-TYPE     42    173    143
D745V3, multiclass
        clus
vv       C9ORF71 MUTATED C9ORF71 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF71 MUTATED        2      0      2
  C9ORF71 WILD-TYPE     60     73     73
D745V4, multiclass
        clus
vv       C9ORF71 MUTATED C9ORF71 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF71 MUTATED        0      0      4
  C9ORF71 WILD-TYPE     70    120     96
D745V5, multiclass
        clus
vv       C9ORF71 MUTATED C9ORF71 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               0               120
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF71 MUTATED        1      0      0      0      0      3      0      0
  C9ORF71 WILD-TYPE     40     26     30     29     39     66     20     14
                   vv
clus                CLUS_9
  C9ORF71 MUTATED        0
  C9ORF71 WILD-TYPE     22
D745V6, multiclass
        clus
vv       C9ORF71 MUTATED C9ORF71 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C9ORF71 MUTATED        0      2      2      0
  C9ORF71 WILD-TYPE    100     70     70    121
D745V7, multiclass
        clus
vv       C9ORF71 MUTATED C9ORF71 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF71 MUTATED        1      0      3      0      0
  C9ORF71 WILD-TYPE     58     75     71    119     38
D745V8, multiclass
        clus
vv       C9ORF71 MUTATED C9ORF71 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF71 MUTATED        0      3      1      0      0
  C9ORF71 WILD-TYPE     51     73     60     71     95
D745V9, multiclass
        clus
vv       C9ORF71 MUTATED C9ORF71 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF71 MUTATED        2      1      0      1      0      0      0      0
  C9ORF71 WILD-TYPE     67     47     39     15     53     20     21     38
                   vv
clus                CLUS_9
  C9ORF71 MUTATED        0
  C9ORF71 WILD-TYPE     50
D745V10, multiclass
        clus
vv       C9ORF71 MUTATED C9ORF71 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C9ORF71 MUTATED        0      0      1      0      0      0
  C9ORF71 WILD-TYPE     13     16     13     11     11      9
D745V11, multiclass
[1] "Remove cluster labels:" "C9ORF71 MUTATED"       
clus
  C9ORF71 MUTATED C9ORF71 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-G4-6625 
"C9ORF71 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF71 MUTATED        0      0      0      0      0      0      1      0
  C9ORF71 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  C9ORF71 MUTATED        0
  C9ORF71 WILD-TYPE      5
D745V12, multiclass
[1] "Remove cluster labels:" "C9ORF71 MUTATED"       
clus
  C9ORF71 MUTATED C9ORF71 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" "C9ORF71 WILD-TYPE" 
       TCGA-G4-6625 
"C9ORF71 WILD-TYPE" 

Clustering(746) Variable = RIMBP3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIMBP3 MUTATED        0      0      0      1      0
  RIMBP3 WILD-TYPE     32     18     46     26     23
D746V1, multiclass
[1] "Remove cluster labels:" "RIMBP3 MUTATED"        
clus
  RIMBP3 MUTATED RIMBP3 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AY-4071 
"RIMBP3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RIMBP3 MUTATED        0      1      0
  RIMBP3 WILD-TYPE     43     66     36
D746V2, multiclass
[1] "Remove cluster labels:" "RIMBP3 MUTATED"        
clus
  RIMBP3 MUTATED RIMBP3 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AY-4071 
"RIMBP3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RIMBP3 MUTATED        0      2      4
  RIMBP3 WILD-TYPE     42    171    143
D746V3, multiclass
        clus
vv       RIMBP3 MUTATED RIMBP3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RIMBP3 MUTATED        1      2      2
  RIMBP3 WILD-TYPE     61     71     73
D746V4, multiclass
        clus
vv       RIMBP3 MUTATED RIMBP3 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RIMBP3 MUTATED        2      2      1
  RIMBP3 WILD-TYPE     68    118     99
D746V5, multiclass
        clus
vv       RIMBP3 MUTATED RIMBP3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RIMBP3 MUTATED        2      0      1      0      0      1      1      0
  RIMBP3 WILD-TYPE     39     26     29     29     39     68     19     14
                  vv
clus               CLUS_9
  RIMBP3 MUTATED        0
  RIMBP3 WILD-TYPE     22
D746V6, multiclass
        clus
vv       RIMBP3 MUTATED RIMBP3 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RIMBP3 MUTATED        2      1      2      1
  RIMBP3 WILD-TYPE     98     71     70    120
D746V7, multiclass
        clus
vv       RIMBP3 MUTATED RIMBP3 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIMBP3 MUTATED        1      2      2      1      0
  RIMBP3 WILD-TYPE     58     73     72    118     38
D746V8, multiclass
        clus
vv       RIMBP3 MUTATED RIMBP3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIMBP3 MUTATED        2      1      2      0      1
  RIMBP3 WILD-TYPE     49     75     59     71     94
D746V9, multiclass
        clus
vv       RIMBP3 MUTATED RIMBP3 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              1               75
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RIMBP3 MUTATED        1      3      0      0      0      2      0      0
  RIMBP3 WILD-TYPE     68     45     39     16     53     18     21     38
                  vv
clus               CLUS_9
  RIMBP3 MUTATED        0
  RIMBP3 WILD-TYPE     50
D746V10, multiclass
        clus
vv       RIMBP3 MUTATED RIMBP3 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RIMBP3 MUTATED        0      1      0      0      0      0
  RIMBP3 WILD-TYPE     13     15     14     11     11      9
D746V11, multiclass
[1] "Remove cluster labels:" "RIMBP3 MUTATED"        
clus
  RIMBP3 MUTATED RIMBP3 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-G4-6628 
"RIMBP3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RIMBP3 MUTATED        0      0      0      0      0      0      1      0
  RIMBP3 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  RIMBP3 MUTATED        0
  RIMBP3 WILD-TYPE      5
D746V12, multiclass
[1] "Remove cluster labels:" "RIMBP3 MUTATED"        
clus
  RIMBP3 MUTATED RIMBP3 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" "RIMBP3 WILD-TYPE" 
      TCGA-G4-6628 
"RIMBP3 WILD-TYPE" 

Clustering(747) Variable = HELQ MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HELQ MUTATED        2      0      0      2      0
  HELQ WILD-TYPE     30     18     46     25     23
D747V1, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HELQ MUTATED        3      1      0
  HELQ WILD-TYPE     40     66     36
D747V2, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HELQ MUTATED        2      3     13
  HELQ WILD-TYPE     40    170    134
D747V3, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            2             40
  CLUS_2            3            170
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HELQ MUTATED        4      5      5
  HELQ WILD-TYPE     58     68     70
D747V4, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            4             58
  CLUS_2            5             68
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HELQ MUTATED        2      7      5
  HELQ WILD-TYPE     68    113     95
D747V5, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            2             68
  CLUS_2            7            113
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HELQ MUTATED        3      3      1      3      0      3      0      0      1
  HELQ WILD-TYPE     38     23     29     26     39     66     20     14     21
D747V6, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            3             38
  CLUS_2            3             23
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HELQ MUTATED        4      5      4      5
  HELQ WILD-TYPE     96     67     68    116
D747V7, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            4             96
  CLUS_2            5             67
  CLUS_3            4             68
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HELQ MUTATED        3      4      6      2      3
  HELQ WILD-TYPE     56     71     68    117     35
D747V8, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            3             56
  CLUS_2            4             71
  CLUS_3            6             68
  CLUS_4            2            117
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HELQ MUTATED        2      7      3      1      4
  HELQ WILD-TYPE     49     69     58     70     91
D747V9, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            2             49
  CLUS_2            7             69
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HELQ MUTATED        2      5      0      3      0      3      0      2      2
  HELQ WILD-TYPE     67     43     39     13     53     17     21     36     48
D747V10, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             43
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            0             53
  CLUS_6            3             17
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HELQ MUTATED        0      1      1      1      2      0
  HELQ WILD-TYPE     13     15     13     10      9      9
D747V11, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HELQ MUTATED        0      0      1      2      0      0      2      0      0
  HELQ WILD-TYPE     11      7      6      7      8      7      9      9      5
D747V12, multiclass
        clus
vv       HELQ MUTATED HELQ WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(748) Variable = VPS13B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS13B MUTATED        6      0      1      3      3
  VPS13B WILD-TYPE     26     18     45     24     20
D748V1, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1              6               26
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              3               24
  CLUS_5              3               20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VPS13B MUTATED        7      3      3
  VPS13B WILD-TYPE     36     64     33
D748V2, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1              7               36
  CLUS_2              3               64
  CLUS_3              3               33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VPS13B MUTATED        3     13     35
  VPS13B WILD-TYPE     39    160    112
D748V3, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1              3               39
  CLUS_2             13              160
  CLUS_3             35              112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VPS13B MUTATED       16      3     18
  VPS13B WILD-TYPE     46     70     57
D748V4, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1             16               46
  CLUS_2              3               70
  CLUS_3             18               57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VPS13B MUTATED        4     16     23
  VPS13B WILD-TYPE     66    104     77
D748V5, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1              4               66
  CLUS_2             16              104
  CLUS_3             23               77
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS13B MUTATED        5      1      4      3      4     16      5      1
  VPS13B WILD-TYPE     36     25     26     26     35     53     15     13
                  vv
clus               CLUS_9
  VPS13B MUTATED        4
  VPS13B WILD-TYPE     18
D748V6, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1              5               36
  CLUS_2              1               25
  CLUS_3              4               26
  CLUS_4              3               26
  CLUS_5              4               35
  CLUS_6             16               53
  CLUS_7              5               15
  CLUS_8              1               13
  CLUS_9              4               18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VPS13B MUTATED        4     17     16     15
  VPS13B WILD-TYPE     96     55     56    106
D748V7, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1              4               96
  CLUS_2             17               55
  CLUS_3             16               56
  CLUS_4             15              106
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS13B MUTATED        8      7     21      8      8
  VPS13B WILD-TYPE     51     68     53    111     30
D748V8, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1              8               51
  CLUS_2              7               68
  CLUS_3             21               53
  CLUS_4              8              111
  CLUS_5              8               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS13B MUTATED        6     21      7      3     14
  VPS13B WILD-TYPE     45     55     54     68     81
D748V9, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1              6               45
  CLUS_2             21               55
  CLUS_3              7               54
  CLUS_4              3               68
  CLUS_5             14               81
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS13B MUTATED        7     11      2      7      7      2      2      9
  VPS13B WILD-TYPE     62     37     37      9     46     18     19     29
                  vv
clus               CLUS_9
  VPS13B MUTATED        4
  VPS13B WILD-TYPE     46
D748V10, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1              7               62
  CLUS_2             11               37
  CLUS_3              2               37
  CLUS_4              7                9
  CLUS_5              7               46
  CLUS_6              2               18
  CLUS_7              2               19
  CLUS_8              9               29
  CLUS_9              4               46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VPS13B MUTATED        0      4      3      0      4      1
  VPS13B WILD-TYPE     13     12     11     11      7      8
D748V11, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1              0               13
  CLUS_2              4               12
  CLUS_3              3               11
  CLUS_4              0               11
  CLUS_5              4                7
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS13B MUTATED        3      1      1      2      1      2      2      0
  VPS13B WILD-TYPE      8      6      6      7      7      5      9      9
                  vv
clus               CLUS_9
  VPS13B MUTATED        0
  VPS13B WILD-TYPE      5
D748V12, multiclass
        clus
vv       VPS13B MUTATED VPS13B WILD-TYPE
  CLUS_1              3                8
  CLUS_2              1                6
  CLUS_3              1                6
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              2                5
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(749) Variable = ZNF620 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF620 MUTATED        2      0      0      0      0
  ZNF620 WILD-TYPE     30     18     46     27     23
D749V1, multiclass
[1] "Remove cluster labels:" "ZNF620 MUTATED"        
clus
  ZNF620 MUTATED ZNF620 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3555 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00K 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF620 MUTATED        2      0      0
  ZNF620 WILD-TYPE     41     67     36
D749V2, multiclass
[1] "Remove cluster labels:" "ZNF620 MUTATED"        
clus
  ZNF620 MUTATED ZNF620 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3555 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00K 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF620 MUTATED        1      0      7
  ZNF620 WILD-TYPE     41    173    140
D749V3, multiclass
        clus
vv       ZNF620 MUTATED ZNF620 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF620 MUTATED        2      1      2
  ZNF620 WILD-TYPE     60     72     73
D749V4, multiclass
        clus
vv       ZNF620 MUTATED ZNF620 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF620 MUTATED        2      2      4
  ZNF620 WILD-TYPE     68    118     96
D749V5, multiclass
        clus
vv       ZNF620 MUTATED ZNF620 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF620 MUTATED        3      0      1      0      1      2      1      0
  ZNF620 WILD-TYPE     38     26     29     29     38     67     19     14
                  vv
clus               CLUS_9
  ZNF620 MUTATED        0
  ZNF620 WILD-TYPE     22
D749V6, multiclass
        clus
vv       ZNF620 MUTATED ZNF620 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF620 MUTATED        0      5      1      2
  ZNF620 WILD-TYPE    100     67     71    119
D749V7, multiclass
        clus
vv       ZNF620 MUTATED ZNF620 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              5               67
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF620 MUTATED        1      2      3      0      2
  ZNF620 WILD-TYPE     58     73     71    119     36
D749V8, multiclass
        clus
vv       ZNF620 MUTATED ZNF620 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF620 MUTATED        0      4      1      0      3
  ZNF620 WILD-TYPE     51     72     60     71     92
D749V9, multiclass
        clus
vv       ZNF620 MUTATED ZNF620 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF620 MUTATED        2      1      0      1      1      0      0      2
  ZNF620 WILD-TYPE     67     47     39     15     52     20     21     36
                  vv
clus               CLUS_9
  ZNF620 MUTATED        1
  ZNF620 WILD-TYPE     49
D749V10, multiclass
        clus
vv       ZNF620 MUTATED ZNF620 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF620 MUTATED        0      1      0      0      0      0
  ZNF620 WILD-TYPE     13     15     14     11     11      9
D749V11, multiclass
[1] "Remove cluster labels:" "ZNF620 MUTATED"        
clus
  ZNF620 MUTATED ZNF620 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF620 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF620 MUTATED        1      0      0      0      0      0      0      0
  ZNF620 WILD-TYPE     10      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  ZNF620 MUTATED        0
  ZNF620 WILD-TYPE      5
D749V12, multiclass
[1] "Remove cluster labels:" "ZNF620 MUTATED"        
clus
  ZNF620 MUTATED ZNF620 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" "ZNF620 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF620 WILD-TYPE" 

Clustering(750) Variable = ZNF570 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF570 MUTATED        2      1      0      0      0
  ZNF570 WILD-TYPE     30     17     46     27     23
D750V1, multiclass
        clus
vv       ZNF570 MUTATED ZNF570 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF570 MUTATED        2      1      0
  ZNF570 WILD-TYPE     41     66     36
D750V2, multiclass
        clus
vv       ZNF570 MUTATED ZNF570 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF570 MUTATED        0      2      6
  ZNF570 WILD-TYPE     42    171    141
D750V3, multiclass
        clus
vv       ZNF570 MUTATED ZNF570 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF570 MUTATED        1      2      4
  ZNF570 WILD-TYPE     61     71     71
D750V4, multiclass
        clus
vv       ZNF570 MUTATED ZNF570 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF570 MUTATED        1      2      6
  ZNF570 WILD-TYPE     69    118     94
D750V5, multiclass
        clus
vv       ZNF570 MUTATED ZNF570 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF570 MUTATED        1      0      0      1      1      4      1      1
  ZNF570 WILD-TYPE     40     26     30     28     38     65     19     13
                  vv
clus               CLUS_9
  ZNF570 MUTATED        0
  ZNF570 WILD-TYPE     22
D750V6, multiclass
        clus
vv       ZNF570 MUTATED ZNF570 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF570 MUTATED        1      4      2      2
  ZNF570 WILD-TYPE     99     68     70    119
D750V7, multiclass
        clus
vv       ZNF570 MUTATED ZNF570 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF570 MUTATED        1      0      5      1      2
  ZNF570 WILD-TYPE     58     75     69    118     36
D750V8, multiclass
        clus
vv       ZNF570 MUTATED ZNF570 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF570 MUTATED        0      5      2      1      1
  ZNF570 WILD-TYPE     51     71     59     70     94
D750V9, multiclass
        clus
vv       ZNF570 MUTATED ZNF570 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF570 MUTATED        1      2      0      3      0      0      2      1
  ZNF570 WILD-TYPE     68     46     39     13     53     20     19     37
                  vv
clus               CLUS_9
  ZNF570 MUTATED        0
  ZNF570 WILD-TYPE     50
D750V10, multiclass
        clus
vv       ZNF570 MUTATED ZNF570 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              2               19
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF570 MUTATED        0      0      0      0      2      0
  ZNF570 WILD-TYPE     13     16     14     11      9      9
D750V11, multiclass
[1] "Remove cluster labels:" "ZNF570 MUTATED"        
clus
  ZNF570 MUTATED ZNF570 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6625       TCGA-G4-6628 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF570 MUTATED        0      0      0      1      0      0      1      0
  ZNF570 WILD-TYPE     11      7      7      8      8      7     10      9
                  vv
clus               CLUS_9
  ZNF570 MUTATED        0
  ZNF570 WILD-TYPE      5
D750V12, multiclass
[1] "Remove cluster labels:" "ZNF570 MUTATED"        
clus
  ZNF570 MUTATED ZNF570 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6625       TCGA-G4-6628 
"ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" "ZNF570 WILD-TYPE" 

Clustering(751) Variable = AP1G2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP1G2 MUTATED        6      0      0      0      0
  AP1G2 WILD-TYPE     26     18     46     27     23
D751V1, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1G2 MUTATED        6      0      0
  AP1G2 WILD-TYPE     37     67     36
D751V2, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1G2 MUTATED        1      1     11
  AP1G2 WILD-TYPE     41    172    136
D751V3, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1G2 MUTATED        3      0      3
  AP1G2 WILD-TYPE     59     73     72
D751V4, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1G2 MUTATED        2      1      7
  AP1G2 WILD-TYPE     68    119     93
D751V5, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP1G2 MUTATED        0      1      0      2      1      5      1      0
  AP1G2 WILD-TYPE     41     25     30     27     38     64     19     14
                 vv
clus              CLUS_9
  AP1G2 MUTATED        0
  AP1G2 WILD-TYPE     22
D751V6, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AP1G2 MUTATED        0      2      5      6
  AP1G2 WILD-TYPE    100     70     67    115
D751V7, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             5              67
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP1G2 MUTATED        2      1      4      2      4
  AP1G2 WILD-TYPE     57     74     70    117     34
D751V8, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP1G2 MUTATED        0      4      1      1      6
  AP1G2 WILD-TYPE     51     72     60     70     89
D751V9, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP1G2 MUTATED        1      2      0      0      3      1      2      3
  AP1G2 WILD-TYPE     68     46     39     16     50     19     19     35
                 vv
clus              CLUS_9
  AP1G2 MUTATED        0
  AP1G2 WILD-TYPE     50
D751V10, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             2              19
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AP1G2 MUTATED        0      0      1      1      1      0
  AP1G2 WILD-TYPE     13     16     13     10     10      9
D751V11, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP1G2 MUTATED        0      0      0      0      1      1      1      0
  AP1G2 WILD-TYPE     11      7      7      9      7      6     10      9
                 vv
clus              CLUS_9
  AP1G2 MUTATED        0
  AP1G2 WILD-TYPE      5
D751V12, multiclass
        clus
vv       AP1G2 MUTATED AP1G2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(752) Variable = SLC22A16 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A16 MUTATED        2      0      0      0      0
  SLC22A16 WILD-TYPE     30     18     46     27     23
D752V1, multiclass
[1] "Remove cluster labels:" "SLC22A16 MUTATED"      
clus
  SLC22A16 MUTATED SLC22A16 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3980         TCGA-AA-3982 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00U 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC22A16 MUTATED        1      0      1
  SLC22A16 WILD-TYPE     42     67     35
D752V2, multiclass
[1] "Remove cluster labels:" "SLC22A16 MUTATED"      
clus
  SLC22A16 MUTATED SLC22A16 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3980         TCGA-AA-3982 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00U 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" "SLC22A16 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC22A16 MUTATED        0      1     12
  SLC22A16 WILD-TYPE     42    172    135
D752V3, multiclass
        clus
vv       SLC22A16 MUTATED SLC22A16 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                1                172
  CLUS_3               12                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC22A16 MUTATED        4      0      6
  SLC22A16 WILD-TYPE     58     73     69
D752V4, multiclass
        clus
vv       SLC22A16 MUTATED SLC22A16 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                0                 73
  CLUS_3                6                 69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC22A16 MUTATED        2      2      6
  SLC22A16 WILD-TYPE     68    118     94
D752V5, multiclass
        clus
vv       SLC22A16 MUTATED SLC22A16 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                2                118
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A16 MUTATED        0      2      0      1      1      6      0      0
  SLC22A16 WILD-TYPE     41     24     30     28     38     63     20     14
                    vv
clus                 CLUS_9
  SLC22A16 MUTATED        0
  SLC22A16 WILD-TYPE     22
D752V6, multiclass
        clus
vv       SLC22A16 MUTATED SLC22A16 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                2                 24
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                1                 38
  CLUS_6                6                 63
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC22A16 MUTATED        0      6      4      3
  SLC22A16 WILD-TYPE    100     66     68    118
D752V7, multiclass
        clus
vv       SLC22A16 MUTATED SLC22A16 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                6                 66
  CLUS_3                4                 68
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A16 MUTATED        0      0      9      3      1
  SLC22A16 WILD-TYPE     59     75     65    116     37
D752V8, multiclass
        clus
vv       SLC22A16 MUTATED SLC22A16 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                9                 65
  CLUS_4                3                116
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A16 MUTATED        0      7      1      2      2
  SLC22A16 WILD-TYPE     51     69     60     69     93
D752V9, multiclass
        clus
vv       SLC22A16 MUTATED SLC22A16 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                7                 69
  CLUS_3                1                 60
  CLUS_4                2                 69
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A16 MUTATED        2      2      0      3      2      0      0      2
  SLC22A16 WILD-TYPE     67     46     39     13     51     20     21     36
                    vv
clus                 CLUS_9
  SLC22A16 MUTATED        1
  SLC22A16 WILD-TYPE     49
D752V10, multiclass
        clus
vv       SLC22A16 MUTATED SLC22A16 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                3                 13
  CLUS_5                2                 51
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC22A16 MUTATED        0      0      1      0      2      0
  SLC22A16 WILD-TYPE     13     16     13     11      9      9
D752V11, multiclass
        clus
vv       SLC22A16 MUTATED SLC22A16 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                0                 16
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A16 MUTATED        0      0      0      0      1      1      1      0
  SLC22A16 WILD-TYPE     11      7      7      9      7      6     10      9
                    vv
clus                 CLUS_9
  SLC22A16 MUTATED        0
  SLC22A16 WILD-TYPE      5
D752V12, multiclass
        clus
vv       SLC22A16 MUTATED SLC22A16 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                1                  7
  CLUS_6                1                  6
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(753) Variable = FER MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FER MUTATED        3      1      0      1      0
  FER WILD-TYPE     29     17     46     26     23
D753V1, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           3            29
  CLUS_2           1            17
  CLUS_3           0            46
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FER MUTATED        2      1      2
  FER WILD-TYPE     41     66     34
D753V2, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           2            41
  CLUS_2           1            66
  CLUS_3           2            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FER MUTATED        0      5     10
  FER WILD-TYPE     42    168    137
D753V3, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           0            42
  CLUS_2           5           168
  CLUS_3          10           137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FER MUTATED        4      4      2
  FER WILD-TYPE     58     69     73
D753V4, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           4            58
  CLUS_2           4            69
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FER MUTATED        0      3     10
  FER WILD-TYPE     70    117     90
D753V5, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           0            70
  CLUS_2           3           117
  CLUS_3          10            90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FER MUTATED        0      0      1      1      1      9      0      1      0
  FER WILD-TYPE     41     26     29     28     38     60     20     13     22
D753V6, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           1            29
  CLUS_4           1            28
  CLUS_5           1            38
  CLUS_6           9            60
  CLUS_7           0            20
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FER MUTATED        4      3      4      4
  FER WILD-TYPE     96     69     68    117
D753V7, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           4            96
  CLUS_2           3            69
  CLUS_3           4            68
  CLUS_4           4           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FER MUTATED        1      4      5      3      2
  FER WILD-TYPE     58     71     69    116     36
D753V8, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           1            58
  CLUS_2           4            71
  CLUS_3           5            69
  CLUS_4           3           116
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FER MUTATED        2      5      1      3      4
  FER WILD-TYPE     49     71     60     68     91
D753V9, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           2            49
  CLUS_2           5            71
  CLUS_3           1            60
  CLUS_4           3            68
  CLUS_5           4            91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FER MUTATED        3      3      1      0      3      2      0      2      1
  FER WILD-TYPE     66     45     38     16     50     18     21     36     49
D753V10, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           3            66
  CLUS_2           3            45
  CLUS_3           1            38
  CLUS_4           0            16
  CLUS_5           3            50
  CLUS_6           2            18
  CLUS_7           0            21
  CLUS_8           2            36
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FER MUTATED        1      0      2      0      1      0
  FER WILD-TYPE     12     16     12     11     10      9
D753V11, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           1            12
  CLUS_2           0            16
  CLUS_3           2            12
  CLUS_4           0            11
  CLUS_5           1            10
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FER MUTATED        0      0      0      1      0      1      2      0      0
  FER WILD-TYPE     11      7      7      8      8      6      9      9      5
D753V12, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           1             6
  CLUS_7           2             9
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(754) Variable = SCN3A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCN3A MUTATED        7      0      1      3      0
  SCN3A WILD-TYPE     25     18     45     24     23
D754V1, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1             7              25
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN3A MUTATED        8      2      1
  SCN3A WILD-TYPE     35     65     35
D754V2, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1             8              35
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN3A MUTATED        2     13     27
  SCN3A WILD-TYPE     40    160    120
D754V3, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1             2              40
  CLUS_2            13             160
  CLUS_3            27             120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN3A MUTATED        8     10     13
  SCN3A WILD-TYPE     54     63     62
D754V4, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1             8              54
  CLUS_2            10              63
  CLUS_3            13              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN3A MUTATED        7     17     13
  SCN3A WILD-TYPE     63    103     87
D754V5, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1             7              63
  CLUS_2            17             103
  CLUS_3            13              87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCN3A MUTATED        3      2      6      4      5     11      2      2
  SCN3A WILD-TYPE     38     24     24     25     34     58     18     12
                 vv
clus              CLUS_9
  SCN3A MUTATED        2
  SCN3A WILD-TYPE     20
D754V6, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             6              24
  CLUS_4             4              25
  CLUS_5             5              34
  CLUS_6            11              58
  CLUS_7             2              18
  CLUS_8             2              12
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SCN3A MUTATED       11     13      6     12
  SCN3A WILD-TYPE     89     59     66    109
D754V7, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1            11              89
  CLUS_2            13              59
  CLUS_3             6              66
  CLUS_4            12             109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCN3A MUTATED        7      9     12      5      9
  SCN3A WILD-TYPE     52     66     62    114     29
D754V8, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1             7              52
  CLUS_2             9              66
  CLUS_3            12              62
  CLUS_4             5             114
  CLUS_5             9              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCN3A MUTATED        4     16      6      4     11
  SCN3A WILD-TYPE     47     60     55     67     84
D754V9, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1             4              47
  CLUS_2            16              60
  CLUS_3             6              55
  CLUS_4             4              67
  CLUS_5            11              84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCN3A MUTATED       11      6      1      3      7      2      2      6
  SCN3A WILD-TYPE     58     42     38     13     46     18     19     32
                 vv
clus              CLUS_9
  SCN3A MUTATED        3
  SCN3A WILD-TYPE     47
D754V10, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1            11              58
  CLUS_2             6              42
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             7              46
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             6              32
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SCN3A MUTATED        2      1      1      2      2      1
  SCN3A WILD-TYPE     11     15     13      9      9      8
D754V11, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1             2              11
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             2               9
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCN3A MUTATED        2      0      1      1      0      2      1      2
  SCN3A WILD-TYPE      9      7      6      8      8      5     10      7
                 vv
clus              CLUS_9
  SCN3A MUTATED        0
  SCN3A WILD-TYPE      5
D754V12, multiclass
        clus
vv       SCN3A MUTATED SCN3A WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             2               5
  CLUS_7             1              10
  CLUS_8             2               7
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(755) Variable = IQGAP2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IQGAP2 MUTATED        5      0      2      1      0
  IQGAP2 WILD-TYPE     27     18     44     26     23
D755V1, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              2               44
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IQGAP2 MUTATED        6      2      0
  IQGAP2 WILD-TYPE     37     65     36
D755V2, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              6               37
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IQGAP2 MUTATED        2      6     13
  IQGAP2 WILD-TYPE     40    167    134
D755V3, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              6              167
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IQGAP2 MUTATED        5      1      6
  IQGAP2 WILD-TYPE     57     72     69
D755V4, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              1               72
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IQGAP2 MUTATED        3      6      7
  IQGAP2 WILD-TYPE     67    114     93
D755V5, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              6              114
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IQGAP2 MUTATED        2      1      1      4      1      5      1      0
  IQGAP2 WILD-TYPE     39     25     29     25     38     64     19     14
                  vv
clus               CLUS_9
  IQGAP2 MUTATED        1
  IQGAP2 WILD-TYPE     21
D755V6, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              4               25
  CLUS_5              1               38
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IQGAP2 MUTATED        3      5      5      7
  IQGAP2 WILD-TYPE     97     67     67    114
D755V7, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              5               67
  CLUS_3              5               67
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IQGAP2 MUTATED        3      2      7      2      6
  IQGAP2 WILD-TYPE     56     73     67    117     32
D755V8, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              2               73
  CLUS_3              7               67
  CLUS_4              2              117
  CLUS_5              6               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IQGAP2 MUTATED        3      5      3      2      6
  IQGAP2 WILD-TYPE     48     71     58     69     89
D755V9, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              5               71
  CLUS_3              3               58
  CLUS_4              2               69
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IQGAP2 MUTATED        0      5      2      3      1      2      0      4
  IQGAP2 WILD-TYPE     69     43     37     13     52     18     21     34
                  vv
clus               CLUS_9
  IQGAP2 MUTATED        2
  IQGAP2 WILD-TYPE     48
D755V10, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              5               43
  CLUS_3              2               37
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              4               34
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IQGAP2 MUTATED        0      1      1      0      2      0
  IQGAP2 WILD-TYPE     13     15     13     11      9      9
D755V11, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IQGAP2 MUTATED        1      0      0      1      1      1      0      0
  IQGAP2 WILD-TYPE     10      7      7      8      7      6     11      9
                  vv
clus               CLUS_9
  IQGAP2 MUTATED        0
  IQGAP2 WILD-TYPE      5
D755V12, multiclass
        clus
vv       IQGAP2 MUTATED IQGAP2 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(756) Variable = CD3D MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD3D MUTATED        0      0      0      1      0
  CD3D WILD-TYPE     32     18     46     26     23
D756V1, multiclass
[1] "Remove cluster labels:" "CD3D MUTATED"          
clus
  CD3D MUTATED CD3D WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AY-4071 
"CD3D WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD3D MUTATED        1      0      0
  CD3D WILD-TYPE     42     67     36
D756V2, multiclass
[1] "Remove cluster labels:" "CD3D MUTATED"          
clus
  CD3D MUTATED CD3D WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AY-4071 
"CD3D WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD3D MUTATED        1      1      2
  CD3D WILD-TYPE     41    172    145
D756V3, multiclass
        clus
vv       CD3D MUTATED CD3D WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD3D MUTATED        1      1      1
  CD3D WILD-TYPE     61     72     74
D756V4, multiclass
        clus
vv       CD3D MUTATED CD3D WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD3D MUTATED        0      2      2
  CD3D WILD-TYPE     70    118     98
D756V5, multiclass
        clus
vv       CD3D MUTATED CD3D WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD3D MUTATED        0      0      1      1      0      2      0      0      0
  CD3D WILD-TYPE     41     26     29     28     39     67     20     14     22
D756V6, multiclass
        clus
vv       CD3D MUTATED CD3D WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD3D MUTATED        1      1      1      1
  CD3D WILD-TYPE     99     71     71    120
D756V7, multiclass
        clus
vv       CD3D MUTATED CD3D WILD-TYPE
  CLUS_1            1             99
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD3D MUTATED        1      1      1      0      1
  CD3D WILD-TYPE     58     74     73    119     37
D756V8, multiclass
        clus
vv       CD3D MUTATED CD3D WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD3D MUTATED        0      1      1      1      0
  CD3D WILD-TYPE     51     75     60     70     95
D756V9, multiclass
        clus
vv       CD3D MUTATED CD3D WILD-TYPE
  CLUS_1            0             51
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD3D MUTATED        2      1      0      0      0      0      0      0      0
  CD3D WILD-TYPE     67     47     39     16     53     20     21     38     50
D756V10, multiclass
        clus
vv       CD3D MUTATED CD3D WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CD3D MUTATED        0      1      0      0      0      0
  CD3D WILD-TYPE     13     15     14     11     11      9
D756V11, multiclass
[1] "Remove cluster labels:" "CD3D MUTATED"          
clus
  CD3D MUTATED CD3D WILD-TYPE 
             1             73 
    TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-G4-6628 
"CD3D WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD3D MUTATED        0      1      0      0      0      0      0      0      0
  CD3D WILD-TYPE     11      6      7      9      8      7     11      9      5
D756V12, multiclass
[1] "Remove cluster labels:" "CD3D MUTATED"          
clus
  CD3D MUTATED CD3D WILD-TYPE 
             1             73 
    TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" "CD3D WILD-TYPE" 
    TCGA-G4-6628 
"CD3D WILD-TYPE" 

Clustering(757) Variable = ADORA3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADORA3 MUTATED        0      1      1      1      0
  ADORA3 WILD-TYPE     32     17     45     26     23
D757V1, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              0               32
  CLUS_2              1               17
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADORA3 MUTATED        1      1      1
  ADORA3 WILD-TYPE     42     66     35
D757V2, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADORA3 MUTATED        3      5      6
  ADORA3 WILD-TYPE     39    168    141
D757V3, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              5              168
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADORA3 MUTATED        3      3      5
  ADORA3 WILD-TYPE     59     70     70
D757V4, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              3               70
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADORA3 MUTATED        5      3      5
  ADORA3 WILD-TYPE     65    117     95
D757V5, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              5               65
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADORA3 MUTATED        0      0      0      0      3      5      2      1
  ADORA3 WILD-TYPE     41     26     30     29     36     64     18     13
                  vv
clus               CLUS_9
  ADORA3 MUTATED        2
  ADORA3 WILD-TYPE     20
D757V6, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              3               36
  CLUS_6              5               64
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADORA3 MUTATED        4      2      6      2
  ADORA3 WILD-TYPE     96     70     66    119
D757V7, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              2               70
  CLUS_3              6               66
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADORA3 MUTATED        4      2      5      2      1
  ADORA3 WILD-TYPE     55     73     69    117     37
D757V8, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADORA3 MUTATED        1      5      3      3      2
  ADORA3 WILD-TYPE     50     71     58     68     93
D757V9, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              3               58
  CLUS_4              3               68
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADORA3 MUTATED        5      3      0      2      1      0      0      1
  ADORA3 WILD-TYPE     64     45     39     14     52     20     21     37
                  vv
clus               CLUS_9
  ADORA3 MUTATED        2
  ADORA3 WILD-TYPE     48
D757V10, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADORA3 MUTATED        1      1      0      1      3      0
  ADORA3 WILD-TYPE     12     15     14     10      8      9
D757V11, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADORA3 MUTATED        0      1      0      0      1      0      2      2
  ADORA3 WILD-TYPE     11      6      7      9      7      7      9      7
                  vv
clus               CLUS_9
  ADORA3 MUTATED        0
  ADORA3 WILD-TYPE      5
D757V12, multiclass
        clus
vv       ADORA3 MUTATED ADORA3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              2                7
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(758) Variable = ALDOB MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALDOB MUTATED        5      0      0      0      0
  ALDOB WILD-TYPE     27     18     46     27     23
D758V1, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALDOB MUTATED        5      0      0
  ALDOB WILD-TYPE     38     67     36
D758V2, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALDOB MUTATED        0      1     14
  ALDOB WILD-TYPE     42    172    133
D758V3, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALDOB MUTATED        5      0      5
  ALDOB WILD-TYPE     57     73     70
D758V4, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALDOB MUTATED        1      3      7
  ALDOB WILD-TYPE     69    117     93
D758V5, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALDOB MUTATED        1      1      0      1      1      5      1      1
  ALDOB WILD-TYPE     40     25     30     28     38     64     19     13
                 vv
clus              CLUS_9
  ALDOB MUTATED        0
  ALDOB WILD-TYPE     22
D758V6, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALDOB MUTATED        1      5      4      5
  ALDOB WILD-TYPE     99     67     68    116
D758V7, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALDOB MUTATED        1      2      7      0      5
  ALDOB WILD-TYPE     58     73     67    119     33
D758V8, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             7              67
  CLUS_4             0             119
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALDOB MUTATED        2      4      4      1      3
  ALDOB WILD-TYPE     49     72     57     70     92
D758V9, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALDOB MUTATED        4      3      0      1      3      0      1      2
  ALDOB WILD-TYPE     65     45     39     15     50     20     20     36
                 vv
clus              CLUS_9
  ALDOB MUTATED        0
  ALDOB WILD-TYPE     50
D758V10, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ALDOB MUTATED        0      1      2      0      0      0
  ALDOB WILD-TYPE     13     15     12     11     11      9
D758V11, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALDOB MUTATED        0      0      0      0      1      1      1      0
  ALDOB WILD-TYPE     11      7      7      9      7      6     10      9
                 vv
clus              CLUS_9
  ALDOB MUTATED        0
  ALDOB WILD-TYPE      5
D758V12, multiclass
        clus
vv       ALDOB MUTATED ALDOB WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(759) Variable = ELFN2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ELFN2 MUTATED        0      0      1      0      0
  ELFN2 WILD-TYPE     32     18     45     27     23
D759V1, multiclass
[1] "Remove cluster labels:" "ELFN2 MUTATED"         
clus
  ELFN2 MUTATED ELFN2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AY-4071 
"ELFN2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ELFN2 MUTATED        0      1      0
  ELFN2 WILD-TYPE     43     66     36
D759V2, multiclass
[1] "Remove cluster labels:" "ELFN2 MUTATED"         
clus
  ELFN2 MUTATED ELFN2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AY-4071 
"ELFN2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ELFN2 MUTATED        0      5      4
  ELFN2 WILD-TYPE     42    168    143
D759V3, multiclass
        clus
vv       ELFN2 MUTATED ELFN2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ELFN2 MUTATED        1      3      4
  ELFN2 WILD-TYPE     61     70     71
D759V4, multiclass
        clus
vv       ELFN2 MUTATED ELFN2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ELFN2 MUTATED        0      3      3
  ELFN2 WILD-TYPE     70    117     97
D759V5, multiclass
        clus
vv       ELFN2 MUTATED ELFN2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ELFN2 MUTATED        1      0      1      1      0      3      0      0
  ELFN2 WILD-TYPE     40     26     29     28     39     66     20     14
                 vv
clus              CLUS_9
  ELFN2 MUTATED        0
  ELFN2 WILD-TYPE     22
D759V6, multiclass
        clus
vv       ELFN2 MUTATED ELFN2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ELFN2 MUTATED        3      2      3      1
  ELFN2 WILD-TYPE     97     70     69    120
D759V7, multiclass
        clus
vv       ELFN2 MUTATED ELFN2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ELFN2 MUTATED        1      5      2      1      0
  ELFN2 WILD-TYPE     58     70     72    118     38
D759V8, multiclass
        clus
vv       ELFN2 MUTATED ELFN2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             5              70
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ELFN2 MUTATED        1      6      1      1      0
  ELFN2 WILD-TYPE     50     70     60     70     95
D759V9, multiclass
        clus
vv       ELFN2 MUTATED ELFN2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ELFN2 MUTATED        4      2      2      0      0      0      0      0
  ELFN2 WILD-TYPE     65     46     37     16     53     20     21     38
                 vv
clus              CLUS_9
  ELFN2 MUTATED        1
  ELFN2 WILD-TYPE     49
D759V10, multiclass
        clus
vv       ELFN2 MUTATED ELFN2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ELFN2 MUTATED        1      0      0      0      0      1
  ELFN2 WILD-TYPE     12     16     14     11     11      8
D759V11, multiclass
[1] "Remove cluster labels:" "ELFN2 MUTATED"         
clus
  ELFN2 MUTATED ELFN2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-6167      TCGA-CM-6674 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ELFN2 MUTATED        1      0      0      0      0      0      0      1
  ELFN2 WILD-TYPE     10      7      7      9      8      7     11      8
                 vv
clus              CLUS_9
  ELFN2 MUTATED        0
  ELFN2 WILD-TYPE      5
D759V12, multiclass
[1] "Remove cluster labels:" "ELFN2 MUTATED"         
clus
  ELFN2 MUTATED ELFN2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-6167      TCGA-CM-6674 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" "ELFN2 WILD-TYPE" 

Clustering(760) Variable = AWAT1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AWAT1 MUTATED        2      0      0      1      0
  AWAT1 WILD-TYPE     30     18     46     26     23
D760V1, multiclass
        clus
vv       AWAT1 MUTATED AWAT1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AWAT1 MUTATED        2      1      0
  AWAT1 WILD-TYPE     41     66     36
D760V2, multiclass
        clus
vv       AWAT1 MUTATED AWAT1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AWAT1 MUTATED        0      3      5
  AWAT1 WILD-TYPE     42    170    142
D760V3, multiclass
        clus
vv       AWAT1 MUTATED AWAT1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AWAT1 MUTATED        2      1      2
  AWAT1 WILD-TYPE     60     72     73
D760V4, multiclass
        clus
vv       AWAT1 MUTATED AWAT1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AWAT1 MUTATED        0      3      4
  AWAT1 WILD-TYPE     70    117     96
D760V5, multiclass
        clus
vv       AWAT1 MUTATED AWAT1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AWAT1 MUTATED        1      1      0      1      1      1      1      0
  AWAT1 WILD-TYPE     40     25     30     28     38     68     19     14
                 vv
clus              CLUS_9
  AWAT1 MUTATED        1
  AWAT1 WILD-TYPE     21
D760V6, multiclass
        clus
vv       AWAT1 MUTATED AWAT1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AWAT1 MUTATED        2      2      2      2
  AWAT1 WILD-TYPE     98     70     70    119
D760V7, multiclass
        clus
vv       AWAT1 MUTATED AWAT1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AWAT1 MUTATED        3      1      1      1      2
  AWAT1 WILD-TYPE     56     74     73    118     36
D760V8, multiclass
        clus
vv       AWAT1 MUTATED AWAT1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AWAT1 MUTATED        2      2      1      0      3
  AWAT1 WILD-TYPE     49     74     60     71     92
D760V9, multiclass
        clus
vv       AWAT1 MUTATED AWAT1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AWAT1 MUTATED        0      2      2      1      0      0      1      1
  AWAT1 WILD-TYPE     69     46     37     15     53     20     20     37
                 vv
clus              CLUS_9
  AWAT1 MUTATED        1
  AWAT1 WILD-TYPE     49
D760V10, multiclass
        clus
vv       AWAT1 MUTATED AWAT1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AWAT1 MUTATED        0      0      0      1      0      0
  AWAT1 WILD-TYPE     13     16     14     10     11      9
D760V11, multiclass
[1] "Remove cluster labels:" "AWAT1 MUTATED"         
clus
  AWAT1 MUTATED AWAT1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-G4-6628 
"AWAT1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AWAT1 MUTATED        0      0      0      0      0      0      1      0
  AWAT1 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  AWAT1 MUTATED        0
  AWAT1 WILD-TYPE      5
D760V12, multiclass
[1] "Remove cluster labels:" "AWAT1 MUTATED"         
clus
  AWAT1 MUTATED AWAT1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" "AWAT1 WILD-TYPE" 
     TCGA-G4-6628 
"AWAT1 WILD-TYPE" 

Clustering(761) Variable = EXT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXT1 MUTATED        4      0      2      2      0
  EXT1 WILD-TYPE     28     18     44     25     23
D761V1, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            2             44
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EXT1 MUTATED        5      2      1
  EXT1 WILD-TYPE     38     65     35
D761V2, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EXT1 MUTATED        0      7     11
  EXT1 WILD-TYPE     42    166    136
D761V3, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            7            166
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EXT1 MUTATED        2      3      4
  EXT1 WILD-TYPE     60     70     71
D761V4, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            3             70
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EXT1 MUTATED        3      7      4
  EXT1 WILD-TYPE     67    113     96
D761V5, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            7            113
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EXT1 MUTATED        2      0      2      0      2      3      2      2      1
  EXT1 WILD-TYPE     39     26     28     29     37     66     18     12     21
D761V6, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            2             18
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EXT1 MUTATED        5      3      2      8
  EXT1 WILD-TYPE     95     69     70    113
D761V7, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            5             95
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXT1 MUTATED        2      4      3      4      5
  EXT1 WILD-TYPE     57     71     71    115     33
D761V8, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            4             71
  CLUS_3            3             71
  CLUS_4            4            115
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXT1 MUTATED        2      6      0      1      7
  EXT1 WILD-TYPE     49     70     61     70     88
D761V9, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EXT1 MUTATED        5      2      0      0      2      2      0      5      0
  EXT1 WILD-TYPE     64     46     39     16     51     18     21     33     50
D761V10, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            5             33
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EXT1 MUTATED        0      1      1      2      0      0
  EXT1 WILD-TYPE     13     15     13      9     11      9
D761V11, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            2              9
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EXT1 MUTATED        0      0      0      0      1      0      2      1      0
  EXT1 WILD-TYPE     11      7      7      9      7      7      9      8      5
D761V12, multiclass
        clus
vv       EXT1 MUTATED EXT1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(762) Variable = DNAH17 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH17 MUTATED        0      0      1      0      0
  DNAH17 WILD-TYPE     32     18     45     27     23
D762V1, multiclass
[1] "Remove cluster labels:" "DNAH17 MUTATED"        
clus
  DNAH17 MUTATED DNAH17 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AY-4071 
"DNAH17 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAH17 MUTATED        0      0      1
  DNAH17 WILD-TYPE     43     67     35
D762V2, multiclass
[1] "Remove cluster labels:" "DNAH17 MUTATED"        
clus
  DNAH17 MUTATED DNAH17 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" "DNAH17 WILD-TYPE" 
      TCGA-AY-4071 
"DNAH17 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAH17 MUTATED        2      7     21
  DNAH17 WILD-TYPE     40    166    126
D762V3, multiclass
        clus
vv       DNAH17 MUTATED DNAH17 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              7              166
  CLUS_3             21              126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAH17 MUTATED       11      5     13
  DNAH17 WILD-TYPE     51     68     62
D762V4, multiclass
        clus
vv       DNAH17 MUTATED DNAH17 WILD-TYPE
  CLUS_1             11               51
  CLUS_2              5               68
  CLUS_3             13               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAH17 MUTATED        6      6     14
  DNAH17 WILD-TYPE     64    114     86
D762V5, multiclass
        clus
vv       DNAH17 MUTATED DNAH17 WILD-TYPE
  CLUS_1              6               64
  CLUS_2              6              114
  CLUS_3             14               86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH17 MUTATED        3      2      0      1      3     12      1      4
  DNAH17 WILD-TYPE     38     24     30     28     36     57     19     10
                  vv
clus               CLUS_9
  DNAH17 MUTATED        0
  DNAH17 WILD-TYPE     22
D762V6, multiclass
        clus
vv       DNAH17 MUTATED DNAH17 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6             12               57
  CLUS_7              1               19
  CLUS_8              4               10
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNAH17 MUTATED        7     12      8      3
  DNAH17 WILD-TYPE     93     60     64    118
D762V7, multiclass
        clus
vv       DNAH17 MUTATED DNAH17 WILD-TYPE
  CLUS_1              7               93
  CLUS_2             12               60
  CLUS_3              8               64
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH17 MUTATED        5     10     12      3      0
  DNAH17 WILD-TYPE     54     65     62    116     38
D762V8, multiclass
        clus
vv       DNAH17 MUTATED DNAH17 WILD-TYPE
  CLUS_1              5               54
  CLUS_2             10               65
  CLUS_3             12               62
  CLUS_4              3              116
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH17 MUTATED        6     13      7      1      3
  DNAH17 WILD-TYPE     45     63     54     70     92
D762V9, multiclass
        clus
vv       DNAH17 MUTATED DNAH17 WILD-TYPE
  CLUS_1              6               45
  CLUS_2             13               63
  CLUS_3              7               54
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH17 MUTATED        6      8      2      4      3      3      0      1
  DNAH17 WILD-TYPE     63     40     37     12     50     17     21     37
                  vv
clus               CLUS_9
  DNAH17 MUTATED        3
  DNAH17 WILD-TYPE     47
D762V10, multiclass
        clus
vv       DNAH17 MUTATED DNAH17 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              8               40
  CLUS_3              2               37
  CLUS_4              4               12
  CLUS_5              3               50
  CLUS_6              3               17
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNAH17 MUTATED        1      1      3      0      3      0
  DNAH17 WILD-TYPE     12     15     11     11      8      9
D762V11, multiclass
        clus
vv       DNAH17 MUTATED DNAH17 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              3               11
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH17 MUTATED        0      0      0      1      1      0      5      0
  DNAH17 WILD-TYPE     11      7      7      8      7      7      6      9
                  vv
clus               CLUS_9
  DNAH17 MUTATED        1
  DNAH17 WILD-TYPE      4
D762V12, multiclass
        clus
vv       DNAH17 MUTATED DNAH17 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              5                6
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(763) Variable = SYNE1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNE1 MUTATED       18      1      7      9      2
  SYNE1 WILD-TYPE     14     17     39     18     21
D763V1, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1            18              14
  CLUS_2             1              17
  CLUS_3             7              39
  CLUS_4             9              18
  CLUS_5             2              21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNE1 MUTATED       22     11      4
  SYNE1 WILD-TYPE     21     56     32
D763V2, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1            22              21
  CLUS_2            11              56
  CLUS_3             4              32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNE1 MUTATED       10     36     70
  SYNE1 WILD-TYPE     32    137     77
D763V3, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1            10              32
  CLUS_2            36             137
  CLUS_3            70              77
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNE1 MUTATED       29     22     30
  SYNE1 WILD-TYPE     33     51     45
D763V4, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1            29              33
  CLUS_2            22              51
  CLUS_3            30              45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNE1 MUTATED       23     39     38
  SYNE1 WILD-TYPE     47     81     62
D763V5, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1            23              47
  CLUS_2            39              81
  CLUS_3            38              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNE1 MUTATED       11      5      7      9     13     29      8      6
  SYNE1 WILD-TYPE     30     21     23     20     26     40     12      8
                 vv
clus              CLUS_9
  SYNE1 MUTATED       12
  SYNE1 WILD-TYPE     10
D763V6, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1            11              30
  CLUS_2             5              21
  CLUS_3             7              23
  CLUS_4             9              20
  CLUS_5            13              26
  CLUS_6            29              40
  CLUS_7             8              12
  CLUS_8             6               8
  CLUS_9            12              10
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SYNE1 MUTATED       27     32     25     33
  SYNE1 WILD-TYPE     73     40     47     88
D763V7, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1            27              73
  CLUS_2            32              40
  CLUS_3            25              47
  CLUS_4            33              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNE1 MUTATED       17     21     38     19     22
  SYNE1 WILD-TYPE     42     54     36    100     16
D763V8, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1            17              42
  CLUS_2            21              54
  CLUS_3            38              36
  CLUS_4            19             100
  CLUS_5            22              16
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNE1 MUTATED       19     33     21      9     32
  SYNE1 WILD-TYPE     32     43     40     62     63
D763V9, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1            19              32
  CLUS_2            33              43
  CLUS_3            21              40
  CLUS_4             9              62
  CLUS_5            32              63
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNE1 MUTATED       20     17     13     12     18      5      7     17
  SYNE1 WILD-TYPE     49     31     26      4     35     15     14     21
                 vv
clus              CLUS_9
  SYNE1 MUTATED        5
  SYNE1 WILD-TYPE     45
D763V10, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1            20              49
  CLUS_2            17              31
  CLUS_3            13              26
  CLUS_4            12               4
  CLUS_5            18              35
  CLUS_6             5              15
  CLUS_7             7              14
  CLUS_8            17              21
  CLUS_9             5              45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SYNE1 MUTATED        2      5      4      4      6      4
  SYNE1 WILD-TYPE     11     11     10      7      5      5
D763V11, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             5              11
  CLUS_3             4              10
  CLUS_4             4               7
  CLUS_5             6               5
  CLUS_6             4               5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNE1 MUTATED        2      2      1      4      2      3      8      3
  SYNE1 WILD-TYPE      9      5      6      5      6      4      3      6
                 vv
clus              CLUS_9
  SYNE1 MUTATED        0
  SYNE1 WILD-TYPE      5
D763V12, multiclass
        clus
vv       SYNE1 MUTATED SYNE1 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             2               5
  CLUS_3             1               6
  CLUS_4             4               5
  CLUS_5             2               6
  CLUS_6             3               4
  CLUS_7             8               3
  CLUS_8             3               6
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(764) Variable = C1ORF35 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF35 MUTATED        0      0      0      0      0
  C1ORF35 WILD-TYPE     32     18     46     27     23
D764V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF35 MUTATED        0      0      0
  C1ORF35 WILD-TYPE     43     67     36
D764V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF35 MUTATED        0      0      4
  C1ORF35 WILD-TYPE     42    173    143
D764V3, multiclass
        clus
vv       C1ORF35 MUTATED C1ORF35 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF35 MUTATED        1      0      3
  C1ORF35 WILD-TYPE     61     73     72
D764V4, multiclass
        clus
vv       C1ORF35 MUTATED C1ORF35 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF35 MUTATED        1      0      2
  C1ORF35 WILD-TYPE     69    120     98
D764V5, multiclass
        clus
vv       C1ORF35 MUTATED C1ORF35 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               0               120
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF35 MUTATED        1      0      0      0      1      1      0      0
  C1ORF35 WILD-TYPE     40     26     30     29     38     68     20     14
                   vv
clus                CLUS_9
  C1ORF35 MUTATED        0
  C1ORF35 WILD-TYPE     22
D764V6, multiclass
        clus
vv       C1ORF35 MUTATED C1ORF35 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF35 MUTATED        0      2      2      0
  C1ORF35 WILD-TYPE    100     70     70    121
D764V7, multiclass
        clus
vv       C1ORF35 MUTATED C1ORF35 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF35 MUTATED        1      0      3      0      0
  C1ORF35 WILD-TYPE     58     75     71    119     38
D764V8, multiclass
        clus
vv       C1ORF35 MUTATED C1ORF35 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF35 MUTATED        0      3      1      0      0
  C1ORF35 WILD-TYPE     51     73     60     71     95
D764V9, multiclass
        clus
vv       C1ORF35 MUTATED C1ORF35 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF35 MUTATED        1      2      0      1      0      0      0      0
  C1ORF35 WILD-TYPE     68     46     39     15     53     20     21     38
                   vv
clus                CLUS_9
  C1ORF35 MUTATED        0
  C1ORF35 WILD-TYPE     50
D764V10, multiclass
        clus
vv       C1ORF35 MUTATED C1ORF35 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C1ORF35 MUTATED        0      0      0      0      1      0
  C1ORF35 WILD-TYPE     13     16     14     11     10      9
D764V11, multiclass
[1] "Remove cluster labels:" "C1ORF35 MUTATED"       
clus
  C1ORF35 MUTATED C1ORF35 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-G4-6628 
"C1ORF35 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF35 MUTATED        0      0      0      0      0      0      1      0
  C1ORF35 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  C1ORF35 MUTATED        0
  C1ORF35 WILD-TYPE      5
D764V12, multiclass
[1] "Remove cluster labels:" "C1ORF35 MUTATED"       
clus
  C1ORF35 MUTATED C1ORF35 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" "C1ORF35 WILD-TYPE" 
       TCGA-G4-6628 
"C1ORF35 WILD-TYPE" 

Clustering(765) Variable = POLQ MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLQ MUTATED        5      0      0      1      1
  POLQ WILD-TYPE     27     18     46     26     22
D765V1, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLQ MUTATED        4      1      2
  POLQ WILD-TYPE     39     66     34
D765V2, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLQ MUTATED        2      4     24
  POLQ WILD-TYPE     40    169    123
D765V3, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            2             40
  CLUS_2            4            169
  CLUS_3           24            123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLQ MUTATED        9      3     11
  POLQ WILD-TYPE     53     70     64
D765V4, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            9             53
  CLUS_2            3             70
  CLUS_3           11             64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  POLQ MUTATED        2      9     15
  POLQ WILD-TYPE     68    111     85
D765V5, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            2             68
  CLUS_2            9            111
  CLUS_3           15             85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  POLQ MUTATED        2      3      1      4      3     11      1      0      1
  POLQ WILD-TYPE     39     23     29     25     36     58     19     14     21
D765V6, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            2             39
  CLUS_2            3             23
  CLUS_3            1             29
  CLUS_4            4             25
  CLUS_5            3             36
  CLUS_6           11             58
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  POLQ MUTATED        3     12      7      8
  POLQ WILD-TYPE     97     60     65    113
D765V7, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            3             97
  CLUS_2           12             60
  CLUS_3            7             65
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLQ MUTATED        4      3     14      6      3
  POLQ WILD-TYPE     55     72     60    113     35
D765V8, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            4             55
  CLUS_2            3             72
  CLUS_3           14             60
  CLUS_4            6            113
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLQ MUTATED        0     16      4      3      7
  POLQ WILD-TYPE     51     60     57     68     88
D765V9, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            0             51
  CLUS_2           16             60
  CLUS_3            4             57
  CLUS_4            3             68
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  POLQ MUTATED        9      6      0      5      2      2      1      3      2
  POLQ WILD-TYPE     60     42     39     11     51     18     20     35     48
D765V10, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            9             60
  CLUS_2            6             42
  CLUS_3            0             39
  CLUS_4            5             11
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  POLQ MUTATED        0      1      1      1      4      0
  POLQ WILD-TYPE     13     15     13     10      7      9
D765V11, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  POLQ MUTATED        1      0      1      2      0      1      2      0      0
  POLQ WILD-TYPE     10      7      6      7      8      6      9      9      5
D765V12, multiclass
        clus
vv       POLQ MUTATED POLQ WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(766) Variable = BAI3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAI3 MUTATED        7      1      2      4      0
  BAI3 WILD-TYPE     25     17     44     23     23
D766V1, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1            7             25
  CLUS_2            1             17
  CLUS_3            2             44
  CLUS_4            4             23
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAI3 MUTATED        8      3      3
  BAI3 WILD-TYPE     35     64     33
D766V2, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1            8             35
  CLUS_2            3             64
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAI3 MUTATED        3     17     22
  BAI3 WILD-TYPE     39    156    125
D766V3, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1            3             39
  CLUS_2           17            156
  CLUS_3           22            125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAI3 MUTATED        9      8     12
  BAI3 WILD-TYPE     53     65     63
D766V4, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1            9             53
  CLUS_2            8             65
  CLUS_3           12             63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAI3 MUTATED        4     13     15
  BAI3 WILD-TYPE     66    107     85
D766V5, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1            4             66
  CLUS_2           13            107
  CLUS_3           15             85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BAI3 MUTATED        6      2      1      6      2     10      4      0      1
  BAI3 WILD-TYPE     35     24     29     23     37     59     16     14     21
D766V6, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1            6             35
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            6             23
  CLUS_5            2             37
  CLUS_6           10             59
  CLUS_7            4             16
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BAI3 MUTATED       14      7      9     13
  BAI3 WILD-TYPE     86     65     63    108
D766V7, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1           14             86
  CLUS_2            7             65
  CLUS_3            9             63
  CLUS_4           13            108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAI3 MUTATED        5     13     11      7      7
  BAI3 WILD-TYPE     54     62     63    112     31
D766V8, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1            5             54
  CLUS_2           13             62
  CLUS_3           11             63
  CLUS_4            7            112
  CLUS_5            7             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAI3 MUTATED        8     14      3      7     10
  BAI3 WILD-TYPE     43     62     58     64     85
D766V9, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1            8             43
  CLUS_2           14             62
  CLUS_3            3             58
  CLUS_4            7             64
  CLUS_5           10             85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BAI3 MUTATED       11      6      6      4      2      2      0      7      4
  BAI3 WILD-TYPE     58     42     33     12     51     18     21     31     46
D766V10, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1           11             58
  CLUS_2            6             42
  CLUS_3            6             33
  CLUS_4            4             12
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            7             31
  CLUS_9            4             46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BAI3 MUTATED        4      1      2      1      2      0
  BAI3 WILD-TYPE      9     15     12     10      9      9
D766V11, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1            4              9
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BAI3 MUTATED        1      0      0      2      1      0      3      2      1
  BAI3 WILD-TYPE     10      7      7      7      7      7      8      7      4
D766V12, multiclass
        clus
vv       BAI3 MUTATED BAI3 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            3              8
  CLUS_8            2              7
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(767) Variable = WNK3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNK3 MUTATED        4      0      3      1      0
  WNK3 WILD-TYPE     28     18     43     26     23
D767V1, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            3             43
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK3 MUTATED        4      1      3
  WNK3 WILD-TYPE     39     66     33
D767V2, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK3 MUTATED        1      7     16
  WNK3 WILD-TYPE     41    166    131
D767V3, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            7            166
  CLUS_3           16            131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK3 MUTATED        9      3      4
  WNK3 WILD-TYPE     53     70     71
D767V4, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            9             53
  CLUS_2            3             70
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK3 MUTATED        2      5     10
  WNK3 WILD-TYPE     68    115     90
D767V5, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNK3 MUTATED        3      0      0      3      1      8      0      1      1
  WNK3 WILD-TYPE     38     26     30     26     38     61     20     13     21
D767V6, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            3             26
  CLUS_5            1             38
  CLUS_6            8             61
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WNK3 MUTATED        4      6      7      7
  WNK3 WILD-TYPE     96     66     65    114
D767V7, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            6             66
  CLUS_3            7             65
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNK3 MUTATED        5      3      8      4      4
  WNK3 WILD-TYPE     54     72     66    115     34
D767V8, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            5             54
  CLUS_2            3             72
  CLUS_3            8             66
  CLUS_4            4            115
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNK3 MUTATED        3      6      7      1      6
  WNK3 WILD-TYPE     48     70     54     70     89
D767V9, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            6             70
  CLUS_3            7             54
  CLUS_4            1             70
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNK3 MUTATED        3      6      1      3      3      1      1      3      2
  WNK3 WILD-TYPE     66     42     38     13     50     19     20     35     48
D767V10, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            6             42
  CLUS_3            1             38
  CLUS_4            3             13
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WNK3 MUTATED        0      2      0      0      3      0
  WNK3 WILD-TYPE     13     14     14     11      8      9
D767V11, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNK3 MUTATED        0      2      0      2      0      1      0      0      0
  WNK3 WILD-TYPE     11      5      7      7      8      6     11      9      5
D767V12, multiclass
        clus
vv       WNK3 MUTATED WNK3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            2              5
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(768) Variable = CASC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASC1 MUTATED        2      1      0      1      0
  CASC1 WILD-TYPE     30     17     46     26     23
D768V1, multiclass
        clus
vv       CASC1 MUTATED CASC1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASC1 MUTATED        2      2      0
  CASC1 WILD-TYPE     41     65     36
D768V2, multiclass
        clus
vv       CASC1 MUTATED CASC1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASC1 MUTATED        2      3      7
  CASC1 WILD-TYPE     40    170    140
D768V3, multiclass
        clus
vv       CASC1 MUTATED CASC1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASC1 MUTATED        3      2      3
  CASC1 WILD-TYPE     59     71     72
D768V4, multiclass
        clus
vv       CASC1 MUTATED CASC1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASC1 MUTATED        1      5      3
  CASC1 WILD-TYPE     69    115     97
D768V5, multiclass
        clus
vv       CASC1 MUTATED CASC1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASC1 MUTATED        1      0      2      0      0      2      2      2
  CASC1 WILD-TYPE     40     26     28     29     39     67     18     12
                 vv
clus              CLUS_9
  CASC1 MUTATED        0
  CASC1 WILD-TYPE     22
D768V6, multiclass
        clus
vv       CASC1 MUTATED CASC1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASC1 MUTATED        3      4      1      4
  CASC1 WILD-TYPE     97     68     71    117
D768V7, multiclass
        clus
vv       CASC1 MUTATED CASC1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASC1 MUTATED        3      1      4      2      2
  CASC1 WILD-TYPE     56     74     70    117     36
D768V8, multiclass
        clus
vv       CASC1 MUTATED CASC1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASC1 MUTATED        1      3      3      1      4
  CASC1 WILD-TYPE     50     73     58     70     91
D768V9, multiclass
        clus
vv       CASC1 MUTATED CASC1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASC1 MUTATED        3      2      2      1      1      1      0      2
  CASC1 WILD-TYPE     66     46     37     15     52     19     21     36
                 vv
clus              CLUS_9
  CASC1 MUTATED        0
  CASC1 WILD-TYPE     50
D768V10, multiclass
        clus
vv       CASC1 MUTATED CASC1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CASC1 MUTATED        1      0      0      1      0      0
  CASC1 WILD-TYPE     12     16     14     10     11      9
D768V11, multiclass
[1] "Remove cluster labels:" "CASC1 MUTATED"         
clus
  CASC1 MUTATED CASC1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASC1 MUTATED        0      0      1      0      0      0      0      1
  CASC1 WILD-TYPE     11      7      6      9      8      7     11      8
                 vv
clus              CLUS_9
  CASC1 MUTATED        0
  CASC1 WILD-TYPE      5
D768V12, multiclass
[1] "Remove cluster labels:" "CASC1 MUTATED"         
clus
  CASC1 MUTATED CASC1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" "CASC1 WILD-TYPE" 

Clustering(769) Variable = IL2RG MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL2RG MUTATED        0      0      0      0      0
  IL2RG WILD-TYPE     32     18     46     27     23
D769V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL2RG MUTATED        0      0      0
  IL2RG WILD-TYPE     43     67     36
D769V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL2RG MUTATED        0      0      7
  IL2RG WILD-TYPE     42    173    140
D769V3, multiclass
        clus
vv       IL2RG MUTATED IL2RG WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL2RG MUTATED        3      0      4
  IL2RG WILD-TYPE     59     73     71
D769V4, multiclass
        clus
vv       IL2RG MUTATED IL2RG WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL2RG MUTATED        3      1      3
  IL2RG WILD-TYPE     67    119     97
D769V5, multiclass
        clus
vv       IL2RG MUTATED IL2RG WILD-TYPE
  CLUS_1             3              67
  CLUS_2             1             119
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL2RG MUTATED        1      0      0      0      1      2      1      2
  IL2RG WILD-TYPE     40     26     30     29     38     67     19     12
                 vv
clus              CLUS_9
  IL2RG MUTATED        0
  IL2RG WILD-TYPE     22
D769V6, multiclass
        clus
vv       IL2RG MUTATED IL2RG WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL2RG MUTATED        0      4      3      0
  IL2RG WILD-TYPE    100     68     69    121
D769V7, multiclass
        clus
vv       IL2RG MUTATED IL2RG WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL2RG MUTATED        1      1      5      0      0
  IL2RG WILD-TYPE     58     74     69    119     38
D769V8, multiclass
        clus
vv       IL2RG MUTATED IL2RG WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL2RG MUTATED        0      5      1      0      1
  IL2RG WILD-TYPE     51     71     60     71     94
D769V9, multiclass
        clus
vv       IL2RG MUTATED IL2RG WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL2RG MUTATED        3      1      0      2      0      0      0      1
  IL2RG WILD-TYPE     66     47     39     14     53     20     21     37
                 vv
clus              CLUS_9
  IL2RG MUTATED        0
  IL2RG WILD-TYPE     50
D769V10, multiclass
        clus
vv       IL2RG MUTATED IL2RG WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL2RG MUTATED        0      0      0      0      3      0
  IL2RG WILD-TYPE     13     16     14     11      8      9
D769V11, multiclass
        clus
vv       IL2RG MUTATED IL2RG WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL2RG MUTATED        0      0      0      1      1      1      0      0
  IL2RG WILD-TYPE     11      7      7      8      7      6     11      9
                 vv
clus              CLUS_9
  IL2RG MUTATED        0
  IL2RG WILD-TYPE      5
D769V12, multiclass
        clus
vv       IL2RG MUTATED IL2RG WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(770) Variable = ACOT9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACOT9 MUTATED        0      0      0      1      0
  ACOT9 WILD-TYPE     32     18     46     26     23
D770V1, multiclass
[1] "Remove cluster labels:" "ACOT9 MUTATED"         
clus
  ACOT9 MUTATED ACOT9 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AY-4071 
"ACOT9 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACOT9 MUTATED        1      0      0
  ACOT9 WILD-TYPE     42     67     36
D770V2, multiclass
[1] "Remove cluster labels:" "ACOT9 MUTATED"         
clus
  ACOT9 MUTATED ACOT9 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" "ACOT9 WILD-TYPE" 
     TCGA-AY-4071 
"ACOT9 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACOT9 MUTATED        0      2      2
  ACOT9 WILD-TYPE     42    171    145
D770V3, multiclass
        clus
vv       ACOT9 MUTATED ACOT9 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACOT9 MUTATED        1      1      1
  ACOT9 WILD-TYPE     61     72     74
D770V4, multiclass
        clus
vv       ACOT9 MUTATED ACOT9 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACOT9 MUTATED        0      3      0
  ACOT9 WILD-TYPE     70    117    100
D770V5, multiclass
        clus
vv       ACOT9 MUTATED ACOT9 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             0             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACOT9 MUTATED        0      0      0      1      2      0      0      0
  ACOT9 WILD-TYPE     41     26     30     28     37     69     20     14
                 vv
clus              CLUS_9
  ACOT9 MUTATED        0
  ACOT9 WILD-TYPE     22
D770V6, multiclass
        clus
vv       ACOT9 MUTATED ACOT9 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             0              69
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACOT9 MUTATED        2      1      0      1
  ACOT9 WILD-TYPE     98     71     72    120
D770V7, multiclass
        clus
vv       ACOT9 MUTATED ACOT9 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACOT9 MUTATED        0      2      1      0      1
  ACOT9 WILD-TYPE     59     73     73    119     37
D770V8, multiclass
        clus
vv       ACOT9 MUTATED ACOT9 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACOT9 MUTATED        0      3      0      0      1
  ACOT9 WILD-TYPE     51     73     61     71     94
D770V9, multiclass
        clus
vv       ACOT9 MUTATED ACOT9 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACOT9 MUTATED        2      0      0      0      1      0      0      1
  ACOT9 WILD-TYPE     67     48     39     16     52     20     21     37
                 vv
clus              CLUS_9
  ACOT9 MUTATED        0
  ACOT9 WILD-TYPE     50
D770V10, multiclass
        clus
vv       ACOT9 MUTATED ACOT9 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACOT9 MUTATED        0      0      0      0      0      0
  ACOT9 WILD-TYPE     13     16     14     11     11      9
D770V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACOT9 MUTATED        0      0      0      0      0      0      0      0
  ACOT9 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  ACOT9 MUTATED        0
  ACOT9 WILD-TYPE      5
D770V12, multiclass

Clustering(771) Variable = DCTN5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCTN5 MUTATED        1      0      0      0      0
  DCTN5 WILD-TYPE     31     18     46     27     23
D771V1, multiclass
[1] "Remove cluster labels:" "DCTN5 MUTATED"         
clus
  DCTN5 MUTATED DCTN5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AY-4071 
"DCTN5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCTN5 MUTATED        1      0      0
  DCTN5 WILD-TYPE     42     67     36
D771V2, multiclass
[1] "Remove cluster labels:" "DCTN5 MUTATED"         
clus
  DCTN5 MUTATED DCTN5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AY-4071 
"DCTN5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCTN5 MUTATED        1      2      3
  DCTN5 WILD-TYPE     41    171    144
D771V3, multiclass
        clus
vv       DCTN5 MUTATED DCTN5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCTN5 MUTATED        1      1      4
  DCTN5 WILD-TYPE     61     72     71
D771V4, multiclass
        clus
vv       DCTN5 MUTATED DCTN5 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCTN5 MUTATED        1      3      2
  DCTN5 WILD-TYPE     69    117     98
D771V5, multiclass
        clus
vv       DCTN5 MUTATED DCTN5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCTN5 MUTATED        0      0      0      2      2      1      0      0
  DCTN5 WILD-TYPE     41     26     30     27     37     68     20     14
                 vv
clus              CLUS_9
  DCTN5 MUTATED        1
  DCTN5 WILD-TYPE     21
D771V6, multiclass
        clus
vv       DCTN5 MUTATED DCTN5 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DCTN5 MUTATED        2      3      0      1
  DCTN5 WILD-TYPE     98     69     72    120
D771V7, multiclass
        clus
vv       DCTN5 MUTATED DCTN5 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCTN5 MUTATED        1      1      3      0      1
  DCTN5 WILD-TYPE     58     74     71    119     37
D771V8, multiclass
        clus
vv       DCTN5 MUTATED DCTN5 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCTN5 MUTATED        0      5      0      0      1
  DCTN5 WILD-TYPE     51     71     61     71     94
D771V9, multiclass
        clus
vv       DCTN5 MUTATED DCTN5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCTN5 MUTATED        1      0      1      2      1      0      0      1
  DCTN5 WILD-TYPE     68     48     38     14     52     20     21     37
                 vv
clus              CLUS_9
  DCTN5 MUTATED        0
  DCTN5 WILD-TYPE     50
D771V10, multiclass
        clus
vv       DCTN5 MUTATED DCTN5 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DCTN5 MUTATED        0      0      0      0      1      0
  DCTN5 WILD-TYPE     13     16     14     11     10      9
D771V11, multiclass
[1] "Remove cluster labels:" "DCTN5 MUTATED"         
clus
  DCTN5 MUTATED DCTN5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-G4-6628 
"DCTN5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCTN5 MUTATED        0      0      0      1      0      0      0      0
  DCTN5 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  DCTN5 MUTATED        0
  DCTN5 WILD-TYPE      5
D771V12, multiclass
[1] "Remove cluster labels:" "DCTN5 MUTATED"         
clus
  DCTN5 MUTATED DCTN5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" "DCTN5 WILD-TYPE" 
     TCGA-G4-6628 
"DCTN5 WILD-TYPE" 

Clustering(772) Variable = USH2A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USH2A MUTATED       11      1      3      6      2
  USH2A WILD-TYPE     21     17     43     21     21
D772V1, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1            11              21
  CLUS_2             1              17
  CLUS_3             3              43
  CLUS_4             6              21
  CLUS_5             2              21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USH2A MUTATED       13      7      3
  USH2A WILD-TYPE     30     60     33
D772V2, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1            13              30
  CLUS_2             7              60
  CLUS_3             3              33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USH2A MUTATED        9     20     44
  USH2A WILD-TYPE     33    153    103
D772V3, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1             9              33
  CLUS_2            20             153
  CLUS_3            44             103
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USH2A MUTATED       20     11     20
  USH2A WILD-TYPE     42     62     55
D772V4, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1            20              42
  CLUS_2            11              62
  CLUS_3            20              55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USH2A MUTATED       10     25     25
  USH2A WILD-TYPE     60     95     75
D772V5, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1            10              60
  CLUS_2            25              95
  CLUS_3            25              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USH2A MUTATED        5      6      3      4      7     20      8      3
  USH2A WILD-TYPE     36     20     27     25     32     49     12     11
                 vv
clus              CLUS_9
  USH2A MUTATED        4
  USH2A WILD-TYPE     18
D772V6, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1             5              36
  CLUS_2             6              20
  CLUS_3             3              27
  CLUS_4             4              25
  CLUS_5             7              32
  CLUS_6            20              49
  CLUS_7             8              12
  CLUS_8             3              11
  CLUS_9             4              18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USH2A MUTATED       15     20     19     20
  USH2A WILD-TYPE     85     52     53    101
D772V7, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1            15              85
  CLUS_2            20              52
  CLUS_3            19              53
  CLUS_4            20             101
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USH2A MUTATED       10     17     23     13     11
  USH2A WILD-TYPE     49     58     51    106     27
D772V8, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1            10              49
  CLUS_2            17              58
  CLUS_3            23              51
  CLUS_4            13             106
  CLUS_5            11              27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USH2A MUTATED        9     23     12     10     16
  USH2A WILD-TYPE     42     53     49     61     79
D772V9, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1             9              42
  CLUS_2            23              53
  CLUS_3            12              49
  CLUS_4            10              61
  CLUS_5            16              79
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USH2A MUTATED       15     12      7      5      7      6      2     11
  USH2A WILD-TYPE     54     36     32     11     46     14     19     27
                 vv
clus              CLUS_9
  USH2A MUTATED        5
  USH2A WILD-TYPE     45
D772V10, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1            15              54
  CLUS_2            12              36
  CLUS_3             7              32
  CLUS_4             5              11
  CLUS_5             7              46
  CLUS_6             6              14
  CLUS_7             2              19
  CLUS_8            11              27
  CLUS_9             5              45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USH2A MUTATED        2      6      3      2      4      2
  USH2A WILD-TYPE     11     10     11      9      7      7
D772V11, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1             2              11
  CLUS_2             6              10
  CLUS_3             3              11
  CLUS_4             2               9
  CLUS_5             4               7
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USH2A MUTATED        3      2      0      0      3      3      5      3
  USH2A WILD-TYPE      8      5      7      9      5      4      6      6
                 vv
clus              CLUS_9
  USH2A MUTATED        0
  USH2A WILD-TYPE      5
D772V12, multiclass
        clus
vv       USH2A MUTATED USH2A WILD-TYPE
  CLUS_1             3               8
  CLUS_2             2               5
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             3               5
  CLUS_6             3               4
  CLUS_7             5               6
  CLUS_8             3               6
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(773) Variable = PARP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARP1 MUTATED        1      0      0      1      0
  PARP1 WILD-TYPE     31     18     46     26     23
D773V1, multiclass
[1] "Remove cluster labels:" "PARP1 MUTATED"         
clus
  PARP1 MUTATED PARP1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3950 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PARP1 MUTATED        1      1      0
  PARP1 WILD-TYPE     42     66     36
D773V2, multiclass
[1] "Remove cluster labels:" "PARP1 MUTATED"         
clus
  PARP1 MUTATED PARP1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3950 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" "PARP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PARP1 MUTATED        1      2     11
  PARP1 WILD-TYPE     41    171    136
D773V3, multiclass
        clus
vv       PARP1 MUTATED PARP1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PARP1 MUTATED        4      2      4
  PARP1 WILD-TYPE     58     71     71
D773V4, multiclass
        clus
vv       PARP1 MUTATED PARP1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PARP1 MUTATED        1      6      5
  PARP1 WILD-TYPE     69    114     95
D773V5, multiclass
        clus
vv       PARP1 MUTATED PARP1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PARP1 MUTATED        2      0      2      2      0      4      0      2
  PARP1 WILD-TYPE     39     26     28     27     39     65     20     12
                 vv
clus              CLUS_9
  PARP1 MUTATED        0
  PARP1 WILD-TYPE     22
D773V6, multiclass
        clus
vv       PARP1 MUTATED PARP1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PARP1 MUTATED        2      6      3      3
  PARP1 WILD-TYPE     98     66     69    118
D773V7, multiclass
        clus
vv       PARP1 MUTATED PARP1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARP1 MUTATED        3      2      5      2      2
  PARP1 WILD-TYPE     56     73     69    117     36
D773V8, multiclass
        clus
vv       PARP1 MUTATED PARP1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARP1 MUTATED        0      5      3      1      5
  PARP1 WILD-TYPE     51     71     58     70     90
D773V9, multiclass
        clus
vv       PARP1 MUTATED PARP1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PARP1 MUTATED        4      4      0      1      0      1      1      2
  PARP1 WILD-TYPE     65     44     39     15     53     19     20     36
                 vv
clus              CLUS_9
  PARP1 MUTATED        1
  PARP1 WILD-TYPE     49
D773V10, multiclass
        clus
vv       PARP1 MUTATED PARP1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PARP1 MUTATED        0      1      0      1      0      1
  PARP1 WILD-TYPE     13     15     14     10     11      8
D773V11, multiclass
        clus
vv       PARP1 MUTATED PARP1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PARP1 MUTATED        1      0      0      0      0      1      0      1
  PARP1 WILD-TYPE     10      7      7      9      8      6     11      8
                 vv
clus              CLUS_9
  PARP1 MUTATED        0
  PARP1 WILD-TYPE      5
D773V12, multiclass
        clus
vv       PARP1 MUTATED PARP1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(774) Variable = CCDC141 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC141 MUTATED        1      0      0      4      0
  CCDC141 WILD-TYPE     31     18     46     23     23
D774V1, multiclass
        clus
vv       CCDC141 MUTATED CCDC141 WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               4                23
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC141 MUTATED        3      2      0
  CCDC141 WILD-TYPE     40     65     36
D774V2, multiclass
        clus
vv       CCDC141 MUTATED CCDC141 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC141 MUTATED        2      7     12
  CCDC141 WILD-TYPE     40    166    135
D774V3, multiclass
        clus
vv       CCDC141 MUTATED CCDC141 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               7               166
  CLUS_3              12               135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC141 MUTATED        8      6      1
  CCDC141 WILD-TYPE     54     67     74
D774V4, multiclass
        clus
vv       CCDC141 MUTATED CCDC141 WILD-TYPE
  CLUS_1               8                54
  CLUS_2               6                67
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC141 MUTATED        2      7      8
  CCDC141 WILD-TYPE     68    113     92
D774V5, multiclass
        clus
vv       CCDC141 MUTATED CCDC141 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               7               113
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC141 MUTATED        3      1      2      1      2      5      1      1
  CCDC141 WILD-TYPE     38     25     28     28     37     64     19     13
                   vv
clus                CLUS_9
  CCDC141 MUTATED        1
  CCDC141 WILD-TYPE     21
D774V6, multiclass
        clus
vv       CCDC141 MUTATED CCDC141 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               5                64
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC141 MUTATED        5      3      6      7
  CCDC141 WILD-TYPE     95     69     66    114
D774V7, multiclass
        clus
vv       CCDC141 MUTATED CCDC141 WILD-TYPE
  CLUS_1               5                95
  CLUS_2               3                69
  CLUS_3               6                66
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC141 MUTATED        4      7      3      3      4
  CCDC141 WILD-TYPE     55     68     71    116     34
D774V8, multiclass
        clus
vv       CCDC141 MUTATED CCDC141 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               7                68
  CLUS_3               3                71
  CLUS_4               3               116
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC141 MUTATED        5      4      4      1      6
  CCDC141 WILD-TYPE     46     72     57     70     89
D774V9, multiclass
        clus
vv       CCDC141 MUTATED CCDC141 WILD-TYPE
  CLUS_1               5                46
  CLUS_2               4                72
  CLUS_3               4                57
  CLUS_4               1                70
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC141 MUTATED        2      3      3      1      2      3      0      3
  CCDC141 WILD-TYPE     67     45     36     15     51     17     21     35
                   vv
clus                CLUS_9
  CCDC141 MUTATED        3
  CCDC141 WILD-TYPE     47
D774V10, multiclass
        clus
vv       CCDC141 MUTATED CCDC141 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               3                36
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               3                17
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               3                47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC141 MUTATED        0      0      1      1      0      0
  CCDC141 WILD-TYPE     13     16     13     10     11      9
D774V11, multiclass
[1] "Remove cluster labels:" "CCDC141 MUTATED"       
clus
  CCDC141 MUTATED CCDC141 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6460 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC141 MUTATED        0      0      1      0      0      0      1      0
  CCDC141 WILD-TYPE     11      7      6      9      8      7     10      9
                   vv
clus                CLUS_9
  CCDC141 MUTATED        0
  CCDC141 WILD-TYPE      5
D774V12, multiclass
[1] "Remove cluster labels:" "CCDC141 MUTATED"       
clus
  CCDC141 MUTATED CCDC141 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6460 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" "CCDC141 WILD-TYPE" 

Clustering(775) Variable = OAS1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OAS1 MUTATED        3      0      0      0      0
  OAS1 WILD-TYPE     29     18     46     27     23
D775V1, multiclass
        clus
vv       OAS1 MUTATED OAS1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OAS1 MUTATED        2      0      1
  OAS1 WILD-TYPE     41     67     35
D775V2, multiclass
        clus
vv       OAS1 MUTATED OAS1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OAS1 MUTATED        0      3      5
  OAS1 WILD-TYPE     42    170    142
D775V3, multiclass
        clus
vv       OAS1 MUTATED OAS1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OAS1 MUTATED        2      2      1
  OAS1 WILD-TYPE     60     71     74
D775V4, multiclass
        clus
vv       OAS1 MUTATED OAS1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OAS1 MUTATED        0      0      5
  OAS1 WILD-TYPE     70    120     95
D775V5, multiclass
        clus
vv       OAS1 MUTATED OAS1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            0            120
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OAS1 MUTATED        1      0      0      0      1      3      0      0      0
  OAS1 WILD-TYPE     40     26     30     29     38     66     20     14     22
D775V6, multiclass
        clus
vv       OAS1 MUTATED OAS1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OAS1 MUTATED        3      1      1      3
  OAS1 WILD-TYPE     97     71     71    118
D775V7, multiclass
        clus
vv       OAS1 MUTATED OAS1 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OAS1 MUTATED        1      4      0      1      2
  OAS1 WILD-TYPE     58     71     74    118     36
D775V8, multiclass
        clus
vv       OAS1 MUTATED OAS1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            4             71
  CLUS_3            0             74
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OAS1 MUTATED        1      1      2      1      3
  OAS1 WILD-TYPE     50     75     59     70     92
D775V9, multiclass
        clus
vv       OAS1 MUTATED OAS1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OAS1 MUTATED        0      1      0      0      4      1      0      1      1
  OAS1 WILD-TYPE     69     47     39     16     49     19     21     37     49
D775V10, multiclass
        clus
vv       OAS1 MUTATED OAS1 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OAS1 MUTATED        0      1      0      0      0      1
  OAS1 WILD-TYPE     13     15     14     11     11      8
D775V11, multiclass
[1] "Remove cluster labels:" "OAS1 MUTATED"          
clus
  OAS1 MUTATED OAS1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OAS1 MUTATED        0      0      0      0      0      2      0      0      0
  OAS1 WILD-TYPE     11      7      7      9      8      5     11      9      5
D775V12, multiclass
[1] "Remove cluster labels:" "OAS1 MUTATED"          
clus
  OAS1 MUTATED OAS1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" "OAS1 WILD-TYPE" 

Clustering(776) Variable = KIAA0406 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0406 MUTATED        3      0      1      0      1
  KIAA0406 WILD-TYPE     29     18     45     27     22
D776V1, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                0                 18
  CLUS_3                1                 45
  CLUS_4                0                 27
  CLUS_5                1                 22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0406 MUTATED        3      0      2
  KIAA0406 WILD-TYPE     40     67     34
D776V2, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                0                 67
  CLUS_3                2                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0406 MUTATED        1      4      9
  KIAA0406 WILD-TYPE     41    169    138
D776V3, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                4                169
  CLUS_3                9                138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0406 MUTATED        3      1      5
  KIAA0406 WILD-TYPE     59     72     70
D776V4, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                1                 72
  CLUS_3                5                 70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0406 MUTATED        4      2      7
  KIAA0406 WILD-TYPE     66    118     93
D776V5, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                4                 66
  CLUS_2                2                118
  CLUS_3                7                 93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0406 MUTATED        2      0      1      1      2      4      2      0
  KIAA0406 WILD-TYPE     39     26     29     28     37     65     18     14
                    vv
clus                 CLUS_9
  KIAA0406 MUTATED        1
  KIAA0406 WILD-TYPE     21
D776V6, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                2                 37
  CLUS_6                4                 65
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0406 MUTATED        1      4      5      4
  KIAA0406 WILD-TYPE     99     68     67    117
D776V7, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                4                 68
  CLUS_3                5                 67
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0406 MUTATED        3      0      6      2      3
  KIAA0406 WILD-TYPE     56     75     68    117     35
D776V8, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                0                 75
  CLUS_3                6                 68
  CLUS_4                2                117
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0406 MUTATED        1      6      2      1      2
  KIAA0406 WILD-TYPE     50     70     59     70     93
D776V9, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                6                 70
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0406 MUTATED        1      3      0      5      1      0      0      1
  KIAA0406 WILD-TYPE     68     45     39     11     52     20     21     37
                    vv
clus                 CLUS_9
  KIAA0406 MUTATED        1
  KIAA0406 WILD-TYPE     49
D776V10, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                5                 11
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA0406 MUTATED        0      1      0      0      3      1
  KIAA0406 WILD-TYPE     13     15     14     11      8      8
D776V11, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                3                  8
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0406 MUTATED        1      0      1      1      1      0      1      0
  KIAA0406 WILD-TYPE     10      7      6      8      7      7     10      9
                    vv
clus                 CLUS_9
  KIAA0406 MUTATED        0
  KIAA0406 WILD-TYPE      5
D776V12, multiclass
        clus
vv       KIAA0406 MUTATED KIAA0406 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                1                  6
  CLUS_4                1                  8
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(777) Variable = DNASE1L3 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNASE1L3 MUTATED        1      0      1      0      0
  DNASE1L3 WILD-TYPE     31     18     45     27     23
D777V1, multiclass
[1] "Remove cluster labels:" "DNASE1L3 MUTATED"      
clus
  DNASE1L3 MUTATED DNASE1L3 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AY-4070         TCGA-AY-4071 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  DNASE1L3 MUTATED        1      1      0
  DNASE1L3 WILD-TYPE     42     66     36
D777V2, multiclass
[1] "Remove cluster labels:" "DNASE1L3 MUTATED"      
clus
  DNASE1L3 MUTATED DNASE1L3 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AY-4070         TCGA-AY-4071 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  DNASE1L3 MUTATED        0      3      5
  DNASE1L3 WILD-TYPE     42    170    142
D777V3, multiclass
        clus
vv       DNASE1L3 MUTATED DNASE1L3 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3                5                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  DNASE1L3 MUTATED        4      1      1
  DNASE1L3 WILD-TYPE     58     72     74
D777V4, multiclass
        clus
vv       DNASE1L3 MUTATED DNASE1L3 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                1                 72
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  DNASE1L3 MUTATED        2      1      2
  DNASE1L3 WILD-TYPE     68    119     98
D777V5, multiclass
        clus
vv       DNASE1L3 MUTATED DNASE1L3 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                1                119
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNASE1L3 MUTATED        2      1      0      0      0      1      0      0
  DNASE1L3 WILD-TYPE     39     25     30     29     39     68     20     14
                    vv
clus                 CLUS_9
  DNASE1L3 MUTATED        1
  DNASE1L3 WILD-TYPE     21
D777V6, multiclass
        clus
vv       DNASE1L3 MUTATED DNASE1L3 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                1                 68
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNASE1L3 MUTATED        2      1      2      3
  DNASE1L3 WILD-TYPE     98     71     70    118
D777V7, multiclass
        clus
vv       DNASE1L3 MUTATED DNASE1L3 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                1                 71
  CLUS_3                2                 70
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNASE1L3 MUTATED        2      0      2      3      1
  DNASE1L3 WILD-TYPE     57     75     72    116     37
D777V8, multiclass
        clus
vv       DNASE1L3 MUTATED DNASE1L3 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                0                 75
  CLUS_3                2                 72
  CLUS_4                3                116
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNASE1L3 MUTATED        1      2      2      0      2
  DNASE1L3 WILD-TYPE     50     74     59     71     93
D777V9, multiclass
        clus
vv       DNASE1L3 MUTATED DNASE1L3 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                2                 74
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNASE1L3 MUTATED        0      3      0      1      0      0      2      0
  DNASE1L3 WILD-TYPE     69     45     39     15     53     20     19     38
                    vv
clus                 CLUS_9
  DNASE1L3 MUTATED        1
  DNASE1L3 WILD-TYPE     49
D777V10, multiclass
        clus
vv       DNASE1L3 MUTATED DNASE1L3 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                2                 19
  CLUS_8                0                 38
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNASE1L3 MUTATED        0      1      0      0      1      0
  DNASE1L3 WILD-TYPE     13     15     14     11     10      9
D777V11, multiclass
[1] "Remove cluster labels:" "DNASE1L3 MUTATED"      
clus
  DNASE1L3 MUTATED DNASE1L3 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-6598 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6603         TCGA-AZ-6605 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNASE1L3 MUTATED        1      0      0      0      0      0      1      0
  DNASE1L3 WILD-TYPE     10      7      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  DNASE1L3 MUTATED        0
  DNASE1L3 WILD-TYPE      5
D777V12, multiclass
[1] "Remove cluster labels:" "DNASE1L3 MUTATED"      
clus
  DNASE1L3 MUTATED DNASE1L3 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-6598 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6603         TCGA-AZ-6605 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" "DNASE1L3 WILD-TYPE" 

Clustering(778) Variable = OR8A1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR8A1 MUTATED        0      0      0      0      0
  OR8A1 WILD-TYPE     32     18     46     27     23
D778V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8A1 MUTATED        0      0      0
  OR8A1 WILD-TYPE     43     67     36
D778V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8A1 MUTATED        1      1      2
  OR8A1 WILD-TYPE     41    172    145
D778V3, multiclass
        clus
vv       OR8A1 MUTATED OR8A1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8A1 MUTATED        2      1      1
  OR8A1 WILD-TYPE     60     72     74
D778V4, multiclass
        clus
vv       OR8A1 MUTATED OR8A1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8A1 MUTATED        0      1      3
  OR8A1 WILD-TYPE     70    119     97
D778V5, multiclass
        clus
vv       OR8A1 MUTATED OR8A1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR8A1 MUTATED        1      0      0      1      0      2      0      0
  OR8A1 WILD-TYPE     40     26     30     28     39     67     20     14
                 vv
clus              CLUS_9
  OR8A1 MUTATED        0
  OR8A1 WILD-TYPE     22
D778V6, multiclass
        clus
vv       OR8A1 MUTATED OR8A1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR8A1 MUTATED        1      2      1      0
  OR8A1 WILD-TYPE     99     70     71    121
D778V7, multiclass
        clus
vv       OR8A1 MUTATED OR8A1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR8A1 MUTATED        1      1      2      0      0
  OR8A1 WILD-TYPE     58     74     72    119     38
D778V8, multiclass
        clus
vv       OR8A1 MUTATED OR8A1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR8A1 MUTATED        0      3      1      0      0
  OR8A1 WILD-TYPE     51     73     60     71     95
D778V9, multiclass
        clus
vv       OR8A1 MUTATED OR8A1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR8A1 MUTATED        1      1      1      1      0      0      0      0
  OR8A1 WILD-TYPE     68     47     38     15     53     20     21     38
                 vv
clus              CLUS_9
  OR8A1 MUTATED        0
  OR8A1 WILD-TYPE     50
D778V10, multiclass
        clus
vv       OR8A1 MUTATED OR8A1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR8A1 MUTATED        0      1      0      0      0      0
  OR8A1 WILD-TYPE     13     15     14     11     11      9
D778V11, multiclass
[1] "Remove cluster labels:" "OR8A1 MUTATED"         
clus
  OR8A1 MUTATED OR8A1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-G4-6628 
"OR8A1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR8A1 MUTATED        0      0      0      0      0      1      0      0
  OR8A1 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  OR8A1 MUTATED        0
  OR8A1 WILD-TYPE      5
D778V12, multiclass
[1] "Remove cluster labels:" "OR8A1 MUTATED"         
clus
  OR8A1 MUTATED OR8A1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" "OR8A1 WILD-TYPE" 
     TCGA-G4-6628 
"OR8A1 WILD-TYPE" 

Clustering(779) Variable = RANBP1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RANBP1 MUTATED        0      0      0      0      0
  RANBP1 WILD-TYPE     32     18     46     27     23
D779V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RANBP1 MUTATED        0      0      0
  RANBP1 WILD-TYPE     43     67     36
D779V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RANBP1 MUTATED        0      2      4
  RANBP1 WILD-TYPE     42    171    143
D779V3, multiclass
        clus
vv       RANBP1 MUTATED RANBP1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RANBP1 MUTATED        3      0      3
  RANBP1 WILD-TYPE     59     73     72
D779V4, multiclass
        clus
vv       RANBP1 MUTATED RANBP1 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RANBP1 MUTATED        0      2      4
  RANBP1 WILD-TYPE     70    118     96
D779V5, multiclass
        clus
vv       RANBP1 MUTATED RANBP1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RANBP1 MUTATED        1      0      0      1      0      3      0      1
  RANBP1 WILD-TYPE     40     26     30     28     39     66     20     13
                  vv
clus               CLUS_9
  RANBP1 MUTATED        0
  RANBP1 WILD-TYPE     22
D779V6, multiclass
        clus
vv       RANBP1 MUTATED RANBP1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RANBP1 MUTATED        1      4      1      0
  RANBP1 WILD-TYPE     99     68     71    121
D779V7, multiclass
        clus
vv       RANBP1 MUTATED RANBP1 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              1               71
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RANBP1 MUTATED        2      1      3      0      0
  RANBP1 WILD-TYPE     57     74     71    119     38
D779V8, multiclass
        clus
vv       RANBP1 MUTATED RANBP1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RANBP1 MUTATED        1      3      1      0      1
  RANBP1 WILD-TYPE     50     73     60     71     94
D779V9, multiclass
        clus
vv       RANBP1 MUTATED RANBP1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RANBP1 MUTATED        3      0      1      1      0      0      0      0
  RANBP1 WILD-TYPE     66     48     38     15     53     20     21     38
                  vv
clus               CLUS_9
  RANBP1 MUTATED        1
  RANBP1 WILD-TYPE     49
D779V10, multiclass
        clus
vv       RANBP1 MUTATED RANBP1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RANBP1 MUTATED        0      0      0      1      0      1
  RANBP1 WILD-TYPE     13     16     14     10     11      8
D779V11, multiclass
[1] "Remove cluster labels:" "RANBP1 MUTATED"        
clus
  RANBP1 MUTATED RANBP1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6569 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RANBP1 MUTATED        1      0      0      0      0      0      1      0
  RANBP1 WILD-TYPE     10      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  RANBP1 MUTATED        0
  RANBP1 WILD-TYPE      5
D779V12, multiclass
[1] "Remove cluster labels:" "RANBP1 MUTATED"        
clus
  RANBP1 MUTATED RANBP1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6569 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" "RANBP1 WILD-TYPE" 

Clustering(780) Variable = RBMX2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBMX2 MUTATED        1      0      0      0      0
  RBMX2 WILD-TYPE     31     18     46     27     23
D780V1, multiclass
[1] "Remove cluster labels:" "RBMX2 MUTATED"         
clus
  RBMX2 MUTATED RBMX2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AY-4071 
"RBMX2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBMX2 MUTATED        1      0      0
  RBMX2 WILD-TYPE     42     67     36
D780V2, multiclass
[1] "Remove cluster labels:" "RBMX2 MUTATED"         
clus
  RBMX2 MUTATED RBMX2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AY-4071 
"RBMX2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBMX2 MUTATED        0      2      9
  RBMX2 WILD-TYPE     42    171    138
D780V3, multiclass
        clus
vv       RBMX2 MUTATED RBMX2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBMX2 MUTATED        3      1      6
  RBMX2 WILD-TYPE     59     72     69
D780V4, multiclass
        clus
vv       RBMX2 MUTATED RBMX2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBMX2 MUTATED        3      2      6
  RBMX2 WILD-TYPE     67    118     94
D780V5, multiclass
        clus
vv       RBMX2 MUTATED RBMX2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             2             118
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBMX2 MUTATED        2      1      0      1      2      4      1      0
  RBMX2 WILD-TYPE     39     25     30     28     37     65     19     14
                 vv
clus              CLUS_9
  RBMX2 MUTATED        0
  RBMX2 WILD-TYPE     22
D780V6, multiclass
        clus
vv       RBMX2 MUTATED RBMX2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBMX2 MUTATED        1      6      3      1
  RBMX2 WILD-TYPE     99     66     69    120
D780V7, multiclass
        clus
vv       RBMX2 MUTATED RBMX2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBMX2 MUTATED        2      1      7      0      1
  RBMX2 WILD-TYPE     57     74     67    119     37
D780V8, multiclass
        clus
vv       RBMX2 MUTATED RBMX2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             7              67
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBMX2 MUTATED        0      3      2      3      3
  RBMX2 WILD-TYPE     51     73     59     68     92
D780V9, multiclass
        clus
vv       RBMX2 MUTATED RBMX2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBMX2 MUTATED        2      2      0      2      2      0      0      2
  RBMX2 WILD-TYPE     67     46     39     14     51     20     21     36
                 vv
clus              CLUS_9
  RBMX2 MUTATED        1
  RBMX2 WILD-TYPE     49
D780V10, multiclass
        clus
vv       RBMX2 MUTATED RBMX2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBMX2 MUTATED        0      0      2      0      0      0
  RBMX2 WILD-TYPE     13     16     12     11     11      9
D780V11, multiclass
[1] "Remove cluster labels:" "RBMX2 MUTATED"         
clus
  RBMX2 MUTATED RBMX2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6628 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBMX2 MUTATED        0      0      0      0      2      0      0      0
  RBMX2 WILD-TYPE     11      7      7      9      6      7     11      9
                 vv
clus              CLUS_9
  RBMX2 MUTATED        0
  RBMX2 WILD-TYPE      5
D780V12, multiclass
[1] "Remove cluster labels:" "RBMX2 MUTATED"         
clus
  RBMX2 MUTATED RBMX2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6628 
"RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" "RBMX2 WILD-TYPE" 

Clustering(781) Variable = SLC35A5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC35A5 MUTATED        0      0      0      0      0
  SLC35A5 WILD-TYPE     32     18     46     27     23
D781V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC35A5 MUTATED        0      0      0
  SLC35A5 WILD-TYPE     43     67     36
D781V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC35A5 MUTATED        0      4      3
  SLC35A5 WILD-TYPE     42    169    144
D781V3, multiclass
        clus
vv       SLC35A5 MUTATED SLC35A5 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               4               169
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC35A5 MUTATED        4      2      1
  SLC35A5 WILD-TYPE     58     71     74
D781V4, multiclass
        clus
vv       SLC35A5 MUTATED SLC35A5 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               2                71
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC35A5 MUTATED        1      1      4
  SLC35A5 WILD-TYPE     69    119     96
D781V5, multiclass
        clus
vv       SLC35A5 MUTATED SLC35A5 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC35A5 MUTATED        1      2      0      0      0      2      0      0
  SLC35A5 WILD-TYPE     40     24     30     29     39     67     20     14
                   vv
clus                CLUS_9
  SLC35A5 MUTATED        1
  SLC35A5 WILD-TYPE     21
D781V6, multiclass
        clus
vv       SLC35A5 MUTATED SLC35A5 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               2                24
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC35A5 MUTATED        3      1      2      1
  SLC35A5 WILD-TYPE     97     71     70    120
D781V7, multiclass
        clus
vv       SLC35A5 MUTATED SLC35A5 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               1                71
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC35A5 MUTATED        3      1      2      1      0
  SLC35A5 WILD-TYPE     56     74     72    118     38
D781V8, multiclass
        clus
vv       SLC35A5 MUTATED SLC35A5 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC35A5 MUTATED        0      3      2      1      1
  SLC35A5 WILD-TYPE     51     73     59     70     94
D781V9, multiclass
        clus
vv       SLC35A5 MUTATED SLC35A5 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC35A5 MUTATED        2      1      0      1      1      0      0      0
  SLC35A5 WILD-TYPE     67     47     39     15     52     20     21     38
                   vv
clus                CLUS_9
  SLC35A5 MUTATED        2
  SLC35A5 WILD-TYPE     48
D781V10, multiclass
        clus
vv       SLC35A5 MUTATED SLC35A5 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC35A5 MUTATED        0      0      1      1      0      0
  SLC35A5 WILD-TYPE     13     16     13     10     11      9
D781V11, multiclass
[1] "Remove cluster labels:" "SLC35A5 MUTATED"       
clus
  SLC35A5 MUTATED SLC35A5 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC35A5 MUTATED        0      0      1      0      0      0      1      0
  SLC35A5 WILD-TYPE     11      7      6      9      8      7     10      9
                   vv
clus                CLUS_9
  SLC35A5 MUTATED        0
  SLC35A5 WILD-TYPE      5
D781V12, multiclass
[1] "Remove cluster labels:" "SLC35A5 MUTATED"       
clus
  SLC35A5 MUTATED SLC35A5 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" "SLC35A5 WILD-TYPE" 

Clustering(782) Variable = RAD51AP2 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAD51AP2 MUTATED        3      0      0      2      0
  RAD51AP2 WILD-TYPE     29     18     46     25     23
D782V1, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  RAD51AP2 MUTATED        3      1      1
  RAD51AP2 WILD-TYPE     40     66     35
D782V2, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  RAD51AP2 MUTATED        0      1     14
  RAD51AP2 WILD-TYPE     42    172    133
D782V3, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                1                172
  CLUS_3               14                133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  RAD51AP2 MUTATED        4      0      8
  RAD51AP2 WILD-TYPE     58     73     67
D782V4, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                0                 73
  CLUS_3                8                 67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  RAD51AP2 MUTATED        1      3      9
  RAD51AP2 WILD-TYPE     69    117     91
D782V5, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                3                117
  CLUS_3                9                 91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAD51AP2 MUTATED        0      0      1      0      2      8      2      0
  RAD51AP2 WILD-TYPE     41     26     29     29     37     61     18     14
                    vv
clus                 CLUS_9
  RAD51AP2 MUTATED        0
  RAD51AP2 WILD-TYPE     22
D782V6, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                2                 37
  CLUS_6                8                 61
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAD51AP2 MUTATED        1      7      3      5
  RAD51AP2 WILD-TYPE     99     65     69    116
D782V7, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                7                 65
  CLUS_3                3                 69
  CLUS_4                5                116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAD51AP2 MUTATED        0      3      8      2      3
  RAD51AP2 WILD-TYPE     59     72     66    117     35
D782V8, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                3                 72
  CLUS_3                8                 66
  CLUS_4                2                117
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAD51AP2 MUTATED        1      8      1      1      4
  RAD51AP2 WILD-TYPE     50     68     60     70     91
D782V9, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                8                 68
  CLUS_3                1                 60
  CLUS_4                1                 70
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAD51AP2 MUTATED        6      1      0      1      3      1      0      2
  RAD51AP2 WILD-TYPE     63     47     39     15     50     19     21     36
                    vv
clus                 CLUS_9
  RAD51AP2 MUTATED        1
  RAD51AP2 WILD-TYPE     49
D782V10, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                6                 63
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                3                 50
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAD51AP2 MUTATED        1      0      1      0      1      0
  RAD51AP2 WILD-TYPE     12     16     13     11     10      9
D782V11, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                0                 16
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAD51AP2 MUTATED        0      0      0      0      0      1      1      0
  RAD51AP2 WILD-TYPE     11      7      7      9      8      6     10      9
                    vv
clus                 CLUS_9
  RAD51AP2 MUTATED        1
  RAD51AP2 WILD-TYPE      4
D782V12, multiclass
        clus
vv       RAD51AP2 MUTATED RAD51AP2 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                1                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(783) Variable = INADL MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INADL MUTATED        2      0      0      0      0
  INADL WILD-TYPE     30     18     46     27     23
D783V1, multiclass
[1] "Remove cluster labels:" "INADL MUTATED"         
clus
  INADL MUTATED INADL WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INADL MUTATED        2      0      0
  INADL WILD-TYPE     41     67     36
D783V2, multiclass
[1] "Remove cluster labels:" "INADL MUTATED"         
clus
  INADL MUTATED INADL WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" "INADL WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INADL MUTATED        1      0     12
  INADL WILD-TYPE     41    173    135
D783V3, multiclass
        clus
vv       INADL MUTATED INADL WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INADL MUTATED        4      0      6
  INADL WILD-TYPE     58     73     69
D783V4, multiclass
        clus
vv       INADL MUTATED INADL WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INADL MUTATED        2      3      6
  INADL WILD-TYPE     68    117     94
D783V5, multiclass
        clus
vv       INADL MUTATED INADL WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INADL MUTATED        1      0      1      1      1      5      1      1
  INADL WILD-TYPE     40     26     29     28     38     64     19     13
                 vv
clus              CLUS_9
  INADL MUTATED        0
  INADL WILD-TYPE     22
D783V6, multiclass
        clus
vv       INADL MUTATED INADL WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  INADL MUTATED        1      6      3      3
  INADL WILD-TYPE     99     66     69    118
D783V7, multiclass
        clus
vv       INADL MUTATED INADL WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INADL MUTATED        1      2      7      0      3
  INADL WILD-TYPE     58     73     67    119     35
D783V8, multiclass
        clus
vv       INADL MUTATED INADL WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             7              67
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INADL MUTATED        0      7      1      1      4
  INADL WILD-TYPE     51     69     60     70     91
D783V9, multiclass
        clus
vv       INADL MUTATED INADL WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INADL MUTATED        4      3      0      1      2      0      0      2
  INADL WILD-TYPE     65     45     39     15     51     20     21     36
                 vv
clus              CLUS_9
  INADL MUTATED        1
  INADL WILD-TYPE     49
D783V10, multiclass
        clus
vv       INADL MUTATED INADL WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  INADL MUTATED        1      1      0      0      1      0
  INADL WILD-TYPE     12     15     14     11     10      9
D783V11, multiclass
        clus
vv       INADL MUTATED INADL WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INADL MUTATED        1      0      0      0      0      0      1      1
  INADL WILD-TYPE     10      7      7      9      8      7     10      8
                 vv
clus              CLUS_9
  INADL MUTATED        0
  INADL WILD-TYPE      5
D783V12, multiclass
        clus
vv       INADL MUTATED INADL WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(784) Variable = LEF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEF1 MUTATED        3      0      1      1      0
  LEF1 WILD-TYPE     29     18     45     26     23
D784V1, multiclass
        clus
vv       LEF1 MUTATED LEF1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LEF1 MUTATED        3      0      2
  LEF1 WILD-TYPE     40     67     34
D784V2, multiclass
        clus
vv       LEF1 MUTATED LEF1 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LEF1 MUTATED        1      1      6
  LEF1 WILD-TYPE     41    172    141
D784V3, multiclass
        clus
vv       LEF1 MUTATED LEF1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LEF1 MUTATED        2      0      2
  LEF1 WILD-TYPE     60     73     73
D784V4, multiclass
        clus
vv       LEF1 MUTATED LEF1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LEF1 MUTATED        2      2      3
  LEF1 WILD-TYPE     68    118     97
D784V5, multiclass
        clus
vv       LEF1 MUTATED LEF1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            2            118
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LEF1 MUTATED        3      1      0      0      1      1      1      0      0
  LEF1 WILD-TYPE     38     25     30     29     38     68     19     14     22
D784V6, multiclass
        clus
vv       LEF1 MUTATED LEF1 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LEF1 MUTATED        0      1      2      6
  LEF1 WILD-TYPE    100     71     70    115
D784V7, multiclass
        clus
vv       LEF1 MUTATED LEF1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEF1 MUTATED        1      0      2      3      3
  LEF1 WILD-TYPE     58     75     72    116     35
D784V8, multiclass
        clus
vv       LEF1 MUTATED LEF1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            2             72
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEF1 MUTATED        0      2      2      2      3
  LEF1 WILD-TYPE     51     74     59     69     92
D784V9, multiclass
        clus
vv       LEF1 MUTATED LEF1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LEF1 MUTATED        1      2      0      0      2      0      1      1      2
  LEF1 WILD-TYPE     68     46     39     16     51     20     20     37     48
D784V10, multiclass
        clus
vv       LEF1 MUTATED LEF1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LEF1 MUTATED        0      1      0      0      0      0
  LEF1 WILD-TYPE     13     15     14     11     11      9
D784V11, multiclass
[1] "Remove cluster labels:" "LEF1 MUTATED"          
clus
  LEF1 MUTATED LEF1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-G4-6628 
"LEF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LEF1 MUTATED        0      0      0      0      0      0      1      0      0
  LEF1 WILD-TYPE     11      7      7      9      8      7     10      9      5
D784V12, multiclass
[1] "Remove cluster labels:" "LEF1 MUTATED"          
clus
  LEF1 MUTATED LEF1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" "LEF1 WILD-TYPE" 
    TCGA-G4-6628 
"LEF1 WILD-TYPE" 

Clustering(785) Variable = SLC2A3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC2A3 MUTATED        0      1      0      0      0
  SLC2A3 WILD-TYPE     32     17     46     27     23
D785V1, multiclass
[1] "Remove cluster labels:" "SLC2A3 MUTATED"        
clus
  SLC2A3 MUTATED SLC2A3 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AY-4071 
"SLC2A3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC2A3 MUTATED        1      0      0
  SLC2A3 WILD-TYPE     42     67     36
D785V2, multiclass
[1] "Remove cluster labels:" "SLC2A3 MUTATED"        
clus
  SLC2A3 MUTATED SLC2A3 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" "SLC2A3 WILD-TYPE" 
      TCGA-AY-4071 
"SLC2A3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC2A3 MUTATED        0      3      8
  SLC2A3 WILD-TYPE     42    170    139
D785V3, multiclass
        clus
vv       SLC2A3 MUTATED SLC2A3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC2A3 MUTATED        4      2      4
  SLC2A3 WILD-TYPE     58     71     71
D785V4, multiclass
        clus
vv       SLC2A3 MUTATED SLC2A3 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              2               71
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC2A3 MUTATED        2      4      4
  SLC2A3 WILD-TYPE     68    116     96
D785V5, multiclass
        clus
vv       SLC2A3 MUTATED SLC2A3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC2A3 MUTATED        0      1      1      2      0      4      0      2
  SLC2A3 WILD-TYPE     41     25     29     27     39     65     20     12
                  vv
clus               CLUS_9
  SLC2A3 MUTATED        0
  SLC2A3 WILD-TYPE     22
D785V6, multiclass
        clus
vv       SLC2A3 MUTATED SLC2A3 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC2A3 MUTATED        2      6      2      1
  SLC2A3 WILD-TYPE     98     66     70    120
D785V7, multiclass
        clus
vv       SLC2A3 MUTATED SLC2A3 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              6               66
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC2A3 MUTATED        1      2      7      1      0
  SLC2A3 WILD-TYPE     58     73     67    118     38
D785V8, multiclass
        clus
vv       SLC2A3 MUTATED SLC2A3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              7               67
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC2A3 MUTATED        2      5      1      1      2
  SLC2A3 WILD-TYPE     49     71     60     70     93
D785V9, multiclass
        clus
vv       SLC2A3 MUTATED SLC2A3 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC2A3 MUTATED        6      0      0      1      1      1      0      1
  SLC2A3 WILD-TYPE     63     48     39     15     52     19     21     37
                  vv
clus               CLUS_9
  SLC2A3 MUTATED        1
  SLC2A3 WILD-TYPE     49
D785V10, multiclass
        clus
vv       SLC2A3 MUTATED SLC2A3 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC2A3 MUTATED        0      0      2      1      2      0
  SLC2A3 WILD-TYPE     13     16     12     10      9      9
D785V11, multiclass
        clus
vv       SLC2A3 MUTATED SLC2A3 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC2A3 MUTATED        0      0      0      1      1      1      1      1
  SLC2A3 WILD-TYPE     11      7      7      8      7      6     10      8
                  vv
clus               CLUS_9
  SLC2A3 MUTATED        0
  SLC2A3 WILD-TYPE      5
D785V12, multiclass
        clus
vv       SLC2A3 MUTATED SLC2A3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(786) Variable = MLL4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL4 MUTATED        5      0      0      2      2
  MLL4 WILD-TYPE     27     18     46     25     21
D786V1, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            2             21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL4 MUTATED        5      1      3
  MLL4 WILD-TYPE     38     66     33
D786V2, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            1             66
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL4 MUTATED        2      3     28
  MLL4 WILD-TYPE     40    170    119
D786V3, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            3            170
  CLUS_3           28            119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL4 MUTATED        6      1     17
  MLL4 WILD-TYPE     56     72     58
D786V4, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            1             72
  CLUS_3           17             58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL4 MUTATED        3     10     15
  MLL4 WILD-TYPE     67    110     85
D786V5, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            3             67
  CLUS_2           10            110
  CLUS_3           15             85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL4 MUTATED        0      0      2      3      7     12      2      2      0
  MLL4 WILD-TYPE     41     26     28     26     32     57     18     12     22
D786V6, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            3             26
  CLUS_5            7             32
  CLUS_6           12             57
  CLUS_7            2             18
  CLUS_8            2             12
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLL4 MUTATED        3     17      5      8
  MLL4 WILD-TYPE     97     55     67    113
D786V7, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            3             97
  CLUS_2           17             55
  CLUS_3            5             67
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL4 MUTATED        1      3     21      3      5
  MLL4 WILD-TYPE     58     72     53    116     33
D786V8, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3           21             53
  CLUS_4            3            116
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL4 MUTATED        2     19      1      6      5
  MLL4 WILD-TYPE     49     57     60     65     90
D786V9, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            2             49
  CLUS_2           19             57
  CLUS_3            1             60
  CLUS_4            6             65
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL4 MUTATED        5      4      1     10      4      3      1      4      1
  MLL4 WILD-TYPE     64     44     38      6     49     17     20     34     49
D786V10, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            4             44
  CLUS_3            1             38
  CLUS_4           10              6
  CLUS_5            4             49
  CLUS_6            3             17
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MLL4 MUTATED        1      0      3      0      4      0
  MLL4 WILD-TYPE     12     16     11     11      7      9
D786V11, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            3             11
  CLUS_4            0             11
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL4 MUTATED        0      0      0      2      1      1      3      1      0
  MLL4 WILD-TYPE     11      7      7      7      7      6      8      8      5
D786V12, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            3              8
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(787) Variable = MTA2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTA2 MUTATED        3      1      0      0      1
  MTA2 WILD-TYPE     29     17     46     27     22
D787V1, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        4      0      1
  MTA2 WILD-TYPE     39     67     35
D787V2, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        0      3      9
  MTA2 WILD-TYPE     42    170    138
D787V3, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        3      0      4
  MTA2 WILD-TYPE     59     73     71
D787V4, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        4      2      4
  MTA2 WILD-TYPE     66    118     96
D787V5, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            4             66
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTA2 MUTATED        0      1      0      1      4      3      0      0      1
  MTA2 WILD-TYPE     41     25     30     28     35     66     20     14     21
D787V6, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            4             35
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTA2 MUTATED        1      3      3      5
  MTA2 WILD-TYPE     99     69     69    116
D787V7, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            3             69
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTA2 MUTATED        2      0      5      2      3
  MTA2 WILD-TYPE     57     75     69    117     35
D787V8, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            0             75
  CLUS_3            5             69
  CLUS_4            2            117
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTA2 MUTATED        0      4      1      2      5
  MTA2 WILD-TYPE     51     72     60     69     90
D787V9, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTA2 MUTATED        1      3      0      1      1      0      0      5      1
  MTA2 WILD-TYPE     68     45     39     15     52     20     21     33     49
D787V10, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            5             33
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MTA2 MUTATED        0      1      1      0      1      0
  MTA2 WILD-TYPE     13     15     13     11     10      9
D787V11, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTA2 MUTATED        0      1      0      0      1      0      1      0      0
  MTA2 WILD-TYPE     11      6      7      9      7      7     10      9      5
D787V12, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(788) Variable = MDN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MDN1 MUTATED       14      1      2      2      2
  MDN1 WILD-TYPE     18     17     44     25     21
D788V1, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1           14             18
  CLUS_2            1             17
  CLUS_3            2             44
  CLUS_4            2             25
  CLUS_5            2             21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MDN1 MUTATED       15      3      3
  MDN1 WILD-TYPE     28     64     33
D788V2, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1           15             28
  CLUS_2            3             64
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MDN1 MUTATED        3     10     39
  MDN1 WILD-TYPE     39    163    108
D788V3, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1            3             39
  CLUS_2           10            163
  CLUS_3           39            108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MDN1 MUTATED       12      5     14
  MDN1 WILD-TYPE     50     68     61
D788V4, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1           12             50
  CLUS_2            5             68
  CLUS_3           14             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MDN1 MUTATED        5     12     22
  MDN1 WILD-TYPE     65    108     78
D788V5, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1            5             65
  CLUS_2           12            108
  CLUS_3           22             78
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MDN1 MUTATED        3      4      2      5      6     13      5      0      1
  MDN1 WILD-TYPE     38     22     28     24     33     56     15     14     21
D788V6, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            4             22
  CLUS_3            2             28
  CLUS_4            5             24
  CLUS_5            6             33
  CLUS_6           13             56
  CLUS_7            5             15
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MDN1 MUTATED        7     16      8     22
  MDN1 WILD-TYPE     93     56     64     99
D788V7, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1            7             93
  CLUS_2           16             56
  CLUS_3            8             64
  CLUS_4           22             99
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MDN1 MUTATED        3     11     17      8     14
  MDN1 WILD-TYPE     56     64     57    111     24
D788V8, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1            3             56
  CLUS_2           11             64
  CLUS_3           17             57
  CLUS_4            8            111
  CLUS_5           14             24
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MDN1 MUTATED        2     21      2      8     18
  MDN1 WILD-TYPE     49     55     59     63     77
D788V9, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2           21             55
  CLUS_3            2             59
  CLUS_4            8             63
  CLUS_5           18             77
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MDN1 MUTATED       13      6      0      5      5      3      4     11      4
  MDN1 WILD-TYPE     56     42     39     11     48     17     17     27     46
D788V10, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1           13             56
  CLUS_2            6             42
  CLUS_3            0             39
  CLUS_4            5             11
  CLUS_5            5             48
  CLUS_6            3             17
  CLUS_7            4             17
  CLUS_8           11             27
  CLUS_9            4             46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MDN1 MUTATED        0      1      4      0      5      0
  MDN1 WILD-TYPE     13     15     10     11      6      9
D788V11, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            4             10
  CLUS_4            0             11
  CLUS_5            5              6
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MDN1 MUTATED        1      0      0      3      2      0      4      0      0
  MDN1 WILD-TYPE     10      7      7      6      6      7      7      9      5
D788V12, multiclass
        clus
vv       MDN1 MUTATED MDN1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            3              6
  CLUS_5            2              6
  CLUS_6            0              7
  CLUS_7            4              7
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(789) Variable = OR10G4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR10G4 MUTATED        1      0      0      1      0
  OR10G4 WILD-TYPE     31     18     46     26     23
D789V1, multiclass
[1] "Remove cluster labels:" "OR10G4 MUTATED"        
clus
  OR10G4 MUTATED OR10G4 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR10G4 MUTATED        2      0      0
  OR10G4 WILD-TYPE     41     67     36
D789V2, multiclass
[1] "Remove cluster labels:" "OR10G4 MUTATED"        
clus
  OR10G4 MUTATED OR10G4 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR10G4 MUTATED        1      0      4
  OR10G4 WILD-TYPE     41    173    143
D789V3, multiclass
        clus
vv       OR10G4 MUTATED OR10G4 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR10G4 MUTATED        1      0      2
  OR10G4 WILD-TYPE     61     73     73
D789V4, multiclass
        clus
vv       OR10G4 MUTATED OR10G4 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR10G4 MUTATED        1      2      2
  OR10G4 WILD-TYPE     69    118     98
D789V5, multiclass
        clus
vv       OR10G4 MUTATED OR10G4 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR10G4 MUTATED        0      0      0      0      2      2      1      0
  OR10G4 WILD-TYPE     41     26     30     29     37     67     19     14
                  vv
clus               CLUS_9
  OR10G4 MUTATED        0
  OR10G4 WILD-TYPE     22
D789V6, multiclass
        clus
vv       OR10G4 MUTATED OR10G4 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR10G4 MUTATED        0      2      1      2
  OR10G4 WILD-TYPE    100     70     71    119
D789V7, multiclass
        clus
vv       OR10G4 MUTATED OR10G4 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR10G4 MUTATED        1      0      2      0      2
  OR10G4 WILD-TYPE     58     75     72    119     36
D789V8, multiclass
        clus
vv       OR10G4 MUTATED OR10G4 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR10G4 MUTATED        1      1      1      0      1
  OR10G4 WILD-TYPE     50     75     60     71     94
D789V9, multiclass
        clus
vv       OR10G4 MUTATED OR10G4 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR10G4 MUTATED        0      0      0      1      2      0      0      1
  OR10G4 WILD-TYPE     69     48     39     15     51     20     21     37
                  vv
clus               CLUS_9
  OR10G4 MUTATED        0
  OR10G4 WILD-TYPE     50
D789V10, multiclass
        clus
vv       OR10G4 MUTATED OR10G4 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR10G4 MUTATED        0      0      0      0      1      0
  OR10G4 WILD-TYPE     13     16     14     11     10      9
D789V11, multiclass
[1] "Remove cluster labels:" "OR10G4 MUTATED"        
clus
  OR10G4 MUTATED OR10G4 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-G4-6628 
"OR10G4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR10G4 MUTATED        0      0      0      1      0      0      0      0
  OR10G4 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  OR10G4 MUTATED        0
  OR10G4 WILD-TYPE      5
D789V12, multiclass
[1] "Remove cluster labels:" "OR10G4 MUTATED"        
clus
  OR10G4 MUTATED OR10G4 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" "OR10G4 WILD-TYPE" 
      TCGA-G4-6628 
"OR10G4 WILD-TYPE" 

Clustering(790) Variable = NEB MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEB MUTATED       10      2      1      2      0
  NEB WILD-TYPE     22     16     45     25     23
D790V1, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1          10            22
  CLUS_2           2            16
  CLUS_3           1            45
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NEB MUTATED       10      4      1
  NEB WILD-TYPE     33     63     35
D790V2, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1          10            33
  CLUS_2           4            63
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NEB MUTATED        6     15     36
  NEB WILD-TYPE     36    158    111
D790V3, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1           6            36
  CLUS_2          15           158
  CLUS_3          36           111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NEB MUTATED       17     10     15
  NEB WILD-TYPE     45     63     60
D790V4, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1          17            45
  CLUS_2          10            63
  CLUS_3          15            60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NEB MUTATED        5     24     19
  NEB WILD-TYPE     65     96     81
D790V5, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1           5            65
  CLUS_2          24            96
  CLUS_3          19            81
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEB MUTATED        5      4      3      6      9     13      5      2      1
  NEB WILD-TYPE     36     22     27     23     30     56     15     12     21
D790V6, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1           5            36
  CLUS_2           4            22
  CLUS_3           3            27
  CLUS_4           6            23
  CLUS_5           9            30
  CLUS_6          13            56
  CLUS_7           5            15
  CLUS_8           2            12
  CLUS_9           1            21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEB MUTATED        9     19     13     16
  NEB WILD-TYPE     91     53     59    105
D790V7, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1           9            91
  CLUS_2          19            53
  CLUS_3          13            59
  CLUS_4          16           105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEB MUTATED        5     14     21      7     10
  NEB WILD-TYPE     54     61     53    112     28
D790V8, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1           5            54
  CLUS_2          14            61
  CLUS_3          21            53
  CLUS_4           7           112
  CLUS_5          10            28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEB MUTATED        9     20      7      7     13
  NEB WILD-TYPE     42     56     54     64     82
D790V9, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1           9            42
  CLUS_2          20            56
  CLUS_3           7            54
  CLUS_4           7            64
  CLUS_5          13            82
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEB MUTATED       14      7      1      6     10      5      3      7      3
  NEB WILD-TYPE     55     41     38     10     43     15     18     31     47
D790V10, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1          14            55
  CLUS_2           7            41
  CLUS_3           1            38
  CLUS_4           6            10
  CLUS_5          10            43
  CLUS_6           5            15
  CLUS_7           3            18
  CLUS_8           7            31
  CLUS_9           3            47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NEB MUTATED        2      4      3      0      5      2
  NEB WILD-TYPE     11     12     11     11      6      7
D790V11, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1           2            11
  CLUS_2           4            12
  CLUS_3           3            11
  CLUS_4           0            11
  CLUS_5           5             6
  CLUS_6           2             7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEB MUTATED        3      1      0      5      2      1      3      1      0
  NEB WILD-TYPE      8      6      7      4      6      6      8      8      5
D790V12, multiclass
        clus
vv       NEB MUTATED NEB WILD-TYPE
  CLUS_1           3             8
  CLUS_2           1             6
  CLUS_3           0             7
  CLUS_4           5             4
  CLUS_5           2             6
  CLUS_6           1             6
  CLUS_7           3             8
  CLUS_8           1             8
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(791) Variable = PAXIP1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAXIP1 MUTATED        3      0      0      1      0
  PAXIP1 WILD-TYPE     29     18     46     26     23
D791V1, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PAXIP1 MUTATED        4      0      0
  PAXIP1 WILD-TYPE     39     67     36
D791V2, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PAXIP1 MUTATED        2      4     10
  PAXIP1 WILD-TYPE     40    169    137
D791V3, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              4              169
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PAXIP1 MUTATED        6      2      4
  PAXIP1 WILD-TYPE     56     71     71
D791V4, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              2               71
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PAXIP1 MUTATED        1      3      7
  PAXIP1 WILD-TYPE     69    117     93
D791V5, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAXIP1 MUTATED        1      0      0      1      1      7      0      1
  PAXIP1 WILD-TYPE     40     26     30     28     38     62     20     13
                  vv
clus               CLUS_9
  PAXIP1 MUTATED        0
  PAXIP1 WILD-TYPE     22
D791V6, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              7               62
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAXIP1 MUTATED        3      4      5      4
  PAXIP1 WILD-TYPE     97     68     67    117
D791V7, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              4               68
  CLUS_3              5               67
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAXIP1 MUTATED        0      4      8      0      4
  PAXIP1 WILD-TYPE     59     71     66    119     34
D791V8, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              4               71
  CLUS_3              8               66
  CLUS_4              0              119
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAXIP1 MUTATED        0      6      4      3      2
  PAXIP1 WILD-TYPE     51     70     57     68     93
D791V9, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              6               70
  CLUS_3              4               57
  CLUS_4              3               68
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAXIP1 MUTATED        4      4      1      1      3      0      1      1
  PAXIP1 WILD-TYPE     65     44     38     15     50     20     20     37
                  vv
clus               CLUS_9
  PAXIP1 MUTATED        0
  PAXIP1 WILD-TYPE     50
D791V10, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAXIP1 MUTATED        1      1      3      0      2      0
  PAXIP1 WILD-TYPE     12     15     11     11      9      9
D791V11, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              3               11
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAXIP1 MUTATED        0      0      0      0      2      3      1      1
  PAXIP1 WILD-TYPE     11      7      7      9      6      4     10      8
                  vv
clus               CLUS_9
  PAXIP1 MUTATED        0
  PAXIP1 WILD-TYPE      5
D791V12, multiclass
        clus
vv       PAXIP1 MUTATED PAXIP1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              3                4
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(792) Variable = OSTM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSTM1 MUTATED        0      0      0      0      0
  OSTM1 WILD-TYPE     32     18     46     27     23
D792V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OSTM1 MUTATED        0      0      0
  OSTM1 WILD-TYPE     43     67     36
D792V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OSTM1 MUTATED        1      2      2
  OSTM1 WILD-TYPE     41    171    145
D792V3, multiclass
        clus
vv       OSTM1 MUTATED OSTM1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OSTM1 MUTATED        0      2      3
  OSTM1 WILD-TYPE     62     71     72
D792V4, multiclass
        clus
vv       OSTM1 MUTATED OSTM1 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OSTM1 MUTATED        0      4      1
  OSTM1 WILD-TYPE     70    116     99
D792V5, multiclass
        clus
vv       OSTM1 MUTATED OSTM1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSTM1 MUTATED        0      1      0      1      0      2      0      0
  OSTM1 WILD-TYPE     41     25     30     28     39     67     20     14
                 vv
clus              CLUS_9
  OSTM1 MUTATED        1
  OSTM1 WILD-TYPE     21
D792V6, multiclass
        clus
vv       OSTM1 MUTATED OSTM1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OSTM1 MUTATED        1      3      1      0
  OSTM1 WILD-TYPE     99     69     71    121
D792V7, multiclass
        clus
vv       OSTM1 MUTATED OSTM1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSTM1 MUTATED        1      1      3      0      0
  OSTM1 WILD-TYPE     58     74     71    119     38
D792V8, multiclass
        clus
vv       OSTM1 MUTATED OSTM1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSTM1 MUTATED        1      3      0      1      0
  OSTM1 WILD-TYPE     50     73     61     70     95
D792V9, multiclass
        clus
vv       OSTM1 MUTATED OSTM1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSTM1 MUTATED        1      0      0      3      1      0      0      0
  OSTM1 WILD-TYPE     68     48     39     13     52     20     21     38
                 vv
clus              CLUS_9
  OSTM1 MUTATED        0
  OSTM1 WILD-TYPE     50
D792V10, multiclass
        clus
vv       OSTM1 MUTATED OSTM1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OSTM1 MUTATED        0      0      0      0      2      1
  OSTM1 WILD-TYPE     13     16     14     11      9      8
D792V11, multiclass
        clus
vv       OSTM1 MUTATED OSTM1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSTM1 MUTATED        0      0      0      2      0      0      0      1
  OSTM1 WILD-TYPE     11      7      7      7      8      7     11      8
                 vv
clus              CLUS_9
  OSTM1 MUTATED        0
  OSTM1 WILD-TYPE      5
D792V12, multiclass
        clus
vv       OSTM1 MUTATED OSTM1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(793) Variable = UGT1A7 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT1A7 MUTATED        0      0      0      2      0
  UGT1A7 WILD-TYPE     32     18     46     25     23
D793V1, multiclass
[1] "Remove cluster labels:" "UGT1A7 MUTATED"        
clus
  UGT1A7 MUTATED UGT1A7 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A7 MUTATED        1      1      0
  UGT1A7 WILD-TYPE     42     66     36
D793V2, multiclass
[1] "Remove cluster labels:" "UGT1A7 MUTATED"        
clus
  UGT1A7 MUTATED UGT1A7 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A7 MUTATED        1      1      6
  UGT1A7 WILD-TYPE     41    172    141
D793V3, multiclass
        clus
vv       UGT1A7 MUTATED UGT1A7 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A7 MUTATED        2      1      3
  UGT1A7 WILD-TYPE     60     72     72
D793V4, multiclass
        clus
vv       UGT1A7 MUTATED UGT1A7 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A7 MUTATED        0      4      4
  UGT1A7 WILD-TYPE     70    116     96
D793V5, multiclass
        clus
vv       UGT1A7 MUTATED UGT1A7 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT1A7 MUTATED        0      0      1      1      0      4      1      1
  UGT1A7 WILD-TYPE     41     26     29     28     39     65     19     13
                  vv
clus               CLUS_9
  UGT1A7 MUTATED        0
  UGT1A7 WILD-TYPE     22
D793V6, multiclass
        clus
vv       UGT1A7 MUTATED UGT1A7 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UGT1A7 MUTATED        2      3      1      2
  UGT1A7 WILD-TYPE     98     69     71    119
D793V7, multiclass
        clus
vv       UGT1A7 MUTATED UGT1A7 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT1A7 MUTATED        0      3      3      1      1
  UGT1A7 WILD-TYPE     59     72     71    118     37
D793V8, multiclass
        clus
vv       UGT1A7 MUTATED UGT1A7 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT1A7 MUTATED        1      2      1      1      2
  UGT1A7 WILD-TYPE     50     74     60     70     93
D793V9, multiclass
        clus
vv       UGT1A7 MUTATED UGT1A7 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT1A7 MUTATED        1      1      1      1      0      2      0      0
  UGT1A7 WILD-TYPE     68     47     38     15     53     18     21     38
                  vv
clus               CLUS_9
  UGT1A7 MUTATED        1
  UGT1A7 WILD-TYPE     49
D793V10, multiclass
        clus
vv       UGT1A7 MUTATED UGT1A7 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UGT1A7 MUTATED        1      0      0      0      0      0
  UGT1A7 WILD-TYPE     12     16     14     11     11      9
D793V11, multiclass
[1] "Remove cluster labels:" "UGT1A7 MUTATED"        
clus
  UGT1A7 MUTATED UGT1A7 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-G4-6628 
"UGT1A7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT1A7 MUTATED        0      0      0      0      0      0      0      1
  UGT1A7 WILD-TYPE     11      7      7      9      8      7     11      8
                  vv
clus               CLUS_9
  UGT1A7 MUTATED        0
  UGT1A7 WILD-TYPE      5
D793V12, multiclass
[1] "Remove cluster labels:" "UGT1A7 MUTATED"        
clus
  UGT1A7 MUTATED UGT1A7 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" "UGT1A7 WILD-TYPE" 
      TCGA-G4-6628 
"UGT1A7 WILD-TYPE" 

Clustering(794) Variable = ZNF658 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF658 MUTATED        3      0      1      1      0
  ZNF658 WILD-TYPE     29     18     45     26     23
D794V1, multiclass
        clus
vv       ZNF658 MUTATED ZNF658 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF658 MUTATED        3      1      1
  ZNF658 WILD-TYPE     40     66     35
D794V2, multiclass
        clus
vv       ZNF658 MUTATED ZNF658 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF658 MUTATED        1      4      5
  ZNF658 WILD-TYPE     41    169    142
D794V3, multiclass
        clus
vv       ZNF658 MUTATED ZNF658 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF658 MUTATED        1      2      3
  ZNF658 WILD-TYPE     61     71     72
D794V4, multiclass
        clus
vv       ZNF658 MUTATED ZNF658 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF658 MUTATED        1      2      3
  ZNF658 WILD-TYPE     69    118     97
D794V5, multiclass
        clus
vv       ZNF658 MUTATED ZNF658 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF658 MUTATED        2      0      0      1      1      2      0      0
  ZNF658 WILD-TYPE     39     26     30     28     38     67     20     14
                  vv
clus               CLUS_9
  ZNF658 MUTATED        0
  ZNF658 WILD-TYPE     22
D794V6, multiclass
        clus
vv       ZNF658 MUTATED ZNF658 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF658 MUTATED        3      1      2      4
  ZNF658 WILD-TYPE     97     71     70    117
D794V7, multiclass
        clus
vv       ZNF658 MUTATED ZNF658 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF658 MUTATED        1      2      2      2      3
  ZNF658 WILD-TYPE     58     73     72    117     35
D794V8, multiclass
        clus
vv       ZNF658 MUTATED ZNF658 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF658 MUTATED        3      1      1      1      3
  ZNF658 WILD-TYPE     48     75     60     70     92
D794V9, multiclass
        clus
vv       ZNF658 MUTATED ZNF658 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF658 MUTATED        1      1      1      1      2      1      0      2
  ZNF658 WILD-TYPE     68     47     38     15     51     19     21     36
                  vv
clus               CLUS_9
  ZNF658 MUTATED        0
  ZNF658 WILD-TYPE     50
D794V10, multiclass
        clus
vv       ZNF658 MUTATED ZNF658 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF658 MUTATED        0      0      0      0      1      1
  ZNF658 WILD-TYPE     13     16     14     11     10      8
D794V11, multiclass
[1] "Remove cluster labels:" "ZNF658 MUTATED"        
clus
  ZNF658 MUTATED ZNF658 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF658 MUTATED        1      0      0      1      0      0      0      0
  ZNF658 WILD-TYPE     10      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  ZNF658 MUTATED        0
  ZNF658 WILD-TYPE      5
D794V12, multiclass
[1] "Remove cluster labels:" "ZNF658 MUTATED"        
clus
  ZNF658 MUTATED ZNF658 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" "ZNF658 WILD-TYPE" 

Clustering(795) Variable = ESCO2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESCO2 MUTATED        1      0      0      2      0
  ESCO2 WILD-TYPE     31     18     46     25     23
D795V1, multiclass
        clus
vv       ESCO2 MUTATED ESCO2 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESCO2 MUTATED        2      1      0
  ESCO2 WILD-TYPE     41     66     36
D795V2, multiclass
        clus
vv       ESCO2 MUTATED ESCO2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESCO2 MUTATED        1      1      8
  ESCO2 WILD-TYPE     41    172    139
D795V3, multiclass
        clus
vv       ESCO2 MUTATED ESCO2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESCO2 MUTATED        5      0      2
  ESCO2 WILD-TYPE     57     73     73
D795V4, multiclass
        clus
vv       ESCO2 MUTATED ESCO2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESCO2 MUTATED        0      3      6
  ESCO2 WILD-TYPE     70    117     94
D795V5, multiclass
        clus
vv       ESCO2 MUTATED ESCO2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESCO2 MUTATED        1      0      1      0      1      4      2      0
  ESCO2 WILD-TYPE     40     26     29     29     38     65     18     14
                 vv
clus              CLUS_9
  ESCO2 MUTATED        0
  ESCO2 WILD-TYPE     22
D795V6, multiclass
        clus
vv       ESCO2 MUTATED ESCO2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESCO2 MUTATED        0      4      3      3
  ESCO2 WILD-TYPE    100     68     69    118
D795V7, multiclass
        clus
vv       ESCO2 MUTATED ESCO2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESCO2 MUTATED        2      1      4      1      2
  ESCO2 WILD-TYPE     57     74     70    118     36
D795V8, multiclass
        clus
vv       ESCO2 MUTATED ESCO2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESCO2 MUTATED        0      5      1      1      2
  ESCO2 WILD-TYPE     51     71     60     70     93
D795V9, multiclass
        clus
vv       ESCO2 MUTATED ESCO2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESCO2 MUTATED        0      3      0      2      2      1      0      0
  ESCO2 WILD-TYPE     69     45     39     14     51     19     21     38
                 vv
clus              CLUS_9
  ESCO2 MUTATED        1
  ESCO2 WILD-TYPE     49
D795V10, multiclass
        clus
vv       ESCO2 MUTATED ESCO2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ESCO2 MUTATED        0      0      0      0      1      0
  ESCO2 WILD-TYPE     13     16     14     11     10      9
D795V11, multiclass
[1] "Remove cluster labels:" "ESCO2 MUTATED"         
clus
  ESCO2 MUTATED ESCO2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-G4-6628 
"ESCO2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESCO2 MUTATED        0      0      0      0      0      0      1      0
  ESCO2 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  ESCO2 MUTATED        0
  ESCO2 WILD-TYPE      5
D795V12, multiclass
[1] "Remove cluster labels:" "ESCO2 MUTATED"         
clus
  ESCO2 MUTATED ESCO2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" "ESCO2 WILD-TYPE" 
     TCGA-G4-6628 
"ESCO2 WILD-TYPE" 

Clustering(796) Variable = SV2A MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SV2A MUTATED        2      0      0      2      1
  SV2A WILD-TYPE     30     18     46     25     22
D796V1, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SV2A MUTATED        3      1      1
  SV2A WILD-TYPE     40     66     35
D796V2, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SV2A MUTATED        3      4     14
  SV2A WILD-TYPE     39    169    133
D796V3, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1            3             39
  CLUS_2            4            169
  CLUS_3           14            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SV2A MUTATED       10      2      4
  SV2A WILD-TYPE     52     71     71
D796V4, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1           10             52
  CLUS_2            2             71
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SV2A MUTATED        1      6     12
  SV2A WILD-TYPE     69    114     88
D796V5, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1            1             69
  CLUS_2            6            114
  CLUS_3           12             88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SV2A MUTATED        2      1      1      2      2      8      2      1      0
  SV2A WILD-TYPE     39     25     29     27     37     61     18     13     22
D796V6, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            8             61
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SV2A MUTATED        3      6      6      6
  SV2A WILD-TYPE     97     66     66    115
D796V7, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1            3             97
  CLUS_2            6             66
  CLUS_3            6             66
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SV2A MUTATED        3      2     10      4      2
  SV2A WILD-TYPE     56     73     64    115     36
D796V8, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3           10             64
  CLUS_4            4            115
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SV2A MUTATED        1      8      4      2      6
  SV2A WILD-TYPE     50     68     57     69     89
D796V9, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1            1             50
  CLUS_2            8             68
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SV2A MUTATED        5      5      1      2      0      2      2      3      1
  SV2A WILD-TYPE     64     43     38     14     53     18     19     35     49
D796V10, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1            5             64
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            2             19
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SV2A MUTATED        0      1      0      0      2      0
  SV2A WILD-TYPE     13     15     14     11      9      9
D796V11, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SV2A MUTATED        1      0      0      1      0      1      0      0      0
  SV2A WILD-TYPE     10      7      7      8      8      6     11      9      5
D796V12, multiclass
        clus
vv       SV2A MUTATED SV2A WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(797) Variable = PSMB8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMB8 MUTATED        0      0      0      0      0
  PSMB8 WILD-TYPE     32     18     46     27     23
D797V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMB8 MUTATED        0      0      0
  PSMB8 WILD-TYPE     43     67     36
D797V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMB8 MUTATED        1      0      3
  PSMB8 WILD-TYPE     41    173    144
D797V3, multiclass
        clus
vv       PSMB8 MUTATED PSMB8 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMB8 MUTATED        1      0      3
  PSMB8 WILD-TYPE     61     73     72
D797V4, multiclass
        clus
vv       PSMB8 MUTATED PSMB8 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMB8 MUTATED        0      2      2
  PSMB8 WILD-TYPE     70    118     98
D797V5, multiclass
        clus
vv       PSMB8 MUTATED PSMB8 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PSMB8 MUTATED        0      0      0      2      0      1      1      0
  PSMB8 WILD-TYPE     41     26     30     27     39     68     19     14
                 vv
clus              CLUS_9
  PSMB8 MUTATED        0
  PSMB8 WILD-TYPE     22
D797V6, multiclass
        clus
vv       PSMB8 MUTATED PSMB8 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PSMB8 MUTATED        0      4      0      0
  PSMB8 WILD-TYPE    100     68     72    121
D797V7, multiclass
        clus
vv       PSMB8 MUTATED PSMB8 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             0              72
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMB8 MUTATED        0      1      3      0      0
  PSMB8 WILD-TYPE     59     74     71    119     38
D797V8, multiclass
        clus
vv       PSMB8 MUTATED PSMB8 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMB8 MUTATED        0      3      0      0      1
  PSMB8 WILD-TYPE     51     73     61     71     94
D797V9, multiclass
        clus
vv       PSMB8 MUTATED PSMB8 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PSMB8 MUTATED        0      1      0      2      0      0      0      0
  PSMB8 WILD-TYPE     69     47     39     14     53     20     21     38
                 vv
clus              CLUS_9
  PSMB8 MUTATED        1
  PSMB8 WILD-TYPE     49
D797V10, multiclass
        clus
vv       PSMB8 MUTATED PSMB8 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PSMB8 MUTATED        0      0      0      0      1      0
  PSMB8 WILD-TYPE     13     16     14     11     10      9
D797V11, multiclass
[1] "Remove cluster labels:" "PSMB8 MUTATED"         
clus
  PSMB8 MUTATED PSMB8 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-G4-6628 
"PSMB8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PSMB8 MUTATED        0      0      0      1      0      0      0      0
  PSMB8 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  PSMB8 MUTATED        0
  PSMB8 WILD-TYPE      5
D797V12, multiclass
[1] "Remove cluster labels:" "PSMB8 MUTATED"         
clus
  PSMB8 MUTATED PSMB8 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" "PSMB8 WILD-TYPE" 
     TCGA-G4-6628 
"PSMB8 WILD-TYPE" 

Clustering(798) Variable = CAMSAP1L1 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAMSAP1L1 MUTATED        4      0      0      0      0
  CAMSAP1L1 WILD-TYPE     28     18     46     27     23
D798V1, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                 4                  28
  CLUS_2                 0                  18
  CLUS_3                 0                  46
  CLUS_4                 0                  27
  CLUS_5                 0                  23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  CAMSAP1L1 MUTATED        4      0      0
  CAMSAP1L1 WILD-TYPE     39     67     36
D798V2, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                 4                  39
  CLUS_2                 0                  67
  CLUS_3                 0                  36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  CAMSAP1L1 MUTATED        0      3     17
  CAMSAP1L1 WILD-TYPE     42    170    130
D798V3, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                 0                  42
  CLUS_2                 3                 170
  CLUS_3                17                 130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  CAMSAP1L1 MUTATED       10      2      6
  CAMSAP1L1 WILD-TYPE     52     71     69
D798V4, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                10                  52
  CLUS_2                 2                  71
  CLUS_3                 6                  69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  CAMSAP1L1 MUTATED        3      7     10
  CAMSAP1L1 WILD-TYPE     67    113     90
D798V5, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                 3                  67
  CLUS_2                 7                 113
  CLUS_3                10                  90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAMSAP1L1 MUTATED        2      1      0      1      2      6      6      1
  CAMSAP1L1 WILD-TYPE     39     25     30     28     37     63     14     13
                     vv
clus                  CLUS_9
  CAMSAP1L1 MUTATED        1
  CAMSAP1L1 WILD-TYPE     21
D798V6, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                 2                  39
  CLUS_2                 1                  25
  CLUS_3                 0                  30
  CLUS_4                 1                  28
  CLUS_5                 2                  37
  CLUS_6                 6                  63
  CLUS_7                 6                  14
  CLUS_8                 1                  13
  CLUS_9                 1                  21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CAMSAP1L1 MUTATED        2      6      9      4
  CAMSAP1L1 WILD-TYPE     98     66     63    117
D798V7, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                 2                  98
  CLUS_2                 6                  66
  CLUS_3                 9                  63
  CLUS_4                 4                 117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAMSAP1L1 MUTATED        3      3     11      0      4
  CAMSAP1L1 WILD-TYPE     56     72     63    119     34
D798V8, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                 3                  56
  CLUS_2                 3                  72
  CLUS_3                11                  63
  CLUS_4                 0                 119
  CLUS_5                 4                  34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAMSAP1L1 MUTATED        3     10      3      0      5
  CAMSAP1L1 WILD-TYPE     48     66     58     71     90
D798V9, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                 3                  48
  CLUS_2                10                  66
  CLUS_3                 3                  58
  CLUS_4                 0                  71
  CLUS_5                 5                  90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAMSAP1L1 MUTATED        2      6      2      3      2      1      1      3
  CAMSAP1L1 WILD-TYPE     67     42     37     13     51     19     20     35
                     vv
clus                  CLUS_9
  CAMSAP1L1 MUTATED        1
  CAMSAP1L1 WILD-TYPE     49
D798V10, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                 2                  67
  CLUS_2                 6                  42
  CLUS_3                 2                  37
  CLUS_4                 3                  13
  CLUS_5                 2                  51
  CLUS_6                 1                  19
  CLUS_7                 1                  20
  CLUS_8                 3                  35
  CLUS_9                 1                  49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CAMSAP1L1 MUTATED        0      1      0      0      2      0
  CAMSAP1L1 WILD-TYPE     13     15     14     11      9      9
D798V11, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                 0                  13
  CLUS_2                 1                  15
  CLUS_3                 0                  14
  CLUS_4                 0                  11
  CLUS_5                 2                   9
  CLUS_6                 0                   9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAMSAP1L1 MUTATED        1      0      0      1      1      0      0      0
  CAMSAP1L1 WILD-TYPE     10      7      7      8      7      7     11      9
                     vv
clus                  CLUS_9
  CAMSAP1L1 MUTATED        0
  CAMSAP1L1 WILD-TYPE      5
D798V12, multiclass
        clus
vv       CAMSAP1L1 MUTATED CAMSAP1L1 WILD-TYPE
  CLUS_1                 1                  10
  CLUS_2                 0                   7
  CLUS_3                 0                   7
  CLUS_4                 1                   8
  CLUS_5                 1                   7
  CLUS_6                 0                   7
  CLUS_7                 0                  11
  CLUS_8                 0                   9
  CLUS_9                 0                   5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(799) Variable = MRPS18B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPS18B MUTATED        1      0      0      0      0
  MRPS18B WILD-TYPE     31     18     46     27     23
D799V1, multiclass
[1] "Remove cluster labels:" "MRPS18B MUTATED"       
clus
  MRPS18B MUTATED MRPS18B WILD-TYPE 
                1               145 
       TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677        TCGA-A6-2678 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808        TCGA-A6-3809 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AY-4071 
"MRPS18B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MRPS18B MUTATED        1      0      0
  MRPS18B WILD-TYPE     42     67     36
D799V2, multiclass
[1] "Remove cluster labels:" "MRPS18B MUTATED"       
clus
  MRPS18B MUTATED MRPS18B WILD-TYPE 
                1               145 
       TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677        TCGA-A6-2678 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808        TCGA-A6-3809 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AY-4071 
"MRPS18B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MRPS18B MUTATED        0      2      2
  MRPS18B WILD-TYPE     42    171    145
D799V3, multiclass
        clus
vv       MRPS18B MUTATED MRPS18B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MRPS18B MUTATED        0      1      2
  MRPS18B WILD-TYPE     62     72     73
D799V4, multiclass
        clus
vv       MRPS18B MUTATED MRPS18B WILD-TYPE
  CLUS_1               0                62
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MRPS18B MUTATED        0      2      0
  MRPS18B WILD-TYPE     70    118    100
D799V5, multiclass
[1] "Remove cluster labels:" "MRPS18B MUTATED"       
clus
  MRPS18B MUTATED MRPS18B WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2676        TCGA-A6-2677        TCGA-A6-2678 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808        TCGA-A6-3809 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137        TCGA-A6-6138 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517        TCGA-AA-3519 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3525 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552        TCGA-AA-3553 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558        TCGA-AA-3560 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655        TCGA-AA-3664 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681        TCGA-AA-3688 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697        TCGA-AA-3710 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715        TCGA-AA-3811 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848        TCGA-AA-3850 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3861 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3955 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E        TCGA-AA-A00F 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965        TCGA-AU-6004 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4682 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5914 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5538 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6932        TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-DM-A28F        TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-F4-6809        TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-G4-6293        TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPS18B MUTATED        0      0      0      1      1      0      0      0
  MRPS18B WILD-TYPE     41     26     30     28     38     69     20     14
                   vv
clus                CLUS_9
  MRPS18B MUTATED        0
  MRPS18B WILD-TYPE     22
D799V6, multiclass
[1] "Remove cluster labels:" "MRPS18B MUTATED"       
clus
  MRPS18B MUTATED MRPS18B WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2676        TCGA-A6-2677        TCGA-A6-2678 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808        TCGA-A6-3809 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137        TCGA-A6-6138 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517        TCGA-AA-3519 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3525 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552        TCGA-AA-3553 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558        TCGA-AA-3560 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655        TCGA-AA-3664 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681        TCGA-AA-3688 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697        TCGA-AA-3710 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715        TCGA-AA-3811 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848        TCGA-AA-3850 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3861 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3955 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E        TCGA-AA-A00F 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965        TCGA-AU-6004 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4682 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5914 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5538 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-D5-6932        TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-DM-A28F        TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-F4-6809        TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-G4-6293        TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" "MRPS18B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MRPS18B MUTATED        2      1      0      1
  MRPS18B WILD-TYPE     98     71     72    120
D799V7, multiclass
        clus
vv       MRPS18B MUTATED MRPS18B WILD-TYPE
  CLUS_1               2                98
  CLUS_2               1                71
  CLUS_3               0                72
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPS18B MUTATED        0      2      1      0      1
  MRPS18B WILD-TYPE     59     73     73    119     37
D799V8, multiclass
        clus
vv       MRPS18B MUTATED MRPS18B WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               1                73
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPS18B MUTATED        1      2      0      0      1
  MRPS18B WILD-TYPE     50     74     61     71     94
D799V9, multiclass
        clus
vv       MRPS18B MUTATED MRPS18B WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPS18B MUTATED        0      0      1      0      1      1      0      1
  MRPS18B WILD-TYPE     69     48     38     16     52     19     21     37
                   vv
clus                CLUS_9
  MRPS18B MUTATED        0
  MRPS18B WILD-TYPE     50
D799V10, multiclass
        clus
vv       MRPS18B MUTATED MRPS18B WILD-TYPE
  CLUS_1               0                69
  CLUS_2               0                48
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MRPS18B MUTATED        0      0      0      0      0      0
  MRPS18B WILD-TYPE     13     16     14     11     11      9
D799V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPS18B MUTATED        0      0      0      0      0      0      0      0
  MRPS18B WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  MRPS18B MUTATED        0
  MRPS18B WILD-TYPE      5
D799V12, multiclass

Clustering(800) Variable = INSRR MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INSRR MUTATED        4      0      1      1      0
  INSRR WILD-TYPE     28     18     45     26     23
D800V1, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INSRR MUTATED        4      2      0
  INSRR WILD-TYPE     39     65     36
D800V2, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             4              39
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INSRR MUTATED        0     10     16
  INSRR WILD-TYPE     42    163    131
D800V3, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             0              42
  CLUS_2            10             163
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INSRR MUTATED        9      4      6
  INSRR WILD-TYPE     53     69     69
D800V4, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             9              53
  CLUS_2             4              69
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INSRR MUTATED        2      3     12
  INSRR WILD-TYPE     68    117     88
D800V5, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INSRR MUTATED        2      1      1      2      0      8      3      0
  INSRR WILD-TYPE     39     25     29     27     39     61     17     14
                 vv
clus              CLUS_9
  INSRR MUTATED        0
  INSRR WILD-TYPE     22
D800V6, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             8              61
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  INSRR MUTATED        8      4      7      7
  INSRR WILD-TYPE     92     68     65    114
D800V7, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             8              92
  CLUS_2             4              68
  CLUS_3             7              65
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INSRR MUTATED        2      7      9      3      5
  INSRR WILD-TYPE     57     68     65    116     33
D800V8, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             2              57
  CLUS_2             7              68
  CLUS_3             9              65
  CLUS_4             3             116
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INSRR MUTATED        3     11      4      1      7
  INSRR WILD-TYPE     48     65     57     70     88
D800V9, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             3              48
  CLUS_2            11              65
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INSRR MUTATED        3      6      3      3      2      2      0      6
  INSRR WILD-TYPE     66     42     36     13     51     18     21     32
                 vv
clus              CLUS_9
  INSRR MUTATED        1
  INSRR WILD-TYPE     49
D800V10, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             3              66
  CLUS_2             6              42
  CLUS_3             3              36
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             6              32
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  INSRR MUTATED        1      0      1      0      3      1
  INSRR WILD-TYPE     12     16     13     11      8      8
D800V11, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  INSRR MUTATED        0      0      0      0      1      1      3      1
  INSRR WILD-TYPE     11      7      7      9      7      6      8      8
                 vv
clus              CLUS_9
  INSRR MUTATED        0
  INSRR WILD-TYPE      5
D800V12, multiclass
        clus
vv       INSRR MUTATED INSRR WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             3               8
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(801) Variable = PAAF1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAAF1 MUTATED        0      0      0      0      0
  PAAF1 WILD-TYPE     32     18     46     27     23
D801V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAAF1 MUTATED        0      0      0
  PAAF1 WILD-TYPE     43     67     36
D801V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAAF1 MUTATED        0      2      3
  PAAF1 WILD-TYPE     42    171    144
D801V3, multiclass
        clus
vv       PAAF1 MUTATED PAAF1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAAF1 MUTATED        1      3      1
  PAAF1 WILD-TYPE     61     70     74
D801V4, multiclass
        clus
vv       PAAF1 MUTATED PAAF1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             3              70
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAAF1 MUTATED        0      3      2
  PAAF1 WILD-TYPE     70    117     98
D801V5, multiclass
        clus
vv       PAAF1 MUTATED PAAF1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAAF1 MUTATED        0      1      1      1      0      1      1      0
  PAAF1 WILD-TYPE     41     25     29     28     39     68     19     14
                 vv
clus              CLUS_9
  PAAF1 MUTATED        0
  PAAF1 WILD-TYPE     22
D801V6, multiclass
        clus
vv       PAAF1 MUTATED PAAF1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAAF1 MUTATED        3      2      0      0
  PAAF1 WILD-TYPE     97     70     72    121
D801V7, multiclass
        clus
vv       PAAF1 MUTATED PAAF1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             2              70
  CLUS_3             0              72
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAAF1 MUTATED        1      3      1      0      0
  PAAF1 WILD-TYPE     58     72     73    119     38
D801V8, multiclass
        clus
vv       PAAF1 MUTATED PAAF1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAAF1 MUTATED        0      2      1      1      1
  PAAF1 WILD-TYPE     51     74     60     70     94
D801V9, multiclass
        clus
vv       PAAF1 MUTATED PAAF1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAAF1 MUTATED        0      1      2      1      0      0      0      0
  PAAF1 WILD-TYPE     69     47     37     15     53     20     21     38
                 vv
clus              CLUS_9
  PAAF1 MUTATED        1
  PAAF1 WILD-TYPE     49
D801V10, multiclass
        clus
vv       PAAF1 MUTATED PAAF1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAAF1 MUTATED        2      0      0      0      0      0
  PAAF1 WILD-TYPE     11     16     14     11     11      9
D801V11, multiclass
[1] "Remove cluster labels:" "PAAF1 MUTATED"         
clus
  PAAF1 MUTATED PAAF1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A285 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAAF1 MUTATED        0      0      1      0      0      0      0      1
  PAAF1 WILD-TYPE     11      7      6      9      8      7     11      8
                 vv
clus              CLUS_9
  PAAF1 MUTATED        0
  PAAF1 WILD-TYPE      5
D801V12, multiclass
[1] "Remove cluster labels:" "PAAF1 MUTATED"         
clus
  PAAF1 MUTATED PAAF1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A285 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" "PAAF1 WILD-TYPE" 

Clustering(802) Variable = JAK3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JAK3 MUTATED        4      0      0      0      0
  JAK3 WILD-TYPE     28     18     46     27     23
D802V1, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK3 MUTATED        4      0      0
  JAK3 WILD-TYPE     39     67     36
D802V2, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK3 MUTATED        2      7     15
  JAK3 WILD-TYPE     40    166    132
D802V3, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            7            166
  CLUS_3           15            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK3 MUTATED        5      6      8
  JAK3 WILD-TYPE     57     67     67
D802V4, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            6             67
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK3 MUTATED        2      6      8
  JAK3 WILD-TYPE     68    114     92
D802V5, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            114
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  JAK3 MUTATED        3      0      2      1      0      7      0      2      1
  JAK3 WILD-TYPE     38     26     28     28     39     62     20     12     21
D802V6, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            7             62
  CLUS_7            0             20
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  JAK3 MUTATED        9      6      3      6
  JAK3 WILD-TYPE     91     66     69    115
D802V7, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            9             91
  CLUS_2            6             66
  CLUS_3            3             69
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JAK3 MUTATED        5      6      7      1      5
  JAK3 WILD-TYPE     54     69     67    118     33
D802V8, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            5             54
  CLUS_2            6             69
  CLUS_3            7             67
  CLUS_4            1            118
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JAK3 MUTATED        4     10      5      0      4
  JAK3 WILD-TYPE     47     66     56     71     91
D802V9, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            4             47
  CLUS_2           10             66
  CLUS_3            5             56
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  JAK3 MUTATED        3      5      2      4      4      1      1      3      0
  JAK3 WILD-TYPE     66     43     37     12     49     19     20     35     50
D802V10, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            5             43
  CLUS_3            2             37
  CLUS_4            4             12
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  JAK3 MUTATED        0      2      0      0      1      0
  JAK3 WILD-TYPE     13     14     14     11     10      9
D802V11, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  JAK3 MUTATED        1      1      0      1      0      0      0      0      0
  JAK3 WILD-TYPE     10      6      7      8      8      7     11      9      5
D802V12, multiclass
        clus
vv       JAK3 MUTATED JAK3 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(803) Variable = TMEM45A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM45A MUTATED        0      0      0      0      0
  TMEM45A WILD-TYPE     32     18     46     27     23
D803V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM45A MUTATED        0      0      0
  TMEM45A WILD-TYPE     43     67     36
D803V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM45A MUTATED        1      1      2
  TMEM45A WILD-TYPE     41    172    145
D803V3, multiclass
        clus
vv       TMEM45A MUTATED TMEM45A WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM45A MUTATED        1      0      3
  TMEM45A WILD-TYPE     61     73     72
D803V4, multiclass
        clus
vv       TMEM45A MUTATED TMEM45A WILD-TYPE
  CLUS_1               1                61
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM45A MUTATED        1      2      1
  TMEM45A WILD-TYPE     69    118     99
D803V5, multiclass
        clus
vv       TMEM45A MUTATED TMEM45A WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM45A MUTATED        1      0      0      1      0      1      0      1
  TMEM45A WILD-TYPE     40     26     30     28     39     68     20     13
                   vv
clus                CLUS_9
  TMEM45A MUTATED        0
  TMEM45A WILD-TYPE     22
D803V6, multiclass
        clus
vv       TMEM45A MUTATED TMEM45A WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM45A MUTATED        0      2      2      0
  TMEM45A WILD-TYPE    100     70     70    121
D803V7, multiclass
        clus
vv       TMEM45A MUTATED TMEM45A WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM45A MUTATED        1      0      3      0      0
  TMEM45A WILD-TYPE     58     75     71    119     38
D803V8, multiclass
        clus
vv       TMEM45A MUTATED TMEM45A WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM45A MUTATED        0      3      1      0      0
  TMEM45A WILD-TYPE     51     73     60     71     95
D803V9, multiclass
        clus
vv       TMEM45A MUTATED TMEM45A WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM45A MUTATED        2      0      0      1      1      0      0      0
  TMEM45A WILD-TYPE     67     48     39     15     52     20     21     38
                   vv
clus                CLUS_9
  TMEM45A MUTATED        0
  TMEM45A WILD-TYPE     50
D803V10, multiclass
        clus
vv       TMEM45A MUTATED TMEM45A WILD-TYPE
  CLUS_1               2                67
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM45A MUTATED        0      0      2      0      1      0
  TMEM45A WILD-TYPE     13     16     12     11     10      9
D803V11, multiclass
        clus
vv       TMEM45A MUTATED TMEM45A WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               2                12
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM45A MUTATED        0      0      0      1      1      0      1      0
  TMEM45A WILD-TYPE     11      7      7      8      7      7     10      9
                   vv
clus                CLUS_9
  TMEM45A MUTATED        0
  TMEM45A WILD-TYPE      5
D803V12, multiclass
        clus
vv       TMEM45A MUTATED TMEM45A WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(804) Variable = UAP1L1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UAP1L1 MUTATED        2      0      0      0      0
  UAP1L1 WILD-TYPE     30     18     46     27     23
D804V1, multiclass
[1] "Remove cluster labels:" "UAP1L1 MUTATED"        
clus
  UAP1L1 MUTATED UAP1L1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3939 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UAP1L1 MUTATED        2      0      0
  UAP1L1 WILD-TYPE     41     67     36
D804V2, multiclass
[1] "Remove cluster labels:" "UAP1L1 MUTATED"        
clus
  UAP1L1 MUTATED UAP1L1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3939 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" "UAP1L1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UAP1L1 MUTATED        0      3      4
  UAP1L1 WILD-TYPE     42    170    143
D804V3, multiclass
        clus
vv       UAP1L1 MUTATED UAP1L1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UAP1L1 MUTATED        0      1      4
  UAP1L1 WILD-TYPE     62     72     71
D804V4, multiclass
        clus
vv       UAP1L1 MUTATED UAP1L1 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UAP1L1 MUTATED        1      2      1
  UAP1L1 WILD-TYPE     69    118     99
D804V5, multiclass
        clus
vv       UAP1L1 MUTATED UAP1L1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UAP1L1 MUTATED        1      0      0      2      0      1      0      0
  UAP1L1 WILD-TYPE     40     26     30     27     39     68     20     14
                  vv
clus               CLUS_9
  UAP1L1 MUTATED        0
  UAP1L1 WILD-TYPE     22
D804V6, multiclass
        clus
vv       UAP1L1 MUTATED UAP1L1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UAP1L1 MUTATED        2      0      3      2
  UAP1L1 WILD-TYPE     98     72     69    119
D804V7, multiclass
        clus
vv       UAP1L1 MUTATED UAP1L1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              0               72
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UAP1L1 MUTATED        0      2      3      1      1
  UAP1L1 WILD-TYPE     59     73     71    118     37
D804V8, multiclass
        clus
vv       UAP1L1 MUTATED UAP1L1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UAP1L1 MUTATED        1      1      1      3      1
  UAP1L1 WILD-TYPE     50     75     60     68     94
D804V9, multiclass
        clus
vv       UAP1L1 MUTATED UAP1L1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UAP1L1 MUTATED        0      2      0      0      3      0      0      2
  UAP1L1 WILD-TYPE     69     46     39     16     50     20     21     36
                  vv
clus               CLUS_9
  UAP1L1 MUTATED        0
  UAP1L1 WILD-TYPE     50
D804V10, multiclass
        clus
vv       UAP1L1 MUTATED UAP1L1 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UAP1L1 MUTATED        1      1      1      0      0      0
  UAP1L1 WILD-TYPE     12     15     13     11     11      9
D804V11, multiclass
        clus
vv       UAP1L1 MUTATED UAP1L1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UAP1L1 MUTATED        0      0      0      1      1      0      1      0
  UAP1L1 WILD-TYPE     11      7      7      8      7      7     10      9
                  vv
clus               CLUS_9
  UAP1L1 MUTATED        0
  UAP1L1 WILD-TYPE      5
D804V12, multiclass
        clus
vv       UAP1L1 MUTATED UAP1L1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(805) Variable = OR6A2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6A2 MUTATED        1      0      0      1      0
  OR6A2 WILD-TYPE     31     18     46     26     23
D805V1, multiclass
[1] "Remove cluster labels:" "OR6A2 MUTATED"         
clus
  OR6A2 MUTATED OR6A2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6A2 MUTATED        2      0      0
  OR6A2 WILD-TYPE     41     67     36
D805V2, multiclass
[1] "Remove cluster labels:" "OR6A2 MUTATED"         
clus
  OR6A2 MUTATED OR6A2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" "OR6A2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6A2 MUTATED        1      2      5
  OR6A2 WILD-TYPE     41    171    142
D805V3, multiclass
        clus
vv       OR6A2 MUTATED OR6A2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6A2 MUTATED        5      1      0
  OR6A2 WILD-TYPE     57     72     75
D805V4, multiclass
        clus
vv       OR6A2 MUTATED OR6A2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6A2 MUTATED        1      0      5
  OR6A2 WILD-TYPE     69    120     95
D805V5, multiclass
        clus
vv       OR6A2 MUTATED OR6A2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             0             120
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6A2 MUTATED        1      0      0      0      1      4      0      0
  OR6A2 WILD-TYPE     40     26     30     29     38     65     20     14
                 vv
clus              CLUS_9
  OR6A2 MUTATED        0
  OR6A2 WILD-TYPE     22
D805V6, multiclass
        clus
vv       OR6A2 MUTATED OR6A2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR6A2 MUTATED        2      0      4      2
  OR6A2 WILD-TYPE     98     72     68    119
D805V7, multiclass
        clus
vv       OR6A2 MUTATED OR6A2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             0              72
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6A2 MUTATED        3      3      0      0      2
  OR6A2 WILD-TYPE     56     72     74    119     36
D805V8, multiclass
        clus
vv       OR6A2 MUTATED OR6A2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             0              74
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6A2 MUTATED        1      2      3      0      1
  OR6A2 WILD-TYPE     50     74     58     71     94
D805V9, multiclass
        clus
vv       OR6A2 MUTATED OR6A2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6A2 MUTATED        2      2      0      0      2      0      0      1
  OR6A2 WILD-TYPE     67     46     39     16     51     20     21     37
                 vv
clus              CLUS_9
  OR6A2 MUTATED        0
  OR6A2 WILD-TYPE     50
D805V10, multiclass
        clus
vv       OR6A2 MUTATED OR6A2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR6A2 MUTATED        0      0      0      0      0      0
  OR6A2 WILD-TYPE     13     16     14     11     11      9
D805V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6A2 MUTATED        0      0      0      0      0      0      0      0
  OR6A2 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  OR6A2 MUTATED        0
  OR6A2 WILD-TYPE      5
D805V12, multiclass

Clustering(806) Variable = PTPN12 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN12 MUTATED        5      0      1      2      0
  PTPN12 WILD-TYPE     27     18     45     25     23
D806V1, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN12 MUTATED        5      1      2
  PTPN12 WILD-TYPE     38     66     34
D806V2, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN12 MUTATED        1      1     15
  PTPN12 WILD-TYPE     41    172    132
D806V3, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3             15              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN12 MUTATED        4      0      4
  PTPN12 WILD-TYPE     58     73     71
D806V4, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN12 MUTATED        2      5      7
  PTPN12 WILD-TYPE     68    115     93
D806V5, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN12 MUTATED        1      1      2      2      2      5      1      0
  PTPN12 WILD-TYPE     40     25     28     27     37     64     19     14
                  vv
clus               CLUS_9
  PTPN12 MUTATED        0
  PTPN12 WILD-TYPE     22
D806V6, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPN12 MUTATED        1      5      3      8
  PTPN12 WILD-TYPE     99     67     69    113
D806V7, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              5               67
  CLUS_3              3               69
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN12 MUTATED        1      0      6      5      5
  PTPN12 WILD-TYPE     58     75     68    114     33
D806V8, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              6               68
  CLUS_4              5              114
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN12 MUTATED        0      5      2      2      7
  PTPN12 WILD-TYPE     51     71     59     69     88
D806V9, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN12 MUTATED        2      1      0      3      2      1      1      4
  PTPN12 WILD-TYPE     67     47     39     13     51     19     20     34
                  vv
clus               CLUS_9
  PTPN12 MUTATED        2
  PTPN12 WILD-TYPE     48
D806V10, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              4               34
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPN12 MUTATED        0      0      1      0      2      0
  PTPN12 WILD-TYPE     13     16     13     11      9      9
D806V11, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN12 MUTATED        0      0      0      1      1      1      0      0
  PTPN12 WILD-TYPE     11      7      7      8      7      6     11      9
                  vv
clus               CLUS_9
  PTPN12 MUTATED        0
  PTPN12 WILD-TYPE      5
D806V12, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(807) Variable = OR2Y1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2Y1 MUTATED        0      0      0      1      0
  OR2Y1 WILD-TYPE     32     18     46     26     23
D807V1, multiclass
[1] "Remove cluster labels:" "OR2Y1 MUTATED"         
clus
  OR2Y1 MUTATED OR2Y1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AY-4071 
"OR2Y1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2Y1 MUTATED        1      0      0
  OR2Y1 WILD-TYPE     42     67     36
D807V2, multiclass
[1] "Remove cluster labels:" "OR2Y1 MUTATED"         
clus
  OR2Y1 MUTATED OR2Y1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AY-4071 
"OR2Y1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2Y1 MUTATED        1      1      5
  OR2Y1 WILD-TYPE     41    172    142
D807V3, multiclass
        clus
vv       OR2Y1 MUTATED OR2Y1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2Y1 MUTATED        0      1      5
  OR2Y1 WILD-TYPE     62     72     70
D807V4, multiclass
        clus
vv       OR2Y1 MUTATED OR2Y1 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2Y1 MUTATED        0      2      5
  OR2Y1 WILD-TYPE     70    118     95
D807V5, multiclass
        clus
vv       OR2Y1 MUTATED OR2Y1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2Y1 MUTATED        1      0      0      1      0      5      0      0
  OR2Y1 WILD-TYPE     40     26     30     28     39     64     20     14
                 vv
clus              CLUS_9
  OR2Y1 MUTATED        0
  OR2Y1 WILD-TYPE     22
D807V6, multiclass
        clus
vv       OR2Y1 MUTATED OR2Y1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2Y1 MUTATED        1      5      0      1
  OR2Y1 WILD-TYPE     99     67     72    120
D807V7, multiclass
        clus
vv       OR2Y1 MUTATED OR2Y1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2Y1 MUTATED        0      1      5      0      1
  OR2Y1 WILD-TYPE     59     74     69    119     37
D807V8, multiclass
        clus
vv       OR2Y1 MUTATED OR2Y1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2Y1 MUTATED        1      5      0      0      0
  OR2Y1 WILD-TYPE     50     71     61     71     95
D807V9, multiclass
        clus
vv       OR2Y1 MUTATED OR2Y1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2Y1 MUTATED        2      0      1      3      0      0      0      0
  OR2Y1 WILD-TYPE     67     48     38     13     53     20     21     38
                 vv
clus              CLUS_9
  OR2Y1 MUTATED        0
  OR2Y1 WILD-TYPE     50
D807V10, multiclass
        clus
vv       OR2Y1 MUTATED OR2Y1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR2Y1 MUTATED        0      0      0      0      1      0
  OR2Y1 WILD-TYPE     13     16     14     11     10      9
D807V11, multiclass
[1] "Remove cluster labels:" "OR2Y1 MUTATED"         
clus
  OR2Y1 MUTATED OR2Y1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-G4-6628 
"OR2Y1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2Y1 MUTATED        0      0      0      1      0      0      0      0
  OR2Y1 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  OR2Y1 MUTATED        0
  OR2Y1 WILD-TYPE      5
D807V12, multiclass
[1] "Remove cluster labels:" "OR2Y1 MUTATED"         
clus
  OR2Y1 MUTATED OR2Y1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" "OR2Y1 WILD-TYPE" 
     TCGA-G4-6628 
"OR2Y1 WILD-TYPE" 

Clustering(808) Variable = THOC6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THOC6 MUTATED        1      0      0      1      0
  THOC6 WILD-TYPE     31     18     46     26     23
D808V1, multiclass
[1] "Remove cluster labels:" "THOC6 MUTATED"         
clus
  THOC6 MUTATED THOC6 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC6 MUTATED        1      1      0
  THOC6 WILD-TYPE     42     66     36
D808V2, multiclass
[1] "Remove cluster labels:" "THOC6 MUTATED"         
clus
  THOC6 MUTATED THOC6 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC6 MUTATED        1      2      5
  THOC6 WILD-TYPE     41    171    142
D808V3, multiclass
        clus
vv       THOC6 MUTATED THOC6 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC6 MUTATED        2      1      3
  THOC6 WILD-TYPE     60     72     72
D808V4, multiclass
        clus
vv       THOC6 MUTATED THOC6 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  THOC6 MUTATED        1      3      3
  THOC6 WILD-TYPE     69    117     97
D808V5, multiclass
        clus
vv       THOC6 MUTATED THOC6 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THOC6 MUTATED        1      1      1      1      1      0      2      0
  THOC6 WILD-TYPE     40     25     29     28     38     69     18     14
                 vv
clus              CLUS_9
  THOC6 MUTATED        0
  THOC6 WILD-TYPE     22
D808V6, multiclass
        clus
vv       THOC6 MUTATED THOC6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             0              69
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  THOC6 MUTATED        1      3      2      2
  THOC6 WILD-TYPE     99     69     70    119
D808V7, multiclass
        clus
vv       THOC6 MUTATED THOC6 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THOC6 MUTATED        1      2      3      1      1
  THOC6 WILD-TYPE     58     73     71    118     37
D808V8, multiclass
        clus
vv       THOC6 MUTATED THOC6 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THOC6 MUTATED        1      4      0      1      2
  THOC6 WILD-TYPE     50     72     61     70     93
D808V9, multiclass
        clus
vv       THOC6 MUTATED THOC6 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THOC6 MUTATED        2      1      0      0      1      3      0      1
  THOC6 WILD-TYPE     67     47     39     16     52     17     21     37
                 vv
clus              CLUS_9
  THOC6 MUTATED        0
  THOC6 WILD-TYPE     50
D808V10, multiclass
        clus
vv       THOC6 MUTATED THOC6 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  THOC6 MUTATED        0      1      1      0      0      0
  THOC6 WILD-TYPE     13     15     13     11     11      9
D808V11, multiclass
[1] "Remove cluster labels:" "THOC6 MUTATED"         
clus
  THOC6 MUTATED THOC6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6303 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THOC6 MUTATED        1      0      0      0      1      0      0      0
  THOC6 WILD-TYPE     10      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  THOC6 MUTATED        0
  THOC6 WILD-TYPE      5
D808V12, multiclass
[1] "Remove cluster labels:" "THOC6 MUTATED"         
clus
  THOC6 MUTATED THOC6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6303 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" "THOC6 WILD-TYPE" 

Clustering(809) Variable = VASH1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VASH1 MUTATED        0      0      0      0      0
  VASH1 WILD-TYPE     32     18     46     27     23
D809V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VASH1 MUTATED        0      0      0
  VASH1 WILD-TYPE     43     67     36
D809V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VASH1 MUTATED        0      0      5
  VASH1 WILD-TYPE     42    173    142
D809V3, multiclass
        clus
vv       VASH1 MUTATED VASH1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VASH1 MUTATED        0      0      5
  VASH1 WILD-TYPE     62     73     70
D809V4, multiclass
        clus
vv       VASH1 MUTATED VASH1 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VASH1 MUTATED        0      3      2
  VASH1 WILD-TYPE     70    117     98
D809V5, multiclass
        clus
vv       VASH1 MUTATED VASH1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VASH1 MUTATED        0      0      0      3      0      2      0      0
  VASH1 WILD-TYPE     41     26     30     26     39     67     20     14
                 vv
clus              CLUS_9
  VASH1 MUTATED        0
  VASH1 WILD-TYPE     22
D809V6, multiclass
        clus
vv       VASH1 MUTATED VASH1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VASH1 MUTATED        0      5      0      0
  VASH1 WILD-TYPE    100     67     72    121
D809V7, multiclass
        clus
vv       VASH1 MUTATED VASH1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             0              72
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VASH1 MUTATED        0      0      5      0      0
  VASH1 WILD-TYPE     59     75     69    119     38
D809V8, multiclass
        clus
vv       VASH1 MUTATED VASH1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VASH1 MUTATED        0      5      0      0      0
  VASH1 WILD-TYPE     51     71     61     71     95
D809V9, multiclass
        clus
vv       VASH1 MUTATED VASH1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VASH1 MUTATED        1      1      0      3      0      0      0      0
  VASH1 WILD-TYPE     68     47     39     13     53     20     21     38
                 vv
clus              CLUS_9
  VASH1 MUTATED        0
  VASH1 WILD-TYPE     50
D809V10, multiclass
        clus
vv       VASH1 MUTATED VASH1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VASH1 MUTATED        0      0      0      0      0      0
  VASH1 WILD-TYPE     13     16     14     11     11      9
D809V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VASH1 MUTATED        0      0      0      0      0      0      0      0
  VASH1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  VASH1 MUTATED        0
  VASH1 WILD-TYPE      5
D809V12, multiclass

Clustering(810) Variable = MAP7D3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP7D3 MUTATED        2      0      0      1      0
  MAP7D3 WILD-TYPE     30     18     46     26     23
D810V1, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP7D3 MUTATED        1      1      1
  MAP7D3 WILD-TYPE     42     66     35
D810V2, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP7D3 MUTATED        1      5     11
  MAP7D3 WILD-TYPE     41    168    136
D810V3, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP7D3 MUTATED        6      2      5
  MAP7D3 WILD-TYPE     56     71     70
D810V4, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP7D3 MUTATED        3      4      7
  MAP7D3 WILD-TYPE     67    116     93
D810V5, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              4              116
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP7D3 MUTATED        2      1      1      2      2      5      1      0
  MAP7D3 WILD-TYPE     39     25     29     27     37     64     19     14
                  vv
clus               CLUS_9
  MAP7D3 MUTATED        0
  MAP7D3 WILD-TYPE     22
D810V6, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP7D3 MUTATED        2      5      5      5
  MAP7D3 WILD-TYPE     98     67     67    116
D810V7, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              5               67
  CLUS_3              5               67
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP7D3 MUTATED        2      3      7      4      1
  MAP7D3 WILD-TYPE     57     72     67    115     37
D810V8, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              4              115
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP7D3 MUTATED        1      5      2      5      4
  MAP7D3 WILD-TYPE     50     71     59     66     91
D810V9, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              5               66
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP7D3 MUTATED        5      2      0      2      1      1      0      2
  MAP7D3 WILD-TYPE     64     46     39     14     52     19     21     36
                  vv
clus               CLUS_9
  MAP7D3 MUTATED        4
  MAP7D3 WILD-TYPE     46
D810V10, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              4               46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAP7D3 MUTATED        0      0      2      0      1      0
  MAP7D3 WILD-TYPE     13     16     12     11     10      9
D810V11, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP7D3 MUTATED        0      0      0      0      3      0      0      0
  MAP7D3 WILD-TYPE     11      7      7      9      5      7     11      9
                  vv
clus               CLUS_9
  MAP7D3 MUTATED        0
  MAP7D3 WILD-TYPE      5
D810V12, multiclass
        clus
vv       MAP7D3 MUTATED MAP7D3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              3                5
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(811) Variable = SGK3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGK3 MUTATED        0      0      0      0      0
  SGK3 WILD-TYPE     32     18     46     27     23
D811V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK3 MUTATED        0      0      0
  SGK3 WILD-TYPE     43     67     36
D811V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK3 MUTATED        1      3      4
  SGK3 WILD-TYPE     41    170    143
D811V3, multiclass
        clus
vv       SGK3 MUTATED SGK3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK3 MUTATED        4      2      2
  SGK3 WILD-TYPE     58     71     73
D811V4, multiclass
        clus
vv       SGK3 MUTATED SGK3 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            2             71
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK3 MUTATED        0      5      2
  SGK3 WILD-TYPE     70    115     98
D811V5, multiclass
        clus
vv       SGK3 MUTATED SGK3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            5            115
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SGK3 MUTATED        1      3      0      1      0      2      0      0      0
  SGK3 WILD-TYPE     40     23     30     28     39     67     20     14     22
D811V6, multiclass
        clus
vv       SGK3 MUTATED SGK3 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            3             23
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SGK3 MUTATED        2      1      4      1
  SGK3 WILD-TYPE     98     71     68    120
D811V7, multiclass
        clus
vv       SGK3 MUTATED SGK3 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            4             68
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGK3 MUTATED        2      3      2      1      0
  SGK3 WILD-TYPE     57     72     72    118     38
D811V8, multiclass
        clus
vv       SGK3 MUTATED SGK3 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGK3 MUTATED        3      0      3      0      2
  SGK3 WILD-TYPE     48     76     58     71     93
D811V9, multiclass
        clus
vv       SGK3 MUTATED SGK3 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            0             76
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SGK3 MUTATED        2      3      1      0      0      0      0      0      2
  SGK3 WILD-TYPE     67     45     38     16     53     20     21     38     48
D811V10, multiclass
        clus
vv       SGK3 MUTATED SGK3 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SGK3 MUTATED        0      1      0      0      0      1
  SGK3 WILD-TYPE     13     15     14     11     11      8
D811V11, multiclass
[1] "Remove cluster labels:" "SGK3 MUTATED"          
clus
  SGK3 MUTATED SGK3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SGK3 MUTATED        1      0      0      0      0      1      0      0      0
  SGK3 WILD-TYPE     10      7      7      9      8      6     11      9      5
D811V12, multiclass
[1] "Remove cluster labels:" "SGK3 MUTATED"          
clus
  SGK3 MUTATED SGK3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" "SGK3 WILD-TYPE" 

Clustering(812) Variable = ARHGAP32 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP32 MUTATED        4      0      0      2      0
  ARHGAP32 WILD-TYPE     28     18     46     25     23
D812V1, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP32 MUTATED        5      1      0
  ARHGAP32 WILD-TYPE     38     66     36
D812V2, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                5                 38
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP32 MUTATED        2      6     15
  ARHGAP32 WILD-TYPE     40    167    132
D812V3, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                6                167
  CLUS_3               15                132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP32 MUTATED        2      6     10
  ARHGAP32 WILD-TYPE     60     67     65
D812V4, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                6                 67
  CLUS_3               10                 65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP32 MUTATED        6      8     10
  ARHGAP32 WILD-TYPE     64    112     90
D812V5, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                6                 64
  CLUS_2                8                112
  CLUS_3               10                 90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP32 MUTATED        0      1      2      3      5      8      2      1
  ARHGAP32 WILD-TYPE     41     25     28     26     34     61     18     13
                    vv
clus                 CLUS_9
  ARHGAP32 MUTATED        2
  ARHGAP32 WILD-TYPE     20
D812V6, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                2                 28
  CLUS_4                3                 26
  CLUS_5                5                 34
  CLUS_6                8                 61
  CLUS_7                2                 18
  CLUS_8                1                 13
  CLUS_9                2                 20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGAP32 MUTATED        4      9      3      8
  ARHGAP32 WILD-TYPE     96     63     69    113
D812V7, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                4                 96
  CLUS_2                9                 63
  CLUS_3                3                 69
  CLUS_4                8                113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP32 MUTATED        1      6      9      2      6
  ARHGAP32 WILD-TYPE     58     69     65    117     32
D812V8, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                6                 69
  CLUS_3                9                 65
  CLUS_4                2                117
  CLUS_5                6                 32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP32 MUTATED        4      9      1      2      6
  ARHGAP32 WILD-TYPE     47     67     60     69     89
D812V9, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                4                 47
  CLUS_2                9                 67
  CLUS_3                1                 60
  CLUS_4                2                 69
  CLUS_5                6                 89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP32 MUTATED        8      2      0      2      1      2      0      5
  ARHGAP32 WILD-TYPE     61     46     39     14     52     18     21     33
                    vv
clus                 CLUS_9
  ARHGAP32 MUTATED        2
  ARHGAP32 WILD-TYPE     48
D812V10, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                8                 61
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                1                 52
  CLUS_6                2                 18
  CLUS_7                0                 21
  CLUS_8                5                 33
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARHGAP32 MUTATED        0      0      1      0      0      0
  ARHGAP32 WILD-TYPE     13     16     13     11     11      9
D812V11, multiclass
[1] "Remove cluster labels:" "ARHGAP32 MUTATED"      
clus
  ARHGAP32 MUTATED ARHGAP32 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-G4-6628 
"ARHGAP32 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP32 MUTATED        0      0      0      0      0      1      0      0
  ARHGAP32 WILD-TYPE     11      7      7      9      8      6     11      9
                    vv
clus                 CLUS_9
  ARHGAP32 MUTATED        0
  ARHGAP32 WILD-TYPE      5
D812V12, multiclass
[1] "Remove cluster labels:" "ARHGAP32 MUTATED"      
clus
  ARHGAP32 MUTATED ARHGAP32 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-G4-6628 
"ARHGAP32 WILD-TYPE" 

Clustering(813) Variable = BRD8 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRD8 MUTATED        2      0      0      2      0
  BRD8 WILD-TYPE     30     18     46     25     23
D813V1, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD8 MUTATED        4      0      0
  BRD8 WILD-TYPE     39     67     36
D813V2, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD8 MUTATED        1      1     13
  BRD8 WILD-TYPE     41    172    134
D813V3, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD8 MUTATED        2      0      9
  BRD8 WILD-TYPE     60     73     66
D813V4, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            9             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD8 MUTATED        2      4      6
  BRD8 WILD-TYPE     68    116     94
D813V5, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4            116
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRD8 MUTATED        2      0      0      2      2      5      0      0      1
  BRD8 WILD-TYPE     39     26     30     27     37     64     20     14     21
D813V6, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRD8 MUTATED        0      8      3      4
  BRD8 WILD-TYPE    100     64     69    117
D813V7, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            8             64
  CLUS_3            3             69
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRD8 MUTATED        1      1      9      0      4
  BRD8 WILD-TYPE     58     74     65    119     34
D813V8, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            9             65
  CLUS_4            0            119
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRD8 MUTATED        1      9      1      0      3
  BRD8 WILD-TYPE     50     67     60     71     92
D813V9, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            9             67
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRD8 MUTATED        3      2      0      4      0      1      1      2      1
  BRD8 WILD-TYPE     66     46     39     12     53     19     20     36     49
D813V10, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRD8 MUTATED        0      1      1      0      2      1
  BRD8 WILD-TYPE     13     15     13     11      9      8
D813V11, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRD8 MUTATED        1      0      0      2      0      1      1      0      0
  BRD8 WILD-TYPE     10      7      7      7      8      6     10      9      5
D813V12, multiclass
        clus
vv       BRD8 MUTATED BRD8 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(814) Variable = SLC41A2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC41A2 MUTATED        1      0      0      0      0
  SLC41A2 WILD-TYPE     31     18     46     27     23
D814V1, multiclass
[1] "Remove cluster labels:" "SLC41A2 MUTATED"       
clus
  SLC41A2 MUTATED SLC41A2 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AY-4071 
"SLC41A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC41A2 MUTATED        0      0      1
  SLC41A2 WILD-TYPE     43     67     35
D814V2, multiclass
[1] "Remove cluster labels:" "SLC41A2 MUTATED"       
clus
  SLC41A2 MUTATED SLC41A2 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" "SLC41A2 WILD-TYPE" 
       TCGA-AY-4071 
"SLC41A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC41A2 MUTATED        0      3      5
  SLC41A2 WILD-TYPE     42    170    142
D814V3, multiclass
        clus
vv       SLC41A2 MUTATED SLC41A2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC41A2 MUTATED        4      2      1
  SLC41A2 WILD-TYPE     58     71     74
D814V4, multiclass
        clus
vv       SLC41A2 MUTATED SLC41A2 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               2                71
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC41A2 MUTATED        0      2      5
  SLC41A2 WILD-TYPE     70    118     95
D814V5, multiclass
        clus
vv       SLC41A2 MUTATED SLC41A2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC41A2 MUTATED        1      0      0      1      0      3      0      0
  SLC41A2 WILD-TYPE     40     26     30     28     39     66     20     14
                   vv
clus                CLUS_9
  SLC41A2 MUTATED        2
  SLC41A2 WILD-TYPE     20
D814V6, multiclass
        clus
vv       SLC41A2 MUTATED SLC41A2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               2                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC41A2 MUTATED        3      1      3      1
  SLC41A2 WILD-TYPE     97     71     69    120
D814V7, multiclass
        clus
vv       SLC41A2 MUTATED SLC41A2 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               1                71
  CLUS_3               3                69
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC41A2 MUTATED        4      1      2      1      0
  SLC41A2 WILD-TYPE     55     74     72    118     38
D814V8, multiclass
        clus
vv       SLC41A2 MUTATED SLC41A2 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC41A2 MUTATED        1      3      3      1      0
  SLC41A2 WILD-TYPE     50     73     58     70     95
D814V9, multiclass
        clus
vv       SLC41A2 MUTATED SLC41A2 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               3                58
  CLUS_4               1                70
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC41A2 MUTATED        0      3      2      1      2      0      0      0
  SLC41A2 WILD-TYPE     69     45     37     15     51     20     21     38
                   vv
clus                CLUS_9
  SLC41A2 MUTATED        0
  SLC41A2 WILD-TYPE     50
D814V10, multiclass
        clus
vv       SLC41A2 MUTATED SLC41A2 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               3                45
  CLUS_3               2                37
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC41A2 MUTATED        0      0      0      0      0      0
  SLC41A2 WILD-TYPE     13     16     14     11     11      9
D814V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC41A2 MUTATED        0      0      0      0      0      0      0      0
  SLC41A2 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  SLC41A2 MUTATED        0
  SLC41A2 WILD-TYPE      5
D814V12, multiclass

Clustering(815) Variable = EAPP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EAPP MUTATED        0      0      0      0      0
  EAPP WILD-TYPE     32     18     46     27     23
D815V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EAPP MUTATED        0      0      0
  EAPP WILD-TYPE     43     67     36
D815V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EAPP MUTATED        0      3      1
  EAPP WILD-TYPE     42    170    146
D815V3, multiclass
        clus
vv       EAPP MUTATED EAPP WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            1            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EAPP MUTATED        0      1      2
  EAPP WILD-TYPE     62     72     73
D815V4, multiclass
        clus
vv       EAPP MUTATED EAPP WILD-TYPE
  CLUS_1            0             62
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EAPP MUTATED        0      2      1
  EAPP WILD-TYPE     70    118     99
D815V5, multiclass
        clus
vv       EAPP MUTATED EAPP WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EAPP MUTATED        0      1      1      0      0      1      0      0      0
  EAPP WILD-TYPE     41     25     29     29     39     68     20     14     22
D815V6, multiclass
        clus
vv       EAPP MUTATED EAPP WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EAPP MUTATED        2      2      0      0
  EAPP WILD-TYPE     98     70     72    121
D815V7, multiclass
        clus
vv       EAPP MUTATED EAPP WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            0             72
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EAPP MUTATED        0      3      0      1      0
  EAPP WILD-TYPE     59     72     74    118     38
D815V8, multiclass
        clus
vv       EAPP MUTATED EAPP WILD-TYPE
  CLUS_1            0             59
  CLUS_2            3             72
  CLUS_3            0             74
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EAPP MUTATED        0      3      0      0      1
  EAPP WILD-TYPE     51     73     61     71     94
D815V9, multiclass
        clus
vv       EAPP MUTATED EAPP WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EAPP MUTATED        2      0      0      0      0      1      0      1      0
  EAPP WILD-TYPE     67     48     39     16     53     19     21     37     50
D815V10, multiclass
        clus
vv       EAPP MUTATED EAPP WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EAPP MUTATED        0      0      0      0      0      0
  EAPP WILD-TYPE     13     16     14     11     11      9
D815V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EAPP MUTATED        0      0      0      0      0      0      0      0      0
  EAPP WILD-TYPE     11      7      7      9      8      7     11      9      5
D815V12, multiclass

Clustering(816) Variable = DNAJC7 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC7 MUTATED        1      0      0      1      0
  DNAJC7 WILD-TYPE     31     18     46     26     23
D816V1, multiclass
[1] "Remove cluster labels:" "DNAJC7 MUTATED"        
clus
  DNAJC7 MUTATED DNAJC7 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAJC7 MUTATED        1      1      0
  DNAJC7 WILD-TYPE     42     66     36
D816V2, multiclass
[1] "Remove cluster labels:" "DNAJC7 MUTATED"        
clus
  DNAJC7 MUTATED DNAJC7 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAJC7 MUTATED        0      0      7
  DNAJC7 WILD-TYPE     42    173    140
D816V3, multiclass
        clus
vv       DNAJC7 MUTATED DNAJC7 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAJC7 MUTATED        2      0      3
  DNAJC7 WILD-TYPE     60     73     72
D816V4, multiclass
        clus
vv       DNAJC7 MUTATED DNAJC7 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNAJC7 MUTATED        0      3      3
  DNAJC7 WILD-TYPE     70    117     97
D816V5, multiclass
        clus
vv       DNAJC7 MUTATED DNAJC7 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC7 MUTATED        1      0      1      1      0      2      1      0
  DNAJC7 WILD-TYPE     40     26     29     28     39     67     19     14
                  vv
clus               CLUS_9
  DNAJC7 MUTATED        0
  DNAJC7 WILD-TYPE     22
D816V6, multiclass
        clus
vv       DNAJC7 MUTATED DNAJC7 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNAJC7 MUTATED        0      3      2      2
  DNAJC7 WILD-TYPE    100     69     70    119
D816V7, multiclass
        clus
vv       DNAJC7 MUTATED DNAJC7 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC7 MUTATED        1      0      4      1      1
  DNAJC7 WILD-TYPE     58     75     70    118     37
D816V8, multiclass
        clus
vv       DNAJC7 MUTATED DNAJC7 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC7 MUTATED        0      4      1      0      2
  DNAJC7 WILD-TYPE     51     72     60     71     93
D816V9, multiclass
        clus
vv       DNAJC7 MUTATED DNAJC7 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC7 MUTATED        1      1      0      2      1      1      0      1
  DNAJC7 WILD-TYPE     68     47     39     14     52     19     21     37
                  vv
clus               CLUS_9
  DNAJC7 MUTATED        0
  DNAJC7 WILD-TYPE     50
D816V10, multiclass
        clus
vv       DNAJC7 MUTATED DNAJC7 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNAJC7 MUTATED        0      0      1      0      0      0
  DNAJC7 WILD-TYPE     13     16     13     11     11      9
D816V11, multiclass
[1] "Remove cluster labels:" "DNAJC7 MUTATED"        
clus
  DNAJC7 MUTATED DNAJC7 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-G4-6625 
"DNAJC7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC7 MUTATED        0      0      0      0      0      0      1      0
  DNAJC7 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  DNAJC7 MUTATED        0
  DNAJC7 WILD-TYPE      5
D816V12, multiclass
[1] "Remove cluster labels:" "DNAJC7 MUTATED"        
clus
  DNAJC7 MUTATED DNAJC7 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309 
"DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" "DNAJC7 WILD-TYPE" 
      TCGA-G4-6625 
"DNAJC7 WILD-TYPE" 

Clustering(817) Variable = LBP MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LBP MUTATED        0      1      0      0      0
  LBP WILD-TYPE     32     17     46     27     23
D817V1, multiclass
[1] "Remove cluster labels:" "LBP MUTATED"           
clus
  LBP MUTATED LBP WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3875    TCGA-AA-3877 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LBP MUTATED        0      1      0
  LBP WILD-TYPE     43     66     36
D817V2, multiclass
[1] "Remove cluster labels:" "LBP MUTATED"           
clus
  LBP MUTATED LBP WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3875    TCGA-AA-3877 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LBP MUTATED        0      4      3
  LBP WILD-TYPE     42    169    144
D817V3, multiclass
        clus
vv       LBP MUTATED LBP WILD-TYPE
  CLUS_1           0            42
  CLUS_2           4           169
  CLUS_3           3           144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LBP MUTATED        1      3      2
  LBP WILD-TYPE     61     70     73
D817V4, multiclass
        clus
vv       LBP MUTATED LBP WILD-TYPE
  CLUS_1           1            61
  CLUS_2           3            70
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LBP MUTATED        2      0      3
  LBP WILD-TYPE     68    120     97
D817V5, multiclass
        clus
vv       LBP MUTATED LBP WILD-TYPE
  CLUS_1           2            68
  CLUS_2           0           120
  CLUS_3           3            97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LBP MUTATED        2      0      0      0      0      3      0      0      0
  LBP WILD-TYPE     39     26     30     29     39     66     20     14     22
D817V6, multiclass
        clus
vv       LBP MUTATED LBP WILD-TYPE
  CLUS_1           2            39
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           0            39
  CLUS_6           3            66
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LBP MUTATED        3      2      2      0
  LBP WILD-TYPE     97     70     70    121
D817V7, multiclass
        clus
vv       LBP MUTATED LBP WILD-TYPE
  CLUS_1           3            97
  CLUS_2           2            70
  CLUS_3           2            70
  CLUS_4           0           121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LBP MUTATED        0      3      3      1      0
  LBP WILD-TYPE     59     72     71    118     38
D817V8, multiclass
        clus
vv       LBP MUTATED LBP WILD-TYPE
  CLUS_1           0            59
  CLUS_2           3            72
  CLUS_3           3            71
  CLUS_4           1           118
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LBP MUTATED        1      4      1      1      0
  LBP WILD-TYPE     50     72     60     70     95
D817V9, multiclass
        clus
vv       LBP MUTATED LBP WILD-TYPE
  CLUS_1           1            50
  CLUS_2           4            72
  CLUS_3           1            60
  CLUS_4           1            70
  CLUS_5           0            95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LBP MUTATED        2      1      0      1      2      1      0      0      0
  LBP WILD-TYPE     67     47     39     15     51     19     21     38     50
D817V10, multiclass
        clus
vv       LBP MUTATED LBP WILD-TYPE
  CLUS_1           2            67
  CLUS_2           1            47
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           2            51
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LBP MUTATED        1      1      0      0      0      0
  LBP WILD-TYPE     12     15     14     11     11      9
D817V11, multiclass
[1] "Remove cluster labels:" "LBP MUTATED"           
clus
  LBP MUTATED LBP WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-6548    TCGA-AD-6889 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6309 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"LBP WILD-TYPE" "LBP WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LBP MUTATED        0      0      0      1      0      0      1      0      0
  LBP WILD-TYPE     11      7      7      8      8      7     10      9      5
D817V12, multiclass
[1] "Remove cluster labels:" "LBP MUTATED"           
clus
  LBP MUTATED LBP WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-6548    TCGA-AD-6889 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6309 
"LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" "LBP WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"LBP WILD-TYPE" "LBP WILD-TYPE" 

Clustering(818) Variable = ZNF180 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF180 MUTATED        3      1      0      2      0
  ZNF180 WILD-TYPE     29     17     46     25     23
D818V1, multiclass
        clus
vv       ZNF180 MUTATED ZNF180 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF180 MUTATED        4      0      2
  ZNF180 WILD-TYPE     39     67     34
D818V2, multiclass
        clus
vv       ZNF180 MUTATED ZNF180 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF180 MUTATED        2      2     10
  ZNF180 WILD-TYPE     40    171    137
D818V3, multiclass
        clus
vv       ZNF180 MUTATED ZNF180 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              2              171
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF180 MUTATED        4      2      3
  ZNF180 WILD-TYPE     58     71     72
D818V4, multiclass
        clus
vv       ZNF180 MUTATED ZNF180 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF180 MUTATED        2      5      4
  ZNF180 WILD-TYPE     68    115     96
D818V5, multiclass
        clus
vv       ZNF180 MUTATED ZNF180 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF180 MUTATED        3      1      0      0      4      2      1      0
  ZNF180 WILD-TYPE     38     25     30     29     35     67     19     14
                  vv
clus               CLUS_9
  ZNF180 MUTATED        0
  ZNF180 WILD-TYPE     22
D818V6, multiclass
        clus
vv       ZNF180 MUTATED ZNF180 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              4               35
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF180 MUTATED        2      3      2      7
  ZNF180 WILD-TYPE     98     69     70    114
D818V7, multiclass
        clus
vv       ZNF180 MUTATED ZNF180 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF180 MUTATED        2      2      3      3      4
  ZNF180 WILD-TYPE     57     73     71    116     34
D818V8, multiclass
        clus
vv       ZNF180 MUTATED ZNF180 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              3              116
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF180 MUTATED        1      4      3      1      4
  ZNF180 WILD-TYPE     50     72     58     70     91
D818V9, multiclass
        clus
vv       ZNF180 MUTATED ZNF180 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF180 MUTATED        3      1      0      0      3      1      1      3
  ZNF180 WILD-TYPE     66     47     39     16     50     19     20     35
                  vv
clus               CLUS_9
  ZNF180 MUTATED        1
  ZNF180 WILD-TYPE     49
D818V10, multiclass
        clus
vv       ZNF180 MUTATED ZNF180 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF180 MUTATED        0      1      0      0      0      0
  ZNF180 WILD-TYPE     13     15     14     11     11      9
D818V11, multiclass
[1] "Remove cluster labels:" "ZNF180 MUTATED"        
clus
  ZNF180 MUTATED ZNF180 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF180 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF180 MUTATED        1      0      0      0      0      0      0      0
  ZNF180 WILD-TYPE     10      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  ZNF180 MUTATED        0
  ZNF180 WILD-TYPE      5
D818V12, multiclass
[1] "Remove cluster labels:" "ZNF180 MUTATED"        
clus
  ZNF180 MUTATED ZNF180 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" "ZNF180 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF180 WILD-TYPE" 

Clustering(819) Variable = PCDH19 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH19 MUTATED        4      0      1      1      0
  PCDH19 WILD-TYPE     28     18     45     26     23
D819V1, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH19 MUTATED        4      1      1
  PCDH19 WILD-TYPE     39     66     35
D819V2, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH19 MUTATED        1      2     11
  PCDH19 WILD-TYPE     41    171    136
D819V3, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH19 MUTATED        3      0      5
  PCDH19 WILD-TYPE     59     73     70
D819V4, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH19 MUTATED        5      0      7
  PCDH19 WILD-TYPE     65    120     93
D819V5, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              5               65
  CLUS_2              0              120
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH19 MUTATED        1      2      0      0      3      5      1      0
  PCDH19 WILD-TYPE     40     24     30     29     36     64     19     14
                  vv
clus               CLUS_9
  PCDH19 MUTATED        0
  PCDH19 WILD-TYPE     22
D819V6, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              3               36
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDH19 MUTATED        1      6      2      5
  PCDH19 WILD-TYPE     99     66     70    116
D819V7, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              6               66
  CLUS_3              2               70
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH19 MUTATED        2      1      5      3      3
  PCDH19 WILD-TYPE     57     74     69    116     35
D819V8, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              5               69
  CLUS_4              3              116
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH19 MUTATED        0      4      1      2      6
  PCDH19 WILD-TYPE     51     72     60     69     89
D819V9, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH19 MUTATED        2      1      0      3      2      0      1      3
  PCDH19 WILD-TYPE     67     47     39     13     51     20     20     35
                  vv
clus               CLUS_9
  PCDH19 MUTATED        1
  PCDH19 WILD-TYPE     49
D819V10, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCDH19 MUTATED        0      1      1      0      1      0
  PCDH19 WILD-TYPE     13     15     13     11     10      9
D819V11, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH19 MUTATED        1      0      0      0      2      0      0      0
  PCDH19 WILD-TYPE     10      7      7      9      6      7     11      9
                  vv
clus               CLUS_9
  PCDH19 MUTATED        0
  PCDH19 WILD-TYPE      5
D819V12, multiclass
        clus
vv       PCDH19 MUTATED PCDH19 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(820) Variable = MACF1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MACF1 MUTATED       14      0      0      4      1
  MACF1 WILD-TYPE     18     18     46     23     22
D820V1, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1            14              18
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             4              23
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MACF1 MUTATED       15      2      2
  MACF1 WILD-TYPE     28     65     34
D820V2, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1            15              28
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MACF1 MUTATED        4     10     43
  MACF1 WILD-TYPE     38    163    104
D820V3, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1             4              38
  CLUS_2            10             163
  CLUS_3            43             104
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MACF1 MUTATED       14      5     19
  MACF1 WILD-TYPE     48     68     56
D820V4, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1            14              48
  CLUS_2             5              68
  CLUS_3            19              56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MACF1 MUTATED        6     16     27
  MACF1 WILD-TYPE     64    104     73
D820V5, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1             6              64
  CLUS_2            16             104
  CLUS_3            27              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MACF1 MUTATED        4      4      5      5      5     20      5      0
  MACF1 WILD-TYPE     37     22     25     24     34     49     15     14
                 vv
clus              CLUS_9
  MACF1 MUTATED        1
  MACF1 WILD-TYPE     21
D820V6, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             4              22
  CLUS_3             5              25
  CLUS_4             5              24
  CLUS_5             5              34
  CLUS_6            20              49
  CLUS_7             5              15
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MACF1 MUTATED        5     17     15     21
  MACF1 WILD-TYPE     95     55     57    100
D820V7, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1             5              95
  CLUS_2            17              55
  CLUS_3            15              57
  CLUS_4            21             100
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MACF1 MUTATED        7      6     24      6     15
  MACF1 WILD-TYPE     52     69     50    113     23
D820V8, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1             7              52
  CLUS_2             6              69
  CLUS_3            24              50
  CLUS_4             6             113
  CLUS_5            15              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MACF1 MUTATED        3     24      8      2     17
  MACF1 WILD-TYPE     48     52     53     69     78
D820V9, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2            24              52
  CLUS_3             8              53
  CLUS_4             2              69
  CLUS_5            17              78
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MACF1 MUTATED        8     15      1      6      7      2      1     11
  MACF1 WILD-TYPE     61     33     38     10     46     18     20     27
                 vv
clus              CLUS_9
  MACF1 MUTATED        3
  MACF1 WILD-TYPE     47
D820V10, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1             8              61
  CLUS_2            15              33
  CLUS_3             1              38
  CLUS_4             6              10
  CLUS_5             7              46
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8            11              27
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MACF1 MUTATED        0      2      2      1      4      0
  MACF1 WILD-TYPE     13     14     12     10      7      9
D820V11, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MACF1 MUTATED        2      0      0      2      1      1      3      0
  MACF1 WILD-TYPE      9      7      7      7      7      6      8      9
                 vv
clus              CLUS_9
  MACF1 MUTATED        0
  MACF1 WILD-TYPE      5
D820V12, multiclass
        clus
vv       MACF1 MUTATED MACF1 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(821) Variable = MYH15 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYH15 MUTATED        4      0      0      2      0
  MYH15 WILD-TYPE     28     18     46     25     23
D821V1, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYH15 MUTATED        4      1      1
  MYH15 WILD-TYPE     39     66     35
D821V2, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYH15 MUTATED        0      7     18
  MYH15 WILD-TYPE     42    166    129
D821V3, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             7             166
  CLUS_3            18             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYH15 MUTATED       10      3      6
  MYH15 WILD-TYPE     52     70     69
D821V4, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1            10              52
  CLUS_2             3              70
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYH15 MUTATED        0     10     10
  MYH15 WILD-TYPE     70    110     90
D821V5, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1             0              70
  CLUS_2            10             110
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYH15 MUTATED        3      2      1      3      3      6      0      0
  MYH15 WILD-TYPE     38     24     29     26     36     63     20     14
                 vv
clus              CLUS_9
  MYH15 MUTATED        2
  MYH15 WILD-TYPE     20
D821V6, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYH15 MUTATED        5      4      9      7
  MYH15 WILD-TYPE     95     68     63    114
D821V7, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             4              68
  CLUS_3             9              63
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYH15 MUTATED        5      6      7      3      4
  MYH15 WILD-TYPE     54     69     67    116     34
D821V8, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             6              69
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYH15 MUTATED        4      5      6      3      7
  MYH15 WILD-TYPE     47     71     55     68     88
D821V9, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             5              71
  CLUS_3             6              55
  CLUS_4             3              68
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYH15 MUTATED        5      6      1      2      4      1      0      4
  MYH15 WILD-TYPE     64     42     38     14     49     19     21     34
                 vv
clus              CLUS_9
  MYH15 MUTATED        2
  MYH15 WILD-TYPE     48
D821V10, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             6              42
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             4              49
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MYH15 MUTATED        0      2      4      0      1      1
  MYH15 WILD-TYPE     13     14     10     11     10      8
D821V11, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             4              10
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYH15 MUTATED        0      1      0      1      2      2      1      1
  MYH15 WILD-TYPE     11      6      7      8      6      5     10      8
                 vv
clus              CLUS_9
  MYH15 MUTATED        0
  MYH15 WILD-TYPE      5
D821V12, multiclass
        clus
vv       MYH15 MUTATED MYH15 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             2               6
  CLUS_6             2               5
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(822) Variable = PLK2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLK2 MUTATED        2      0      0      0      0
  PLK2 WILD-TYPE     30     18     46     27     23
D822V1, multiclass
[1] "Remove cluster labels:" "PLK2 MUTATED"          
clus
  PLK2 MUTATED PLK2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3517 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PLK2 MUTATED        1      0      1
  PLK2 WILD-TYPE     42     67     35
D822V2, multiclass
[1] "Remove cluster labels:" "PLK2 MUTATED"          
clus
  PLK2 MUTATED PLK2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3517 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" "PLK2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PLK2 MUTATED        0      0      6
  PLK2 WILD-TYPE     42    173    141
D822V3, multiclass
        clus
vv       PLK2 MUTATED PLK2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PLK2 MUTATED        1      1      2
  PLK2 WILD-TYPE     61     72     73
D822V4, multiclass
        clus
vv       PLK2 MUTATED PLK2 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PLK2 MUTATED        0      1      3
  PLK2 WILD-TYPE     70    119     97
D822V5, multiclass
        clus
vv       PLK2 MUTATED PLK2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PLK2 MUTATED        0      0      0      1      0      3      0      0      0
  PLK2 WILD-TYPE     41     26     30     28     39     66     20     14     22
D822V6, multiclass
        clus
vv       PLK2 MUTATED PLK2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLK2 MUTATED        1      2      1      2
  PLK2 WILD-TYPE     99     70     71    119
D822V7, multiclass
        clus
vv       PLK2 MUTATED PLK2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLK2 MUTATED        0      2      2      1      1
  PLK2 WILD-TYPE     59     73     72    118     37
D822V8, multiclass
        clus
vv       PLK2 MUTATED PLK2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLK2 MUTATED        0      3      0      2      1
  PLK2 WILD-TYPE     51     73     61     69     94
D822V9, multiclass
        clus
vv       PLK2 MUTATED PLK2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PLK2 MUTATED        2      0      0      2      1      0      0      1      0
  PLK2 WILD-TYPE     67     48     39     14     52     20     21     37     50
D822V10, multiclass
        clus
vv       PLK2 MUTATED PLK2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLK2 MUTATED        0      0      0      0      0      0
  PLK2 WILD-TYPE     13     16     14     11     11      9
D822V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PLK2 MUTATED        0      0      0      0      0      0      0      0      0
  PLK2 WILD-TYPE     11      7      7      9      8      7     11      9      5
D822V12, multiclass

Clustering(823) Variable = ZNF619 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF619 MUTATED        2      0      0      2      0
  ZNF619 WILD-TYPE     30     18     46     25     23
D823V1, multiclass
        clus
vv       ZNF619 MUTATED ZNF619 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF619 MUTATED        3      1      0
  ZNF619 WILD-TYPE     40     66     36
D823V2, multiclass
        clus
vv       ZNF619 MUTATED ZNF619 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF619 MUTATED        0      0     11
  ZNF619 WILD-TYPE     42    173    136
D823V3, multiclass
        clus
vv       ZNF619 MUTATED ZNF619 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF619 MUTATED        4      0      2
  ZNF619 WILD-TYPE     58     73     73
D823V4, multiclass
        clus
vv       ZNF619 MUTATED ZNF619 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF619 MUTATED        0      4      5
  ZNF619 WILD-TYPE     70    116     95
D823V5, multiclass
        clus
vv       ZNF619 MUTATED ZNF619 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF619 MUTATED        0      1      2      1      1      4      0      0
  ZNF619 WILD-TYPE     41     25     28     28     38     65     20     14
                  vv
clus               CLUS_9
  ZNF619 MUTATED        0
  ZNF619 WILD-TYPE     22
D823V6, multiclass
        clus
vv       ZNF619 MUTATED ZNF619 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF619 MUTATED        0      3      2      6
  ZNF619 WILD-TYPE    100     69     70    115
D823V7, multiclass
        clus
vv       ZNF619 MUTATED ZNF619 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF619 MUTATED        0      1      4      2      4
  ZNF619 WILD-TYPE     59     74     70    117     34
D823V8, multiclass
        clus
vv       ZNF619 MUTATED ZNF619 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF619 MUTATED        0      3      1      0      6
  ZNF619 WILD-TYPE     51     73     60     71     89
D823V9, multiclass
        clus
vv       ZNF619 MUTATED ZNF619 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF619 MUTATED        1      1      0      2      1      1      1      1
  ZNF619 WILD-TYPE     68     47     39     14     52     19     20     37
                  vv
clus               CLUS_9
  ZNF619 MUTATED        2
  ZNF619 WILD-TYPE     48
D823V10, multiclass
        clus
vv       ZNF619 MUTATED ZNF619 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF619 MUTATED        0      0      0      0      1      0
  ZNF619 WILD-TYPE     13     16     14     11     10      9
D823V11, multiclass
[1] "Remove cluster labels:" "ZNF619 MUTATED"        
clus
  ZNF619 MUTATED ZNF619 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF619 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF619 MUTATED        0      0      0      0      0      1      0      0
  ZNF619 WILD-TYPE     11      7      7      9      8      6     11      9
                  vv
clus               CLUS_9
  ZNF619 MUTATED        0
  ZNF619 WILD-TYPE      5
D823V12, multiclass
[1] "Remove cluster labels:" "ZNF619 MUTATED"        
clus
  ZNF619 MUTATED ZNF619 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" "ZNF619 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF619 WILD-TYPE" 

Clustering(824) Variable = WNK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNK1 MUTATED        3      0      0      2      0
  WNK1 WILD-TYPE     29     18     46     25     23
D824V1, multiclass
        clus
vv       WNK1 MUTATED WNK1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK1 MUTATED        4      1      0
  WNK1 WILD-TYPE     39     66     36
D824V2, multiclass
        clus
vv       WNK1 MUTATED WNK1 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK1 MUTATED        2      3     13
  WNK1 WILD-TYPE     40    170    134
D824V3, multiclass
        clus
vv       WNK1 MUTATED WNK1 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            3            170
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK1 MUTATED        2      4      7
  WNK1 WILD-TYPE     60     69     68
D824V4, multiclass
        clus
vv       WNK1 MUTATED WNK1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            4             69
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK1 MUTATED        1      7      7
  WNK1 WILD-TYPE     69    113     93
D824V5, multiclass
        clus
vv       WNK1 MUTATED WNK1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            7            113
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNK1 MUTATED        0      1      4      2      2      5      1      0      0
  WNK1 WILD-TYPE     41     25     26     27     37     64     19     14     22
D824V6, multiclass
        clus
vv       WNK1 MUTATED WNK1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            4             26
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WNK1 MUTATED        3      8      2      6
  WNK1 WILD-TYPE     97     64     70    115
D824V7, multiclass
        clus
vv       WNK1 MUTATED WNK1 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            8             64
  CLUS_3            2             70
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNK1 MUTATED        1      6      6      1      5
  WNK1 WILD-TYPE     58     69     68    118     33
D824V8, multiclass
        clus
vv       WNK1 MUTATED WNK1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            6             69
  CLUS_3            6             68
  CLUS_4            1            118
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNK1 MUTATED        1      7      2      2      6
  WNK1 WILD-TYPE     50     69     59     69     89
D824V9, multiclass
        clus
vv       WNK1 MUTATED WNK1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            7             69
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNK1 MUTATED        6      3      1      1      1      2      0      3      1
  WNK1 WILD-TYPE     63     45     38     15     52     18     21     35     49
D824V10, multiclass
        clus
vv       WNK1 MUTATED WNK1 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WNK1 MUTATED        0      0      0      0      0      0
  WNK1 WILD-TYPE     13     16     14     11     11      9
D824V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNK1 MUTATED        0      0      0      0      0      0      0      0      0
  WNK1 WILD-TYPE     11      7      7      9      8      7     11      9      5
D824V12, multiclass

Clustering(825) Variable = TRIM54 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM54 MUTATED        2      0      0      0      0
  TRIM54 WILD-TYPE     30     18     46     27     23
D825V1, multiclass
[1] "Remove cluster labels:" "TRIM54 MUTATED"        
clus
  TRIM54 MUTATED TRIM54 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM54 MUTATED        1      0      1
  TRIM54 WILD-TYPE     42     67     35
D825V2, multiclass
[1] "Remove cluster labels:" "TRIM54 MUTATED"        
clus
  TRIM54 MUTATED TRIM54 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" "TRIM54 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM54 MUTATED        2      5      2
  TRIM54 WILD-TYPE     40    168    145
D825V3, multiclass
        clus
vv       TRIM54 MUTATED TRIM54 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              5              168
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM54 MUTATED        2      2      3
  TRIM54 WILD-TYPE     60     71     72
D825V4, multiclass
        clus
vv       TRIM54 MUTATED TRIM54 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM54 MUTATED        0      6      2
  TRIM54 WILD-TYPE     70    114     98
D825V5, multiclass
        clus
vv       TRIM54 MUTATED TRIM54 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              6              114
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM54 MUTATED        0      0      1      3      0      2      0      2
  TRIM54 WILD-TYPE     41     26     29     26     39     67     20     12
                  vv
clus               CLUS_9
  TRIM54 MUTATED        0
  TRIM54 WILD-TYPE     22
D825V6, multiclass
        clus
vv       TRIM54 MUTATED TRIM54 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM54 MUTATED        6      1      0      2
  TRIM54 WILD-TYPE     94     71     72    119
D825V7, multiclass
        clus
vv       TRIM54 MUTATED TRIM54 WILD-TYPE
  CLUS_1              6               94
  CLUS_2              1               71
  CLUS_3              0               72
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM54 MUTATED        2      4      1      1      1
  TRIM54 WILD-TYPE     57     71     73    118     37
D825V8, multiclass
        clus
vv       TRIM54 MUTATED TRIM54 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM54 MUTATED        1      2      3      2      0
  TRIM54 WILD-TYPE     50     74     58     69     95
D825V9, multiclass
        clus
vv       TRIM54 MUTATED TRIM54 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              3               58
  CLUS_4              2               69
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM54 MUTATED        2      0      3      1      2      0      0      0
  TRIM54 WILD-TYPE     67     48     36     15     51     20     21     38
                  vv
clus               CLUS_9
  TRIM54 MUTATED        0
  TRIM54 WILD-TYPE     50
D825V10, multiclass
        clus
vv       TRIM54 MUTATED TRIM54 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              3               36
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM54 MUTATED        1      0      0      1      1      0
  TRIM54 WILD-TYPE     12     16     14     10     10      9
D825V11, multiclass
        clus
vv       TRIM54 MUTATED TRIM54 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM54 MUTATED        0      0      0      1      0      0      1      1
  TRIM54 WILD-TYPE     11      7      7      8      8      7     10      8
                  vv
clus               CLUS_9
  TRIM54 MUTATED        0
  TRIM54 WILD-TYPE      5
D825V12, multiclass
        clus
vv       TRIM54 MUTATED TRIM54 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(826) Variable = GTF3C3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF3C3 MUTATED        1      0      0      1      0
  GTF3C3 WILD-TYPE     31     18     46     26     23
D826V1, multiclass
[1] "Remove cluster labels:" "GTF3C3 MUTATED"        
clus
  GTF3C3 MUTATED GTF3C3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF3C3 MUTATED        1      1      0
  GTF3C3 WILD-TYPE     42     66     36
D826V2, multiclass
[1] "Remove cluster labels:" "GTF3C3 MUTATED"        
clus
  GTF3C3 MUTATED GTF3C3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" "GTF3C3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF3C3 MUTATED        1      5      9
  GTF3C3 WILD-TYPE     41    168    138
D826V3, multiclass
        clus
vv       GTF3C3 MUTATED GTF3C3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF3C3 MUTATED        7      3      3
  GTF3C3 WILD-TYPE     55     70     72
D826V4, multiclass
        clus
vv       GTF3C3 MUTATED GTF3C3 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              3               70
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF3C3 MUTATED        0      5      7
  GTF3C3 WILD-TYPE     70    115     93
D826V5, multiclass
        clus
vv       GTF3C3 MUTATED GTF3C3 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              115
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTF3C3 MUTATED        2      0      1      2      0      5      1      0
  GTF3C3 WILD-TYPE     39     26     29     27     39     64     19     14
                  vv
clus               CLUS_9
  GTF3C3 MUTATED        1
  GTF3C3 WILD-TYPE     21
D826V6, multiclass
        clus
vv       GTF3C3 MUTATED GTF3C3 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GTF3C3 MUTATED        2      5      6      2
  GTF3C3 WILD-TYPE     98     67     66    119
D826V7, multiclass
        clus
vv       GTF3C3 MUTATED GTF3C3 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              5               67
  CLUS_3              6               66
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF3C3 MUTATED        3      3      7      1      1
  GTF3C3 WILD-TYPE     56     72     67    118     37
D826V8, multiclass
        clus
vv       GTF3C3 MUTATED GTF3C3 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF3C3 MUTATED        1      5      4      2      3
  GTF3C3 WILD-TYPE     50     71     57     69     92
D826V9, multiclass
        clus
vv       GTF3C3 MUTATED GTF3C3 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              4               57
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTF3C3 MUTATED        3      2      1      2      3      2      0      1
  GTF3C3 WILD-TYPE     66     46     38     14     50     18     21     37
                  vv
clus               CLUS_9
  GTF3C3 MUTATED        1
  GTF3C3 WILD-TYPE     49
D826V10, multiclass
        clus
vv       GTF3C3 MUTATED GTF3C3 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GTF3C3 MUTATED        0      1      4      0      1      0
  GTF3C3 WILD-TYPE     13     15     10     11     10      9
D826V11, multiclass
        clus
vv       GTF3C3 MUTATED GTF3C3 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              4               10
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTF3C3 MUTATED        0      1      0      1      1      1      1      0
  GTF3C3 WILD-TYPE     11      6      7      8      7      6     10      9
                  vv
clus               CLUS_9
  GTF3C3 MUTATED        1
  GTF3C3 WILD-TYPE      4
D826V12, multiclass
        clus
vv       GTF3C3 MUTATED GTF3C3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(827) Variable = OR51A4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51A4 MUTATED        2      0      0      1      0
  OR51A4 WILD-TYPE     30     18     46     26     23
D827V1, multiclass
        clus
vv       OR51A4 MUTATED OR51A4 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51A4 MUTATED        2      0      1
  OR51A4 WILD-TYPE     41     67     35
D827V2, multiclass
        clus
vv       OR51A4 MUTATED OR51A4 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51A4 MUTATED        0      2      6
  OR51A4 WILD-TYPE     42    171    141
D827V3, multiclass
        clus
vv       OR51A4 MUTATED OR51A4 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51A4 MUTATED        1      0      4
  OR51A4 WILD-TYPE     61     73     71
D827V4, multiclass
        clus
vv       OR51A4 MUTATED OR51A4 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51A4 MUTATED        0      4      2
  OR51A4 WILD-TYPE     70    116     98
D827V5, multiclass
        clus
vv       OR51A4 MUTATED OR51A4 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51A4 MUTATED        0      1      1      1      1      2      0      0
  OR51A4 WILD-TYPE     41     25     29     28     38     67     20     14
                  vv
clus               CLUS_9
  OR51A4 MUTATED        0
  OR51A4 WILD-TYPE     22
D827V6, multiclass
        clus
vv       OR51A4 MUTATED OR51A4 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR51A4 MUTATED        0      3      2      3
  OR51A4 WILD-TYPE    100     69     70    118
D827V7, multiclass
        clus
vv       OR51A4 MUTATED OR51A4 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51A4 MUTATED        1      1      3      1      2
  OR51A4 WILD-TYPE     58     74     71    118     36
D827V8, multiclass
        clus
vv       OR51A4 MUTATED OR51A4 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51A4 MUTATED        1      4      0      2      1
  OR51A4 WILD-TYPE     50     72     61     69     94
D827V9, multiclass
        clus
vv       OR51A4 MUTATED OR51A4 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              0               61
  CLUS_4              2               69
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51A4 MUTATED        2      1      0      2      1      0      0      2
  OR51A4 WILD-TYPE     67     47     39     14     52     20     21     36
                  vv
clus               CLUS_9
  OR51A4 MUTATED        0
  OR51A4 WILD-TYPE     50
D827V10, multiclass
        clus
vv       OR51A4 MUTATED OR51A4 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR51A4 MUTATED        0      0      0      0      1      0
  OR51A4 WILD-TYPE     13     16     14     11     10      9
D827V11, multiclass
[1] "Remove cluster labels:" "OR51A4 MUTATED"        
clus
  OR51A4 MUTATED OR51A4 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-G4-6628 
"OR51A4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51A4 MUTATED        0      0      0      0      0      1      0      0
  OR51A4 WILD-TYPE     11      7      7      9      8      6     11      9
                  vv
clus               CLUS_9
  OR51A4 MUTATED        0
  OR51A4 WILD-TYPE      5
D827V12, multiclass
[1] "Remove cluster labels:" "OR51A4 MUTATED"        
clus
  OR51A4 MUTATED OR51A4 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" "OR51A4 WILD-TYPE" 
      TCGA-G4-6628 
"OR51A4 WILD-TYPE" 

Clustering(828) Variable = SLC25A17 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC25A17 MUTATED        2      0      0      1      0
  SLC25A17 WILD-TYPE     30     18     46     26     23
D828V1, multiclass
        clus
vv       SLC25A17 MUTATED SLC25A17 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A17 MUTATED        3      0      0
  SLC25A17 WILD-TYPE     40     67     36
D828V2, multiclass
        clus
vv       SLC25A17 MUTATED SLC25A17 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                0                 67
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A17 MUTATED        0      0      7
  SLC25A17 WILD-TYPE     42    173    140
D828V3, multiclass
        clus
vv       SLC25A17 MUTATED SLC25A17 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                7                140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A17 MUTATED        2      0      2
  SLC25A17 WILD-TYPE     60     73     73
D828V4, multiclass
        clus
vv       SLC25A17 MUTATED SLC25A17 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                0                 73
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A17 MUTATED        1      3      3
  SLC25A17 WILD-TYPE     69    117     97
D828V5, multiclass
        clus
vv       SLC25A17 MUTATED SLC25A17 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                3                117
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC25A17 MUTATED        1      1      0      1      1      3      0      0
  SLC25A17 WILD-TYPE     40     25     30     28     38     66     20     14
                    vv
clus                 CLUS_9
  SLC25A17 MUTATED        0
  SLC25A17 WILD-TYPE     22
D828V6, multiclass
        clus
vv       SLC25A17 MUTATED SLC25A17 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                1                 38
  CLUS_6                3                 66
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC25A17 MUTATED        0      1      2      4
  SLC25A17 WILD-TYPE    100     71     70    117
D828V7, multiclass
        clus
vv       SLC25A17 MUTATED SLC25A17 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                1                 71
  CLUS_3                2                 70
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC25A17 MUTATED        0      0      3      1      3
  SLC25A17 WILD-TYPE     59     75     71    118     35
D828V8, multiclass
        clus
vv       SLC25A17 MUTATED SLC25A17 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                3                 71
  CLUS_4                1                118
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC25A17 MUTATED        0      3      0      0      3
  SLC25A17 WILD-TYPE     51     73     61     71     92
D828V9, multiclass
        clus
vv       SLC25A17 MUTATED SLC25A17 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                3                 73
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC25A17 MUTATED        1      2      0      0      0      0      0      2
  SLC25A17 WILD-TYPE     68     46     39     16     53     20     21     36
                    vv
clus                 CLUS_9
  SLC25A17 MUTATED        1
  SLC25A17 WILD-TYPE     49
D828V10, multiclass
        clus
vv       SLC25A17 MUTATED SLC25A17 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC25A17 MUTATED        0      1      0      0      1      0
  SLC25A17 WILD-TYPE     13     15     14     11     10      9
D828V11, multiclass
[1] "Remove cluster labels:" "SLC25A17 MUTATED"      
clus
  SLC25A17 MUTATED SLC25A17 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-6548         TCGA-AD-6889 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6603         TCGA-AZ-6605 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC25A17 MUTATED        0      0      0      0      0      0      2      0
  SLC25A17 WILD-TYPE     11      7      7      9      8      7      9      9
                    vv
clus                 CLUS_9
  SLC25A17 MUTATED        0
  SLC25A17 WILD-TYPE      5
D828V12, multiclass
[1] "Remove cluster labels:" "SLC25A17 MUTATED"      
clus
  SLC25A17 MUTATED SLC25A17 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-6548         TCGA-AD-6889 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6603         TCGA-AZ-6605 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" "SLC25A17 WILD-TYPE" 

Clustering(829) Variable = GNA14 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNA14 MUTATED        5      0      0      0      0
  GNA14 WILD-TYPE     27     18     46     27     23
D829V1, multiclass
        clus
vv       GNA14 MUTATED GNA14 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNA14 MUTATED        5      0      0
  GNA14 WILD-TYPE     38     67     36
D829V2, multiclass
        clus
vv       GNA14 MUTATED GNA14 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNA14 MUTATED        0      1      9
  GNA14 WILD-TYPE     42    172    138
D829V3, multiclass
        clus
vv       GNA14 MUTATED GNA14 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNA14 MUTATED        1      0      4
  GNA14 WILD-TYPE     61     73     71
D829V4, multiclass
        clus
vv       GNA14 MUTATED GNA14 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNA14 MUTATED        1      3      1
  GNA14 WILD-TYPE     69    117     99
D829V5, multiclass
        clus
vv       GNA14 MUTATED GNA14 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNA14 MUTATED        0      2      0      0      0      1      1      0
  GNA14 WILD-TYPE     41     24     30     29     39     68     19     14
                 vv
clus              CLUS_9
  GNA14 MUTATED        1
  GNA14 WILD-TYPE     21
D829V6, multiclass
        clus
vv       GNA14 MUTATED GNA14 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GNA14 MUTATED        1      2      1      6
  GNA14 WILD-TYPE     99     70     71    115
D829V7, multiclass
        clus
vv       GNA14 MUTATED GNA14 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNA14 MUTATED        0      2      2      1      5
  GNA14 WILD-TYPE     59     73     72    118     33
D829V8, multiclass
        clus
vv       GNA14 MUTATED GNA14 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNA14 MUTATED        2      2      0      1      5
  GNA14 WILD-TYPE     49     74     61     70     90
D829V9, multiclass
        clus
vv       GNA14 MUTATED GNA14 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNA14 MUTATED        0      0      1      1      2      0      1      4
  GNA14 WILD-TYPE     69     48     38     15     51     20     20     34
                 vv
clus              CLUS_9
  GNA14 MUTATED        1
  GNA14 WILD-TYPE     49
D829V10, multiclass
        clus
vv       GNA14 MUTATED GNA14 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GNA14 MUTATED        0      0      0      0      0      0
  GNA14 WILD-TYPE     13     16     14     11     11      9
D829V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNA14 MUTATED        0      0      0      0      0      0      0      0
  GNA14 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  GNA14 MUTATED        0
  GNA14 WILD-TYPE      5
D829V12, multiclass

Clustering(830) Variable = PREX2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PREX2 MUTATED        4      0      1      3      0
  PREX2 WILD-TYPE     28     18     45     24     23
D830V1, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PREX2 MUTATED        5      2      1
  PREX2 WILD-TYPE     38     65     35
D830V2, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PREX2 MUTATED        2     11     17
  PREX2 WILD-TYPE     40    162    130
D830V3, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2            11             162
  CLUS_3            17             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PREX2 MUTATED        5      5     11
  PREX2 WILD-TYPE     57     68     64
D830V4, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             5              68
  CLUS_3            11              64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PREX2 MUTATED        4      8     12
  PREX2 WILD-TYPE     66    112     88
D830V5, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             8             112
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PREX2 MUTATED        2      1      1      3      2      9      3      3
  PREX2 WILD-TYPE     39     25     29     26     37     60     17     11
                 vv
clus              CLUS_9
  PREX2 MUTATED        0
  PREX2 WILD-TYPE     22
D830V6, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             2              37
  CLUS_6             9              60
  CLUS_7             3              17
  CLUS_8             3              11
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PREX2 MUTATED       10      6      5      9
  PREX2 WILD-TYPE     90     66     67    112
D830V7, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1            10              90
  CLUS_2             6              66
  CLUS_3             5              67
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PREX2 MUTATED        6      8      6      5      5
  PREX2 WILD-TYPE     53     67     68    114     33
D830V8, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1             6              53
  CLUS_2             8              67
  CLUS_3             6              68
  CLUS_4             5             114
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PREX2 MUTATED        5      9      5      3      8
  PREX2 WILD-TYPE     46     67     56     68     87
D830V9, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1             5              46
  CLUS_2             9              67
  CLUS_3             5              56
  CLUS_4             3              68
  CLUS_5             8              87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PREX2 MUTATED        4      3      4      4      4      1      2      5
  PREX2 WILD-TYPE     65     45     35     12     49     19     19     33
                 vv
clus              CLUS_9
  PREX2 MUTATED        3
  PREX2 WILD-TYPE     47
D830V10, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             4              35
  CLUS_4             4              12
  CLUS_5             4              49
  CLUS_6             1              19
  CLUS_7             2              19
  CLUS_8             5              33
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PREX2 MUTATED        0      0      0      2      3      1
  PREX2 WILD-TYPE     13     16     14      9      8      8
D830V11, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             2               9
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PREX2 MUTATED        0      0      1      1      1      2      0      1
  PREX2 WILD-TYPE     11      7      6      8      7      5     11      8
                 vv
clus              CLUS_9
  PREX2 MUTATED        0
  PREX2 WILD-TYPE      5
D830V12, multiclass
        clus
vv       PREX2 MUTATED PREX2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             2               5
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(831) Variable = MAOA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAOA MUTATED        2      0      0      0      0
  MAOA WILD-TYPE     30     18     46     27     23
D831V1, multiclass
[1] "Remove cluster labels:" "MAOA MUTATED"          
clus
  MAOA MUTATED MAOA WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3526 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAOA MUTATED        2      0      0
  MAOA WILD-TYPE     41     67     36
D831V2, multiclass
[1] "Remove cluster labels:" "MAOA MUTATED"          
clus
  MAOA MUTATED MAOA WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3526 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAOA MUTATED        0      2      3
  MAOA WILD-TYPE     42    171    144
D831V3, multiclass
        clus
vv       MAOA MUTATED MAOA WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAOA MUTATED        1      2      0
  MAOA WILD-TYPE     61     71     75
D831V4, multiclass
        clus
vv       MAOA MUTATED MAOA WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAOA MUTATED        0      1      4
  MAOA WILD-TYPE     70    119     96
D831V5, multiclass
        clus
vv       MAOA MUTATED MAOA WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAOA MUTATED        1      0      0      0      0      3      1      0      0
  MAOA WILD-TYPE     40     26     30     29     39     66     19     14     22
D831V6, multiclass
        clus
vv       MAOA MUTATED MAOA WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAOA MUTATED        1      1      2      1
  MAOA WILD-TYPE     99     71     70    120
D831V7, multiclass
        clus
vv       MAOA MUTATED MAOA WILD-TYPE
  CLUS_1            1             99
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAOA MUTATED        1      1      1      0      2
  MAOA WILD-TYPE     58     74     73    119     36
D831V8, multiclass
        clus
vv       MAOA MUTATED MAOA WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAOA MUTATED        1      1      1      0      1
  MAOA WILD-TYPE     50     75     60     71     94
D831V9, multiclass
        clus
vv       MAOA MUTATED MAOA WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAOA MUTATED        1      2      0      0      0      0      0      1      0
  MAOA WILD-TYPE     68     46     39     16     53     20     21     37     50
D831V10, multiclass
        clus
vv       MAOA MUTATED MAOA WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAOA MUTATED        0      0      0      1      1      0
  MAOA WILD-TYPE     13     16     14     10     10      9
D831V11, multiclass
[1] "Remove cluster labels:" "MAOA MUTATED"          
clus
  MAOA MUTATED MAOA WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAOA MUTATED        0      0      1      0      0      0      1      0      0
  MAOA WILD-TYPE     11      7      6      9      8      7     10      9      5
D831V12, multiclass
[1] "Remove cluster labels:" "MAOA MUTATED"          
clus
  MAOA MUTATED MAOA WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" "MAOA WILD-TYPE" 

Clustering(832) Variable = CD55 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD55 MUTATED        3      0      0      0      0
  CD55 WILD-TYPE     29     18     46     27     23
D832V1, multiclass
        clus
vv       CD55 MUTATED CD55 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD55 MUTATED        3      0      0
  CD55 WILD-TYPE     40     67     36
D832V2, multiclass
        clus
vv       CD55 MUTATED CD55 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD55 MUTATED        0      0      7
  CD55 WILD-TYPE     42    173    140
D832V3, multiclass
        clus
vv       CD55 MUTATED CD55 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD55 MUTATED        2      0      2
  CD55 WILD-TYPE     60     73     73
D832V4, multiclass
        clus
vv       CD55 MUTATED CD55 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD55 MUTATED        1      2      2
  CD55 WILD-TYPE     69    118     98
D832V5, multiclass
        clus
vv       CD55 MUTATED CD55 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD55 MUTATED        0      0      0      0      2      2      0      1      0
  CD55 WILD-TYPE     41     26     30     29     37     67     20     13     22
D832V6, multiclass
        clus
vv       CD55 MUTATED CD55 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD55 MUTATED        0      3      1      3
  CD55 WILD-TYPE    100     69     71    118
D832V7, multiclass
        clus
vv       CD55 MUTATED CD55 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            3             69
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD55 MUTATED        0      0      4      1      2
  CD55 WILD-TYPE     59     75     70    118     36
D832V8, multiclass
        clus
vv       CD55 MUTATED CD55 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD55 MUTATED        1      3      0      0      3
  CD55 WILD-TYPE     50     73     61     71     92
D832V9, multiclass
        clus
vv       CD55 MUTATED CD55 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD55 MUTATED        2      1      0      0      0      2      2      0      0
  CD55 WILD-TYPE     67     47     39     16     53     18     19     38     50
D832V10, multiclass
        clus
vv       CD55 MUTATED CD55 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            2             19
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CD55 MUTATED        0      0      1      0      0      0
  CD55 WILD-TYPE     13     16     13     11     11      9
D832V11, multiclass
[1] "Remove cluster labels:" "CD55 MUTATED"          
clus
  CD55 MUTATED CD55 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-G4-6628 
"CD55 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD55 MUTATED        0      0      0      0      0      1      0      0      0
  CD55 WILD-TYPE     11      7      7      9      8      6     11      9      5
D832V12, multiclass
[1] "Remove cluster labels:" "CD55 MUTATED"          
clus
  CD55 MUTATED CD55 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" "CD55 WILD-TYPE" 
    TCGA-G4-6628 
"CD55 WILD-TYPE" 

Clustering(833) Variable = MATN3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MATN3 MUTATED        3      0      0      1      0
  MATN3 WILD-TYPE     29     18     46     26     23
D833V1, multiclass
        clus
vv       MATN3 MUTATED MATN3 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MATN3 MUTATED        4      0      0
  MATN3 WILD-TYPE     39     67     36
D833V2, multiclass
        clus
vv       MATN3 MUTATED MATN3 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MATN3 MUTATED        0      0      6
  MATN3 WILD-TYPE     42    173    141
D833V3, multiclass
        clus
vv       MATN3 MUTATED MATN3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MATN3 MUTATED        1      0      1
  MATN3 WILD-TYPE     61     73     74
D833V4, multiclass
[1] "Remove cluster labels:" "MATN3 MUTATED"         
clus
  MATN3 MUTATED MATN3 WILD-TYPE 
              2             208 
     TCGA-A6-2671      TCGA-A6-2677      TCGA-A6-3809      TCGA-A6-3810 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-A6-4105      TCGA-A6-5656      TCGA-A6-5657      TCGA-A6-5659 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662      TCGA-A6-5664 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649      TCGA-A6-6651 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654      TCGA-A6-6780 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3492      TCGA-AA-3496 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AA-3502      TCGA-AA-3510      TCGA-AA-3511      TCGA-AA-3655 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AA-3660      TCGA-AA-3662      TCGA-AA-3663      TCGA-AA-3697 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AA-3712      TCGA-AA-3713      TCGA-AD-5900      TCGA-AD-6548 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AD-6888      TCGA-AD-6889      TCGA-AD-6890      TCGA-AD-6895 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AD-6899      TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AD-6965      TCGA-AU-3779      TCGA-AU-6004      TCGA-AY-5543 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AY-6197      TCGA-AY-6386      TCGA-AZ-4315 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-4681      TCGA-AZ-4682 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AZ-5403      TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AZ-6606      TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CA-5255      TCGA-CA-5796      TCGA-CA-5797      TCGA-CA-6715 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CA-6716      TCGA-CA-6717      TCGA-CA-6718      TCGA-CA-6719 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CK-4947      TCGA-CK-4948      TCGA-CK-4950      TCGA-CK-4952 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CK-5912      TCGA-CK-5913      TCGA-CK-5914      TCGA-CK-5915 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-D5-5538      TCGA-D5-5539      TCGA-D5-5540      TCGA-D5-5541 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-D5-6529      TCGA-D5-6532      TCGA-D5-6533      TCGA-D5-6534 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-D5-6535      TCGA-D5-6536      TCGA-D5-6537      TCGA-D5-6538 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-D5-6539      TCGA-D5-6540      TCGA-D5-6541      TCGA-D5-6898 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-D5-6920      TCGA-D5-6922      TCGA-D5-6923      TCGA-D5-6924 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-D5-6926      TCGA-D5-6927      TCGA-D5-6928      TCGA-D5-6929 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932      TCGA-D5-7000 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A0X9      TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28C 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A28E      TCGA-DM-A28F      TCGA-DM-A28G      TCGA-DM-A28H 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A28K      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704      TCGA-F4-6805 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856      TCGA-G4-6293 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304      TCGA-G4-6306 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310      TCGA-G4-6315 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323      TCGA-G4-6586 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MATN3 MUTATED        0      2      4
  MATN3 WILD-TYPE     70    118     96
D833V5, multiclass
        clus
vv       MATN3 MUTATED MATN3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MATN3 MUTATED        0      0      0      1      1      4      0      0
  MATN3 WILD-TYPE     41     26     30     28     38     65     20     14
                 vv
clus              CLUS_9
  MATN3 MUTATED        0
  MATN3 WILD-TYPE     22
D833V6, multiclass
        clus
vv       MATN3 MUTATED MATN3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MATN3 MUTATED        0      1      1      4
  MATN3 WILD-TYPE    100     71     71    117
D833V7, multiclass
        clus
vv       MATN3 MUTATED MATN3 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MATN3 MUTATED        0      0      2      1      3
  MATN3 WILD-TYPE     59     75     72    118     35
D833V8, multiclass
        clus
vv       MATN3 MUTATED MATN3 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MATN3 MUTATED        0      2      0      0      3
  MATN3 WILD-TYPE     51     74     61     71     92
D833V9, multiclass
        clus
vv       MATN3 MUTATED MATN3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MATN3 MUTATED        2      0      0      0      0      0      1      2
  MATN3 WILD-TYPE     67     48     39     16     53     20     20     36
                 vv
clus              CLUS_9
  MATN3 MUTATED        0
  MATN3 WILD-TYPE     50
D833V10, multiclass
        clus
vv       MATN3 MUTATED MATN3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MATN3 MUTATED        0      0      0      0      1      0
  MATN3 WILD-TYPE     13     16     14     11     10      9
D833V11, multiclass
[1] "Remove cluster labels:" "MATN3 MUTATED"         
clus
  MATN3 MUTATED MATN3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-G4-6628 
"MATN3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MATN3 MUTATED        0      0      0      0      0      1      0      0
  MATN3 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  MATN3 MUTATED        0
  MATN3 WILD-TYPE      5
D833V12, multiclass
[1] "Remove cluster labels:" "MATN3 MUTATED"         
clus
  MATN3 MUTATED MATN3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" "MATN3 WILD-TYPE" 
     TCGA-G4-6628 
"MATN3 WILD-TYPE" 

Clustering(834) Variable = OR6C75 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6C75 MUTATED        2      0      0      0      0
  OR6C75 WILD-TYPE     30     18     46     27     23
D834V1, multiclass
[1] "Remove cluster labels:" "OR6C75 MUTATED"        
clus
  OR6C75 MUTATED OR6C75 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR6C75 MUTATED        2      0      0
  OR6C75 WILD-TYPE     41     67     36
D834V2, multiclass
[1] "Remove cluster labels:" "OR6C75 MUTATED"        
clus
  OR6C75 MUTATED OR6C75 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR6C75 MUTATED        0      2      5
  OR6C75 WILD-TYPE     42    171    142
D834V3, multiclass
        clus
vv       OR6C75 MUTATED OR6C75 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR6C75 MUTATED        3      2      0
  OR6C75 WILD-TYPE     59     71     75
D834V4, multiclass
        clus
vv       OR6C75 MUTATED OR6C75 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR6C75 MUTATED        0      1      5
  OR6C75 WILD-TYPE     70    119     95
D834V5, multiclass
        clus
vv       OR6C75 MUTATED OR6C75 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6C75 MUTATED        0      0      0      1      2      2      1      0
  OR6C75 WILD-TYPE     41     26     30     28     37     67     19     14
                  vv
clus               CLUS_9
  OR6C75 MUTATED        0
  OR6C75 WILD-TYPE     22
D834V6, multiclass
        clus
vv       OR6C75 MUTATED OR6C75 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR6C75 MUTATED        1      2      2      2
  OR6C75 WILD-TYPE     99     70     70    119
D834V7, multiclass
        clus
vv       OR6C75 MUTATED OR6C75 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6C75 MUTATED        2      1      2      0      2
  OR6C75 WILD-TYPE     57     74     72    119     36
D834V8, multiclass
        clus
vv       OR6C75 MUTATED OR6C75 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6C75 MUTATED        1      2      1      0      3
  OR6C75 WILD-TYPE     50     74     60     71     92
D834V9, multiclass
        clus
vv       OR6C75 MUTATED OR6C75 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6C75 MUTATED        2      2      0      0      0      0      0      2
  OR6C75 WILD-TYPE     67     46     39     16     53     20     21     36
                  vv
clus               CLUS_9
  OR6C75 MUTATED        1
  OR6C75 WILD-TYPE     49
D834V10, multiclass
        clus
vv       OR6C75 MUTATED OR6C75 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR6C75 MUTATED        0      0      0      0      1      0
  OR6C75 WILD-TYPE     13     16     14     11     10      9
D834V11, multiclass
[1] "Remove cluster labels:" "OR6C75 MUTATED"        
clus
  OR6C75 MUTATED OR6C75 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-G4-6628 
"OR6C75 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6C75 MUTATED        0      0      0      0      0      0      1      0
  OR6C75 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  OR6C75 MUTATED        0
  OR6C75 WILD-TYPE      5
D834V12, multiclass
[1] "Remove cluster labels:" "OR6C75 MUTATED"        
clus
  OR6C75 MUTATED OR6C75 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" "OR6C75 WILD-TYPE" 
      TCGA-G4-6628 
"OR6C75 WILD-TYPE" 

Clustering(835) Variable = NAP1L1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAP1L1 MUTATED        1      0      0      0      0
  NAP1L1 WILD-TYPE     31     18     46     27     23
D835V1, multiclass
[1] "Remove cluster labels:" "NAP1L1 MUTATED"        
clus
  NAP1L1 MUTATED NAP1L1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AY-4071 
"NAP1L1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NAP1L1 MUTATED        1      0      0
  NAP1L1 WILD-TYPE     42     67     36
D835V2, multiclass
[1] "Remove cluster labels:" "NAP1L1 MUTATED"        
clus
  NAP1L1 MUTATED NAP1L1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" "NAP1L1 WILD-TYPE" 
      TCGA-AY-4071 
"NAP1L1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NAP1L1 MUTATED        0      2      5
  NAP1L1 WILD-TYPE     42    171    142
D835V3, multiclass
        clus
vv       NAP1L1 MUTATED NAP1L1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NAP1L1 MUTATED        2      2      2
  NAP1L1 WILD-TYPE     60     71     73
D835V4, multiclass
        clus
vv       NAP1L1 MUTATED NAP1L1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NAP1L1 MUTATED        0      1      3
  NAP1L1 WILD-TYPE     70    119     97
D835V5, multiclass
        clus
vv       NAP1L1 MUTATED NAP1L1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NAP1L1 MUTATED        1      0      0      1      0      2      0      0
  NAP1L1 WILD-TYPE     40     26     30     28     39     67     20     14
                  vv
clus               CLUS_9
  NAP1L1 MUTATED        0
  NAP1L1 WILD-TYPE     22
D835V6, multiclass
        clus
vv       NAP1L1 MUTATED NAP1L1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NAP1L1 MUTATED        3      2      1      1
  NAP1L1 WILD-TYPE     97     70     71    120
D835V7, multiclass
        clus
vv       NAP1L1 MUTATED NAP1L1 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAP1L1 MUTATED        1      4      1      0      1
  NAP1L1 WILD-TYPE     58     71     73    119     37
D835V8, multiclass
        clus
vv       NAP1L1 MUTATED NAP1L1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAP1L1 MUTATED        2      2      1      0      2
  NAP1L1 WILD-TYPE     49     74     60     71     93
D835V9, multiclass
        clus
vv       NAP1L1 MUTATED NAP1L1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NAP1L1 MUTATED        2      1      0      1      1      0      0      1
  NAP1L1 WILD-TYPE     67     47     39     15     52     20     21     37
                  vv
clus               CLUS_9
  NAP1L1 MUTATED        1
  NAP1L1 WILD-TYPE     49
D835V10, multiclass
        clus
vv       NAP1L1 MUTATED NAP1L1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NAP1L1 MUTATED        0      0      0      0      0      0
  NAP1L1 WILD-TYPE     13     16     14     11     11      9
D835V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NAP1L1 MUTATED        0      0      0      0      0      0      0      0
  NAP1L1 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  NAP1L1 MUTATED        0
  NAP1L1 WILD-TYPE      5
D835V12, multiclass

Clustering(836) Variable = SLC22A3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A3 MUTATED        1      0      0      1      0
  SLC22A3 WILD-TYPE     31     18     46     26     23
D836V1, multiclass
[1] "Remove cluster labels:" "SLC22A3 MUTATED"       
clus
  SLC22A3 MUTATED SLC22A3 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3930        TCGA-AA-3939 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A3 MUTATED        1      1      0
  SLC22A3 WILD-TYPE     42     66     36
D836V2, multiclass
[1] "Remove cluster labels:" "SLC22A3 MUTATED"       
clus
  SLC22A3 MUTATED SLC22A3 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3930        TCGA-AA-3939 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" "SLC22A3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A3 MUTATED        1      1     10
  SLC22A3 WILD-TYPE     41    172    137
D836V3, multiclass
        clus
vv       SLC22A3 MUTATED SLC22A3 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3              10               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A3 MUTATED        5      1      4
  SLC22A3 WILD-TYPE     57     72     71
D836V4, multiclass
        clus
vv       SLC22A3 MUTATED SLC22A3 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A3 MUTATED        2      4      4
  SLC22A3 WILD-TYPE     68    116     96
D836V5, multiclass
        clus
vv       SLC22A3 MUTATED SLC22A3 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               4               116
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A3 MUTATED        0      3      1      0      0      4      1      1
  SLC22A3 WILD-TYPE     41     23     29     29     39     65     19     13
                   vv
clus                CLUS_9
  SLC22A3 MUTATED        0
  SLC22A3 WILD-TYPE     22
D836V6, multiclass
        clus
vv       SLC22A3 MUTATED SLC22A3 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               3                23
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC22A3 MUTATED        2      3      4      3
  SLC22A3 WILD-TYPE     98     69     68    118
D836V7, multiclass
        clus
vv       SLC22A3 MUTATED SLC22A3 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               3                69
  CLUS_3               4                68
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A3 MUTATED        1      3      5      2      1
  SLC22A3 WILD-TYPE     58     72     69    117     37
D836V8, multiclass
        clus
vv       SLC22A3 MUTATED SLC22A3 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               3                72
  CLUS_3               5                69
  CLUS_4               2               117
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A3 MUTATED        0      6      1      2      3
  SLC22A3 WILD-TYPE     51     70     60     69     92
D836V9, multiclass
        clus
vv       SLC22A3 MUTATED SLC22A3 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               6                70
  CLUS_3               1                60
  CLUS_4               2                69
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A3 MUTATED        4      2      0      2      1      1      1      0
  SLC22A3 WILD-TYPE     65     46     39     14     52     19     20     38
                   vv
clus                CLUS_9
  SLC22A3 MUTATED        1
  SLC22A3 WILD-TYPE     49
D836V10, multiclass
        clus
vv       SLC22A3 MUTATED SLC22A3 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC22A3 MUTATED        0      0      0      0      3      0
  SLC22A3 WILD-TYPE     13     16     14     11      8      9
D836V11, multiclass
        clus
vv       SLC22A3 MUTATED SLC22A3 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A3 MUTATED        0      0      0      1      1      1      0      0
  SLC22A3 WILD-TYPE     11      7      7      8      7      6     11      9
                   vv
clus                CLUS_9
  SLC22A3 MUTATED        0
  SLC22A3 WILD-TYPE      5
D836V12, multiclass
        clus
vv       SLC22A3 MUTATED SLC22A3 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(837) Variable = HRSP12 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HRSP12 MUTATED        1      0      0      1      0
  HRSP12 WILD-TYPE     31     18     46     26     23
D837V1, multiclass
[1] "Remove cluster labels:" "HRSP12 MUTATED"        
clus
  HRSP12 MUTATED HRSP12 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HRSP12 MUTATED        1      1      0
  HRSP12 WILD-TYPE     42     66     36
D837V2, multiclass
[1] "Remove cluster labels:" "HRSP12 MUTATED"        
clus
  HRSP12 MUTATED HRSP12 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HRSP12 MUTATED        1      1      4
  HRSP12 WILD-TYPE     41    172    143
D837V3, multiclass
        clus
vv       HRSP12 MUTATED HRSP12 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HRSP12 MUTATED        2      0      2
  HRSP12 WILD-TYPE     60     73     73
D837V4, multiclass
        clus
vv       HRSP12 MUTATED HRSP12 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HRSP12 MUTATED        0      3      2
  HRSP12 WILD-TYPE     70    117     98
D837V5, multiclass
        clus
vv       HRSP12 MUTATED HRSP12 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HRSP12 MUTATED        0      1      1      1      1      1      0      0
  HRSP12 WILD-TYPE     41     25     29     28     38     68     20     14
                  vv
clus               CLUS_9
  HRSP12 MUTATED        0
  HRSP12 WILD-TYPE     22
D837V6, multiclass
        clus
vv       HRSP12 MUTATED HRSP12 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HRSP12 MUTATED        1      2      0      3
  HRSP12 WILD-TYPE     99     70     72    118
D837V7, multiclass
        clus
vv       HRSP12 MUTATED HRSP12 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              0               72
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HRSP12 MUTATED        0      2      1      2      1
  HRSP12 WILD-TYPE     59     73     73    117     37
D837V8, multiclass
        clus
vv       HRSP12 MUTATED HRSP12 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              1               73
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HRSP12 MUTATED        1      1      0      0      4
  HRSP12 WILD-TYPE     50     75     61     71     91
D837V9, multiclass
        clus
vv       HRSP12 MUTATED HRSP12 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HRSP12 MUTATED        0      0      0      1      1      1      0      1
  HRSP12 WILD-TYPE     69     48     39     15     52     19     21     37
                  vv
clus               CLUS_9
  HRSP12 MUTATED        2
  HRSP12 WILD-TYPE     48
D837V10, multiclass
        clus
vv       HRSP12 MUTATED HRSP12 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HRSP12 MUTATED        0      0      0      0      1      0
  HRSP12 WILD-TYPE     13     16     14     11     10      9
D837V11, multiclass
[1] "Remove cluster labels:" "HRSP12 MUTATED"        
clus
  HRSP12 MUTATED HRSP12 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-G4-6628 
"HRSP12 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HRSP12 MUTATED        0      0      0      1      0      0      0      0
  HRSP12 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  HRSP12 MUTATED        0
  HRSP12 WILD-TYPE      5
D837V12, multiclass
[1] "Remove cluster labels:" "HRSP12 MUTATED"        
clus
  HRSP12 MUTATED HRSP12 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" "HRSP12 WILD-TYPE" 
      TCGA-G4-6628 
"HRSP12 WILD-TYPE" 

Clustering(838) Variable = RYR2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RYR2 MUTATED       10      3      3      5      1
  RYR2 WILD-TYPE     22     15     43     22     22
D838V1, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1           10             22
  CLUS_2            3             15
  CLUS_3            3             43
  CLUS_4            5             22
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RYR2 MUTATED       12      7      3
  RYR2 WILD-TYPE     31     60     33
D838V2, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1           12             31
  CLUS_2            7             60
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RYR2 MUTATED        8     26     49
  RYR2 WILD-TYPE     34    147     98
D838V3, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1            8             34
  CLUS_2           26            147
  CLUS_3           49             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RYR2 MUTATED       14     17     28
  RYR2 WILD-TYPE     48     56     47
D838V4, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1           14             48
  CLUS_2           17             56
  CLUS_3           28             47
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RYR2 MUTATED        8     25     35
  RYR2 WILD-TYPE     62     95     65
D838V5, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1            8             62
  CLUS_2           25             95
  CLUS_3           35             65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RYR2 MUTATED        6      4      6      6      9     23      7      5      2
  RYR2 WILD-TYPE     35     22     24     23     30     46     13      9     20
D838V6, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1            6             35
  CLUS_2            4             22
  CLUS_3            6             24
  CLUS_4            6             23
  CLUS_5            9             30
  CLUS_6           23             46
  CLUS_7            7             13
  CLUS_8            5              9
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RYR2 MUTATED       18     25     18     23
  RYR2 WILD-TYPE     82     47     54     98
D838V7, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1           18             82
  CLUS_2           25             47
  CLUS_3           18             54
  CLUS_4           23             98
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RYR2 MUTATED       11     21     26     14     12
  RYR2 WILD-TYPE     48     54     48    105     26
D838V8, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1           11             48
  CLUS_2           21             54
  CLUS_3           26             48
  CLUS_4           14            105
  CLUS_5           12             26
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RYR2 MUTATED       10     23     11     13     25
  RYR2 WILD-TYPE     41     53     50     58     70
D838V9, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1           10             41
  CLUS_2           23             53
  CLUS_3           11             50
  CLUS_4           13             58
  CLUS_5           25             70
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RYR2 MUTATED       16     13      5      8     10      6      3     14      7
  RYR2 WILD-TYPE     53     35     34      8     43     14     18     24     43
D838V10, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1           16             53
  CLUS_2           13             35
  CLUS_3            5             34
  CLUS_4            8              8
  CLUS_5           10             43
  CLUS_6            6             14
  CLUS_7            3             18
  CLUS_8           14             24
  CLUS_9            7             43
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RYR2 MUTATED        5      5      3      4      5      4
  RYR2 WILD-TYPE      8     11     11      7      6      5
D838V11, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1            5              8
  CLUS_2            5             11
  CLUS_3            3             11
  CLUS_4            4              7
  CLUS_5            5              6
  CLUS_6            4              5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RYR2 MUTATED        4      1      1      4      2      2      5      5      2
  RYR2 WILD-TYPE      7      6      6      5      6      5      6      4      3
D838V12, multiclass
        clus
vv       RYR2 MUTATED RYR2 WILD-TYPE
  CLUS_1            4              7
  CLUS_2            1              6
  CLUS_3            1              6
  CLUS_4            4              5
  CLUS_5            2              6
  CLUS_6            2              5
  CLUS_7            5              6
  CLUS_8            5              4
  CLUS_9            2              3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(839) Variable = ZNF605 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF605 MUTATED        1      0      0      0      0
  ZNF605 WILD-TYPE     31     18     46     27     23
D839V1, multiclass
[1] "Remove cluster labels:" "ZNF605 MUTATED"        
clus
  ZNF605 MUTATED ZNF605 WILD-TYPE 
               1              145 
      TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677       TCGA-A6-2678 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF605 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF605 MUTATED        1      0      0
  ZNF605 WILD-TYPE     42     67     36
D839V2, multiclass
[1] "Remove cluster labels:" "ZNF605 MUTATED"        
clus
  ZNF605 MUTATED ZNF605 WILD-TYPE 
               1              145 
      TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677       TCGA-A6-2678 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" "ZNF605 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF605 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF605 MUTATED        1      1      6
  ZNF605 WILD-TYPE     41    172    141
D839V3, multiclass
        clus
vv       ZNF605 MUTATED ZNF605 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF605 MUTATED        4      1      2
  ZNF605 WILD-TYPE     58     72     73
D839V4, multiclass
        clus
vv       ZNF605 MUTATED ZNF605 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF605 MUTATED        1      2      4
  ZNF605 WILD-TYPE     69    118     96
D839V5, multiclass
        clus
vv       ZNF605 MUTATED ZNF605 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF605 MUTATED        0      0      1      0      1      4      0      1
  ZNF605 WILD-TYPE     41     26     29     29     38     65     20     13
                  vv
clus               CLUS_9
  ZNF605 MUTATED        0
  ZNF605 WILD-TYPE     22
D839V6, multiclass
        clus
vv       ZNF605 MUTATED ZNF605 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF605 MUTATED        1      5      1      1
  ZNF605 WILD-TYPE     99     67     71    120
D839V7, multiclass
        clus
vv       ZNF605 MUTATED ZNF605 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              5               67
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF605 MUTATED        0      2      5      0      1
  ZNF605 WILD-TYPE     59     73     69    119     37
D839V8, multiclass
        clus
vv       ZNF605 MUTATED ZNF605 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF605 MUTATED        0      3      1      2      2
  ZNF605 WILD-TYPE     51     73     60     69     93
D839V9, multiclass
        clus
vv       ZNF605 MUTATED ZNF605 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF605 MUTATED        3      1      0      1      0      1      0      1
  ZNF605 WILD-TYPE     66     47     39     15     53     19     21     37
                  vv
clus               CLUS_9
  ZNF605 MUTATED        1
  ZNF605 WILD-TYPE     49
D839V10, multiclass
        clus
vv       ZNF605 MUTATED ZNF605 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF605 MUTATED        0      0      2      0      1      0
  ZNF605 WILD-TYPE     13     16     12     11     10      9
D839V11, multiclass
        clus
vv       ZNF605 MUTATED ZNF605 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF605 MUTATED        0      0      0      0      1      0      1      0
  ZNF605 WILD-TYPE     11      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  ZNF605 MUTATED        1
  ZNF605 WILD-TYPE      4
D839V12, multiclass
        clus
vv       ZNF605 MUTATED ZNF605 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(840) Variable = C1ORF168 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF168 MUTATED        2      0      0      2      0
  C1ORF168 WILD-TYPE     30     18     46     25     23
D840V1, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF168 MUTATED        3      1      0
  C1ORF168 WILD-TYPE     40     66     36
D840V2, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF168 MUTATED        0      2     12
  C1ORF168 WILD-TYPE     42    171    135
D840V3, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                2                171
  CLUS_3               12                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF168 MUTATED        3      2      5
  C1ORF168 WILD-TYPE     59     71     70
D840V4, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                2                 71
  CLUS_3                5                 70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF168 MUTATED        1      5      6
  C1ORF168 WILD-TYPE     69    115     94
D840V5, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                5                115
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF168 MUTATED        1      1      1      0      1      3      2      2
  C1ORF168 WILD-TYPE     40     25     29     29     38     66     18     12
                    vv
clus                 CLUS_9
  C1ORF168 MUTATED        1
  C1ORF168 WILD-TYPE     21
D840V6, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                3                 66
  CLUS_7                2                 18
  CLUS_8                2                 12
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF168 MUTATED        2      3      5      4
  C1ORF168 WILD-TYPE     98     69     67    117
D840V7, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                3                 69
  CLUS_3                5                 67
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF168 MUTATED        2      2      5      2      3
  C1ORF168 WILD-TYPE     57     73     69    117     35
D840V8, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                2                 73
  CLUS_3                5                 69
  CLUS_4                2                117
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF168 MUTATED        3      5      1      0      4
  C1ORF168 WILD-TYPE     48     71     60     71     91
D840V9, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                3                 48
  CLUS_2                5                 71
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF168 MUTATED        1      3      0      1      1      4      0      3
  C1ORF168 WILD-TYPE     68     45     39     15     52     16     21     35
                    vv
clus                 CLUS_9
  C1ORF168 MUTATED        0
  C1ORF168 WILD-TYPE     50
D840V10, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                1                 52
  CLUS_6                4                 16
  CLUS_7                0                 21
  CLUS_8                3                 35
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C1ORF168 MUTATED        1      0      0      0      3      0
  C1ORF168 WILD-TYPE     12     16     14     11      8      9
D840V11, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                0                 16
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                3                  8
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF168 MUTATED        0      0      0      1      1      0      2      0
  C1ORF168 WILD-TYPE     11      7      7      8      7      7      9      9
                    vv
clus                 CLUS_9
  C1ORF168 MUTATED        0
  C1ORF168 WILD-TYPE      5
D840V12, multiclass
        clus
vv       C1ORF168 MUTATED C1ORF168 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(841) Variable = PGAP3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PGAP3 MUTATED        2      0      1      0      0
  PGAP3 WILD-TYPE     30     18     45     27     23
D841V1, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PGAP3 MUTATED        2      1      0
  PGAP3 WILD-TYPE     41     66     36
D841V2, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PGAP3 MUTATED        1      2      4
  PGAP3 WILD-TYPE     41    171    143
D841V3, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PGAP3 MUTATED        1      1      2
  PGAP3 WILD-TYPE     61     72     73
D841V4, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PGAP3 MUTATED        1      3      2
  PGAP3 WILD-TYPE     69    117     98
D841V5, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PGAP3 MUTATED        1      0      0      1      2      1      1      0
  PGAP3 WILD-TYPE     40     26     30     28     37     68     19     14
                 vv
clus              CLUS_9
  PGAP3 MUTATED        0
  PGAP3 WILD-TYPE     22
D841V6, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PGAP3 MUTATED        1      2      2      2
  PGAP3 WILD-TYPE     99     70     70    119
D841V7, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PGAP3 MUTATED        1      0      3      1      2
  PGAP3 WILD-TYPE     58     75     71    118     36
D841V8, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PGAP3 MUTATED        0      2      2      1      2
  PGAP3 WILD-TYPE     51     74     59     70     93
D841V9, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PGAP3 MUTATED        0      3      0      1      0      0      0      2
  PGAP3 WILD-TYPE     69     45     39     15     53     20     21     36
                 vv
clus              CLUS_9
  PGAP3 MUTATED        1
  PGAP3 WILD-TYPE     49
D841V10, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PGAP3 MUTATED        0      0      0      1      2      0
  PGAP3 WILD-TYPE     13     16     14     10      9      9
D841V11, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PGAP3 MUTATED        0      0      1      1      0      0      1      0
  PGAP3 WILD-TYPE     11      7      6      8      8      7     10      9
                 vv
clus              CLUS_9
  PGAP3 MUTATED        0
  PGAP3 WILD-TYPE      5
D841V12, multiclass
        clus
vv       PGAP3 MUTATED PGAP3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(842) Variable = AGTR2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGTR2 MUTATED        2      0      2      1      0
  AGTR2 WILD-TYPE     30     18     44     26     23
D842V1, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGTR2 MUTATED        3      2      0
  AGTR2 WILD-TYPE     40     65     36
D842V2, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGTR2 MUTATED        1      5      9
  AGTR2 WILD-TYPE     41    168    138
D842V3, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGTR2 MUTATED        3      1      7
  AGTR2 WILD-TYPE     59     72     68
D842V4, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGTR2 MUTATED        2      5      5
  AGTR2 WILD-TYPE     68    115     95
D842V5, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGTR2 MUTATED        1      3      1      1      1      4      0      1
  AGTR2 WILD-TYPE     40     23     29     28     38     65     20     13
                 vv
clus              CLUS_9
  AGTR2 MUTATED        0
  AGTR2 WILD-TYPE     22
D842V6, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AGTR2 MUTATED        2      4      4      5
  AGTR2 WILD-TYPE     98     68     68    116
D842V7, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGTR2 MUTATED        2      2      6      2      3
  AGTR2 WILD-TYPE     57     73     68    117     35
D842V8, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGTR2 MUTATED        2      5      3      1      2
  AGTR2 WILD-TYPE     49     71     58     70     93
D842V9, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGTR2 MUTATED        1      4      1      2      3      0      0      2
  AGTR2 WILD-TYPE     68     44     38     14     50     20     21     36
                 vv
clus              CLUS_9
  AGTR2 MUTATED        0
  AGTR2 WILD-TYPE     50
D842V10, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AGTR2 MUTATED        0      0      0      0      2      1
  AGTR2 WILD-TYPE     13     16     14     11      9      8
D842V11, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGTR2 MUTATED        0      0      0      1      0      1      1      0
  AGTR2 WILD-TYPE     11      7      7      8      8      6     10      9
                 vv
clus              CLUS_9
  AGTR2 MUTATED        0
  AGTR2 WILD-TYPE      5
D842V12, multiclass
        clus
vv       AGTR2 MUTATED AGTR2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(843) Variable = RAE1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAE1 MUTATED        2      0      0      0      0
  RAE1 WILD-TYPE     30     18     46     27     23
D843V1, multiclass
[1] "Remove cluster labels:" "RAE1 MUTATED"          
clus
  RAE1 MUTATED RAE1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00D 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAE1 MUTATED        2      0      0
  RAE1 WILD-TYPE     41     67     36
D843V2, multiclass
[1] "Remove cluster labels:" "RAE1 MUTATED"          
clus
  RAE1 MUTATED RAE1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00D 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAE1 MUTATED        1      1      4
  RAE1 WILD-TYPE     41    172    143
D843V3, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAE1 MUTATED        0      1      4
  RAE1 WILD-TYPE     62     72     71
D843V4, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            0             62
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAE1 MUTATED        0      4      2
  RAE1 WILD-TYPE     70    116     98
D843V5, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RAE1 MUTATED        0      0      0      2      1      2      0      0      1
  RAE1 WILD-TYPE     41     26     30     27     38     67     20     14     21
D843V6, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAE1 MUTATED        1      3      0      2
  RAE1 WILD-TYPE     99     69     72    119
D843V7, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            0             72
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAE1 MUTATED        0      2      2      1      1
  RAE1 WILD-TYPE     59     73     72    118     37
D843V8, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAE1 MUTATED        0      3      1      0      1
  RAE1 WILD-TYPE     51     73     60     71     94
D843V9, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RAE1 MUTATED        1      0      0      2      1      0      0      1      0
  RAE1 WILD-TYPE     68     48     39     14     52     20     21     37     50
D843V10, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAE1 MUTATED        1      0      0      0      0      0
  RAE1 WILD-TYPE     12     16     14     11     11      9
D843V11, multiclass
[1] "Remove cluster labels:" "RAE1 MUTATED"          
clus
  RAE1 MUTATED RAE1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1HA     TCGA-DM-A282 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-G4-6628 
"RAE1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RAE1 MUTATED        0      0      0      1      0      0      0      0      0
  RAE1 WILD-TYPE     11      7      7      8      8      7     11      9      5
D843V12, multiclass
[1] "Remove cluster labels:" "RAE1 MUTATED"          
clus
  RAE1 MUTATED RAE1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1HA     TCGA-DM-A282 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" "RAE1 WILD-TYPE" 
    TCGA-G4-6628 
"RAE1 WILD-TYPE" 

Clustering(844) Variable = PAGE2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAGE2 MUTATED        1      0      0      1      1
  PAGE2 WILD-TYPE     31     18     46     26     22
D844V1, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAGE2 MUTATED        1      1      1
  PAGE2 WILD-TYPE     42     66     35
D844V2, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAGE2 MUTATED        0      2      5
  PAGE2 WILD-TYPE     42    171    142
D844V3, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAGE2 MUTATED        2      1      2
  PAGE2 WILD-TYPE     60     72     73
D844V4, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PAGE2 MUTATED        1      2      3
  PAGE2 WILD-TYPE     69    118     97
D844V5, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAGE2 MUTATED        1      1      0      1      0      1      2      0
  PAGE2 WILD-TYPE     40     25     30     28     39     68     18     14
                 vv
clus              CLUS_9
  PAGE2 MUTATED        0
  PAGE2 WILD-TYPE     22
D844V6, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAGE2 MUTATED        1      2      3      2
  PAGE2 WILD-TYPE     99     70     69    119
D844V7, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAGE2 MUTATED        1      1      3      3      0
  PAGE2 WILD-TYPE     58     74     71    116     38
D844V8, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             3             116
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAGE2 MUTATED        0      1      1      4      2
  PAGE2 WILD-TYPE     51     75     60     67     93
D844V9, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             1              60
  CLUS_4             4              67
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAGE2 MUTATED        1      2      1      0      2      1      1      0
  PAGE2 WILD-TYPE     68     46     38     16     51     19     20     38
                 vv
clus              CLUS_9
  PAGE2 MUTATED        0
  PAGE2 WILD-TYPE     50
D844V10, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAGE2 MUTATED        1      0      2      0      0      0
  PAGE2 WILD-TYPE     12     16     12     11     11      9
D844V11, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PAGE2 MUTATED        0      0      0      0      2      0      0      1
  PAGE2 WILD-TYPE     11      7      7      9      6      7     11      8
                 vv
clus              CLUS_9
  PAGE2 MUTATED        0
  PAGE2 WILD-TYPE      5
D844V12, multiclass
        clus
vv       PAGE2 MUTATED PAGE2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(845) Variable = HNMT MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HNMT MUTATED        0      1      0      1      0
  HNMT WILD-TYPE     32     17     46     26     23
D845V1, multiclass
[1] "Remove cluster labels:" "HNMT MUTATED"          
clus
  HNMT MUTATED HNMT WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HNMT MUTATED        0      1      1
  HNMT WILD-TYPE     43     66     35
D845V2, multiclass
[1] "Remove cluster labels:" "HNMT MUTATED"          
clus
  HNMT MUTATED HNMT WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" "HNMT WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HNMT MUTATED        0      4      4
  HNMT WILD-TYPE     42    169    143
D845V3, multiclass
        clus
vv       HNMT MUTATED HNMT WILD-TYPE
  CLUS_1            0             42
  CLUS_2            4            169
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HNMT MUTATED        3      0      3
  HNMT WILD-TYPE     59     73     72
D845V4, multiclass
        clus
vv       HNMT MUTATED HNMT WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HNMT MUTATED        1      2      3
  HNMT WILD-TYPE     69    118     97
D845V5, multiclass
        clus
vv       HNMT MUTATED HNMT WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HNMT MUTATED        0      0      2      0      0      2      1      0      1
  HNMT WILD-TYPE     41     26     28     29     39     67     19     14     21
D845V6, multiclass
        clus
vv       HNMT MUTATED HNMT WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNMT MUTATED        1      2      3      2
  HNMT WILD-TYPE     99     70     69    119
D845V7, multiclass
        clus
vv       HNMT MUTATED HNMT WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            3             69
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HNMT MUTATED        1      2      3      2      0
  HNMT WILD-TYPE     58     73     71    117     38
D845V8, multiclass
        clus
vv       HNMT MUTATED HNMT WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HNMT MUTATED        1      4      1      1      1
  HNMT WILD-TYPE     50     72     60     70     94
D845V9, multiclass
        clus
vv       HNMT MUTATED HNMT WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HNMT MUTATED        0      1      0      2      3      1      1      0      0
  HNMT WILD-TYPE     69     47     39     14     50     19     20     38     50
D845V10, multiclass
        clus
vv       HNMT MUTATED HNMT WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HNMT MUTATED        0      0      1      1      1      0
  HNMT WILD-TYPE     13     16     13     10     10      9
D845V11, multiclass
        clus
vv       HNMT MUTATED HNMT WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HNMT MUTATED        0      0      0      1      1      0      1      0      0
  HNMT WILD-TYPE     11      7      7      8      7      7     10      9      5
D845V12, multiclass
        clus
vv       HNMT MUTATED HNMT WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(846) Variable = AHCTF1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AHCTF1 MUTATED        4      0      0      2      1
  AHCTF1 WILD-TYPE     28     18     46     25     22
D846V1, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHCTF1 MUTATED        4      2      1
  AHCTF1 WILD-TYPE     39     65     35
D846V2, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHCTF1 MUTATED        3      5     13
  AHCTF1 WILD-TYPE     39    168    134
D846V3, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              5              168
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHCTF1 MUTATED        5      2      7
  AHCTF1 WILD-TYPE     57     71     68
D846V4, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              2               71
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHCTF1 MUTATED        1      8      8
  AHCTF1 WILD-TYPE     69    112     92
D846V5, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              8              112
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AHCTF1 MUTATED        3      0      2      2      1      4      2      1
  AHCTF1 WILD-TYPE     38     26     28     27     38     65     18     13
                  vv
clus               CLUS_9
  AHCTF1 MUTATED        2
  AHCTF1 WILD-TYPE     20
D846V6, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHCTF1 MUTATED        3      7      5      6
  AHCTF1 WILD-TYPE     97     65     67    115
D846V7, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              7               65
  CLUS_3              5               67
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AHCTF1 MUTATED        2      4      8      3      4
  AHCTF1 WILD-TYPE     57     71     66    116     34
D846V8, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              8               66
  CLUS_4              3              116
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AHCTF1 MUTATED        3      7      2      2      6
  AHCTF1 WILD-TYPE     48     69     59     69     89
D846V9, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              7               69
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AHCTF1 MUTATED        4      1      2      3      2      3      1      3
  AHCTF1 WILD-TYPE     65     47     37     13     51     17     20     35
                  vv
clus               CLUS_9
  AHCTF1 MUTATED        1
  AHCTF1 WILD-TYPE     49
D846V10, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              1               47
  CLUS_3              2               37
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              3               17
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AHCTF1 MUTATED        0      1      2      0      3      1
  AHCTF1 WILD-TYPE     13     15     12     11      8      8
D846V11, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AHCTF1 MUTATED        1      0      0      2      2      0      1      1
  AHCTF1 WILD-TYPE     10      7      7      7      6      7     10      8
                  vv
clus               CLUS_9
  AHCTF1 MUTATED        0
  AHCTF1 WILD-TYPE      5
D846V12, multiclass
        clus
vv       AHCTF1 MUTATED AHCTF1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(847) Variable = PRPH2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRPH2 MUTATED        3      0      0      0      0
  PRPH2 WILD-TYPE     29     18     46     27     23
D847V1, multiclass
        clus
vv       PRPH2 MUTATED PRPH2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRPH2 MUTATED        3      0      0
  PRPH2 WILD-TYPE     40     67     36
D847V2, multiclass
        clus
vv       PRPH2 MUTATED PRPH2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRPH2 MUTATED        1      5      4
  PRPH2 WILD-TYPE     41    168    143
D847V3, multiclass
        clus
vv       PRPH2 MUTATED PRPH2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRPH2 MUTATED        1      5      0
  PRPH2 WILD-TYPE     61     68     75
D847V4, multiclass
        clus
vv       PRPH2 MUTATED PRPH2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             5              68
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRPH2 MUTATED        0      3      5
  PRPH2 WILD-TYPE     70    117     95
D847V5, multiclass
        clus
vv       PRPH2 MUTATED PRPH2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRPH2 MUTATED        1      1      1      0      1      3      0      0
  PRPH2 WILD-TYPE     40     25     29     29     38     66     20     14
                 vv
clus              CLUS_9
  PRPH2 MUTATED        1
  PRPH2 WILD-TYPE     21
D847V6, multiclass
        clus
vv       PRPH2 MUTATED PRPH2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRPH2 MUTATED        4      0      2      4
  PRPH2 WILD-TYPE     96     72     70    117
D847V7, multiclass
        clus
vv       PRPH2 MUTATED PRPH2 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             0              72
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRPH2 MUTATED        1      4      1      1      3
  PRPH2 WILD-TYPE     58     71     73    118     35
D847V8, multiclass
        clus
vv       PRPH2 MUTATED PRPH2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRPH2 MUTATED        1      3      1      1      4
  PRPH2 WILD-TYPE     50     73     60     70     91
D847V9, multiclass
        clus
vv       PRPH2 MUTATED PRPH2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRPH2 MUTATED        1      2      0      0      1      2      0      3
  PRPH2 WILD-TYPE     68     46     39     16     52     18     21     35
                 vv
clus              CLUS_9
  PRPH2 MUTATED        1
  PRPH2 WILD-TYPE     49
D847V10, multiclass
        clus
vv       PRPH2 MUTATED PRPH2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRPH2 MUTATED        1      0      0      0      1      0
  PRPH2 WILD-TYPE     12     16     14     11     10      9
D847V11, multiclass
[1] "Remove cluster labels:" "PRPH2 MUTATED"         
clus
  PRPH2 MUTATED PRPH2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRPH2 MUTATED        0      0      0      1      0      0      1      0
  PRPH2 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  PRPH2 MUTATED        0
  PRPH2 WILD-TYPE      5
D847V12, multiclass
[1] "Remove cluster labels:" "PRPH2 MUTATED"         
clus
  PRPH2 MUTATED PRPH2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" "PRPH2 WILD-TYPE" 

Clustering(848) Variable = NOD2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOD2 MUTATED        1      0      0      0      0
  NOD2 WILD-TYPE     31     18     46     27     23
D848V1, multiclass
[1] "Remove cluster labels:" "NOD2 MUTATED"          
clus
  NOD2 MUTATED NOD2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AY-4071 
"NOD2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOD2 MUTATED        1      0      0
  NOD2 WILD-TYPE     42     67     36
D848V2, multiclass
[1] "Remove cluster labels:" "NOD2 MUTATED"          
clus
  NOD2 MUTATED NOD2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AY-4071 
"NOD2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOD2 MUTATED        3      2     11
  NOD2 WILD-TYPE     39    171    136
D848V3, multiclass
        clus
vv       NOD2 MUTATED NOD2 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            2            171
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOD2 MUTATED        4      3      7
  NOD2 WILD-TYPE     58     70     68
D848V4, multiclass
        clus
vv       NOD2 MUTATED NOD2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOD2 MUTATED        1      4      8
  NOD2 WILD-TYPE     69    116     92
D848V5, multiclass
        clus
vv       NOD2 MUTATED NOD2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOD2 MUTATED        0      0      1      3      0      6      1      0      2
  NOD2 WILD-TYPE     41     26     29     26     39     63     19     14     20
D848V6, multiclass
        clus
vv       NOD2 MUTATED NOD2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            0             39
  CLUS_6            6             63
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOD2 MUTATED        1      8      5      2
  NOD2 WILD-TYPE     99     64     67    119
D848V7, multiclass
        clus
vv       NOD2 MUTATED NOD2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            8             64
  CLUS_3            5             67
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOD2 MUTATED        3      1     10      0      2
  NOD2 WILD-TYPE     56     74     64    119     36
D848V8, multiclass
        clus
vv       NOD2 MUTATED NOD2 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            1             74
  CLUS_3           10             64
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOD2 MUTATED        1      8      4      0      3
  NOD2 WILD-TYPE     50     68     57     71     92
D848V9, multiclass
        clus
vv       NOD2 MUTATED NOD2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            8             68
  CLUS_3            4             57
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOD2 MUTATED        6      3      1      2      1      0      0      3      0
  NOD2 WILD-TYPE     63     45     38     14     52     20     21     35     50
D848V10, multiclass
        clus
vv       NOD2 MUTATED NOD2 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NOD2 MUTATED        0      0      1      0      0      1
  NOD2 WILD-TYPE     13     16     13     11     11      8
D848V11, multiclass
[1] "Remove cluster labels:" "NOD2 MUTATED"          
clus
  NOD2 MUTATED NOD2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOD2 MUTATED        1      0      0      0      1      0      0      0      0
  NOD2 WILD-TYPE     10      7      7      9      7      7     11      9      5
D848V12, multiclass
[1] "Remove cluster labels:" "NOD2 MUTATED"          
clus
  NOD2 MUTATED NOD2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" "NOD2 WILD-TYPE" 

Clustering(849) Variable = PTCH2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTCH2 MUTATED        4      0      0      0      0
  PTCH2 WILD-TYPE     28     18     46     27     23
D849V1, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH2 MUTATED        4      0      0
  PTCH2 WILD-TYPE     39     67     36
D849V2, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH2 MUTATED        3      3     11
  PTCH2 WILD-TYPE     39    170    136
D849V3, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             3             170
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH2 MUTATED        7      2      4
  PTCH2 WILD-TYPE     55     71     71
D849V4, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH2 MUTATED        1      7      7
  PTCH2 WILD-TYPE     69    113     93
D849V5, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             7             113
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTCH2 MUTATED        0      2      1      3      3      6      0      0
  PTCH2 WILD-TYPE     41     24     29     26     36     63     20     14
                 vv
clus              CLUS_9
  PTCH2 MUTATED        0
  PTCH2 WILD-TYPE     22
D849V6, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTCH2 MUTATED        3      5      4      5
  PTCH2 WILD-TYPE     97     67     68    116
D849V7, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTCH2 MUTATED        1      3      8      1      4
  PTCH2 WILD-TYPE     58     72     66    118     34
D849V8, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             8              66
  CLUS_4             1             118
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTCH2 MUTATED        2      7      2      3      2
  PTCH2 WILD-TYPE     49     69     59     68     93
D849V9, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTCH2 MUTATED        2      4      1      3      2      1      0      2
  PTCH2 WILD-TYPE     67     44     38     13     51     19     21     36
                 vv
clus              CLUS_9
  PTCH2 MUTATED        1
  PTCH2 WILD-TYPE     49
D849V10, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTCH2 MUTATED        0      0      0      0      3      1
  PTCH2 WILD-TYPE     13     16     14     11      8      8
D849V11, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTCH2 MUTATED        0      0      0      2      0      0      1      1
  PTCH2 WILD-TYPE     11      7      7      7      8      7     10      8
                 vv
clus              CLUS_9
  PTCH2 MUTATED        0
  PTCH2 WILD-TYPE      5
D849V12, multiclass
        clus
vv       PTCH2 MUTATED PTCH2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(850) Variable = GPR126 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR126 MUTATED        4      0      0      2      0
  GPR126 WILD-TYPE     28     18     46     25     23
D850V1, multiclass
        clus
vv       GPR126 MUTATED GPR126 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR126 MUTATED        4      1      1
  GPR126 WILD-TYPE     39     66     35
D850V2, multiclass
        clus
vv       GPR126 MUTATED GPR126 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR126 MUTATED        1      1     14
  GPR126 WILD-TYPE     41    172    133
D850V3, multiclass
        clus
vv       GPR126 MUTATED GPR126 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR126 MUTATED        6      0      3
  GPR126 WILD-TYPE     56     73     72
D850V4, multiclass
        clus
vv       GPR126 MUTATED GPR126 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR126 MUTATED        3      5      6
  GPR126 WILD-TYPE     67    115     94
D850V5, multiclass
        clus
vv       GPR126 MUTATED GPR126 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              5              115
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR126 MUTATED        1      0      2      1      4      4      0      2
  GPR126 WILD-TYPE     40     26     28     28     35     65     20     12
                  vv
clus               CLUS_9
  GPR126 MUTATED        0
  GPR126 WILD-TYPE     22
D850V6, multiclass
        clus
vv       GPR126 MUTATED GPR126 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              4               35
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR126 MUTATED        1      7      1      7
  GPR126 WILD-TYPE     99     65     71    114
D850V7, multiclass
        clus
vv       GPR126 MUTATED GPR126 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              7               65
  CLUS_3              1               71
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR126 MUTATED        1      2      6      3      4
  GPR126 WILD-TYPE     58     73     68    116     34
D850V8, multiclass
        clus
vv       GPR126 MUTATED GPR126 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              6               68
  CLUS_4              3              116
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR126 MUTATED        2      3      2      1      8
  GPR126 WILD-TYPE     49     73     59     70     87
D850V9, multiclass
        clus
vv       GPR126 MUTATED GPR126 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR126 MUTATED        4      1      1      0      1      2      1      5
  GPR126 WILD-TYPE     65     47     38     16     52     18     20     33
                  vv
clus               CLUS_9
  GPR126 MUTATED        1
  GPR126 WILD-TYPE     49
D850V10, multiclass
        clus
vv       GPR126 MUTATED GPR126 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              5               33
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR126 MUTATED        0      0      1      0      0      0
  GPR126 WILD-TYPE     13     16     13     11     11      9
D850V11, multiclass
[1] "Remove cluster labels:" "GPR126 MUTATED"        
clus
  GPR126 MUTATED GPR126 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6142 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-G4-6628 
"GPR126 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR126 MUTATED        0      0      0      0      1      0      0      0
  GPR126 WILD-TYPE     11      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  GPR126 MUTATED        0
  GPR126 WILD-TYPE      5
D850V12, multiclass
[1] "Remove cluster labels:" "GPR126 MUTATED"        
clus
  GPR126 MUTATED GPR126 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6142 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" "GPR126 WILD-TYPE" 
      TCGA-G4-6628 
"GPR126 WILD-TYPE" 

Clustering(851) Variable = DDX17 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX17 MUTATED        1      0      0      2      0
  DDX17 WILD-TYPE     31     18     46     25     23
D851V1, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX17 MUTATED        3      0      0
  DDX17 WILD-TYPE     40     67     36
D851V2, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX17 MUTATED        1      0      7
  DDX17 WILD-TYPE     41    173    140
D851V3, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX17 MUTATED        2      0      3
  DDX17 WILD-TYPE     60     73     72
D851V4, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX17 MUTATED        1      4      3
  DDX17 WILD-TYPE     69    116     97
D851V5, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX17 MUTATED        0      2      0      2      1      3      0      0
  DDX17 WILD-TYPE     41     24     30     27     38     66     20     14
                 vv
clus              CLUS_9
  DDX17 MUTATED        0
  DDX17 WILD-TYPE     22
D851V6, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDX17 MUTATED        0      3      2      3
  DDX17 WILD-TYPE    100     69     70    118
D851V7, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX17 MUTATED        0      0      4      1      3
  DDX17 WILD-TYPE     59     75     70    118     35
D851V8, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX17 MUTATED        0      4      0      0      3
  DDX17 WILD-TYPE     51     72     61     71     92
D851V9, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX17 MUTATED        1      1      0      2      1      0      0      2
  DDX17 WILD-TYPE     68     47     39     14     52     20     21     36
                 vv
clus              CLUS_9
  DDX17 MUTATED        0
  DDX17 WILD-TYPE     50
D851V10, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDX17 MUTATED        0      0      2      0      2      0
  DDX17 WILD-TYPE     13     16     12     11      9      9
D851V11, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX17 MUTATED        0      0      0      2      0      1      1      0
  DDX17 WILD-TYPE     11      7      7      7      8      6     10      9
                 vv
clus              CLUS_9
  DDX17 MUTATED        0
  DDX17 WILD-TYPE      5
D851V12, multiclass
        clus
vv       DDX17 MUTATED DDX17 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(852) Variable = TOP2A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOP2A MUTATED        2      0      0      0      0
  TOP2A WILD-TYPE     30     18     46     27     23
D852V1, multiclass
[1] "Remove cluster labels:" "TOP2A MUTATED"         
clus
  TOP2A MUTATED TOP2A WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TOP2A MUTATED        1      0      1
  TOP2A WILD-TYPE     42     67     35
D852V2, multiclass
[1] "Remove cluster labels:" "TOP2A MUTATED"         
clus
  TOP2A MUTATED TOP2A WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TOP2A MUTATED        1      2     14
  TOP2A WILD-TYPE     41    171    133
D852V3, multiclass
        clus
vv       TOP2A MUTATED TOP2A WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TOP2A MUTATED        4      3      8
  TOP2A WILD-TYPE     58     70     67
D852V4, multiclass
        clus
vv       TOP2A MUTATED TOP2A WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TOP2A MUTATED        2      5      5
  TOP2A WILD-TYPE     68    115     95
D852V5, multiclass
        clus
vv       TOP2A MUTATED TOP2A WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TOP2A MUTATED        0      1      0      2      1      5      1      1
  TOP2A WILD-TYPE     41     25     30     27     38     64     19     13
                 vv
clus              CLUS_9
  TOP2A MUTATED        1
  TOP2A WILD-TYPE     21
D852V6, multiclass
        clus
vv       TOP2A MUTATED TOP2A WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TOP2A MUTATED        2      7      5      3
  TOP2A WILD-TYPE     98     65     67    118
D852V7, multiclass
        clus
vv       TOP2A MUTATED TOP2A WILD-TYPE
  CLUS_1             2              98
  CLUS_2             7              65
  CLUS_3             5              67
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOP2A MUTATED        0      4     10      3      0
  TOP2A WILD-TYPE     59     71     64    116     38
D852V8, multiclass
        clus
vv       TOP2A MUTATED TOP2A WILD-TYPE
  CLUS_1             0              59
  CLUS_2             4              71
  CLUS_3            10              64
  CLUS_4             3             116
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOP2A MUTATED        2     11      1      1      2
  TOP2A WILD-TYPE     49     65     60     70     93
D852V9, multiclass
        clus
vv       TOP2A MUTATED TOP2A WILD-TYPE
  CLUS_1             2              49
  CLUS_2            11              65
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TOP2A MUTATED        6      3      0      4      2      0      1      0
  TOP2A WILD-TYPE     63     45     39     12     51     20     20     38
                 vv
clus              CLUS_9
  TOP2A MUTATED        1
  TOP2A WILD-TYPE     49
D852V10, multiclass
        clus
vv       TOP2A MUTATED TOP2A WILD-TYPE
  CLUS_1             6              63
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TOP2A MUTATED        0      0      0      0      2      0
  TOP2A WILD-TYPE     13     16     14     11      9      9
D852V11, multiclass
[1] "Remove cluster labels:" "TOP2A MUTATED"         
clus
  TOP2A MUTATED TOP2A WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TOP2A MUTATED        0      0      0      0      1      0      1      0
  TOP2A WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  TOP2A MUTATED        0
  TOP2A WILD-TYPE      5
D852V12, multiclass
[1] "Remove cluster labels:" "TOP2A MUTATED"         
clus
  TOP2A MUTATED TOP2A WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" "TOP2A WILD-TYPE" 

Clustering(853) Variable = CACNG3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNG3 MUTATED        2      2      0      1      0
  CACNG3 WILD-TYPE     30     16     46     26     23
D853V1, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              2               16
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACNG3 MUTATED        4      1      0
  CACNG3 WILD-TYPE     39     66     36
D853V2, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACNG3 MUTATED        0      0      7
  CACNG3 WILD-TYPE     42    173    140
D853V3, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACNG3 MUTATED        1      0      2
  CACNG3 WILD-TYPE     61     73     73
D853V4, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACNG3 MUTATED        3      2      3
  CACNG3 WILD-TYPE     67    118     97
D853V5, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACNG3 MUTATED        2      2      1      0      1      2      0      0
  CACNG3 WILD-TYPE     39     24     29     29     38     67     20     14
                  vv
clus               CLUS_9
  CACNG3 MUTATED        0
  CACNG3 WILD-TYPE     22
D853V6, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNG3 MUTATED        0      2      2      4
  CACNG3 WILD-TYPE    100     70     70    117
D853V7, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNG3 MUTATED        1      0      1      4      2
  CACNG3 WILD-TYPE     58     75     73    115     36
D853V8, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              1               73
  CLUS_4              4              115
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNG3 MUTATED        0      0      3      0      5
  CACNG3 WILD-TYPE     51     76     58     71     90
D853V9, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              0               76
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACNG3 MUTATED        0      1      0      0      0      1      3      3
  CACNG3 WILD-TYPE     69     47     39     16     53     19     18     35
                  vv
clus               CLUS_9
  CACNG3 MUTATED        0
  CACNG3 WILD-TYPE     50
D853V10, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              3               18
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CACNG3 MUTATED        0      0      0      0      0      0
  CACNG3 WILD-TYPE     13     16     14     11     11      9
D853V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACNG3 MUTATED        0      0      0      0      0      0      0      0
  CACNG3 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  CACNG3 MUTATED        0
  CACNG3 WILD-TYPE      5
D853V12, multiclass

Clustering(854) Variable = CBX3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBX3 MUTATED        2      0      0      0      0
  CBX3 WILD-TYPE     30     18     46     27     23
D854V1, multiclass
[1] "Remove cluster labels:" "CBX3 MUTATED"          
clus
  CBX3 MUTATED CBX3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CBX3 MUTATED        2      0      0
  CBX3 WILD-TYPE     41     67     36
D854V2, multiclass
[1] "Remove cluster labels:" "CBX3 MUTATED"          
clus
  CBX3 MUTATED CBX3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CBX3 MUTATED        0      0      6
  CBX3 WILD-TYPE     42    173    141
D854V3, multiclass
        clus
vv       CBX3 MUTATED CBX3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CBX3 MUTATED        0      0      4
  CBX3 WILD-TYPE     62     73     71
D854V4, multiclass
        clus
vv       CBX3 MUTATED CBX3 WILD-TYPE
  CLUS_1            0             62
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CBX3 MUTATED        0      1      4
  CBX3 WILD-TYPE     70    119     96
D854V5, multiclass
        clus
vv       CBX3 MUTATED CBX3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CBX3 MUTATED        0      1      0      0      0      3      1      0      0
  CBX3 WILD-TYPE     41     25     30     29     39     66     19     14     22
D854V6, multiclass
        clus
vv       CBX3 MUTATED CBX3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CBX3 MUTATED        0      4      0      2
  CBX3 WILD-TYPE    100     68     72    119
D854V7, multiclass
        clus
vv       CBX3 MUTATED CBX3 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            4             68
  CLUS_3            0             72
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBX3 MUTATED        0      1      3      0      2
  CBX3 WILD-TYPE     59     74     71    119     36
D854V8, multiclass
        clus
vv       CBX3 MUTATED CBX3 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBX3 MUTATED        0      4      0      0      2
  CBX3 WILD-TYPE     51     72     61     71     93
D854V9, multiclass
        clus
vv       CBX3 MUTATED CBX3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CBX3 MUTATED        1      0      0      2      1      0      0      2      0
  CBX3 WILD-TYPE     68     48     39     14     52     20     21     36     50
D854V10, multiclass
        clus
vv       CBX3 MUTATED CBX3 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CBX3 MUTATED        0      0      0      0      1      0
  CBX3 WILD-TYPE     13     16     14     11     10      9
D854V11, multiclass
[1] "Remove cluster labels:" "CBX3 MUTATED"          
clus
  CBX3 MUTATED CBX3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-G4-6628 
"CBX3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CBX3 MUTATED        0      0      0      1      0      0      0      0      0
  CBX3 WILD-TYPE     11      7      7      8      8      7     11      9      5
D854V12, multiclass
[1] "Remove cluster labels:" "CBX3 MUTATED"          
clus
  CBX3 MUTATED CBX3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" "CBX3 WILD-TYPE" 
    TCGA-G4-6628 
"CBX3 WILD-TYPE" 

Clustering(855) Variable = DLL3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DLL3 MUTATED        1      0      0      1      0
  DLL3 WILD-TYPE     31     18     46     26     23
D855V1, multiclass
[1] "Remove cluster labels:" "DLL3 MUTATED"          
clus
  DLL3 MUTATED DLL3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLL3 MUTATED        1      1      0
  DLL3 WILD-TYPE     42     66     36
D855V2, multiclass
[1] "Remove cluster labels:" "DLL3 MUTATED"          
clus
  DLL3 MUTATED DLL3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLL3 MUTATED        1      0      5
  DLL3 WILD-TYPE     41    173    142
D855V3, multiclass
        clus
vv       DLL3 MUTATED DLL3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLL3 MUTATED        2      0      2
  DLL3 WILD-TYPE     60     73     73
D855V4, multiclass
        clus
vv       DLL3 MUTATED DLL3 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLL3 MUTATED        0      2      4
  DLL3 WILD-TYPE     70    118     96
D855V5, multiclass
        clus
vv       DLL3 MUTATED DLL3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DLL3 MUTATED        0      0      1      1      1      2      1      0      0
  DLL3 WILD-TYPE     41     26     29     28     38     67     19     14     22
D855V6, multiclass
        clus
vv       DLL3 MUTATED DLL3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DLL3 MUTATED        0      2      2      2
  DLL3 WILD-TYPE    100     70     70    119
D855V7, multiclass
        clus
vv       DLL3 MUTATED DLL3 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DLL3 MUTATED        0      0      4      1      1
  DLL3 WILD-TYPE     59     75     70    118     37
D855V8, multiclass
        clus
vv       DLL3 MUTATED DLL3 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DLL3 MUTATED        0      4      0      0      2
  DLL3 WILD-TYPE     51     72     61     71     93
D855V9, multiclass
        clus
vv       DLL3 MUTATED DLL3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DLL3 MUTATED        0      2      0      2      0      1      0      1      0
  DLL3 WILD-TYPE     69     46     39     14     53     19     21     37     50
D855V10, multiclass
        clus
vv       DLL3 MUTATED DLL3 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DLL3 MUTATED        0      0      0      0      2      0
  DLL3 WILD-TYPE     13     16     14     11      9      9
D855V11, multiclass
[1] "Remove cluster labels:" "DLL3 MUTATED"          
clus
  DLL3 MUTATED DLL3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DLL3 MUTATED        0      0      0      2      0      0      0      0      0
  DLL3 WILD-TYPE     11      7      7      7      8      7     11      9      5
D855V12, multiclass
[1] "Remove cluster labels:" "DLL3 MUTATED"          
clus
  DLL3 MUTATED DLL3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" "DLL3 WILD-TYPE" 

Clustering(856) Variable = KIFAP3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIFAP3 MUTATED        2      0      0      0      0
  KIFAP3 WILD-TYPE     30     18     46     27     23
D856V1, multiclass
[1] "Remove cluster labels:" "KIFAP3 MUTATED"        
clus
  KIFAP3 MUTATED KIFAP3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00D 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIFAP3 MUTATED        2      0      0
  KIFAP3 WILD-TYPE     41     67     36
D856V2, multiclass
[1] "Remove cluster labels:" "KIFAP3 MUTATED"        
clus
  KIFAP3 MUTATED KIFAP3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00D 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" "KIFAP3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIFAP3 MUTATED        0      0      8
  KIFAP3 WILD-TYPE     42    173    139
D856V3, multiclass
        clus
vv       KIFAP3 MUTATED KIFAP3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIFAP3 MUTATED        2      0      4
  KIFAP3 WILD-TYPE     60     73     71
D856V4, multiclass
        clus
vv       KIFAP3 MUTATED KIFAP3 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIFAP3 MUTATED        2      1      5
  KIFAP3 WILD-TYPE     68    119     95
D856V5, multiclass
        clus
vv       KIFAP3 MUTATED KIFAP3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1              119
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIFAP3 MUTATED        1      1      1      0      1      3      1      0
  KIFAP3 WILD-TYPE     40     25     29     29     38     66     19     14
                  vv
clus               CLUS_9
  KIFAP3 MUTATED        0
  KIFAP3 WILD-TYPE     22
D856V6, multiclass
        clus
vv       KIFAP3 MUTATED KIFAP3 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIFAP3 MUTATED        0      4      2      3
  KIFAP3 WILD-TYPE    100     68     70    118
D856V7, multiclass
        clus
vv       KIFAP3 MUTATED KIFAP3 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIFAP3 MUTATED        1      0      4      2      2
  KIFAP3 WILD-TYPE     58     75     70    117     36
D856V8, multiclass
        clus
vv       KIFAP3 MUTATED KIFAP3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIFAP3 MUTATED        0      4      1      0      3
  KIFAP3 WILD-TYPE     51     72     60     71     92
D856V9, multiclass
        clus
vv       KIFAP3 MUTATED KIFAP3 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIFAP3 MUTATED        1      2      0      2      0      0      0      3
  KIFAP3 WILD-TYPE     68     46     39     14     53     20     21     35
                  vv
clus               CLUS_9
  KIFAP3 MUTATED        0
  KIFAP3 WILD-TYPE     50
D856V10, multiclass
        clus
vv       KIFAP3 MUTATED KIFAP3 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIFAP3 MUTATED        0      0      0      0      0      0
  KIFAP3 WILD-TYPE     13     16     14     11     11      9
D856V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIFAP3 MUTATED        0      0      0      0      0      0      0      0
  KIFAP3 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  KIFAP3 MUTATED        0
  KIFAP3 WILD-TYPE      5
D856V12, multiclass

Clustering(857) Variable = CRYGA MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRYGA MUTATED        0      0      0      0      0
  CRYGA WILD-TYPE     32     18     46     27     23
D857V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRYGA MUTATED        0      0      0
  CRYGA WILD-TYPE     43     67     36
D857V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRYGA MUTATED        1      0      4
  CRYGA WILD-TYPE     41    173    143
D857V3, multiclass
        clus
vv       CRYGA MUTATED CRYGA WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRYGA MUTATED        0      0      5
  CRYGA WILD-TYPE     62     73     70
D857V4, multiclass
        clus
vv       CRYGA MUTATED CRYGA WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRYGA MUTATED        0      1      4
  CRYGA WILD-TYPE     70    119     96
D857V5, multiclass
        clus
vv       CRYGA MUTATED CRYGA WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CRYGA MUTATED        0      0      0      1      0      4      0      0
  CRYGA WILD-TYPE     41     26     30     28     39     65     20     14
                 vv
clus              CLUS_9
  CRYGA MUTATED        0
  CRYGA WILD-TYPE     22
D857V6, multiclass
        clus
vv       CRYGA MUTATED CRYGA WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRYGA MUTATED        0      5      0      0
  CRYGA WILD-TYPE    100     67     72    121
D857V7, multiclass
        clus
vv       CRYGA MUTATED CRYGA WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             0              72
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRYGA MUTATED        0      1      4      0      0
  CRYGA WILD-TYPE     59     74     70    119     38
D857V8, multiclass
        clus
vv       CRYGA MUTATED CRYGA WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRYGA MUTATED        0      5      0      0      0
  CRYGA WILD-TYPE     51     71     61     71     95
D857V9, multiclass
        clus
vv       CRYGA MUTATED CRYGA WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CRYGA MUTATED        1      0      0      3      1      0      0      0
  CRYGA WILD-TYPE     68     48     39     13     52     20     21     38
                 vv
clus              CLUS_9
  CRYGA MUTATED        0
  CRYGA WILD-TYPE     50
D857V10, multiclass
        clus
vv       CRYGA MUTATED CRYGA WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CRYGA MUTATED        0      0      0      0      2      0
  CRYGA WILD-TYPE     13     16     14     11      9      9
D857V11, multiclass
[1] "Remove cluster labels:" "CRYGA MUTATED"         
clus
  CRYGA MUTATED CRYGA WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CRYGA MUTATED        0      0      0      2      0      0      0      0
  CRYGA WILD-TYPE     11      7      7      7      8      7     11      9
                 vv
clus              CLUS_9
  CRYGA MUTATED        0
  CRYGA WILD-TYPE      5
D857V12, multiclass
[1] "Remove cluster labels:" "CRYGA MUTATED"         
clus
  CRYGA MUTATED CRYGA WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" "CRYGA WILD-TYPE" 

Clustering(858) Variable = MCF2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCF2 MUTATED        5      1      1      2      0
  MCF2 WILD-TYPE     27     17     45     25     23
D858V1, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            1             17
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCF2 MUTATED        6      1      2
  MCF2 WILD-TYPE     37     66     34
D858V2, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCF2 MUTATED        2      5     21
  MCF2 WILD-TYPE     40    168    126
D858V3, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            5            168
  CLUS_3           21            126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCF2 MUTATED        7      2     10
  MCF2 WILD-TYPE     55     71     65
D858V4, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            2             71
  CLUS_3           10             65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCF2 MUTATED        3      9     11
  MCF2 WILD-TYPE     67    111     89
D858V5, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            9            111
  CLUS_3           11             89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MCF2 MUTATED        3      1      1      4      3      8      1      1      1
  MCF2 WILD-TYPE     38     25     29     25     36     61     19     13     21
D858V6, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            4             25
  CLUS_5            3             36
  CLUS_6            8             61
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MCF2 MUTATED        4     10      5      9
  MCF2 WILD-TYPE     96     62     67    112
D858V7, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            4             96
  CLUS_2           10             62
  CLUS_3            5             67
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCF2 MUTATED        2      5     11      6      4
  MCF2 WILD-TYPE     57     70     63    113     34
D858V8, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            5             70
  CLUS_3           11             63
  CLUS_4            6            113
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCF2 MUTATED        2     12      2      3      8
  MCF2 WILD-TYPE     49     64     59     68     87
D858V9, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2           12             64
  CLUS_3            2             59
  CLUS_4            3             68
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MCF2 MUTATED        7      4      0      3      2      3      1      4      3
  MCF2 WILD-TYPE     62     44     39     13     51     17     20     34     47
D858V10, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            7             62
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            2             51
  CLUS_6            3             17
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MCF2 MUTATED        0      1      0      0      2      0
  MCF2 WILD-TYPE     13     15     14     11      9      9
D858V11, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MCF2 MUTATED        0      0      0      1      0      1      1      0      0
  MCF2 WILD-TYPE     11      7      7      8      8      6     10      9      5
D858V12, multiclass
        clus
vv       MCF2 MUTATED MCF2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(859) Variable = USP16 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP16 MUTATED        2      1      0      1      0
  USP16 WILD-TYPE     30     17     46     26     23
D859V1, multiclass
        clus
vv       USP16 MUTATED USP16 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP16 MUTATED        2      1      1
  USP16 WILD-TYPE     41     66     35
D859V2, multiclass
        clus
vv       USP16 MUTATED USP16 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP16 MUTATED        0      3      5
  USP16 WILD-TYPE     42    170    142
D859V3, multiclass
        clus
vv       USP16 MUTATED USP16 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP16 MUTATED        1      1      2
  USP16 WILD-TYPE     61     72     73
D859V4, multiclass
        clus
vv       USP16 MUTATED USP16 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP16 MUTATED        2      1      2
  USP16 WILD-TYPE     68    119     98
D859V5, multiclass
        clus
vv       USP16 MUTATED USP16 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP16 MUTATED        0      0      1      0      0      2      1      0
  USP16 WILD-TYPE     41     26     29     29     39     67     19     14
                 vv
clus              CLUS_9
  USP16 MUTATED        1
  USP16 WILD-TYPE     21
D859V6, multiclass
        clus
vv       USP16 MUTATED USP16 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP16 MUTATED        0      2      2      4
  USP16 WILD-TYPE    100     70     70    117
D859V7, multiclass
        clus
vv       USP16 MUTATED USP16 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP16 MUTATED        0      2      2      2      2
  USP16 WILD-TYPE     59     73     72    117     36
D859V8, multiclass
        clus
vv       USP16 MUTATED USP16 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP16 MUTATED        2      2      0      1      2
  USP16 WILD-TYPE     49     74     61     70     93
D859V9, multiclass
        clus
vv       USP16 MUTATED USP16 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP16 MUTATED        0      1      1      1      2      1      1      0
  USP16 WILD-TYPE     69     47     38     15     51     19     20     38
                 vv
clus              CLUS_9
  USP16 MUTATED        0
  USP16 WILD-TYPE     50
D859V10, multiclass
        clus
vv       USP16 MUTATED USP16 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USP16 MUTATED        0      0      0      0      0      0
  USP16 WILD-TYPE     13     16     14     11     11      9
D859V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP16 MUTATED        0      0      0      0      0      0      0      0
  USP16 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  USP16 MUTATED        0
  USP16 WILD-TYPE      5
D859V12, multiclass

Clustering(860) Variable = ASPM MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASPM MUTATED        8      0      2      3      0
  ASPM WILD-TYPE     24     18     44     24     23
D860V1, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1            8             24
  CLUS_2            0             18
  CLUS_3            2             44
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPM MUTATED        9      3      1
  ASPM WILD-TYPE     34     64     35
D860V2, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1            9             34
  CLUS_2            3             64
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPM MUTATED        4      7     31
  ASPM WILD-TYPE     38    166    116
D860V3, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1            4             38
  CLUS_2            7            166
  CLUS_3           31            116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPM MUTATED       10      7     12
  ASPM WILD-TYPE     52     66     63
D860V4, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1           10             52
  CLUS_2            7             66
  CLUS_3           12             63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPM MUTATED        3     13     19
  ASPM WILD-TYPE     67    107     81
D860V5, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1            3             67
  CLUS_2           13            107
  CLUS_3           19             81
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ASPM MUTATED        4      3      3      3      3     16      0      2      1
  ASPM WILD-TYPE     37     23     27     26     36     53     20     12     21
D860V6, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1            4             37
  CLUS_2            3             23
  CLUS_3            3             27
  CLUS_4            3             26
  CLUS_5            3             36
  CLUS_6           16             53
  CLUS_7            0             20
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASPM MUTATED        8     10     11     13
  ASPM WILD-TYPE     92     62     61    108
D860V7, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1            8             92
  CLUS_2           10             62
  CLUS_3           11             61
  CLUS_4           13            108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASPM MUTATED        6      8     14      5      9
  ASPM WILD-TYPE     53     67     60    114     29
D860V8, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1            6             53
  CLUS_2            8             67
  CLUS_3           14             60
  CLUS_4            5            114
  CLUS_5            9             29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASPM MUTATED        4     13      9      4      9
  ASPM WILD-TYPE     47     63     52     67     86
D860V9, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1            4             47
  CLUS_2           13             63
  CLUS_3            9             52
  CLUS_4            4             67
  CLUS_5            9             86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ASPM MUTATED        7      7      4      6      5      1      0      6      3
  ASPM WILD-TYPE     62     41     35     10     48     19     21     32     47
D860V10, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1            7             62
  CLUS_2            7             41
  CLUS_3            4             35
  CLUS_4            6             10
  CLUS_5            5             48
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            6             32
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ASPM MUTATED        0      0      2      2      4      2
  ASPM WILD-TYPE     13     16     12      9      7      7
D860V11, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            2              9
  CLUS_5            4              7
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ASPM MUTATED        1      0      1      2      0      2      4      0      0
  ASPM WILD-TYPE     10      7      6      7      8      5      7      9      5
D860V12, multiclass
        clus
vv       ASPM MUTATED ASPM WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            2              5
  CLUS_7            4              7
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(861) Variable = MACC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MACC1 MUTATED        5      0      0      2      0
  MACC1 WILD-TYPE     27     18     46     25     23
D861V1, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MACC1 MUTATED        5      2      0
  MACC1 WILD-TYPE     38     65     36
D861V2, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MACC1 MUTATED        1      3     14
  MACC1 WILD-TYPE     41    170    133
D861V3, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MACC1 MUTATED        4      1      5
  MACC1 WILD-TYPE     58     72     70
D861V4, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MACC1 MUTATED        4      5      5
  MACC1 WILD-TYPE     66    115     95
D861V5, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             5             115
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MACC1 MUTATED        1      0      3      3      3      3      0      0
  MACC1 WILD-TYPE     40     26     27     26     36     66     20     14
                 vv
clus              CLUS_9
  MACC1 MUTATED        1
  MACC1 WILD-TYPE     21
D861V6, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             3              27
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MACC1 MUTATED        2      5      3      8
  MACC1 WILD-TYPE     98     67     69    113
D861V7, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MACC1 MUTATED        1      3      6      2      6
  MACC1 WILD-TYPE     58     72     68    117     32
D861V8, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MACC1 MUTATED        0      6      2      2      7
  MACC1 WILD-TYPE     51     70     59     69     88
D861V9, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MACC1 MUTATED        3      2      2      2      2      1      0      5
  MACC1 WILD-TYPE     66     46     37     14     51     19     21     33
                 vv
clus              CLUS_9
  MACC1 MUTATED        0
  MACC1 WILD-TYPE     50
D861V10, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             5              33
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MACC1 MUTATED        0      2      0      0      1      1
  MACC1 WILD-TYPE     13     14     14     11     10      8
D861V11, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MACC1 MUTATED        1      1      0      1      0      0      0      1
  MACC1 WILD-TYPE     10      6      7      8      8      7     11      8
                 vv
clus              CLUS_9
  MACC1 MUTATED        0
  MACC1 WILD-TYPE      5
D861V12, multiclass
        clus
vv       MACC1 MUTATED MACC1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(862) Variable = YLPM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  YLPM1 MUTATED        3      0      1      2      1
  YLPM1 WILD-TYPE     29     18     45     25     22
D862V1, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  YLPM1 MUTATED        2      4      1
  YLPM1 WILD-TYPE     41     63     35
D862V2, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             4              63
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  YLPM1 MUTATED        1      2     18
  YLPM1 WILD-TYPE     41    171    129
D862V3, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            18             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  YLPM1 MUTATED        5      0      9
  YLPM1 WILD-TYPE     57     73     66
D862V4, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  YLPM1 MUTATED        4      5      8
  YLPM1 WILD-TYPE     66    115     92
D862V5, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             5             115
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  YLPM1 MUTATED        2      2      1      1      2      6      1      2
  YLPM1 WILD-TYPE     39     24     29     28     37     63     19     12
                 vv
clus              CLUS_9
  YLPM1 MUTATED        0
  YLPM1 WILD-TYPE     22
D862V6, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  YLPM1 MUTATED        0     10      4      8
  YLPM1 WILD-TYPE    100     62     68    113
D862V7, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2            10              62
  CLUS_3             4              68
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  YLPM1 MUTATED        1      1     12      6      2
  YLPM1 WILD-TYPE     58     74     62    113     36
D862V8, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3            12              62
  CLUS_4             6             113
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  YLPM1 MUTATED        0     12      2      3      5
  YLPM1 WILD-TYPE     51     64     59     68     90
D862V9, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2            12              64
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  YLPM1 MUTATED        4      3      0      6      2      1      2      2
  YLPM1 WILD-TYPE     65     45     39     10     51     19     19     36
                 vv
clus              CLUS_9
  YLPM1 MUTATED        2
  YLPM1 WILD-TYPE     48
D862V10, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             6              10
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             2              19
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  YLPM1 MUTATED        0      0      0      0      3      0
  YLPM1 WILD-TYPE     13     16     14     11      8      9
D862V11, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  YLPM1 MUTATED        0      0      0      1      0      1      1      0
  YLPM1 WILD-TYPE     11      7      7      8      8      6     10      9
                 vv
clus              CLUS_9
  YLPM1 MUTATED        0
  YLPM1 WILD-TYPE      5
D862V12, multiclass
        clus
vv       YLPM1 MUTATED YLPM1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(863) Variable = MIA3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIA3 MUTATED        3      0      1      2      1
  MIA3 WILD-TYPE     29     18     45     25     22
D863V1, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MIA3 MUTATED        3      1      3
  MIA3 WILD-TYPE     40     66     33
D863V2, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MIA3 MUTATED        4      1     14
  MIA3 WILD-TYPE     38    172    133
D863V3, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            4             38
  CLUS_2            1            172
  CLUS_3           14            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MIA3 MUTATED        5      1      6
  MIA3 WILD-TYPE     57     72     69
D863V4, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MIA3 MUTATED        1      6      7
  MIA3 WILD-TYPE     69    114     93
D863V5, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            6            114
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MIA3 MUTATED        1      1      1      3      1      6      0      1      0
  MIA3 WILD-TYPE     40     25     29     26     38     63     20     13     22
D863V6, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            1             38
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MIA3 MUTATED        1      7      3      8
  MIA3 WILD-TYPE     99     65     69    113
D863V7, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            7             65
  CLUS_3            3             69
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIA3 MUTATED        1      3      7      5      3
  MIA3 WILD-TYPE     58     72     67    114     35
D863V8, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            7             67
  CLUS_4            5            114
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIA3 MUTATED        2      7      1      3      5
  MIA3 WILD-TYPE     49     69     60     68     90
D863V9, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            7             69
  CLUS_3            1             60
  CLUS_4            3             68
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MIA3 MUTATED        1      4      1      3      1      2      0      2      4
  MIA3 WILD-TYPE     68     44     38     13     52     18     21     36     46
D863V10, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            4             44
  CLUS_3            1             38
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            4             46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MIA3 MUTATED        0      0      0      0      5      0
  MIA3 WILD-TYPE     13     16     14     11      6      9
D863V11, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            5              6
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MIA3 MUTATED        0      0      0      3      0      0      2      0      0
  MIA3 WILD-TYPE     11      7      7      6      8      7      9      9      5
D863V12, multiclass
        clus
vv       MIA3 MUTATED MIA3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            3              6
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(864) Variable = SLC7A6 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC7A6 MUTATED        0      0      0      0      0
  SLC7A6 WILD-TYPE     32     18     46     27     23
D864V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC7A6 MUTATED        0      0      0
  SLC7A6 WILD-TYPE     43     67     36
D864V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC7A6 MUTATED        2      1      3
  SLC7A6 WILD-TYPE     40    172    144
D864V3, multiclass
        clus
vv       SLC7A6 MUTATED SLC7A6 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1              172
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC7A6 MUTATED        1      2      3
  SLC7A6 WILD-TYPE     61     71     72
D864V4, multiclass
        clus
vv       SLC7A6 MUTATED SLC7A6 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC7A6 MUTATED        1      2      2
  SLC7A6 WILD-TYPE     69    118     98
D864V5, multiclass
        clus
vv       SLC7A6 MUTATED SLC7A6 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC7A6 MUTATED        1      1      0      0      0      1      0      1
  SLC7A6 WILD-TYPE     40     25     30     29     39     68     20     13
                  vv
clus               CLUS_9
  SLC7A6 MUTATED        1
  SLC7A6 WILD-TYPE     21
D864V6, multiclass
        clus
vv       SLC7A6 MUTATED SLC7A6 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC7A6 MUTATED        2      3      1      0
  SLC7A6 WILD-TYPE     98     69     71    121
D864V7, multiclass
        clus
vv       SLC7A6 MUTATED SLC7A6 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC7A6 MUTATED        2      1      3      0      0
  SLC7A6 WILD-TYPE     57     74     71    119     38
D864V8, multiclass
        clus
vv       SLC7A6 MUTATED SLC7A6 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC7A6 MUTATED        3      2      1      0      0
  SLC7A6 WILD-TYPE     48     74     60     71     95
D864V9, multiclass
        clus
vv       SLC7A6 MUTATED SLC7A6 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC7A6 MUTATED        2      0      0      1      1      2      0      0
  SLC7A6 WILD-TYPE     67     48     39     15     52     18     21     38
                  vv
clus               CLUS_9
  SLC7A6 MUTATED        0
  SLC7A6 WILD-TYPE     50
D864V10, multiclass
        clus
vv       SLC7A6 MUTATED SLC7A6 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC7A6 MUTATED        0      0      1      0      0      0
  SLC7A6 WILD-TYPE     13     16     13     11     11      9
D864V11, multiclass
[1] "Remove cluster labels:" "SLC7A6 MUTATED"        
clus
  SLC7A6 MUTATED SLC7A6 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-CM-6679       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-G4-6628 
"SLC7A6 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC7A6 MUTATED        0      0      0      0      0      0      1      0
  SLC7A6 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  SLC7A6 MUTATED        0
  SLC7A6 WILD-TYPE      5
D864V12, multiclass
[1] "Remove cluster labels:" "SLC7A6 MUTATED"        
clus
  SLC7A6 MUTATED SLC7A6 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-CM-6679       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" "SLC7A6 WILD-TYPE" 
      TCGA-G4-6628 
"SLC7A6 WILD-TYPE" 

Clustering(865) Variable = TGFBR2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGFBR2 MUTATED        1      2      1      2      0
  TGFBR2 WILD-TYPE     31     16     45     25     23
D865V1, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              2               16
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR2 MUTATED        3      2      1
  TGFBR2 WILD-TYPE     40     65     35
D865V2, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR2 MUTATED        3      3     14
  TGFBR2 WILD-TYPE     39    170    133
D865V3, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              3              170
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR2 MUTATED        5      3      5
  TGFBR2 WILD-TYPE     57     70     70
D865V4, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              3               70
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR2 MUTATED        5      7      7
  TGFBR2 WILD-TYPE     65    113     93
D865V5, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              5               65
  CLUS_2              7              113
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TGFBR2 MUTATED        3      0      3      1      2      6      0      3
  TGFBR2 WILD-TYPE     38     26     27     28     37     63     20     11
                  vv
clus               CLUS_9
  TGFBR2 MUTATED        1
  TGFBR2 WILD-TYPE     21
D865V6, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              3               27
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              0               20
  CLUS_8              3               11
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TGFBR2 MUTATED        3      8      4      6
  TGFBR2 WILD-TYPE     97     64     68    115
D865V7, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              8               64
  CLUS_3              4               68
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGFBR2 MUTATED        3      1      9      5      3
  TGFBR2 WILD-TYPE     56     74     65    114     35
D865V8, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              1               74
  CLUS_3              9               65
  CLUS_4              5              114
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGFBR2 MUTATED        2      6      6      1      5
  TGFBR2 WILD-TYPE     49     70     55     70     90
D865V9, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              6               70
  CLUS_3              6               55
  CLUS_4              1               70
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TGFBR2 MUTATED        1      2      3      4      2      1      2      4
  TGFBR2 WILD-TYPE     68     46     36     12     51     19     19     34
                  vv
clus               CLUS_9
  TGFBR2 MUTATED        1
  TGFBR2 WILD-TYPE     49
D865V10, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              3               36
  CLUS_4              4               12
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              2               19
  CLUS_8              4               34
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TGFBR2 MUTATED        0      0      3      2      0      0
  TGFBR2 WILD-TYPE     13     16     11      9     11      9
D865V11, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              3               11
  CLUS_4              2                9
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TGFBR2 MUTATED        0      0      1      0      2      1      1      0
  TGFBR2 WILD-TYPE     11      7      6      9      6      6     10      9
                  vv
clus               CLUS_9
  TGFBR2 MUTATED        0
  TGFBR2 WILD-TYPE      5
D865V12, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(866) Variable = RAB42 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB42 MUTATED        0      0      0      0      0
  RAB42 WILD-TYPE     32     18     46     27     23
D866V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB42 MUTATED        0      0      0
  RAB42 WILD-TYPE     43     67     36
D866V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB42 MUTATED        0      0      4
  RAB42 WILD-TYPE     42    173    143
D866V3, multiclass
        clus
vv       RAB42 MUTATED RAB42 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB42 MUTATED        2      0      1
  RAB42 WILD-TYPE     60     73     74
D866V4, multiclass
        clus
vv       RAB42 MUTATED RAB42 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB42 MUTATED        1      0      2
  RAB42 WILD-TYPE     69    120     98
D866V5, multiclass
        clus
vv       RAB42 MUTATED RAB42 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             0             120
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB42 MUTATED        0      0      1      0      0      1      1      0
  RAB42 WILD-TYPE     41     26     29     29     39     68     19     14
                 vv
clus              CLUS_9
  RAB42 MUTATED        0
  RAB42 WILD-TYPE     22
D866V6, multiclass
        clus
vv       RAB42 MUTATED RAB42 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAB42 MUTATED        0      2      1      1
  RAB42 WILD-TYPE    100     70     71    120
D866V7, multiclass
        clus
vv       RAB42 MUTATED RAB42 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB42 MUTATED        0      0      3      0      1
  RAB42 WILD-TYPE     59     75     71    119     37
D866V8, multiclass
        clus
vv       RAB42 MUTATED RAB42 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB42 MUTATED        0      3      0      0      1
  RAB42 WILD-TYPE     51     73     61     71     94
D866V9, multiclass
        clus
vv       RAB42 MUTATED RAB42 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB42 MUTATED        1      0      0      1      0      1      0      1
  RAB42 WILD-TYPE     68     48     39     15     53     19     21     37
                 vv
clus              CLUS_9
  RAB42 MUTATED        0
  RAB42 WILD-TYPE     50
D866V10, multiclass
        clus
vv       RAB42 MUTATED RAB42 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAB42 MUTATED        0      0      0      0      1      0
  RAB42 WILD-TYPE     13     16     14     11     10      9
D866V11, multiclass
[1] "Remove cluster labels:" "RAB42 MUTATED"         
clus
  RAB42 MUTATED RAB42 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-G4-6628 
"RAB42 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB42 MUTATED        0      0      0      0      0      1      0      0
  RAB42 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  RAB42 MUTATED        0
  RAB42 WILD-TYPE      5
D866V12, multiclass
[1] "Remove cluster labels:" "RAB42 MUTATED"         
clus
  RAB42 MUTATED RAB42 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" "RAB42 WILD-TYPE" 
     TCGA-G4-6628 
"RAB42 WILD-TYPE" 

Clustering(867) Variable = PIK3C3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3C3 MUTATED        3      0      0      1      0
  PIK3C3 WILD-TYPE     29     18     46     26     23
D867V1, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3C3 MUTATED        4      0      0
  PIK3C3 WILD-TYPE     39     67     36
D867V2, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3C3 MUTATED        1      6     16
  PIK3C3 WILD-TYPE     41    167    131
D867V3, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              6              167
  CLUS_3             16              131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3C3 MUTATED        7      5      6
  PIK3C3 WILD-TYPE     55     68     69
D867V4, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              5               68
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3C3 MUTATED        4      5     12
  PIK3C3 WILD-TYPE     66    115     88
D867V5, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              5              115
  CLUS_3             12               88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3C3 MUTATED        3      1      1      1      2     10      2      0
  PIK3C3 WILD-TYPE     38     25     29     28     37     59     18     14
                  vv
clus               CLUS_9
  PIK3C3 MUTATED        1
  PIK3C3 WILD-TYPE     21
D867V6, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6             10               59
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3C3 MUTATED        4      6      7      6
  PIK3C3 WILD-TYPE     96     66     65    115
D867V7, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              6               66
  CLUS_3              7               65
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3C3 MUTATED        4      4      9      1      5
  PIK3C3 WILD-TYPE     55     71     65    118     33
D867V8, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              4               71
  CLUS_3              9               65
  CLUS_4              1              118
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3C3 MUTATED        3      9      3      2      6
  PIK3C3 WILD-TYPE     48     67     58     69     89
D867V9, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              9               67
  CLUS_3              3               58
  CLUS_4              2               69
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3C3 MUTATED        4      7      1      2      2      1      0      6
  PIK3C3 WILD-TYPE     65     41     38     14     51     19     21     32
                  vv
clus               CLUS_9
  PIK3C3 MUTATED        0
  PIK3C3 WILD-TYPE     50
D867V10, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              7               41
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              6               32
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3C3 MUTATED        1      0      0      2      2      0
  PIK3C3 WILD-TYPE     12     16     14      9      9      9
D867V11, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              2                9
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3C3 MUTATED        0      0      1      1      0      0      2      1
  PIK3C3 WILD-TYPE     11      7      6      8      8      7      9      8
                  vv
clus               CLUS_9
  PIK3C3 MUTATED        0
  PIK3C3 WILD-TYPE      5
D867V12, multiclass
        clus
vv       PIK3C3 MUTATED PIK3C3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(868) Variable = FAM189B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM189B MUTATED        3      0      0      0      0
  FAM189B WILD-TYPE     29     18     46     27     23
D868V1, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM189B MUTATED        3      0      0
  FAM189B WILD-TYPE     40     67     36
D868V2, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               3                40
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM189B MUTATED        1      0     10
  FAM189B WILD-TYPE     41    173    137
D868V3, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               1                41
  CLUS_2               0               173
  CLUS_3              10               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM189B MUTATED        3      0      5
  FAM189B WILD-TYPE     59     73     70
D868V4, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM189B MUTATED        2      2      5
  FAM189B WILD-TYPE     68    118     95
D868V5, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               2                68
  CLUS_2               2               118
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM189B MUTATED        1      0      1      1      0      6      0      0
  FAM189B WILD-TYPE     40     26     29     28     39     63     20     14
                   vv
clus                CLUS_9
  FAM189B MUTATED        0
  FAM189B WILD-TYPE     22
D868V6, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM189B MUTATED        0      4      4      3
  FAM189B WILD-TYPE    100     68     68    118
D868V7, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               0               100
  CLUS_2               4                68
  CLUS_3               4                68
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM189B MUTATED        1      0      7      1      2
  FAM189B WILD-TYPE     58     75     67    118     36
D868V8, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               7                67
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM189B MUTATED        0      5      3      0      2
  FAM189B WILD-TYPE     51     71     58     71     93
D868V9, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               0                51
  CLUS_2               5                71
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM189B MUTATED        1      3      0      4      0      0      1      1
  FAM189B WILD-TYPE     68     45     39     12     53     20     20     37
                   vv
clus                CLUS_9
  FAM189B MUTATED        0
  FAM189B WILD-TYPE     50
D868V10, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               4                12
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM189B MUTATED        0      2      0      0      1      0
  FAM189B WILD-TYPE     13     14     14     11     10      9
D868V11, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               0                13
  CLUS_2               2                14
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM189B MUTATED        1      1      0      1      0      0      0      0
  FAM189B WILD-TYPE     10      6      7      8      8      7     11      9
                   vv
clus                CLUS_9
  FAM189B MUTATED        0
  FAM189B WILD-TYPE      5
D868V12, multiclass
        clus
vv       FAM189B MUTATED FAM189B WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(869) Variable = SLC24A2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC24A2 MUTATED        3      0      1      1      0
  SLC24A2 WILD-TYPE     29     18     45     26     23
D869V1, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC24A2 MUTATED        3      2      0
  SLC24A2 WILD-TYPE     40     65     36
D869V2, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC24A2 MUTATED        0      5     12
  SLC24A2 WILD-TYPE     42    168    135
D869V3, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               5               168
  CLUS_3              12               135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC24A2 MUTATED        4      3      5
  SLC24A2 WILD-TYPE     58     70     70
D869V4, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               3                70
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC24A2 MUTATED        2      5      8
  SLC24A2 WILD-TYPE     68    115     92
D869V5, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               5               115
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC24A2 MUTATED        1      0      3      1      3      6      0      0
  SLC24A2 WILD-TYPE     40     26     27     28     36     63     20     14
                   vv
clus                CLUS_9
  SLC24A2 MUTATED        1
  SLC24A2 WILD-TYPE     21
D869V6, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               3                27
  CLUS_4               1                28
  CLUS_5               3                36
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC24A2 MUTATED        4      5      3      5
  SLC24A2 WILD-TYPE     96     67     69    116
D869V7, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               4                96
  CLUS_2               5                67
  CLUS_3               3                69
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC24A2 MUTATED        2      5      5      3      2
  SLC24A2 WILD-TYPE     57     70     69    116     36
D869V8, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               5                70
  CLUS_3               5                69
  CLUS_4               3               116
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC24A2 MUTATED        1      4      3      2      6
  SLC24A2 WILD-TYPE     50     72     58     69     89
D869V9, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               4                72
  CLUS_3               3                58
  CLUS_4               2                69
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC24A2 MUTATED        3      4      0      1      2      2      0      3
  SLC24A2 WILD-TYPE     66     44     39     15     51     18     21     35
                   vv
clus                CLUS_9
  SLC24A2 MUTATED        1
  SLC24A2 WILD-TYPE     49
D869V10, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC24A2 MUTATED        2      0      0      0      1      1
  SLC24A2 WILD-TYPE     11     16     14     11     10      8
D869V11, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               2                11
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC24A2 MUTATED        0      0      1      0      0      0      1      2
  SLC24A2 WILD-TYPE     11      7      6      9      8      7     10      7
                   vv
clus                CLUS_9
  SLC24A2 MUTATED        0
  SLC24A2 WILD-TYPE      5
D869V12, multiclass
        clus
vv       SLC24A2 MUTATED SLC24A2 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               2                 7
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(870) Variable = YES1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  YES1 MUTATED        0      0      0      0      1
  YES1 WILD-TYPE     32     18     46     27     22
D870V1, multiclass
[1] "Remove cluster labels:" "YES1 MUTATED"          
clus
  YES1 MUTATED YES1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AY-4071 
"YES1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  YES1 MUTATED        0      0      1
  YES1 WILD-TYPE     43     67     35
D870V2, multiclass
[1] "Remove cluster labels:" "YES1 MUTATED"          
clus
  YES1 MUTATED YES1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" "YES1 WILD-TYPE" 
    TCGA-AY-4071 
"YES1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  YES1 MUTATED        0      3      6
  YES1 WILD-TYPE     42    170    141
D870V3, multiclass
        clus
vv       YES1 MUTATED YES1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  YES1 MUTATED        4      1      3
  YES1 WILD-TYPE     58     72     72
D870V4, multiclass
        clus
vv       YES1 MUTATED YES1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  YES1 MUTATED        2      1      4
  YES1 WILD-TYPE     68    119     96
D870V5, multiclass
        clus
vv       YES1 MUTATED YES1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  YES1 MUTATED        0      0      0      0      0      4      1      1      1
  YES1 WILD-TYPE     41     26     30     29     39     65     19     13     21
D870V6, multiclass
        clus
vv       YES1 MUTATED YES1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  YES1 MUTATED        1      3      4      1
  YES1 WILD-TYPE     99     69     68    120
D870V7, multiclass
        clus
vv       YES1 MUTATED YES1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            4             68
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  YES1 MUTATED        1      1      6      1      0
  YES1 WILD-TYPE     58     74     68    118     38
D870V8, multiclass
        clus
vv       YES1 MUTATED YES1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            6             68
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  YES1 MUTATED        2      4      2      1      0
  YES1 WILD-TYPE     49     72     59     70     95
D870V9, multiclass
        clus
vv       YES1 MUTATED YES1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  YES1 MUTATED        1      4      1      2      1      0      0      0      0
  YES1 WILD-TYPE     68     44     38     14     52     20     21     38     50
D870V10, multiclass
        clus
vv       YES1 MUTATED YES1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            4             44
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  YES1 MUTATED        0      1      0      0      2      0
  YES1 WILD-TYPE     13     15     14     11      9      9
D870V11, multiclass
        clus
vv       YES1 MUTATED YES1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  YES1 MUTATED        0      1      0      0      0      0      2      0      0
  YES1 WILD-TYPE     11      6      7      9      8      7      9      9      5
D870V12, multiclass
        clus
vv       YES1 MUTATED YES1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(871) Variable = KIAA0649 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0649 MUTATED        1      0      0      1      0
  KIAA0649 WILD-TYPE     31     18     46     26     23
D871V1, multiclass
[1] "Remove cluster labels:" "KIAA0649 MUTATED"      
clus
  KIAA0649 MUTATED KIAA0649 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3819 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3821         TCGA-AA-3831         TCGA-AA-3833 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3837         TCGA-AA-3842         TCGA-AA-3844 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3845         TCGA-AA-3846         TCGA-AA-3848 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3850         TCGA-AA-3851         TCGA-AA-3852 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3854         TCGA-AA-3855         TCGA-AA-3856 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3858         TCGA-AA-3860         TCGA-AA-3861 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3864         TCGA-AA-3866         TCGA-AA-3867 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3869         TCGA-AA-3870         TCGA-AA-3872 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3875         TCGA-AA-3877         TCGA-AA-3930 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3939         TCGA-AA-3941         TCGA-AA-3947 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3949         TCGA-AA-3950         TCGA-AA-3952 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3955         TCGA-AA-3956         TCGA-AA-3966 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3968         TCGA-AA-3971         TCGA-AA-3972 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3973         TCGA-AA-3975         TCGA-AA-3976 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3977         TCGA-AA-3979         TCGA-AA-3980 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3984         TCGA-AA-3986 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0649 MUTATED        1      1      0
  KIAA0649 WILD-TYPE     42     66     36
D871V2, multiclass
[1] "Remove cluster labels:" "KIAA0649 MUTATED"      
clus
  KIAA0649 MUTATED KIAA0649 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3819 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3821         TCGA-AA-3831         TCGA-AA-3833 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3837         TCGA-AA-3842         TCGA-AA-3844 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3845         TCGA-AA-3846         TCGA-AA-3848 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3850         TCGA-AA-3851         TCGA-AA-3852 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3854         TCGA-AA-3855         TCGA-AA-3856 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3858         TCGA-AA-3860         TCGA-AA-3861 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3864         TCGA-AA-3866         TCGA-AA-3867 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3869         TCGA-AA-3870         TCGA-AA-3872 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3875         TCGA-AA-3877         TCGA-AA-3930 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3939         TCGA-AA-3941         TCGA-AA-3947 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3949         TCGA-AA-3950         TCGA-AA-3952 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3955         TCGA-AA-3956         TCGA-AA-3966 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3968         TCGA-AA-3971         TCGA-AA-3972 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3973         TCGA-AA-3975         TCGA-AA-3976 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3977         TCGA-AA-3979         TCGA-AA-3980 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3984         TCGA-AA-3986 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0649 MUTATED        2      0      8
  KIAA0649 WILD-TYPE     40    173    139
D871V3, multiclass
        clus
vv       KIAA0649 MUTATED KIAA0649 WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                0                173
  CLUS_3                8                139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0649 MUTATED        1      0      7
  KIAA0649 WILD-TYPE     61     73     68
D871V4, multiclass
        clus
vv       KIAA0649 MUTATED KIAA0649 WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                0                 73
  CLUS_3                7                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0649 MUTATED        5      1      2
  KIAA0649 WILD-TYPE     65    119     98
D871V5, multiclass
        clus
vv       KIAA0649 MUTATED KIAA0649 WILD-TYPE
  CLUS_1                5                 65
  CLUS_2                1                119
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0649 MUTATED        2      0      0      1      2      2      1      0
  KIAA0649 WILD-TYPE     39     26     30     28     37     67     19     14
                    vv
clus                 CLUS_9
  KIAA0649 MUTATED        0
  KIAA0649 WILD-TYPE     22
D871V6, multiclass
        clus
vv       KIAA0649 MUTATED KIAA0649 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                2                 37
  CLUS_6                2                 67
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0649 MUTATED        0      5      3      2
  KIAA0649 WILD-TYPE    100     67     69    119
D871V7, multiclass
        clus
vv       KIAA0649 MUTATED KIAA0649 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                5                 67
  CLUS_3                3                 69
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0649 MUTATED        1      0      7      2      0
  KIAA0649 WILD-TYPE     58     75     67    117     38
D871V8, multiclass
        clus
vv       KIAA0649 MUTATED KIAA0649 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                0                 75
  CLUS_3                7                 67
  CLUS_4                2                117
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0649 MUTATED        0      6      2      0      2
  KIAA0649 WILD-TYPE     51     70     59     71     93
D871V9, multiclass
        clus
vv       KIAA0649 MUTATED KIAA0649 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                6                 70
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0649 MUTATED        1      1      0      4      1      0      2      1
  KIAA0649 WILD-TYPE     68     47     39     12     52     20     19     37
                    vv
clus                 CLUS_9
  KIAA0649 MUTATED        0
  KIAA0649 WILD-TYPE     50
D871V10, multiclass
        clus
vv       KIAA0649 MUTATED KIAA0649 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                4                 12
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                2                 19
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA0649 MUTATED        0      1      0      0      1      0
  KIAA0649 WILD-TYPE     13     15     14     11     10      9
D871V11, multiclass
[1] "Remove cluster labels:" "KIAA0649 MUTATED"      
clus
  KIAA0649 MUTATED KIAA0649 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-6548         TCGA-AD-6889 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6704         TCGA-F4-6805 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0649 MUTATED        0      0      0      0      1      0      1      0
  KIAA0649 WILD-TYPE     11      7      7      9      7      7     10      9
                    vv
clus                 CLUS_9
  KIAA0649 MUTATED        0
  KIAA0649 WILD-TYPE      5
D871V12, multiclass
[1] "Remove cluster labels:" "KIAA0649 MUTATED"      
clus
  KIAA0649 MUTATED KIAA0649 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-6548         TCGA-AD-6889 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6704         TCGA-F4-6805 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" "KIAA0649 WILD-TYPE" 

Clustering(872) Variable = TCEAL5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCEAL5 MUTATED        0      0      0      0      0
  TCEAL5 WILD-TYPE     32     18     46     27     23
D872V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCEAL5 MUTATED        0      0      0
  TCEAL5 WILD-TYPE     43     67     36
D872V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCEAL5 MUTATED        0      2      3
  TCEAL5 WILD-TYPE     42    171    144
D872V3, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCEAL5 MUTATED        1      1      2
  TCEAL5 WILD-TYPE     61     72     73
D872V4, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCEAL5 MUTATED        1      2      2
  TCEAL5 WILD-TYPE     69    118     98
D872V5, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TCEAL5 MUTATED        1      2      0      0      0      1      1      0
  TCEAL5 WILD-TYPE     40     24     30     29     39     68     19     14
                  vv
clus               CLUS_9
  TCEAL5 MUTATED        0
  TCEAL5 WILD-TYPE     22
D872V6, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCEAL5 MUTATED        1      1      3      0
  TCEAL5 WILD-TYPE     99     71     69    121
D872V7, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              1               71
  CLUS_3              3               69
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCEAL5 MUTATED        1      1      3      0      0
  TCEAL5 WILD-TYPE     58     74     71    119     38
D872V8, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCEAL5 MUTATED        0      2      1      1      1
  TCEAL5 WILD-TYPE     51     74     60     70     94
D872V9, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TCEAL5 MUTATED        2      1      0      1      0      0      1      0
  TCEAL5 WILD-TYPE     67     47     39     15     53     20     20     38
                  vv
clus               CLUS_9
  TCEAL5 MUTATED        0
  TCEAL5 WILD-TYPE     50
D872V10, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TCEAL5 MUTATED        1      0      1      0      1      0
  TCEAL5 WILD-TYPE     12     16     13     11     10      9
D872V11, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TCEAL5 MUTATED        0      0      0      2      1      0      0      0
  TCEAL5 WILD-TYPE     11      7      7      7      7      7     11      9
                  vv
clus               CLUS_9
  TCEAL5 MUTATED        0
  TCEAL5 WILD-TYPE      5
D872V12, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(873) Variable = PIK3R4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3R4 MUTATED        5      0      0      2      1
  PIK3R4 WILD-TYPE     27     18     46     25     22
D873V1, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R4 MUTATED        5      2      1
  PIK3R4 WILD-TYPE     38     65     35
D873V2, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R4 MUTATED        1      4     11
  PIK3R4 WILD-TYPE     41    169    136
D873V3, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R4 MUTATED        1      2      5
  PIK3R4 WILD-TYPE     61     71     70
D873V4, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R4 MUTATED        2      7      5
  PIK3R4 WILD-TYPE     68    113     95
D873V5, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              7              113
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3R4 MUTATED        1      0      2      3      2      5      0      0
  PIK3R4 WILD-TYPE     40     26     28     26     37     64     20     14
                  vv
clus               CLUS_9
  PIK3R4 MUTATED        1
  PIK3R4 WILD-TYPE     21
D873V6, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R4 MUTATED        3      6      0      7
  PIK3R4 WILD-TYPE     97     66     72    114
D873V7, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              6               66
  CLUS_3              0               72
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3R4 MUTATED        1      2      5      4      4
  PIK3R4 WILD-TYPE     58     73     69    115     34
D873V8, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              4              115
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3R4 MUTATED        2      5      1      2      3
  PIK3R4 WILD-TYPE     49     71     60     69     92
D873V9, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3R4 MUTATED        2      2      1      2      2      1      0      2
  PIK3R4 WILD-TYPE     67     46     38     14     51     19     21     36
                  vv
clus               CLUS_9
  PIK3R4 MUTATED        1
  PIK3R4 WILD-TYPE     49
D873V10, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3R4 MUTATED        1      0      0      1      1      0
  PIK3R4 WILD-TYPE     12     16     14     10     10      9
D873V11, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3R4 MUTATED        0      0      1      1      0      0      0      0
  PIK3R4 WILD-TYPE     11      7      6      8      8      7     11      9
                  vv
clus               CLUS_9
  PIK3R4 MUTATED        1
  PIK3R4 WILD-TYPE      4
D873V12, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(874) Variable = MTF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTF1 MUTATED        3      0      0      1      0
  MTF1 WILD-TYPE     29     18     46     26     23
D874V1, multiclass
        clus
vv       MTF1 MUTATED MTF1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTF1 MUTATED        2      1      1
  MTF1 WILD-TYPE     41     66     35
D874V2, multiclass
        clus
vv       MTF1 MUTATED MTF1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTF1 MUTATED        0      2      7
  MTF1 WILD-TYPE     42    171    140
D874V3, multiclass
        clus
vv       MTF1 MUTATED MTF1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTF1 MUTATED        3      0      2
  MTF1 WILD-TYPE     59     73     73
D874V4, multiclass
        clus
vv       MTF1 MUTATED MTF1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTF1 MUTATED        1      1      4
  MTF1 WILD-TYPE     69    119     96
D874V5, multiclass
        clus
vv       MTF1 MUTATED MTF1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTF1 MUTATED        2      0      0      1      1      1      1      0      0
  MTF1 WILD-TYPE     39     26     30     28     38     68     19     14     22
D874V6, multiclass
        clus
vv       MTF1 MUTATED MTF1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTF1 MUTATED        0      1      4      4
  MTF1 WILD-TYPE    100     71     68    117
D874V7, multiclass
        clus
vv       MTF1 MUTATED MTF1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            4             68
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTF1 MUTATED        2      1      2      2      2
  MTF1 WILD-TYPE     57     74     72    117     36
D874V8, multiclass
        clus
vv       MTF1 MUTATED MTF1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            2             72
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTF1 MUTATED        0      3      2      2      2
  MTF1 WILD-TYPE     51     73     59     69     93
D874V9, multiclass
        clus
vv       MTF1 MUTATED MTF1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTF1 MUTATED        1      4      0      0      1      0      0      2      1
  MTF1 WILD-TYPE     68     44     39     16     52     20     21     36     49
D874V10, multiclass
        clus
vv       MTF1 MUTATED MTF1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MTF1 MUTATED        0      0      0      1      0      0
  MTF1 WILD-TYPE     13     16     14     10     11      9
D874V11, multiclass
[1] "Remove cluster labels:" "MTF1 MUTATED"          
clus
  MTF1 MUTATED MTF1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-G4-6628 
"MTF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTF1 MUTATED        0      0      0      0      0      0      1      0      0
  MTF1 WILD-TYPE     11      7      7      9      8      7     10      9      5
D874V12, multiclass
[1] "Remove cluster labels:" "MTF1 MUTATED"          
clus
  MTF1 MUTATED MTF1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" "MTF1 WILD-TYPE" 
    TCGA-G4-6628 
"MTF1 WILD-TYPE" 

Clustering(875) Variable = GAPVD1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAPVD1 MUTATED        2      0      0      1      1
  GAPVD1 WILD-TYPE     30     18     46     26     22
D875V1, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAPVD1 MUTATED        2      1      1
  GAPVD1 WILD-TYPE     41     66     35
D875V2, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAPVD1 MUTATED        1      5     15
  GAPVD1 WILD-TYPE     41    168    132
D875V3, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3             15              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAPVD1 MUTATED        9      4      5
  GAPVD1 WILD-TYPE     53     69     70
D875V4, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              9               53
  CLUS_2              4               69
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAPVD1 MUTATED        4      5      9
  GAPVD1 WILD-TYPE     66    115     91
D875V5, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              5              115
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GAPVD1 MUTATED        1      2      1      0      1      9      2      1
  GAPVD1 WILD-TYPE     40     24     29     29     38     60     18     13
                  vv
clus               CLUS_9
  GAPVD1 MUTATED        1
  GAPVD1 WILD-TYPE     21
D875V6, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              9               60
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAPVD1 MUTATED        4      6      8      4
  GAPVD1 WILD-TYPE     96     66     64    117
D875V7, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              6               66
  CLUS_3              8               64
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAPVD1 MUTATED        4      4     10      2      2
  GAPVD1 WILD-TYPE     55     71     64    117     36
D875V8, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              4               71
  CLUS_3             10               64
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAPVD1 MUTATED        2      7      7      2      4
  GAPVD1 WILD-TYPE     49     69     54     69     91
D875V9, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              7               69
  CLUS_3              7               54
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GAPVD1 MUTATED        3      7      1      2      3      2      1      3
  GAPVD1 WILD-TYPE     66     41     38     14     50     18     20     35
                  vv
clus               CLUS_9
  GAPVD1 MUTATED        0
  GAPVD1 WILD-TYPE     50
D875V10, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              7               41
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GAPVD1 MUTATED        0      2      1      0      2      0
  GAPVD1 WILD-TYPE     13     14     13     11      9      9
D875V11, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GAPVD1 MUTATED        2      0      0      1      1      0      1      0
  GAPVD1 WILD-TYPE      9      7      7      8      7      7     10      9
                  vv
clus               CLUS_9
  GAPVD1 MUTATED        0
  GAPVD1 WILD-TYPE      5
D875V12, multiclass
        clus
vv       GAPVD1 MUTATED GAPVD1 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(876) Variable = CCDC3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC3 MUTATED        0      0      0      0      0
  CCDC3 WILD-TYPE     32     18     46     27     23
D876V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCDC3 MUTATED        0      0      0
  CCDC3 WILD-TYPE     43     67     36
D876V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCDC3 MUTATED        0      1      3
  CCDC3 WILD-TYPE     42    172    144
D876V3, multiclass
        clus
vv       CCDC3 MUTATED CCDC3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCDC3 MUTATED        0      3      1
  CCDC3 WILD-TYPE     62     70     74
D876V4, multiclass
        clus
vv       CCDC3 MUTATED CCDC3 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             3              70
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCDC3 MUTATED        1      1      2
  CCDC3 WILD-TYPE     69    119     98
D876V5, multiclass
        clus
vv       CCDC3 MUTATED CCDC3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC3 MUTATED        0      0      0      0      1      3      0      0
  CCDC3 WILD-TYPE     41     26     30     29     38     66     20     14
                 vv
clus              CLUS_9
  CCDC3 MUTATED        0
  CCDC3 WILD-TYPE     22
D876V6, multiclass
        clus
vv       CCDC3 MUTATED CCDC3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC3 MUTATED        3      1      0      0
  CCDC3 WILD-TYPE     97     71     72    121
D876V7, multiclass
        clus
vv       CCDC3 MUTATED CCDC3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             1              71
  CLUS_3             0              72
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC3 MUTATED        2      1      1      0      0
  CCDC3 WILD-TYPE     57     74     73    119     38
D876V8, multiclass
        clus
vv       CCDC3 MUTATED CCDC3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC3 MUTATED        1      2      0      1      0
  CCDC3 WILD-TYPE     50     74     61     70     95
D876V9, multiclass
        clus
vv       CCDC3 MUTATED CCDC3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC3 MUTATED        3      0      0      0      1      0      0      0
  CCDC3 WILD-TYPE     66     48     39     16     52     20     21     38
                 vv
clus              CLUS_9
  CCDC3 MUTATED        0
  CCDC3 WILD-TYPE     50
D876V10, multiclass
        clus
vv       CCDC3 MUTATED CCDC3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC3 MUTATED        0      0      0      1      0      0
  CCDC3 WILD-TYPE     13     16     14     10     11      9
D876V11, multiclass
[1] "Remove cluster labels:" "CCDC3 MUTATED"         
clus
  CCDC3 MUTATED CCDC3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6679 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-G4-6628 
"CCDC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC3 MUTATED        0      0      0      0      0      0      1      0
  CCDC3 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  CCDC3 MUTATED        0
  CCDC3 WILD-TYPE      5
D876V12, multiclass
[1] "Remove cluster labels:" "CCDC3 MUTATED"         
clus
  CCDC3 MUTATED CCDC3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6679 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" "CCDC3 WILD-TYPE" 
     TCGA-G4-6628 
"CCDC3 WILD-TYPE" 

Clustering(877) Variable = SERPINA9 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SERPINA9 MUTATED        0      0      0      0      0
  SERPINA9 WILD-TYPE     32     18     46     27     23
D877V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINA9 MUTATED        0      0      0
  SERPINA9 WILD-TYPE     43     67     36
D877V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINA9 MUTATED        2      4      4
  SERPINA9 WILD-TYPE     40    169    143
D877V3, multiclass
        clus
vv       SERPINA9 MUTATED SERPINA9 WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                4                169
  CLUS_3                4                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINA9 MUTATED        5      3      2
  SERPINA9 WILD-TYPE     57     70     73
D877V4, multiclass
        clus
vv       SERPINA9 MUTATED SERPINA9 WILD-TYPE
  CLUS_1                5                 57
  CLUS_2                3                 70
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINA9 MUTATED        1      5      3
  SERPINA9 WILD-TYPE     69    115     97
D877V5, multiclass
        clus
vv       SERPINA9 MUTATED SERPINA9 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                5                115
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SERPINA9 MUTATED        0      1      0      2      2      3      0      0
  SERPINA9 WILD-TYPE     41     25     30     27     37     66     20     14
                    vv
clus                 CLUS_9
  SERPINA9 MUTATED        1
  SERPINA9 WILD-TYPE     21
D877V6, multiclass
        clus
vv       SERPINA9 MUTATED SERPINA9 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                2                 27
  CLUS_5                2                 37
  CLUS_6                3                 66
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SERPINA9 MUTATED        2      3      5      0
  SERPINA9 WILD-TYPE     98     69     67    121
D877V7, multiclass
        clus
vv       SERPINA9 MUTATED SERPINA9 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                3                 69
  CLUS_3                5                 67
  CLUS_4                0                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SERPINA9 MUTATED        5      1      4      0      0
  SERPINA9 WILD-TYPE     54     74     70    119     38
D877V8, multiclass
        clus
vv       SERPINA9 MUTATED SERPINA9 WILD-TYPE
  CLUS_1                5                 54
  CLUS_2                1                 74
  CLUS_3                4                 70
  CLUS_4                0                119
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SERPINA9 MUTATED        1      6      3      0      0
  SERPINA9 WILD-TYPE     50     70     58     71     95
D877V9, multiclass
        clus
vv       SERPINA9 MUTATED SERPINA9 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                6                 70
  CLUS_3                3                 58
  CLUS_4                0                 71
  CLUS_5                0                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SERPINA9 MUTATED        3      3      0      2      1      1      0      0
  SERPINA9 WILD-TYPE     66     45     39     14     52     19     21     38
                    vv
clus                 CLUS_9
  SERPINA9 MUTATED        0
  SERPINA9 WILD-TYPE     50
D877V10, multiclass
        clus
vv       SERPINA9 MUTATED SERPINA9 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                1                 52
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SERPINA9 MUTATED        0      1      0      0      2      1
  SERPINA9 WILD-TYPE     13     15     14     11      9      8
D877V11, multiclass
        clus
vv       SERPINA9 MUTATED SERPINA9 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                2                  9
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SERPINA9 MUTATED        1      1      0      1      0      0      1      0
  SERPINA9 WILD-TYPE     10      6      7      8      8      7     10      9
                    vv
clus                 CLUS_9
  SERPINA9 MUTATED        0
  SERPINA9 WILD-TYPE      5
D877V12, multiclass
        clus
vv       SERPINA9 MUTATED SERPINA9 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                1                  6
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(878) Variable = ZC3H12C MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZC3H12C MUTATED        5      0      1      2      0
  ZC3H12C WILD-TYPE     27     18     45     25     23
D878V1, multiclass
        clus
vv       ZC3H12C MUTATED ZC3H12C WILD-TYPE
  CLUS_1               5                27
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZC3H12C MUTATED        5      1      2
  ZC3H12C WILD-TYPE     38     66     34
D878V2, multiclass
        clus
vv       ZC3H12C MUTATED ZC3H12C WILD-TYPE
  CLUS_1               5                38
  CLUS_2               1                66
  CLUS_3               2                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZC3H12C MUTATED        1      1     10
  ZC3H12C WILD-TYPE     41    172    137
D878V3, multiclass
        clus
vv       ZC3H12C MUTATED ZC3H12C WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3              10               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZC3H12C MUTATED        3      0      1
  ZC3H12C WILD-TYPE     59     73     74
D878V4, multiclass
        clus
vv       ZC3H12C MUTATED ZC3H12C WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZC3H12C MUTATED        0      2      6
  ZC3H12C WILD-TYPE     70    118     94
D878V5, multiclass
        clus
vv       ZC3H12C MUTATED ZC3H12C WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZC3H12C MUTATED        1      0      1      0      1      5      0      0
  ZC3H12C WILD-TYPE     40     26     29     29     38     64     20     14
                   vv
clus                CLUS_9
  ZC3H12C MUTATED        0
  ZC3H12C WILD-TYPE     22
D878V6, multiclass
        clus
vv       ZC3H12C MUTATED ZC3H12C WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZC3H12C MUTATED        0      3      1      8
  ZC3H12C WILD-TYPE    100     69     71    113
D878V7, multiclass
        clus
vv       ZC3H12C MUTATED ZC3H12C WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               1                71
  CLUS_4               8               113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZC3H12C MUTATED        1      1      2      4      4
  ZC3H12C WILD-TYPE     58     74     72    115     34
D878V8, multiclass
        clus
vv       ZC3H12C MUTATED ZC3H12C WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               4               115
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZC3H12C MUTATED        0      2      1      3      5
  ZC3H12C WILD-TYPE     51     74     60     68     90
D878V9, multiclass
        clus
vv       ZC3H12C MUTATED ZC3H12C WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               3                68
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZC3H12C MUTATED        2      1      0      0      2      1      1      2
  ZC3H12C WILD-TYPE     67     47     39     16     51     19     20     36
                   vv
clus                CLUS_9
  ZC3H12C MUTATED        2
  ZC3H12C WILD-TYPE     48
D878V10, multiclass
        clus
vv       ZC3H12C MUTATED ZC3H12C WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               2                36
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZC3H12C MUTATED        0      0      0      0      0      0
  ZC3H12C WILD-TYPE     13     16     14     11     11      9
D878V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZC3H12C MUTATED        0      0      0      0      0      0      0      0
  ZC3H12C WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  ZC3H12C MUTATED        0
  ZC3H12C WILD-TYPE      5
D878V12, multiclass

Clustering(879) Variable = PRRT2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRRT2 MUTATED        0      0      0      0      0
  PRRT2 WILD-TYPE     32     18     46     27     23
D879V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRRT2 MUTATED        0      0      0
  PRRT2 WILD-TYPE     43     67     36
D879V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRRT2 MUTATED        0      2      4
  PRRT2 WILD-TYPE     42    171    143
D879V3, multiclass
        clus
vv       PRRT2 MUTATED PRRT2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRRT2 MUTATED        1      1      4
  PRRT2 WILD-TYPE     61     72     71
D879V4, multiclass
        clus
vv       PRRT2 MUTATED PRRT2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRRT2 MUTATED        1      1      2
  PRRT2 WILD-TYPE     69    119     98
D879V5, multiclass
        clus
vv       PRRT2 MUTATED PRRT2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRRT2 MUTATED        1      0      0      0      0      2      1      0
  PRRT2 WILD-TYPE     40     26     30     29     39     67     19     14
                 vv
clus              CLUS_9
  PRRT2 MUTATED        0
  PRRT2 WILD-TYPE     22
D879V6, multiclass
        clus
vv       PRRT2 MUTATED PRRT2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRRT2 MUTATED        2      3      1      0
  PRRT2 WILD-TYPE     98     69     71    121
D879V7, multiclass
        clus
vv       PRRT2 MUTATED PRRT2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRRT2 MUTATED        0      2      4      0      0
  PRRT2 WILD-TYPE     59     73     70    119     38
D879V8, multiclass
        clus
vv       PRRT2 MUTATED PRRT2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRRT2 MUTATED        0      5      0      1      0
  PRRT2 WILD-TYPE     51     71     61     70     95
D879V9, multiclass
        clus
vv       PRRT2 MUTATED PRRT2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRRT2 MUTATED        1      1      0      2      2      0      0      0
  PRRT2 WILD-TYPE     68     47     39     14     51     20     21     38
                 vv
clus              CLUS_9
  PRRT2 MUTATED        0
  PRRT2 WILD-TYPE     50
D879V10, multiclass
        clus
vv       PRRT2 MUTATED PRRT2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRRT2 MUTATED        1      1      0      0      0      0
  PRRT2 WILD-TYPE     12     15     14     11     11      9
D879V11, multiclass
[1] "Remove cluster labels:" "PRRT2 MUTATED"         
clus
  PRRT2 MUTATED PRRT2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRRT2 MUTATED        0      0      0      1      0      0      1      0
  PRRT2 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  PRRT2 MUTATED        0
  PRRT2 WILD-TYPE      5
D879V12, multiclass
[1] "Remove cluster labels:" "PRRT2 MUTATED"         
clus
  PRRT2 MUTATED PRRT2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" "PRRT2 WILD-TYPE" 

Clustering(880) Variable = H2AFJ MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  H2AFJ MUTATED        0      0      0      0      0
  H2AFJ WILD-TYPE     32     18     46     27     23
D880V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  H2AFJ MUTATED        0      0      0
  H2AFJ WILD-TYPE     43     67     36
D880V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  H2AFJ MUTATED        1      0      2
  H2AFJ WILD-TYPE     41    173    145
D880V3, multiclass
        clus
vv       H2AFJ MUTATED H2AFJ WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  H2AFJ MUTATED        1      0      2
  H2AFJ WILD-TYPE     61     73     73
D880V4, multiclass
        clus
vv       H2AFJ MUTATED H2AFJ WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  H2AFJ MUTATED        2      0      0
  H2AFJ WILD-TYPE     68    120    100
D880V5, multiclass
[1] "Remove cluster labels:" "H2AFJ MUTATED"         
clus
  H2AFJ MUTATED H2AFJ WILD-TYPE 
              2             288 
     TCGA-A6-2671      TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-A6-5656      TCGA-A6-5657 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-5659      TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-5664      TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3489      TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3510      TCGA-AA-3511      TCGA-AA-3514      TCGA-AA-3517 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3525      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3548      TCGA-AA-3552 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3558 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3655 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3681 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696      TCGA-AA-3697 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3712      TCGA-AA-3715      TCGA-AA-3811 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848      TCGA-AA-3850 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856      TCGA-AA-3861 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869      TCGA-AA-3872 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3950      TCGA-AA-3955 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00E      TCGA-AA-A00F 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01P 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S      TCGA-AA-A01T 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022      TCGA-AA-A024 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H      TCGA-AA-A02J 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A02K      TCGA-AA-A02O      TCGA-AA-A02W      TCGA-AA-A02Y 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AD-5900      TCGA-AD-6548 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AD-6889      TCGA-AD-6899      TCGA-AD-6965      TCGA-AU-6004 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197      TCGA-AY-6386 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-4682 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CA-5796      TCGA-CA-5797      TCGA-CA-6715      TCGA-CA-6716 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CA-6717      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5914 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861      TCGA-CM-5862 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868      TCGA-CM-6161 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164      TCGA-CM-6165 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168      TCGA-CM-6169 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172      TCGA-CM-6674 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5538      TCGA-D5-5539 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-5540      TCGA-D5-5541      TCGA-D5-6529      TCGA-D5-6532 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6535      TCGA-D5-6536 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-6537      TCGA-D5-6538      TCGA-D5-6539      TCGA-D5-6540 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-6541      TCGA-D5-6898      TCGA-D5-6920      TCGA-D5-6922 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-6923      TCGA-D5-6924      TCGA-D5-6926      TCGA-D5-6927 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-6928      TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-DM-A0X9      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D4 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA      TCGA-DM-A1HB 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A28C      TCGA-DM-A28E      TCGA-DM-A28F 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-DM-A28G      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704      TCGA-F4-6805 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856      TCGA-G4-6293 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304      TCGA-G4-6306 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310      TCGA-G4-6315 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323      TCGA-G4-6586 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  H2AFJ MUTATED        0      0      0      0      2      0      0      0
  H2AFJ WILD-TYPE     41     26     30     29     37     69     20     14
                 vv
clus              CLUS_9
  H2AFJ MUTATED        0
  H2AFJ WILD-TYPE     22
D880V6, multiclass
[1] "Remove cluster labels:" "H2AFJ MUTATED"         
clus
  H2AFJ MUTATED H2AFJ WILD-TYPE 
              2             288 
     TCGA-A6-2671      TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-A6-5656      TCGA-A6-5657 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-5659      TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-5664      TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3489      TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3510      TCGA-AA-3511      TCGA-AA-3514      TCGA-AA-3517 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3525      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3548      TCGA-AA-3552 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3558 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3655 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3681 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696      TCGA-AA-3697 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3712      TCGA-AA-3715      TCGA-AA-3811 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848      TCGA-AA-3850 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856      TCGA-AA-3861 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869      TCGA-AA-3872 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3950      TCGA-AA-3955 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00E      TCGA-AA-A00F 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01P 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S      TCGA-AA-A01T 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022      TCGA-AA-A024 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H      TCGA-AA-A02J 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A02K      TCGA-AA-A02O      TCGA-AA-A02W      TCGA-AA-A02Y 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AD-5900      TCGA-AD-6548 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AD-6889      TCGA-AD-6899      TCGA-AD-6965      TCGA-AU-6004 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197      TCGA-AY-6386 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-4682 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CA-5796      TCGA-CA-5797      TCGA-CA-6715      TCGA-CA-6716 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CA-6717      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5914 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861      TCGA-CM-5862 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868      TCGA-CM-6161 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164      TCGA-CM-6165 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168      TCGA-CM-6169 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172      TCGA-CM-6674 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5538      TCGA-D5-5539 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-5540      TCGA-D5-5541      TCGA-D5-6529      TCGA-D5-6532 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6535      TCGA-D5-6536 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-6537      TCGA-D5-6538      TCGA-D5-6539      TCGA-D5-6540 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-6541      TCGA-D5-6898      TCGA-D5-6920      TCGA-D5-6922 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-6923      TCGA-D5-6924      TCGA-D5-6926      TCGA-D5-6927 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-D5-6928      TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-DM-A0X9      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D4 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA      TCGA-DM-A1HB 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A28C      TCGA-DM-A28E      TCGA-DM-A28F 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-DM-A28G      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704      TCGA-F4-6805 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856      TCGA-G4-6293 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304      TCGA-G4-6306 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310      TCGA-G4-6315 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323      TCGA-G4-6586 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" "H2AFJ WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  H2AFJ MUTATED        0      2      1      0
  H2AFJ WILD-TYPE    100     70     71    121
D880V7, multiclass
        clus
vv       H2AFJ MUTATED H2AFJ WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  H2AFJ MUTATED        1      0      2      0      0
  H2AFJ WILD-TYPE     58     75     72    119     38
D880V8, multiclass
        clus
vv       H2AFJ MUTATED H2AFJ WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  H2AFJ MUTATED        0      2      1      0      0
  H2AFJ WILD-TYPE     51     74     60     71     95
D880V9, multiclass
        clus
vv       H2AFJ MUTATED H2AFJ WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  H2AFJ MUTATED        1      0      0      1      1      0      0      0
  H2AFJ WILD-TYPE     68     48     39     15     52     20     21     38
                 vv
clus              CLUS_9
  H2AFJ MUTATED        0
  H2AFJ WILD-TYPE     50
D880V10, multiclass
        clus
vv       H2AFJ MUTATED H2AFJ WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  H2AFJ MUTATED        0      0      0      0      0      0
  H2AFJ WILD-TYPE     13     16     14     11     11      9
D880V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  H2AFJ MUTATED        0      0      0      0      0      0      0      0
  H2AFJ WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  H2AFJ MUTATED        0
  H2AFJ WILD-TYPE      5
D880V12, multiclass

Clustering(881) Variable = SLC25A44 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC25A44 MUTATED        2      0      0      0      0
  SLC25A44 WILD-TYPE     30     18     46     27     23
D881V1, multiclass
[1] "Remove cluster labels:" "SLC25A44 MUTATED"      
clus
  SLC25A44 MUTATED SLC25A44 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3968         TCGA-AA-3971 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A024         TCGA-AA-A029 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A44 MUTATED        2      0      0
  SLC25A44 WILD-TYPE     41     67     36
D881V2, multiclass
[1] "Remove cluster labels:" "SLC25A44 MUTATED"      
clus
  SLC25A44 MUTATED SLC25A44 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3968         TCGA-AA-3971 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A024         TCGA-AA-A029 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" "SLC25A44 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A44 MUTATED        0      2      3
  SLC25A44 WILD-TYPE     42    171    144
D881V3, multiclass
        clus
vv       SLC25A44 MUTATED SLC25A44 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                2                171
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A44 MUTATED        1      2      0
  SLC25A44 WILD-TYPE     61     71     75
D881V4, multiclass
        clus
vv       SLC25A44 MUTATED SLC25A44 WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                2                 71
  CLUS_3                0                 75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC25A44 MUTATED        0      2      2
  SLC25A44 WILD-TYPE     70    118     98
D881V5, multiclass
        clus
vv       SLC25A44 MUTATED SLC25A44 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                118
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC25A44 MUTATED        0      0      0      1      0      1      1      0
  SLC25A44 WILD-TYPE     41     26     30     28     39     68     19     14
                    vv
clus                 CLUS_9
  SLC25A44 MUTATED        1
  SLC25A44 WILD-TYPE     21
D881V6, multiclass
        clus
vv       SLC25A44 MUTATED SLC25A44 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                1                 68
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC25A44 MUTATED        1      0      2      2
  SLC25A44 WILD-TYPE     99     72     70    119
D881V7, multiclass
        clus
vv       SLC25A44 MUTATED SLC25A44 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                0                 72
  CLUS_3                2                 70
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC25A44 MUTATED        1      1      1      0      2
  SLC25A44 WILD-TYPE     58     74     73    119     36
D881V8, multiclass
        clus
vv       SLC25A44 MUTATED SLC25A44 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                1                 74
  CLUS_3                1                 73
  CLUS_4                0                119
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC25A44 MUTATED        1      2      0      0      1
  SLC25A44 WILD-TYPE     50     74     61     71     94
D881V9, multiclass
        clus
vv       SLC25A44 MUTATED SLC25A44 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                2                 74
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC25A44 MUTATED        0      1      1      0      1      0      0      1
  SLC25A44 WILD-TYPE     69     47     38     16     52     20     21     37
                    vv
clus                 CLUS_9
  SLC25A44 MUTATED        0
  SLC25A44 WILD-TYPE     50
D881V10, multiclass
        clus
vv       SLC25A44 MUTATED SLC25A44 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                1                 47
  CLUS_3                1                 38
  CLUS_4                0                 16
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC25A44 MUTATED        0      0      0      0      0      0
  SLC25A44 WILD-TYPE     13     16     14     11     11      9
D881V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC25A44 MUTATED        0      0      0      0      0      0      0      0
  SLC25A44 WILD-TYPE     11      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  SLC25A44 MUTATED        0
  SLC25A44 WILD-TYPE      5
D881V12, multiclass

Clustering(882) Variable = CHD1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD1 MUTATED        6      0      0      2      1
  CHD1 WILD-TYPE     26     18     46     25     22
D882V1, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD1 MUTATED        8      0      1
  CHD1 WILD-TYPE     35     67     35
D882V2, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            8             35
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD1 MUTATED        0      5     17
  CHD1 WILD-TYPE     42    168    130
D882V3, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            5            168
  CLUS_3           17            130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD1 MUTATED        8      0      6
  CHD1 WILD-TYPE     54     73     69
D882V4, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            8             54
  CLUS_2            0             73
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD1 MUTATED        4      4     12
  CHD1 WILD-TYPE     66    116     88
D882V5, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            4             66
  CLUS_2            4            116
  CLUS_3           12             88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD1 MUTATED        5      0      0      1      4      7      2      0      1
  CHD1 WILD-TYPE     36     26     30     28     35     62     18     14     21
D882V6, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            5             36
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            4             35
  CLUS_6            7             62
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD1 MUTATED        3      5      7      8
  CHD1 WILD-TYPE     97     67     65    113
D882V7, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            5             67
  CLUS_3            7             65
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD1 MUTATED        3      3      9      3      5
  CHD1 WILD-TYPE     56     72     65    116     33
D882V8, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            3             72
  CLUS_3            9             65
  CLUS_4            3            116
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD1 MUTATED        2      6      4      2      8
  CHD1 WILD-TYPE     49     70     57     69     87
D882V9, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD1 MUTATED        3      8      1      0      0      1      1      6      2
  CHD1 WILD-TYPE     66     40     38     16     53     19     20     32     48
D882V10, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            8             40
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            6             32
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHD1 MUTATED        0      1      1      1      2      1
  CHD1 WILD-TYPE     13     15     13     10      9      8
D882V11, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD1 MUTATED        0      0      0      0      1      0      4      1      0
  CHD1 WILD-TYPE     11      7      7      9      7      7      7      8      5
D882V12, multiclass
        clus
vv       CHD1 MUTATED CHD1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            4              7
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(883) Variable = ZBTB33 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB33 MUTATED        2      0      0      0      1
  ZBTB33 WILD-TYPE     30     18     46     27     22
D883V1, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB33 MUTATED        2      0      1
  ZBTB33 WILD-TYPE     41     67     35
D883V2, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB33 MUTATED        1      2     13
  ZBTB33 WILD-TYPE     41    171    134
D883V3, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB33 MUTATED        3      2      6
  ZBTB33 WILD-TYPE     59     71     69
D883V4, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB33 MUTATED        2      5      8
  ZBTB33 WILD-TYPE     68    115     92
D883V5, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB33 MUTATED        0      3      1      0      2      6      3      0
  ZBTB33 WILD-TYPE     41     23     29     29     37     63     17     14
                  vv
clus               CLUS_9
  ZBTB33 MUTATED        0
  ZBTB33 WILD-TYPE     22
D883V6, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              3               23
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZBTB33 MUTATED        2      5      4      5
  ZBTB33 WILD-TYPE     98     67     68    116
D883V7, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              5               67
  CLUS_3              4               68
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB33 MUTATED        1      3      7      2      3
  ZBTB33 WILD-TYPE     58     72     67    117     35
D883V8, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB33 MUTATED        3      7      0      0      6
  ZBTB33 WILD-TYPE     48     69     61     71     89
D883V9, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              7               69
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB33 MUTATED        3      2      0      2      2      1      1      3
  ZBTB33 WILD-TYPE     66     46     39     14     51     19     20     35
                  vv
clus               CLUS_9
  ZBTB33 MUTATED        2
  ZBTB33 WILD-TYPE     48
D883V10, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZBTB33 MUTATED        0      0      0      0      3      0
  ZBTB33 WILD-TYPE     13     16     14     11      8      9
D883V11, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZBTB33 MUTATED        0      0      0      1      0      0      2      0
  ZBTB33 WILD-TYPE     11      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  ZBTB33 MUTATED        0
  ZBTB33 WILD-TYPE      5
D883V12, multiclass
        clus
vv       ZBTB33 MUTATED ZBTB33 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(884) Variable = ZNF691 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF691 MUTATED        1      0      0      0      0
  ZNF691 WILD-TYPE     31     18     46     27     23
D884V1, multiclass
[1] "Remove cluster labels:" "ZNF691 MUTATED"        
clus
  ZNF691 MUTATED ZNF691 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3517 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF691 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF691 MUTATED        1      0      0
  ZNF691 WILD-TYPE     42     67     36
D884V2, multiclass
[1] "Remove cluster labels:" "ZNF691 MUTATED"        
clus
  ZNF691 MUTATED ZNF691 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3517 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" "ZNF691 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF691 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF691 MUTATED        1      2      4
  ZNF691 WILD-TYPE     41    171    143
D884V3, multiclass
        clus
vv       ZNF691 MUTATED ZNF691 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF691 MUTATED        2      2      2
  ZNF691 WILD-TYPE     60     71     73
D884V4, multiclass
        clus
vv       ZNF691 MUTATED ZNF691 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF691 MUTATED        0      3      2
  ZNF691 WILD-TYPE     70    117     98
D884V5, multiclass
        clus
vv       ZNF691 MUTATED ZNF691 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF691 MUTATED        0      1      0      2      0      1      1      0
  ZNF691 WILD-TYPE     41     25     30     27     39     68     19     14
                  vv
clus               CLUS_9
  ZNF691 MUTATED        0
  ZNF691 WILD-TYPE     22
D884V6, multiclass
        clus
vv       ZNF691 MUTATED ZNF691 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF691 MUTATED        2      3      1      1
  ZNF691 WILD-TYPE     98     69     71    120
D884V7, multiclass
        clus
vv       ZNF691 MUTATED ZNF691 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF691 MUTATED        1      2      3      0      1
  ZNF691 WILD-TYPE     58     73     71    119     37
D884V8, multiclass
        clus
vv       ZNF691 MUTATED ZNF691 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF691 MUTATED        0      5      0      1      1
  ZNF691 WILD-TYPE     51     71     61     70     94
D884V9, multiclass
        clus
vv       ZNF691 MUTATED ZNF691 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF691 MUTATED        0      1      2      3      0      0      0      1
  ZNF691 WILD-TYPE     69     47     37     13     53     20     21     37
                  vv
clus               CLUS_9
  ZNF691 MUTATED        0
  ZNF691 WILD-TYPE     50
D884V10, multiclass
        clus
vv       ZNF691 MUTATED ZNF691 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              2               37
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF691 MUTATED        1      0      0      1      1      0
  ZNF691 WILD-TYPE     12     16     14     10     10      9
D884V11, multiclass
        clus
vv       ZNF691 MUTATED ZNF691 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF691 MUTATED        0      0      0      1      0      0      1      1
  ZNF691 WILD-TYPE     11      7      7      8      8      7     10      8
                  vv
clus               CLUS_9
  ZNF691 MUTATED        0
  ZNF691 WILD-TYPE      5
D884V12, multiclass
        clus
vv       ZNF691 MUTATED ZNF691 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(885) Variable = EFTUD2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFTUD2 MUTATED        3      0      1      0      0
  EFTUD2 WILD-TYPE     29     18     45     27     23
D885V1, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFTUD2 MUTATED        3      0      1
  EFTUD2 WILD-TYPE     40     67     35
D885V2, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFTUD2 MUTATED        0      4     10
  EFTUD2 WILD-TYPE     42    169    137
D885V3, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFTUD2 MUTATED        5      1      4
  EFTUD2 WILD-TYPE     57     72     71
D885V4, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFTUD2 MUTATED        0      5      4
  EFTUD2 WILD-TYPE     70    115     96
D885V5, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              115
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFTUD2 MUTATED        0      1      1      0      2      3      0      1
  EFTUD2 WILD-TYPE     41     25     29     29     37     66     20     13
                  vv
clus               CLUS_9
  EFTUD2 MUTATED        1
  EFTUD2 WILD-TYPE     21
D885V6, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EFTUD2 MUTATED        4      2      3      5
  EFTUD2 WILD-TYPE     96     70     69    116
D885V7, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFTUD2 MUTATED        1      2      5      2      4
  EFTUD2 WILD-TYPE     58     73     69    117     34
D885V8, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              2              117
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFTUD2 MUTATED        1      3      1      3      6
  EFTUD2 WILD-TYPE     50     73     60     68     89
D885V9, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFTUD2 MUTATED        1      2      1      1      3      1      0      4
  EFTUD2 WILD-TYPE     68     46     38     15     50     19     21     34
                  vv
clus               CLUS_9
  EFTUD2 MUTATED        1
  EFTUD2 WILD-TYPE     49
D885V10, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              4               34
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EFTUD2 MUTATED        0      0      3      1      1      1
  EFTUD2 WILD-TYPE     13     16     11     10     10      8
D885V11, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              3               11
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFTUD2 MUTATED        0      0      0      0      1      1      1      2
  EFTUD2 WILD-TYPE     11      7      7      9      7      6     10      7
                  vv
clus               CLUS_9
  EFTUD2 MUTATED        1
  EFTUD2 WILD-TYPE      4
D885V12, multiclass
        clus
vv       EFTUD2 MUTATED EFTUD2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              2                7
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(886) Variable = METTL9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  METTL9 MUTATED        0      0      0      0      0
  METTL9 WILD-TYPE     32     18     46     27     23
D886V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  METTL9 MUTATED        0      0      0
  METTL9 WILD-TYPE     43     67     36
D886V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  METTL9 MUTATED        0      1      3
  METTL9 WILD-TYPE     42    172    144
D886V3, multiclass
        clus
vv       METTL9 MUTATED METTL9 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  METTL9 MUTATED        3      0      1
  METTL9 WILD-TYPE     59     73     74
D886V4, multiclass
        clus
vv       METTL9 MUTATED METTL9 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  METTL9 MUTATED        0      1      2
  METTL9 WILD-TYPE     70    119     98
D886V5, multiclass
        clus
vv       METTL9 MUTATED METTL9 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  METTL9 MUTATED        1      0      0      1      0      1      0      0
  METTL9 WILD-TYPE     40     26     30     28     39     68     20     14
                  vv
clus               CLUS_9
  METTL9 MUTATED        0
  METTL9 WILD-TYPE     22
D886V6, multiclass
        clus
vv       METTL9 MUTATED METTL9 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  METTL9 MUTATED        1      1      2      0
  METTL9 WILD-TYPE     99     71     70    121
D886V7, multiclass
        clus
vv       METTL9 MUTATED METTL9 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  METTL9 MUTATED        1      1      2      0      0
  METTL9 WILD-TYPE     58     74     72    119     38
D886V8, multiclass
        clus
vv       METTL9 MUTATED METTL9 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  METTL9 MUTATED        0      3      1      0      0
  METTL9 WILD-TYPE     51     73     60     71     95
D886V9, multiclass
        clus
vv       METTL9 MUTATED METTL9 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  METTL9 MUTATED        1      3      0      0      0      0      0      0
  METTL9 WILD-TYPE     68     45     39     16     53     20     21     38
                  vv
clus               CLUS_9
  METTL9 MUTATED        0
  METTL9 WILD-TYPE     50
D886V10, multiclass
        clus
vv       METTL9 MUTATED METTL9 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  METTL9 MUTATED        0      0      1      0      0      0
  METTL9 WILD-TYPE     13     16     13     11     11      9
D886V11, multiclass
[1] "Remove cluster labels:" "METTL9 MUTATED"        
clus
  METTL9 MUTATED METTL9 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-G4-6628 
"METTL9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  METTL9 MUTATED        0      0      0      0      1      0      0      0
  METTL9 WILD-TYPE     11      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  METTL9 MUTATED        0
  METTL9 WILD-TYPE      5
D886V12, multiclass
[1] "Remove cluster labels:" "METTL9 MUTATED"        
clus
  METTL9 MUTATED METTL9 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" "METTL9 WILD-TYPE" 
      TCGA-G4-6628 
"METTL9 WILD-TYPE" 

Clustering(887) Variable = CEL MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEL MUTATED        1      0      0      0      0
  CEL WILD-TYPE     31     18     46     27     23
D887V1, multiclass
[1] "Remove cluster labels:" "CEL MUTATED"           
clus
  CEL MUTATED CEL WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3982 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CEL MUTATED        0      1      0
  CEL WILD-TYPE     43     66     36
D887V2, multiclass
[1] "Remove cluster labels:" "CEL MUTATED"           
clus
  CEL MUTATED CEL WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3982 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" "CEL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CEL MUTATED        1      0      7
  CEL WILD-TYPE     41    173    140
D887V3, multiclass
        clus
vv       CEL MUTATED CEL WILD-TYPE
  CLUS_1           1            41
  CLUS_2           0           173
  CLUS_3           7           140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CEL MUTATED        3      0      5
  CEL WILD-TYPE     59     73     70
D887V4, multiclass
        clus
vv       CEL MUTATED CEL WILD-TYPE
  CLUS_1           3            59
  CLUS_2           0            73
  CLUS_3           5            70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CEL MUTATED        2      2      4
  CEL WILD-TYPE     68    118     96
D887V5, multiclass
        clus
vv       CEL MUTATED CEL WILD-TYPE
  CLUS_1           2            68
  CLUS_2           2           118
  CLUS_3           4            96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CEL MUTATED        0      0      0      1      1      4      1      1      0
  CEL WILD-TYPE     41     26     30     28     38     65     19     13     22
D887V6, multiclass
        clus
vv       CEL MUTATED CEL WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           1            28
  CLUS_5           1            38
  CLUS_6           4            65
  CLUS_7           1            19
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CEL MUTATED        0      5      3      1
  CEL WILD-TYPE    100     67     69    120
D887V7, multiclass
        clus
vv       CEL MUTATED CEL WILD-TYPE
  CLUS_1           0           100
  CLUS_2           5            67
  CLUS_3           3            69
  CLUS_4           1           120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEL MUTATED        0      0      8      1      0
  CEL WILD-TYPE     59     75     66    118     38
D887V8, multiclass
        clus
vv       CEL MUTATED CEL WILD-TYPE
  CLUS_1           0            59
  CLUS_2           0            75
  CLUS_3           8            66
  CLUS_4           1           118
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEL MUTATED        0      8      0      1      0
  CEL WILD-TYPE     51     68     61     70     95
D887V9, multiclass
        clus
vv       CEL MUTATED CEL WILD-TYPE
  CLUS_1           0            51
  CLUS_2           8            68
  CLUS_3           0            61
  CLUS_4           1            70
  CLUS_5           0            95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CEL MUTATED        3      0      0      5      0      0      0      0      1
  CEL WILD-TYPE     66     48     39     11     53     20     21     38     49
D887V10, multiclass
        clus
vv       CEL MUTATED CEL WILD-TYPE
  CLUS_1           3            66
  CLUS_2           0            48
  CLUS_3           0            39
  CLUS_4           5            11
  CLUS_5           0            53
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CEL MUTATED        0      0      1      0      4      0
  CEL WILD-TYPE     13     16     13     11      7      9
D887V11, multiclass
        clus
vv       CEL MUTATED CEL WILD-TYPE
  CLUS_1           0            13
  CLUS_2           0            16
  CLUS_3           1            13
  CLUS_4           0            11
  CLUS_5           4             7
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CEL MUTATED        0      0      0      2      1      1      1      0      0
  CEL WILD-TYPE     11      7      7      7      7      6     10      9      5
D887V12, multiclass
        clus
vv       CEL MUTATED CEL WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           2             7
  CLUS_5           1             7
  CLUS_6           1             6
  CLUS_7           1            10
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(888) Variable = OR10J1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR10J1 MUTATED        2      0      0      2      0
  OR10J1 WILD-TYPE     30     18     46     25     23
D888V1, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR10J1 MUTATED        2      1      1
  OR10J1 WILD-TYPE     41     66     35
D888V2, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR10J1 MUTATED        0      5      8
  OR10J1 WILD-TYPE     42    168    139
D888V3, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              5              168
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR10J1 MUTATED        2      3      4
  OR10J1 WILD-TYPE     60     70     71
D888V4, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3               70
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR10J1 MUTATED        1      3      5
  OR10J1 WILD-TYPE     69    117     95
D888V5, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR10J1 MUTATED        0      0      0      2      0      5      1      1
  OR10J1 WILD-TYPE     41     26     30     27     39     64     19     13
                  vv
clus               CLUS_9
  OR10J1 MUTATED        0
  OR10J1 WILD-TYPE     22
D888V6, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR10J1 MUTATED        2      4      3      4
  OR10J1 WILD-TYPE     98     68     69    117
D888V7, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              3               69
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR10J1 MUTATED        0      4      5      2      2
  OR10J1 WILD-TYPE     59     71     69    117     36
D888V8, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              4               71
  CLUS_3              5               69
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR10J1 MUTATED        2      5      1      3      1
  OR10J1 WILD-TYPE     49     71     60     68     94
D888V9, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR10J1 MUTATED        2      3      1      1      1      2      1      0
  OR10J1 WILD-TYPE     67     45     38     15     52     18     20     38
                  vv
clus               CLUS_9
  OR10J1 MUTATED        1
  OR10J1 WILD-TYPE     49
D888V10, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR10J1 MUTATED        2      1      0      0      2      0
  OR10J1 WILD-TYPE     11     15     14     11      9      9
D888V11, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR10J1 MUTATED        1      0      0      1      1      0      1      1
  OR10J1 WILD-TYPE     10      7      7      8      7      7     10      8
                  vv
clus               CLUS_9
  OR10J1 MUTATED        0
  OR10J1 WILD-TYPE      5
D888V12, multiclass
        clus
vv       OR10J1 MUTATED OR10J1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(889) Variable = PRKCD MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCD MUTATED        3      0      0      0      0
  PRKCD WILD-TYPE     29     18     46     27     23
D889V1, multiclass
        clus
vv       PRKCD MUTATED PRKCD WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCD MUTATED        2      0      1
  PRKCD WILD-TYPE     41     67     35
D889V2, multiclass
        clus
vv       PRKCD MUTATED PRKCD WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCD MUTATED        0      0     12
  PRKCD WILD-TYPE     42    173    135
D889V3, multiclass
        clus
vv       PRKCD MUTATED PRKCD WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCD MUTATED        4      0      5
  PRKCD WILD-TYPE     58     73     70
D889V4, multiclass
        clus
vv       PRKCD MUTATED PRKCD WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCD MUTATED        1      3      7
  PRKCD WILD-TYPE     69    117     93
D889V5, multiclass
        clus
vv       PRKCD MUTATED PRKCD WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCD MUTATED        1      0      1      2      1      3      3      0
  PRKCD WILD-TYPE     40     26     29     27     38     66     17     14
                 vv
clus              CLUS_9
  PRKCD MUTATED        0
  PRKCD WILD-TYPE     22
D889V6, multiclass
        clus
vv       PRKCD MUTATED PRKCD WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRKCD MUTATED        0      4      5      4
  PRKCD WILD-TYPE    100     68     67    117
D889V7, multiclass
        clus
vv       PRKCD MUTATED PRKCD WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             5              67
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCD MUTATED        0      2      7      1      3
  PRKCD WILD-TYPE     59     73     67    118     35
D889V8, multiclass
        clus
vv       PRKCD MUTATED PRKCD WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             7              67
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCD MUTATED        0      8      1      1      3
  PRKCD WILD-TYPE     51     68     60     70     92
D889V9, multiclass
        clus
vv       PRKCD MUTATED PRKCD WILD-TYPE
  CLUS_1             0              51
  CLUS_2             8              68
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCD MUTATED        4      3      0      1      2      0      0      3
  PRKCD WILD-TYPE     65     45     39     15     51     20     21     35
                 vv
clus              CLUS_9
  PRKCD MUTATED        0
  PRKCD WILD-TYPE     50
D889V10, multiclass
        clus
vv       PRKCD MUTATED PRKCD WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRKCD MUTATED        0      1      0      0      1      0
  PRKCD WILD-TYPE     13     15     14     11     10      9
D889V11, multiclass
[1] "Remove cluster labels:" "PRKCD MUTATED"         
clus
  PRKCD MUTATED PRKCD WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901      TCGA-AD-6963 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCD MUTATED        0      0      0      0      0      1      1      0
  PRKCD WILD-TYPE     11      7      7      9      8      6     10      9
                 vv
clus              CLUS_9
  PRKCD MUTATED        0
  PRKCD WILD-TYPE      5
D889V12, multiclass
[1] "Remove cluster labels:" "PRKCD MUTATED"         
clus
  PRKCD MUTATED PRKCD WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901      TCGA-AD-6963 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" "PRKCD WILD-TYPE" 

Clustering(890) Variable = SMC1B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMC1B MUTATED        4      0      0      1      0
  SMC1B WILD-TYPE     28     18     46     26     23
D890V1, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMC1B MUTATED        3      1      1
  SMC1B WILD-TYPE     40     66     35
D890V2, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMC1B MUTATED        0      3     16
  SMC1B WILD-TYPE     42    170    131
D890V3, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMC1B MUTATED        8      1      6
  SMC1B WILD-TYPE     54     72     69
D890V4, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             8              54
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMC1B MUTATED        2      9      7
  SMC1B WILD-TYPE     68    111     93
D890V5, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             2              68
  CLUS_2             9             111
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMC1B MUTATED        1      3      1      1      3      7      0      1
  SMC1B WILD-TYPE     40     23     29     28     36     62     20     13
                 vv
clus              CLUS_9
  SMC1B MUTATED        1
  SMC1B WILD-TYPE     21
D890V6, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             1              40
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             7              62
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMC1B MUTATED        1      7      5      6
  SMC1B WILD-TYPE     99     65     67    115
D890V7, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             1              99
  CLUS_2             7              65
  CLUS_3             5              67
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMC1B MUTATED        4      1      8      3      3
  SMC1B WILD-TYPE     55     74     66    116     35
D890V8, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             4              55
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMC1B MUTATED        0      7      3      2      7
  SMC1B WILD-TYPE     51     69     58     69     88
D890V9, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMC1B MUTATED        3      5      0      2      2      1      0      4
  SMC1B WILD-TYPE     66     43     39     14     51     19     21     34
                 vv
clus              CLUS_9
  SMC1B MUTATED        2
  SMC1B WILD-TYPE     48
D890V10, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             3              66
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMC1B MUTATED        0      2      1      0      4      1
  SMC1B WILD-TYPE     13     14     13     11      7      8
D890V11, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMC1B MUTATED        0      2      0      2      0      0      3      1
  SMC1B WILD-TYPE     11      5      7      7      8      7      8      8
                 vv
clus              CLUS_9
  SMC1B MUTATED        0
  SMC1B WILD-TYPE      5
D890V12, multiclass
        clus
vv       SMC1B MUTATED SMC1B WILD-TYPE
  CLUS_1             0              11
  CLUS_2             2               5
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(891) Variable = AP1M1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP1M1 MUTATED        0      0      0      0      1
  AP1M1 WILD-TYPE     32     18     46     27     22
D891V1, multiclass
[1] "Remove cluster labels:" "AP1M1 MUTATED"         
clus
  AP1M1 MUTATED AP1M1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AY-4071 
"AP1M1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1M1 MUTATED        0      0      1
  AP1M1 WILD-TYPE     43     67     35
D891V2, multiclass
[1] "Remove cluster labels:" "AP1M1 MUTATED"         
clus
  AP1M1 MUTATED AP1M1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" "AP1M1 WILD-TYPE" 
     TCGA-AY-4071 
"AP1M1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1M1 MUTATED        0      3      6
  AP1M1 WILD-TYPE     42    170    141
D891V3, multiclass
        clus
vv       AP1M1 MUTATED AP1M1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1M1 MUTATED        2      1      4
  AP1M1 WILD-TYPE     60     72     71
D891V4, multiclass
        clus
vv       AP1M1 MUTATED AP1M1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1M1 MUTATED        1      4      3
  AP1M1 WILD-TYPE     69    116     97
D891V5, multiclass
        clus
vv       AP1M1 MUTATED AP1M1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP1M1 MUTATED        0      0      1      1      0      2      2      2
  AP1M1 WILD-TYPE     41     26     29     28     39     67     18     12
                 vv
clus              CLUS_9
  AP1M1 MUTATED        0
  AP1M1 WILD-TYPE     22
D891V6, multiclass
        clus
vv       AP1M1 MUTATED AP1M1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AP1M1 MUTATED        1      4      2      2
  AP1M1 WILD-TYPE     99     68     70    119
D891V7, multiclass
        clus
vv       AP1M1 MUTATED AP1M1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP1M1 MUTATED        1      1      5      1      1
  AP1M1 WILD-TYPE     58     74     69    118     37
D891V8, multiclass
        clus
vv       AP1M1 MUTATED AP1M1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP1M1 MUTATED        1      6      0      1      1
  AP1M1 WILD-TYPE     50     70     61     70     94
D891V9, multiclass
        clus
vv       AP1M1 MUTATED AP1M1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP1M1 MUTATED        1      2      2      1      1      1      0      1
  AP1M1 WILD-TYPE     68     46     37     15     52     19     21     37
                 vv
clus              CLUS_9
  AP1M1 MUTATED        0
  AP1M1 WILD-TYPE     50
D891V10, multiclass
        clus
vv       AP1M1 MUTATED AP1M1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AP1M1 MUTATED        1      0      0      1      1      0
  AP1M1 WILD-TYPE     12     16     14     10     10      9
D891V11, multiclass
        clus
vv       AP1M1 MUTATED AP1M1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP1M1 MUTATED        0      0      0      0      0      0      2      1
  AP1M1 WILD-TYPE     11      7      7      9      8      7      9      8
                 vv
clus              CLUS_9
  AP1M1 MUTATED        0
  AP1M1 WILD-TYPE      5
D891V12, multiclass
        clus
vv       AP1M1 MUTATED AP1M1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(892) Variable = CCDC55 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC55 MUTATED        2      0      0      0      0
  CCDC55 WILD-TYPE     30     18     46     27     23
D892V1, multiclass
[1] "Remove cluster labels:" "CCDC55 MUTATED"        
clus
  CCDC55 MUTATED CCDC55 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00D 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC55 MUTATED        2      0      0
  CCDC55 WILD-TYPE     41     67     36
D892V2, multiclass
[1] "Remove cluster labels:" "CCDC55 MUTATED"        
clus
  CCDC55 MUTATED CCDC55 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00D 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" "CCDC55 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC55 MUTATED        1      2     10
  CCDC55 WILD-TYPE     41    171    137
D892V3, multiclass
        clus
vv       CCDC55 MUTATED CCDC55 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC55 MUTATED        6      1      4
  CCDC55 WILD-TYPE     56     72     71
D892V4, multiclass
        clus
vv       CCDC55 MUTATED CCDC55 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC55 MUTATED        0      3      5
  CCDC55 WILD-TYPE     70    117     95
D892V5, multiclass
        clus
vv       CCDC55 MUTATED CCDC55 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC55 MUTATED        1      0      0      2      0      4      0      1
  CCDC55 WILD-TYPE     40     26     30     27     39     65     20     13
                  vv
clus               CLUS_9
  CCDC55 MUTATED        0
  CCDC55 WILD-TYPE     22
D892V6, multiclass
        clus
vv       CCDC55 MUTATED CCDC55 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC55 MUTATED        3      6      2      2
  CCDC55 WILD-TYPE     97     66     70    119
D892V7, multiclass
        clus
vv       CCDC55 MUTATED CCDC55 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              6               66
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC55 MUTATED        2      4      5      1      1
  CCDC55 WILD-TYPE     57     71     69    118     37
D892V8, multiclass
        clus
vv       CCDC55 MUTATED CCDC55 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC55 MUTATED        1      7      2      0      2
  CCDC55 WILD-TYPE     50     69     59     71     93
D892V9, multiclass
        clus
vv       CCDC55 MUTATED CCDC55 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              7               69
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC55 MUTATED        3      2      1      3      0      1      0      1
  CCDC55 WILD-TYPE     66     46     38     13     53     19     21     37
                  vv
clus               CLUS_9
  CCDC55 MUTATED        1
  CCDC55 WILD-TYPE     49
D892V10, multiclass
        clus
vv       CCDC55 MUTATED CCDC55 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC55 MUTATED        0      1      1      0      1      0
  CCDC55 WILD-TYPE     13     15     13     11     10      9
D892V11, multiclass
        clus
vv       CCDC55 MUTATED CCDC55 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC55 MUTATED        0      1      0      1      1      0      0      0
  CCDC55 WILD-TYPE     11      6      7      8      7      7     11      9
                  vv
clus               CLUS_9
  CCDC55 MUTATED        0
  CCDC55 WILD-TYPE      5
D892V12, multiclass
        clus
vv       CCDC55 MUTATED CCDC55 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(893) Variable = MOV10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOV10 MUTATED        2      1      0      0      0
  MOV10 WILD-TYPE     30     17     46     27     23
D893V1, multiclass
        clus
vv       MOV10 MUTATED MOV10 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MOV10 MUTATED        2      0      1
  MOV10 WILD-TYPE     41     67     35
D893V2, multiclass
        clus
vv       MOV10 MUTATED MOV10 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MOV10 MUTATED        0      5      8
  MOV10 WILD-TYPE     42    168    139
D893V3, multiclass
        clus
vv       MOV10 MUTATED MOV10 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MOV10 MUTATED        3      3      4
  MOV10 WILD-TYPE     59     70     71
D893V4, multiclass
        clus
vv       MOV10 MUTATED MOV10 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MOV10 MUTATED        2      5      3
  MOV10 WILD-TYPE     68    115     97
D893V5, multiclass
        clus
vv       MOV10 MUTATED MOV10 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOV10 MUTATED        1      0      1      2      2      2      2      0
  MOV10 WILD-TYPE     40     26     29     27     37     67     18     14
                 vv
clus              CLUS_9
  MOV10 MUTATED        0
  MOV10 WILD-TYPE     22
D893V6, multiclass
        clus
vv       MOV10 MUTATED MOV10 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MOV10 MUTATED        4      4      2      3
  MOV10 WILD-TYPE     96     68     70    118
D893V7, multiclass
        clus
vv       MOV10 MUTATED MOV10 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOV10 MUTATED        2      5      3      1      2
  MOV10 WILD-TYPE     57     70     71    118     36
D893V8, multiclass
        clus
vv       MOV10 MUTATED MOV10 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             5              70
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOV10 MUTATED        3      7      0      1      1
  MOV10 WILD-TYPE     48     69     61     70     94
D893V9, multiclass
        clus
vv       MOV10 MUTATED MOV10 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             7              69
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOV10 MUTATED        5      2      1      0      2      1      0      1
  MOV10 WILD-TYPE     64     46     38     16     51     19     21     37
                 vv
clus              CLUS_9
  MOV10 MUTATED        0
  MOV10 WILD-TYPE     50
D893V10, multiclass
        clus
vv       MOV10 MUTATED MOV10 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MOV10 MUTATED        0      0      0      0      2      0
  MOV10 WILD-TYPE     13     16     14     11      9      9
D893V11, multiclass
[1] "Remove cluster labels:" "MOV10 MUTATED"         
clus
  MOV10 MUTATED MOV10 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A282      TCGA-DM-A285 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOV10 MUTATED        0      0      0      1      0      1      0      0
  MOV10 WILD-TYPE     11      7      7      8      8      6     11      9
                 vv
clus              CLUS_9
  MOV10 MUTATED        0
  MOV10 WILD-TYPE      5
D893V12, multiclass
[1] "Remove cluster labels:" "MOV10 MUTATED"         
clus
  MOV10 MUTATED MOV10 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A282      TCGA-DM-A285 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" "MOV10 WILD-TYPE" 

Clustering(894) Variable = GRINA MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRINA MUTATED        0      0      0      0      0
  GRINA WILD-TYPE     32     18     46     27     23
D894V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRINA MUTATED        0      0      0
  GRINA WILD-TYPE     43     67     36
D894V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRINA MUTATED        2      0      2
  GRINA WILD-TYPE     40    173    145
D894V3, multiclass
        clus
vv       GRINA MUTATED GRINA WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0             173
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRINA MUTATED        1      2      1
  GRINA WILD-TYPE     61     71     74
D894V4, multiclass
        clus
vv       GRINA MUTATED GRINA WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRINA MUTATED        1      2      1
  GRINA WILD-TYPE     69    118     99
D894V5, multiclass
        clus
vv       GRINA MUTATED GRINA WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRINA MUTATED        0      0      0      1      1      1      0      1
  GRINA WILD-TYPE     41     26     30     28     38     68     20     13
                 vv
clus              CLUS_9
  GRINA MUTATED        0
  GRINA WILD-TYPE     22
D894V6, multiclass
        clus
vv       GRINA MUTATED GRINA WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRINA MUTATED        1      2      0      1
  GRINA WILD-TYPE     99     70     72    120
D894V7, multiclass
        clus
vv       GRINA MUTATED GRINA WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRINA MUTATED        0      1      2      1      0
  GRINA WILD-TYPE     59     74     72    118     38
D894V8, multiclass
        clus
vv       GRINA MUTATED GRINA WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRINA MUTATED        0      2      0      2      0
  GRINA WILD-TYPE     51     74     61     69     95
D894V9, multiclass
        clus
vv       GRINA MUTATED GRINA WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRINA MUTATED        2      0      0      1      0      0      0      0
  GRINA WILD-TYPE     67     48     39     15     53     20     21     38
                 vv
clus              CLUS_9
  GRINA MUTATED        1
  GRINA WILD-TYPE     49
D894V10, multiclass
        clus
vv       GRINA MUTATED GRINA WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GRINA MUTATED        0      0      0      0      1      0
  GRINA WILD-TYPE     13     16     14     11     10      9
D894V11, multiclass
[1] "Remove cluster labels:" "GRINA MUTATED"         
clus
  GRINA MUTATED GRINA WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-G4-6628 
"GRINA WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRINA MUTATED        0      0      0      1      0      0      0      0
  GRINA WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  GRINA MUTATED        0
  GRINA WILD-TYPE      5
D894V12, multiclass
[1] "Remove cluster labels:" "GRINA MUTATED"         
clus
  GRINA MUTATED GRINA WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625 
"GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" "GRINA WILD-TYPE" 
     TCGA-G4-6628 
"GRINA WILD-TYPE" 

Clustering(895) Variable = CAPRIN1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAPRIN1 MUTATED        2      0      1      0      0
  CAPRIN1 WILD-TYPE     30     18     45     27     23
D895V1, multiclass
        clus
vv       CAPRIN1 MUTATED CAPRIN1 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CAPRIN1 MUTATED        2      1      0
  CAPRIN1 WILD-TYPE     41     66     36
D895V2, multiclass
        clus
vv       CAPRIN1 MUTATED CAPRIN1 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CAPRIN1 MUTATED        1      3      7
  CAPRIN1 WILD-TYPE     41    170    140
D895V3, multiclass
        clus
vv       CAPRIN1 MUTATED CAPRIN1 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CAPRIN1 MUTATED        0      3      5
  CAPRIN1 WILD-TYPE     62     70     70
D895V4, multiclass
        clus
vv       CAPRIN1 MUTATED CAPRIN1 WILD-TYPE
  CLUS_1               0                62
  CLUS_2               3                70
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CAPRIN1 MUTATED        1      6      3
  CAPRIN1 WILD-TYPE     69    114     97
D895V5, multiclass
        clus
vv       CAPRIN1 MUTATED CAPRIN1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               6               114
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAPRIN1 MUTATED        0      1      2      0      3      3      0      0
  CAPRIN1 WILD-TYPE     41     25     28     29     36     66     20     14
                   vv
clus                CLUS_9
  CAPRIN1 MUTATED        1
  CAPRIN1 WILD-TYPE     21
D895V6, multiclass
        clus
vv       CAPRIN1 MUTATED CAPRIN1 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               0                29
  CLUS_5               3                36
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CAPRIN1 MUTATED        1      4      2      4
  CAPRIN1 WILD-TYPE     99     68     70    117
D895V7, multiclass
        clus
vv       CAPRIN1 MUTATED CAPRIN1 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               2                70
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAPRIN1 MUTATED        1      2      3      2      3
  CAPRIN1 WILD-TYPE     58     73     71    117     35
D895V8, multiclass
        clus
vv       CAPRIN1 MUTATED CAPRIN1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               3                71
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAPRIN1 MUTATED        1      2      1      1      6
  CAPRIN1 WILD-TYPE     50     74     60     70     89
D895V9, multiclass
        clus
vv       CAPRIN1 MUTATED CAPRIN1 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAPRIN1 MUTATED        2      0      0      2      1      0      0      6
  CAPRIN1 WILD-TYPE     67     48     39     14     52     20     21     32
                   vv
clus                CLUS_9
  CAPRIN1 MUTATED        0
  CAPRIN1 WILD-TYPE     50
D895V10, multiclass
        clus
vv       CAPRIN1 MUTATED CAPRIN1 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               6                32
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CAPRIN1 MUTATED        0      0      0      0      0      1
  CAPRIN1 WILD-TYPE     13     16     14     11     11      8
D895V11, multiclass
[1] "Remove cluster labels:" "CAPRIN1 MUTATED"       
clus
  CAPRIN1 MUTATED CAPRIN1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-G4-6628 
"CAPRIN1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAPRIN1 MUTATED        1      0      0      0      0      0      0      0
  CAPRIN1 WILD-TYPE     10      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  CAPRIN1 MUTATED        0
  CAPRIN1 WILD-TYPE      5
D895V12, multiclass
[1] "Remove cluster labels:" "CAPRIN1 MUTATED"       
clus
  CAPRIN1 MUTATED CAPRIN1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" "CAPRIN1 WILD-TYPE" 
       TCGA-G4-6628 
"CAPRIN1 WILD-TYPE" 

Clustering(896) Variable = OR7C1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR7C1 MUTATED        3      0      0      1      2
  OR7C1 WILD-TYPE     29     18     46     26     21
D896V1, multiclass
        clus
vv       OR7C1 MUTATED OR7C1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             2              21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7C1 MUTATED        4      0      2
  OR7C1 WILD-TYPE     39     67     34
D896V2, multiclass
        clus
vv       OR7C1 MUTATED OR7C1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7C1 MUTATED        0      3      6
  OR7C1 WILD-TYPE     42    170    141
D896V3, multiclass
        clus
vv       OR7C1 MUTATED OR7C1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7C1 MUTATED        0      1      2
  OR7C1 WILD-TYPE     62     72     73
D896V4, multiclass
        clus
vv       OR7C1 MUTATED OR7C1 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7C1 MUTATED        2      3      0
  OR7C1 WILD-TYPE     68    117    100
D896V5, multiclass
        clus
vv       OR7C1 MUTATED OR7C1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             0             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR7C1 MUTATED        1      0      1      0      3      0      0      0
  OR7C1 WILD-TYPE     40     26     29     29     36     69     20     14
                 vv
clus              CLUS_9
  OR7C1 MUTATED        0
  OR7C1 WILD-TYPE     22
D896V6, multiclass
        clus
vv       OR7C1 MUTATED OR7C1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             3              36
  CLUS_6             0              69
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR7C1 MUTATED        1      1      1      6
  OR7C1 WILD-TYPE     99     71     71    115
D896V7, multiclass
        clus
vv       OR7C1 MUTATED OR7C1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR7C1 MUTATED        1      0      2      2      4
  OR7C1 WILD-TYPE     58     75     72    117     34
D896V8, multiclass
        clus
vv       OR7C1 MUTATED OR7C1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR7C1 MUTATED        0      1      1      2      5
  OR7C1 WILD-TYPE     51     75     60     69     90
D896V9, multiclass
        clus
vv       OR7C1 MUTATED OR7C1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR7C1 MUTATED        0      2      0      0      0      1      0      4
  OR7C1 WILD-TYPE     69     46     39     16     53     19     21     34
                 vv
clus              CLUS_9
  OR7C1 MUTATED        2
  OR7C1 WILD-TYPE     48
D896V10, multiclass
        clus
vv       OR7C1 MUTATED OR7C1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR7C1 MUTATED        1      1      0      0      0      0
  OR7C1 WILD-TYPE     12     15     14     11     11      9
D896V11, multiclass
[1] "Remove cluster labels:" "OR7C1 MUTATED"         
clus
  OR7C1 MUTATED OR7C1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605      TCGA-AZ-6607 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR7C1 MUTATED        0      0      1      0      0      0      1      0
  OR7C1 WILD-TYPE     11      7      6      9      8      7     10      9
                 vv
clus              CLUS_9
  OR7C1 MUTATED        0
  OR7C1 WILD-TYPE      5
D896V12, multiclass
[1] "Remove cluster labels:" "OR7C1 MUTATED"         
clus
  OR7C1 MUTATED OR7C1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605      TCGA-AZ-6607 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" "OR7C1 WILD-TYPE" 

Clustering(897) Variable = CBLL1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBLL1 MUTATED        0      0      0      0      0
  CBLL1 WILD-TYPE     32     18     46     27     23
D897V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CBLL1 MUTATED        0      0      0
  CBLL1 WILD-TYPE     43     67     36
D897V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CBLL1 MUTATED        0      0      5
  CBLL1 WILD-TYPE     42    173    142
D897V3, multiclass
        clus
vv       CBLL1 MUTATED CBLL1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CBLL1 MUTATED        1      0      4
  CBLL1 WILD-TYPE     61     73     71
D897V4, multiclass
        clus
vv       CBLL1 MUTATED CBLL1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CBLL1 MUTATED        1      2      1
  CBLL1 WILD-TYPE     69    118     99
D897V5, multiclass
        clus
vv       CBLL1 MUTATED CBLL1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CBLL1 MUTATED        0      0      0      0      0      1      2      1
  CBLL1 WILD-TYPE     41     26     30     29     39     68     18     13
                 vv
clus              CLUS_9
  CBLL1 MUTATED        0
  CBLL1 WILD-TYPE     22
D897V6, multiclass
        clus
vv       CBLL1 MUTATED CBLL1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CBLL1 MUTATED        0      3      2      0
  CBLL1 WILD-TYPE    100     69     70    121
D897V7, multiclass
        clus
vv       CBLL1 MUTATED CBLL1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBLL1 MUTATED        1      0      4      0      0
  CBLL1 WILD-TYPE     58     75     70    119     38
D897V8, multiclass
        clus
vv       CBLL1 MUTATED CBLL1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBLL1 MUTATED        1      3      1      0      0
  CBLL1 WILD-TYPE     50     73     60     71     95
D897V9, multiclass
        clus
vv       CBLL1 MUTATED CBLL1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CBLL1 MUTATED        0      1      0      2      1      1      0      0
  CBLL1 WILD-TYPE     69     47     39     14     52     19     21     38
                 vv
clus              CLUS_9
  CBLL1 MUTATED        0
  CBLL1 WILD-TYPE     50
D897V10, multiclass
        clus
vv       CBLL1 MUTATED CBLL1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CBLL1 MUTATED        0      1      0      0      1      0
  CBLL1 WILD-TYPE     13     15     14     11     10      9
D897V11, multiclass
[1] "Remove cluster labels:" "CBLL1 MUTATED"         
clus
  CBLL1 MUTATED CBLL1 WILD-TYPE 
              2              72 
     TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CBLL1 MUTATED        0      1      0      0      1      0      0      0
  CBLL1 WILD-TYPE     11      6      7      9      7      7     11      9
                 vv
clus              CLUS_9
  CBLL1 MUTATED        0
  CBLL1 WILD-TYPE      5
D897V12, multiclass
[1] "Remove cluster labels:" "CBLL1 MUTATED"         
clus
  CBLL1 MUTATED CBLL1 WILD-TYPE 
              2              72 
     TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" "CBLL1 WILD-TYPE" 

Clustering(898) Variable = SNAPC1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNAPC1 MUTATED        1      0      0      3      0
  SNAPC1 WILD-TYPE     31     18     46     24     23
D898V1, multiclass
        clus
vv       SNAPC1 MUTATED SNAPC1 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              3               24
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SNAPC1 MUTATED        4      0      0
  SNAPC1 WILD-TYPE     39     67     36
D898V2, multiclass
        clus
vv       SNAPC1 MUTATED SNAPC1 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SNAPC1 MUTATED        1      0      6
  SNAPC1 WILD-TYPE     41    173    141
D898V3, multiclass
        clus
vv       SNAPC1 MUTATED SNAPC1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SNAPC1 MUTATED        1      0      2
  SNAPC1 WILD-TYPE     61     73     73
D898V4, multiclass
        clus
vv       SNAPC1 MUTATED SNAPC1 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SNAPC1 MUTATED        2      3      2
  SNAPC1 WILD-TYPE     68    117     98
D898V5, multiclass
        clus
vv       SNAPC1 MUTATED SNAPC1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNAPC1 MUTATED        1      1      0      2      1      1      1      0
  SNAPC1 WILD-TYPE     40     25     30     27     38     68     19     14
                  vv
clus               CLUS_9
  SNAPC1 MUTATED        0
  SNAPC1 WILD-TYPE     22
D898V6, multiclass
        clus
vv       SNAPC1 MUTATED SNAPC1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SNAPC1 MUTATED        0      2      2      3
  SNAPC1 WILD-TYPE    100     70     70    118
D898V7, multiclass
        clus
vv       SNAPC1 MUTATED SNAPC1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNAPC1 MUTATED        1      0      2      0      4
  SNAPC1 WILD-TYPE     58     75     72    119     34
D898V8, multiclass
        clus
vv       SNAPC1 MUTATED SNAPC1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNAPC1 MUTATED        0      2      1      0      3
  SNAPC1 WILD-TYPE     51     74     60     71     92
D898V9, multiclass
        clus
vv       SNAPC1 MUTATED SNAPC1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNAPC1 MUTATED        0      1      0      2      0      0      0      3
  SNAPC1 WILD-TYPE     69     47     39     14     53     20     21     35
                  vv
clus               CLUS_9
  SNAPC1 MUTATED        0
  SNAPC1 WILD-TYPE     50
D898V10, multiclass
        clus
vv       SNAPC1 MUTATED SNAPC1 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SNAPC1 MUTATED        0      0      0      0      2      0
  SNAPC1 WILD-TYPE     13     16     14     11      9      9
D898V11, multiclass
[1] "Remove cluster labels:" "SNAPC1 MUTATED"        
clus
  SNAPC1 MUTATED SNAPC1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNAPC1 MUTATED        0      0      0      1      1      0      0      0
  SNAPC1 WILD-TYPE     11      7      7      8      7      7     11      9
                  vv
clus               CLUS_9
  SNAPC1 MUTATED        0
  SNAPC1 WILD-TYPE      5
D898V12, multiclass
[1] "Remove cluster labels:" "SNAPC1 MUTATED"        
clus
  SNAPC1 MUTATED SNAPC1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" "SNAPC1 WILD-TYPE" 

Clustering(899) Variable = CETN3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CETN3 MUTATED        0      0      0      0      0
  CETN3 WILD-TYPE     32     18     46     27     23
D899V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CETN3 MUTATED        0      0      0
  CETN3 WILD-TYPE     43     67     36
D899V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CETN3 MUTATED        0      0      6
  CETN3 WILD-TYPE     42    173    141
D899V3, multiclass
        clus
vv       CETN3 MUTATED CETN3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CETN3 MUTATED        4      0      2
  CETN3 WILD-TYPE     58     73     73
D899V4, multiclass
        clus
vv       CETN3 MUTATED CETN3 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CETN3 MUTATED        0      0      6
  CETN3 WILD-TYPE     70    120     94
D899V5, multiclass
        clus
vv       CETN3 MUTATED CETN3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             0             120
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CETN3 MUTATED        1      0      0      0      0      4      1      0
  CETN3 WILD-TYPE     40     26     30     29     39     65     19     14
                 vv
clus              CLUS_9
  CETN3 MUTATED        0
  CETN3 WILD-TYPE     22
D899V6, multiclass
        clus
vv       CETN3 MUTATED CETN3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CETN3 MUTATED        0      2      4      0
  CETN3 WILD-TYPE    100     70     68    121
D899V7, multiclass
        clus
vv       CETN3 MUTATED CETN3 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             4              68
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CETN3 MUTATED        1      0      5      0      0
  CETN3 WILD-TYPE     58     75     69    119     38
D899V8, multiclass
        clus
vv       CETN3 MUTATED CETN3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CETN3 MUTATED        0      5      1      0      0
  CETN3 WILD-TYPE     51     71     60     71     95
D899V9, multiclass
        clus
vv       CETN3 MUTATED CETN3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CETN3 MUTATED        3      2      0      1      0      0      0      0
  CETN3 WILD-TYPE     66     46     39     15     53     20     21     38
                 vv
clus              CLUS_9
  CETN3 MUTATED        0
  CETN3 WILD-TYPE     50
D899V10, multiclass
        clus
vv       CETN3 MUTATED CETN3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CETN3 MUTATED        0      0      1      0      1      0
  CETN3 WILD-TYPE     13     16     13     11     10      9
D899V11, multiclass
[1] "Remove cluster labels:" "CETN3 MUTATED"         
clus
  CETN3 MUTATED CETN3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CETN3 MUTATED        0      0      0      0      0      1      1      0
  CETN3 WILD-TYPE     11      7      7      9      8      6     10      9
                 vv
clus              CLUS_9
  CETN3 MUTATED        0
  CETN3 WILD-TYPE      5
D899V12, multiclass
[1] "Remove cluster labels:" "CETN3 MUTATED"         
clus
  CETN3 MUTATED CETN3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" "CETN3 WILD-TYPE" 

Clustering(900) Variable = CXXC5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CXXC5 MUTATED        0      0      0      0      1
  CXXC5 WILD-TYPE     32     18     46     27     22
D900V1, multiclass
[1] "Remove cluster labels:" "CXXC5 MUTATED"         
clus
  CXXC5 MUTATED CXXC5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3679 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AY-4071 
"CXXC5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXXC5 MUTATED        0      1      0
  CXXC5 WILD-TYPE     43     66     36
D900V2, multiclass
[1] "Remove cluster labels:" "CXXC5 MUTATED"         
clus
  CXXC5 MUTATED CXXC5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3679 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AY-4071 
"CXXC5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXXC5 MUTATED        1      1      4
  CXXC5 WILD-TYPE     41    172    143
D900V3, multiclass
        clus
vv       CXXC5 MUTATED CXXC5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXXC5 MUTATED        1      0      4
  CXXC5 WILD-TYPE     61     73     71
D900V4, multiclass
        clus
vv       CXXC5 MUTATED CXXC5 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXXC5 MUTATED        0      3      2
  CXXC5 WILD-TYPE     70    117     98
D900V5, multiclass
        clus
vv       CXXC5 MUTATED CXXC5 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CXXC5 MUTATED        0      1      0      2      0      2      0      0
  CXXC5 WILD-TYPE     41     25     30     27     39     67     20     14
                 vv
clus              CLUS_9
  CXXC5 MUTATED        0
  CXXC5 WILD-TYPE     22
D900V6, multiclass
        clus
vv       CXXC5 MUTATED CXXC5 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CXXC5 MUTATED        0      3      2      1
  CXXC5 WILD-TYPE    100     69     70    120
D900V7, multiclass
        clus
vv       CXXC5 MUTATED CXXC5 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CXXC5 MUTATED        1      1      3      1      0
  CXXC5 WILD-TYPE     58     74     71    118     38
D900V8, multiclass
        clus
vv       CXXC5 MUTATED CXXC5 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CXXC5 MUTATED        1      4      0      1      0
  CXXC5 WILD-TYPE     50     72     61     70     95
D900V9, multiclass
        clus
vv       CXXC5 MUTATED CXXC5 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CXXC5 MUTATED        0      3      0      1      1      0      0      0
  CXXC5 WILD-TYPE     69     45     39     15     52     20     21     38
                 vv
clus              CLUS_9
  CXXC5 MUTATED        1
  CXXC5 WILD-TYPE     49
D900V10, multiclass
        clus
vv       CXXC5 MUTATED CXXC5 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CXXC5 MUTATED        0      0      1      0      0      0
  CXXC5 WILD-TYPE     13     16     13     11     11      9
D900V11, multiclass
[1] "Remove cluster labels:" "CXXC5 MUTATED"         
clus
  CXXC5 MUTATED CXXC5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-G4-6628 
"CXXC5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CXXC5 MUTATED        0      0      0      0      0      1      0      0
  CXXC5 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  CXXC5 MUTATED        0
  CXXC5 WILD-TYPE      5
D900V12, multiclass
[1] "Remove cluster labels:" "CXXC5 MUTATED"         
clus
  CXXC5 MUTATED CXXC5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" "CXXC5 WILD-TYPE" 
     TCGA-G4-6628 
"CXXC5 WILD-TYPE" 

Clustering(901) Variable = GMNN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GMNN MUTATED        0      0      0      1      0
  GMNN WILD-TYPE     32     18     46     26     23
D901V1, multiclass
[1] "Remove cluster labels:" "GMNN MUTATED"          
clus
  GMNN MUTATED GMNN WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AY-4071 
"GMNN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GMNN MUTATED        0      1      0
  GMNN WILD-TYPE     43     66     36
D901V2, multiclass
[1] "Remove cluster labels:" "GMNN MUTATED"          
clus
  GMNN MUTATED GMNN WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AY-4071 
"GMNN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GMNN MUTATED        0      2      1
  GMNN WILD-TYPE     42    171    146
D901V3, multiclass
        clus
vv       GMNN MUTATED GMNN WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            1            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GMNN MUTATED        0      0      2
  GMNN WILD-TYPE     62     73     73
D901V4, multiclass
[1] "Remove cluster labels:" "GMNN MUTATED"          
clus
  GMNN MUTATED GMNN WILD-TYPE 
             2            208 
    TCGA-A6-2671     TCGA-A6-2677     TCGA-A6-3809     TCGA-A6-3810 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-A6-4105     TCGA-A6-5656     TCGA-A6-5657     TCGA-A6-5659 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662     TCGA-A6-5664 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137     TCGA-A6-6138 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648     TCGA-A6-6649 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653     TCGA-A6-6654 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502     TCGA-AA-3510 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3511     TCGA-AA-3655     TCGA-AA-3660     TCGA-AA-3662 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AA-3663     TCGA-AA-3697     TCGA-AA-3712     TCGA-AA-3713 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6888     TCGA-AD-6889 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AD-6890     TCGA-AD-6895     TCGA-AD-6899     TCGA-AD-6901 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AU-3779 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AU-6004     TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AY-6386     TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AZ-4681     TCGA-AZ-4682     TCGA-AZ-5403     TCGA-AZ-5407 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6599     TCGA-AZ-6600     TCGA-AZ-6601 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6606     TCGA-AZ-6607 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-AZ-6608     TCGA-CA-5254     TCGA-CA-5255     TCGA-CA-5796 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CA-5797     TCGA-CA-6715     TCGA-CA-6716     TCGA-CA-6717 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-4947     TCGA-CK-4948 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CK-4950     TCGA-CK-4952     TCGA-CK-5912     TCGA-CK-5913 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CK-5914     TCGA-CK-5915     TCGA-CK-5916     TCGA-CK-6746 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CK-6747     TCGA-CK-6748     TCGA-CK-6751     TCGA-CM-4743 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CM-4744     TCGA-CM-4746     TCGA-CM-4747     TCGA-CM-4752 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CM-5341     TCGA-CM-5344     TCGA-CM-5348     TCGA-CM-5349 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-5861     TCGA-CM-5862     TCGA-CM-5863 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CM-5864     TCGA-CM-5868     TCGA-CM-6161     TCGA-CM-6162 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CM-6163     TCGA-CM-6164     TCGA-CM-6165     TCGA-CM-6166 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CM-6167     TCGA-CM-6168     TCGA-CM-6169     TCGA-CM-6170 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CM-6171     TCGA-CM-6172     TCGA-CM-6674     TCGA-CM-6675 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-5539     TCGA-D5-5540 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-D5-5541     TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541     TCGA-D5-6898 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923     TCGA-D5-6924 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-D5-6926     TCGA-D5-6927     TCGA-D5-6928     TCGA-D5-6929 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932     TCGA-D5-7000 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28C 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-DM-A28E     TCGA-DM-A28F     TCGA-DM-A28G     TCGA-DM-A28H 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-DM-A28K     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" "GMNN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GMNN MUTATED        1      2      0
  GMNN WILD-TYPE     69    118    100
D901V5, multiclass
        clus
vv       GMNN MUTATED GMNN WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            0            100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GMNN MUTATED        0      0      1      1      0      0      0      0      1
  GMNN WILD-TYPE     41     26     29     28     39     69     20     14     21
D901V6, multiclass
        clus
vv       GMNN MUTATED GMNN WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            0             69
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GMNN MUTATED        1      0      1      1
  GMNN WILD-TYPE     99     72     71    120
D901V7, multiclass
        clus
vv       GMNN MUTATED GMNN WILD-TYPE
  CLUS_1            1             99
  CLUS_2            0             72
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GMNN MUTATED        0      2      0      1      0
  GMNN WILD-TYPE     59     73     74    118     38
D901V8, multiclass
        clus
vv       GMNN MUTATED GMNN WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            0             74
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GMNN MUTATED        2      0      0      0      1
  GMNN WILD-TYPE     49     76     61     71     94
D901V9, multiclass
        clus
vv       GMNN MUTATED GMNN WILD-TYPE
  CLUS_1            2             49
  CLUS_2            0             76
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GMNN MUTATED        0      0      1      0      1      1      0      0      0
  GMNN WILD-TYPE     69     48     38     16     52     19     21     38     50
D901V10, multiclass
        clus
vv       GMNN MUTATED GMNN WILD-TYPE
  CLUS_1            0             69
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GMNN MUTATED        0      0      0      0      0      0
  GMNN WILD-TYPE     13     16     14     11     11      9
D901V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GMNN MUTATED        0      0      0      0      0      0      0      0      0
  GMNN WILD-TYPE     11      7      7      9      8      7     11      9      5
D901V12, multiclass

Clustering(902) Variable = POLD3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLD3 MUTATED        2      0      0      0      0
  POLD3 WILD-TYPE     30     18     46     27     23
D902V1, multiclass
[1] "Remove cluster labels:" "POLD3 MUTATED"         
clus
  POLD3 MUTATED POLD3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  POLD3 MUTATED        2      0      0
  POLD3 WILD-TYPE     41     67     36
D902V2, multiclass
[1] "Remove cluster labels:" "POLD3 MUTATED"         
clus
  POLD3 MUTATED POLD3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" "POLD3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  POLD3 MUTATED        0      1     10
  POLD3 WILD-TYPE     42    172    137
D902V3, multiclass
        clus
vv       POLD3 MUTATED POLD3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  POLD3 MUTATED        5      0      4
  POLD3 WILD-TYPE     57     73     71
D902V4, multiclass
        clus
vv       POLD3 MUTATED POLD3 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  POLD3 MUTATED        1      2      7
  POLD3 WILD-TYPE     69    118     93
D902V5, multiclass
        clus
vv       POLD3 MUTATED POLD3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POLD3 MUTATED        0      0      0      2      0      7      0      1
  POLD3 WILD-TYPE     41     26     30     27     39     62     20     13
                 vv
clus              CLUS_9
  POLD3 MUTATED        0
  POLD3 WILD-TYPE     22
D902V6, multiclass
        clus
vv       POLD3 MUTATED POLD3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             7              62
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  POLD3 MUTATED        1      6      2      2
  POLD3 WILD-TYPE     99     66     70    119
D902V7, multiclass
        clus
vv       POLD3 MUTATED POLD3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLD3 MUTATED        0      2      7      1      1
  POLD3 WILD-TYPE     59     73     67    118     37
D902V8, multiclass
        clus
vv       POLD3 MUTATED POLD3 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             7              67
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLD3 MUTATED        0      6      1      1      3
  POLD3 WILD-TYPE     51     70     60     70     92
D902V9, multiclass
        clus
vv       POLD3 MUTATED POLD3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POLD3 MUTATED        5      0      0      2      1      1      1      0
  POLD3 WILD-TYPE     64     48     39     14     52     19     20     38
                 vv
clus              CLUS_9
  POLD3 MUTATED        1
  POLD3 WILD-TYPE     49
D902V10, multiclass
        clus
vv       POLD3 MUTATED POLD3 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  POLD3 MUTATED        0      0      2      0      1      0
  POLD3 WILD-TYPE     13     16     12     11     10      9
D902V11, multiclass
        clus
vv       POLD3 MUTATED POLD3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POLD3 MUTATED        0      0      0      0      1      1      1      0
  POLD3 WILD-TYPE     11      7      7      9      7      6     10      9
                 vv
clus              CLUS_9
  POLD3 MUTATED        0
  POLD3 WILD-TYPE      5
D902V12, multiclass
        clus
vv       POLD3 MUTATED POLD3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(903) Variable = FAM155B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM155B MUTATED        1      0      0      0      1
  FAM155B WILD-TYPE     31     18     46     27     22
D903V1, multiclass
[1] "Remove cluster labels:" "FAM155B MUTATED"       
clus
  FAM155B MUTATED FAM155B WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3821 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM155B MUTATED        1      0      1
  FAM155B WILD-TYPE     42     67     35
D903V2, multiclass
[1] "Remove cluster labels:" "FAM155B MUTATED"       
clus
  FAM155B MUTATED FAM155B WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3821 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM155B MUTATED        1      3      3
  FAM155B WILD-TYPE     41    170    144
D903V3, multiclass
        clus
vv       FAM155B MUTATED FAM155B WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM155B MUTATED        3      1      2
  FAM155B WILD-TYPE     59     72     73
D903V4, multiclass
        clus
vv       FAM155B MUTATED FAM155B WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM155B MUTATED        2      2      2
  FAM155B WILD-TYPE     68    118     98
D903V5, multiclass
        clus
vv       FAM155B MUTATED FAM155B WILD-TYPE
  CLUS_1               2                68
  CLUS_2               2               118
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM155B MUTATED        0      1      1      0      1      1      1      1
  FAM155B WILD-TYPE     41     25     29     29     38     68     19     13
                   vv
clus                CLUS_9
  FAM155B MUTATED        0
  FAM155B WILD-TYPE     22
D903V6, multiclass
        clus
vv       FAM155B MUTATED FAM155B WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               1                68
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM155B MUTATED        1      4      1      2
  FAM155B WILD-TYPE     99     68     71    119
D903V7, multiclass
        clus
vv       FAM155B MUTATED FAM155B WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               1                71
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM155B MUTATED        2      2      2      1      1
  FAM155B WILD-TYPE     57     73     72    118     37
D903V8, multiclass
        clus
vv       FAM155B MUTATED FAM155B WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM155B MUTATED        1      2      2      1      2
  FAM155B WILD-TYPE     50     74     59     70     93
D903V9, multiclass
        clus
vv       FAM155B MUTATED FAM155B WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM155B MUTATED        0      1      1      2      1      1      0      1
  FAM155B WILD-TYPE     69     47     38     14     52     19     21     37
                   vv
clus                CLUS_9
  FAM155B MUTATED        1
  FAM155B WILD-TYPE     49
D903V10, multiclass
        clus
vv       FAM155B MUTATED FAM155B WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM155B MUTATED        0      1      0      0      1      0
  FAM155B WILD-TYPE     13     15     14     11     10      9
D903V11, multiclass
[1] "Remove cluster labels:" "FAM155B MUTATED"       
clus
  FAM155B MUTATED FAM155B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6901 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-6598        TCGA-AZ-6600 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM155B MUTATED        1      0      0      1      0      0      0      0
  FAM155B WILD-TYPE     10      7      7      8      8      7     11      9
                   vv
clus                CLUS_9
  FAM155B MUTATED        0
  FAM155B WILD-TYPE      5
D903V12, multiclass
[1] "Remove cluster labels:" "FAM155B MUTATED"       
clus
  FAM155B MUTATED FAM155B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6901 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-6598        TCGA-AZ-6600 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" "FAM155B WILD-TYPE" 

Clustering(904) Variable = CTTN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTTN MUTATED        0      0      0      0      0
  CTTN WILD-TYPE     32     18     46     27     23
D904V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTTN MUTATED        0      0      0
  CTTN WILD-TYPE     43     67     36
D904V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTTN MUTATED        0      0      4
  CTTN WILD-TYPE     42    173    143
D904V3, multiclass
        clus
vv       CTTN MUTATED CTTN WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTTN MUTATED        2      0      2
  CTTN WILD-TYPE     60     73     73
D904V4, multiclass
        clus
vv       CTTN MUTATED CTTN WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTTN MUTATED        0      0      2
  CTTN WILD-TYPE     70    120     98
D904V5, multiclass
[1] "Remove cluster labels:" "CTTN MUTATED"          
clus
  CTTN MUTATED CTTN WILD-TYPE 
             2            288 
    TCGA-A6-2671     TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-A6-5656     TCGA-A6-5657 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-5659     TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-5664     TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3489     TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3510     TCGA-AA-3511     TCGA-AA-3514     TCGA-AA-3517 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521     TCGA-AA-3522 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3525     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3548     TCGA-AA-3552 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555     TCGA-AA-3558 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3655 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3697 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3712     TCGA-AA-3713     TCGA-AA-3715 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3950 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982     TCGA-AA-3986 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00E 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I     TCGA-AA-A01K 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R     TCGA-AA-A01S 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A01T     TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A022 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02K     TCGA-AA-A02O     TCGA-AA-A02W 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A02Y     TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AD-5900 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6899     TCGA-AD-6965 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197     TCGA-AY-6386 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-4682     TCGA-AZ-5407 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6599     TCGA-AZ-6600     TCGA-AZ-6601 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6606     TCGA-AZ-6607 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AZ-6608     TCGA-CA-5254     TCGA-CA-5255     TCGA-CA-5796 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CA-5797     TCGA-CA-6715     TCGA-CA-6716     TCGA-CA-6717 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5914     TCGA-CK-5916 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CK-6746     TCGA-CK-6747     TCGA-CK-6748     TCGA-CK-6751 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-4743     TCGA-CM-4744     TCGA-CM-4746     TCGA-CM-4747 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-4752     TCGA-CM-5341     TCGA-CM-5344     TCGA-CM-5348 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-5349     TCGA-CM-5860     TCGA-CM-5861     TCGA-CM-5862 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-5863     TCGA-CM-5864     TCGA-CM-5868     TCGA-CM-6161 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-6162     TCGA-CM-6163     TCGA-CM-6164     TCGA-CM-6165 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-6166     TCGA-CM-6167     TCGA-CM-6168     TCGA-CM-6169 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-6170     TCGA-CM-6171     TCGA-CM-6172     TCGA-CM-6674 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5538     TCGA-D5-5539 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-5540     TCGA-D5-5541     TCGA-D5-6529     TCGA-D5-6532 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6535     TCGA-D5-6536 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-6537     TCGA-D5-6538     TCGA-D5-6539     TCGA-D5-6540 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-6541     TCGA-D5-6898     TCGA-D5-6920     TCGA-D5-6922 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-6923     TCGA-D5-6924     TCGA-D5-6926     TCGA-D5-6927 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-6928     TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D4 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA     TCGA-DM-A1HB 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A28C     TCGA-DM-A28E     TCGA-DM-A28F 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-DM-A28G     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTTN MUTATED        0      0      0      0      0      2      0      0      0
  CTTN WILD-TYPE     41     26     30     29     39     67     20     14     22
D904V6, multiclass
[1] "Remove cluster labels:" "CTTN MUTATED"          
clus
  CTTN MUTATED CTTN WILD-TYPE 
             2            288 
    TCGA-A6-2671     TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-A6-5656     TCGA-A6-5657 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-5659     TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-5664     TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3489     TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3510     TCGA-AA-3511     TCGA-AA-3514     TCGA-AA-3517 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521     TCGA-AA-3522 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3525     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3548     TCGA-AA-3552 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555     TCGA-AA-3558 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3655 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3697 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3712     TCGA-AA-3713     TCGA-AA-3715 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3950 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982     TCGA-AA-3986 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00E 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I     TCGA-AA-A01K 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R     TCGA-AA-A01S 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A01T     TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A022 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02K     TCGA-AA-A02O     TCGA-AA-A02W 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AA-A02Y     TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AD-5900 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6899     TCGA-AD-6965 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197     TCGA-AY-6386 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-4682     TCGA-AZ-5407 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6599     TCGA-AZ-6600     TCGA-AZ-6601 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6606     TCGA-AZ-6607 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-AZ-6608     TCGA-CA-5254     TCGA-CA-5255     TCGA-CA-5796 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CA-5797     TCGA-CA-6715     TCGA-CA-6716     TCGA-CA-6717 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5914     TCGA-CK-5916 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CK-6746     TCGA-CK-6747     TCGA-CK-6748     TCGA-CK-6751 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-4743     TCGA-CM-4744     TCGA-CM-4746     TCGA-CM-4747 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-4752     TCGA-CM-5341     TCGA-CM-5344     TCGA-CM-5348 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-5349     TCGA-CM-5860     TCGA-CM-5861     TCGA-CM-5862 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-5863     TCGA-CM-5864     TCGA-CM-5868     TCGA-CM-6161 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-6162     TCGA-CM-6163     TCGA-CM-6164     TCGA-CM-6165 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-6166     TCGA-CM-6167     TCGA-CM-6168     TCGA-CM-6169 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-6170     TCGA-CM-6171     TCGA-CM-6172     TCGA-CM-6674 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5538     TCGA-D5-5539 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-5540     TCGA-D5-5541     TCGA-D5-6529     TCGA-D5-6532 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6535     TCGA-D5-6536 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-6537     TCGA-D5-6538     TCGA-D5-6539     TCGA-D5-6540 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-6541     TCGA-D5-6898     TCGA-D5-6920     TCGA-D5-6922 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-6923     TCGA-D5-6924     TCGA-D5-6926     TCGA-D5-6927 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-D5-6928     TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D4 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA     TCGA-DM-A1HB 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A28C     TCGA-DM-A28E     TCGA-DM-A28F 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-DM-A28G     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" "CTTN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTTN MUTATED        0      3      1      0
  CTTN WILD-TYPE    100     69     71    121
D904V7, multiclass
        clus
vv       CTTN MUTATED CTTN WILD-TYPE
  CLUS_1            0            100
  CLUS_2            3             69
  CLUS_3            1             71
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTTN MUTATED        0      1      3      0      0
  CTTN WILD-TYPE     59     74     71    119     38
D904V8, multiclass
        clus
vv       CTTN MUTATED CTTN WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTTN MUTATED        0      3      0      0      1
  CTTN WILD-TYPE     51     73     61     71     94
D904V9, multiclass
        clus
vv       CTTN MUTATED CTTN WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTTN MUTATED        1      1      0      1      0      0      0      0      1
  CTTN WILD-TYPE     68     47     39     15     53     20     21     38     49
D904V10, multiclass
        clus
vv       CTTN MUTATED CTTN WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTTN MUTATED        0      0      0      0      0      0
  CTTN WILD-TYPE     13     16     14     11     11      9
D904V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTTN MUTATED        0      0      0      0      0      0      0      0      0
  CTTN WILD-TYPE     11      7      7      9      8      7     11      9      5
D904V12, multiclass

Clustering(905) Variable = PIGC MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIGC MUTATED        0      0      0      0      0
  PIGC WILD-TYPE     32     18     46     27     23
D905V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGC MUTATED        0      0      0
  PIGC WILD-TYPE     43     67     36
D905V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGC MUTATED        2      1      1
  PIGC WILD-TYPE     40    172    146
D905V3, multiclass
        clus
vv       PIGC MUTATED PIGC WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1            172
  CLUS_3            1            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGC MUTATED        1      1      2
  PIGC WILD-TYPE     61     72     73
D905V4, multiclass
        clus
vv       PIGC MUTATED PIGC WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGC MUTATED        0      3      1
  PIGC WILD-TYPE     70    117     99
D905V5, multiclass
        clus
vv       PIGC MUTATED PIGC WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PIGC MUTATED        0      0      0      1      0      0      2      1      0
  PIGC WILD-TYPE     41     26     30     28     39     69     18     13     22
D905V6, multiclass
        clus
vv       PIGC MUTATED PIGC WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            0             69
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIGC MUTATED        1      2      1      0
  PIGC WILD-TYPE     99     70     71    121
D905V7, multiclass
        clus
vv       PIGC MUTATED PIGC WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIGC MUTATED        1      1      2      0      0
  PIGC WILD-TYPE     58     74     72    119     38
D905V8, multiclass
        clus
vv       PIGC MUTATED PIGC WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIGC MUTATED        2      2      0      0      0
  PIGC WILD-TYPE     49     74     61     71     95
D905V9, multiclass
        clus
vv       PIGC MUTATED PIGC WILD-TYPE
  CLUS_1            2             49
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PIGC MUTATED        0      1      1      1      1      0      0      0      0
  PIGC WILD-TYPE     69     47     38     15     52     20     21     38     50
D905V10, multiclass
        clus
vv       PIGC MUTATED PIGC WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIGC MUTATED        0      0      0      0      1      0
  PIGC WILD-TYPE     13     16     14     11     10      9
D905V11, multiclass
[1] "Remove cluster labels:" "PIGC MUTATED"          
clus
  PIGC MUTATED PIGC WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-G4-6628 
"PIGC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PIGC MUTATED        0      0      0      1      0      0      0      0      0
  PIGC WILD-TYPE     11      7      7      8      8      7     11      9      5
D905V12, multiclass
[1] "Remove cluster labels:" "PIGC MUTATED"          
clus
  PIGC MUTATED PIGC WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" "PIGC WILD-TYPE" 
    TCGA-G4-6628 
"PIGC WILD-TYPE" 

Clustering(906) Variable = CSGALNACT1 MUTATION ANALYSIS
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSGALNACT1 MUTATED        0      0      0      0      0
  CSGALNACT1 WILD-TYPE     32     18     46     27     23
D906V1, multiclass
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  CSGALNACT1 MUTATED        0      0      0
  CSGALNACT1 WILD-TYPE     43     67     36
D906V2, multiclass
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  CSGALNACT1 MUTATED        2      2      4
  CSGALNACT1 WILD-TYPE     40    171    143
D906V3, multiclass
        clus
vv       CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE
  CLUS_1                  2                   40
  CLUS_2                  2                  171
  CLUS_3                  4                  143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  CSGALNACT1 MUTATED        3      1      4
  CSGALNACT1 WILD-TYPE     59     72     71
D906V4, multiclass
        clus
vv       CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE
  CLUS_1                  3                   59
  CLUS_2                  1                   72
  CLUS_3                  4                   71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  CSGALNACT1 MUTATED        0      2      5
  CSGALNACT1 WILD-TYPE     70    118     95
D906V5, multiclass
        clus
vv       CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE
  CLUS_1                  0                   70
  CLUS_2                  2                  118
  CLUS_3                  5                   95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSGALNACT1 MUTATED        1      1      0      0      1      3      0      1
  CSGALNACT1 WILD-TYPE     40     25     30     29     38     66     20     13
                      vv
clus                   CLUS_9
  CSGALNACT1 MUTATED        0
  CSGALNACT1 WILD-TYPE     22
D906V6, multiclass
        clus
vv       CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE
  CLUS_1                  1                   40
  CLUS_2                  1                   25
  CLUS_3                  0                   30
  CLUS_4                  0                   29
  CLUS_5                  1                   38
  CLUS_6                  3                   66
  CLUS_7                  0                   20
  CLUS_8                  1                   13
  CLUS_9                  0                   22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSGALNACT1 MUTATED        2      2      4      0
  CSGALNACT1 WILD-TYPE     98     70     68    121
D906V7, multiclass
        clus
vv       CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE
  CLUS_1                  2                   98
  CLUS_2                  2                   70
  CLUS_3                  4                   68
  CLUS_4                  0                  121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSGALNACT1 MUTATED        3      2      3      0      0
  CSGALNACT1 WILD-TYPE     56     73     71    119     38
D906V8, multiclass
        clus
vv       CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE
  CLUS_1                  3                   56
  CLUS_2                  2                   73
  CLUS_3                  3                   71
  CLUS_4                  0                  119
  CLUS_5                  0                   38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSGALNACT1 MUTATED        2      3      3      0      0
  CSGALNACT1 WILD-TYPE     49     73     58     71     95
D906V9, multiclass
        clus
vv       CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE
  CLUS_1                  2                   49
  CLUS_2                  3                   73
  CLUS_3                  3                   58
  CLUS_4                  0                   71
  CLUS_5                  0                   95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSGALNACT1 MUTATED        4      2      1      1      0      0      0      0
  CSGALNACT1 WILD-TYPE     65     46     38     15     53     20     21     38
                      vv
clus                   CLUS_9
  CSGALNACT1 MUTATED        0
  CSGALNACT1 WILD-TYPE     50
D906V10, multiclass
        clus
vv       CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE
  CLUS_1                  4                   65
  CLUS_2                  2                   46
  CLUS_3                  1                   38
  CLUS_4                  1                   15
  CLUS_5                  0                   53
  CLUS_6                  0                   20
  CLUS_7                  0                   21
  CLUS_8                  0                   38
  CLUS_9                  0                   50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CSGALNACT1 MUTATED        0      1      0      0      1      0
  CSGALNACT1 WILD-TYPE     13     15     14     11     10      9
D906V11, multiclass
[1] "Remove cluster labels:" "CSGALNACT1 MUTATED"    
clus
  CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE 
                   2                   72 
          TCGA-A6-5657           TCGA-A6-6137           TCGA-A6-6138 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-A6-6141           TCGA-A6-6142           TCGA-A6-6649 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-A6-6651           TCGA-A6-6653           TCGA-A6-6654 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-A6-6782           TCGA-AA-3511           TCGA-AD-5900 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AD-6548           TCGA-AD-6889           TCGA-AD-6901 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AD-6963           TCGA-AD-6964           TCGA-AD-6965 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AY-6196           TCGA-AZ-4323           TCGA-AZ-4616 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AZ-5403           TCGA-AZ-6598           TCGA-AZ-6600 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AZ-6601           TCGA-AZ-6603           TCGA-AZ-6605 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AZ-6607           TCGA-CA-6718           TCGA-CA-6719 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-CK-5916           TCGA-CK-6748           TCGA-CM-5860 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-CM-6167           TCGA-CM-6674           TCGA-CM-6676 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-CM-6677           TCGA-CM-6678           TCGA-CM-6679 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-CM-6680           TCGA-D5-5537           TCGA-D5-6533 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-D5-6534           TCGA-D5-6536           TCGA-D5-6922 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-D5-6924           TCGA-DM-A0XD           TCGA-DM-A0XF 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-DM-A1D0           TCGA-DM-A1D7           TCGA-DM-A1D8 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-DM-A1D9           TCGA-DM-A1DA           TCGA-DM-A1HA 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-DM-A282           TCGA-DM-A285           TCGA-DM-A28F 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-F4-6459           TCGA-F4-6460           TCGA-F4-6569 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-F4-6570           TCGA-F4-6704           TCGA-F4-6805 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-F4-6807           TCGA-F4-6808           TCGA-F4-6809 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-G4-6299           TCGA-G4-6303           TCGA-G4-6306 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-G4-6309           TCGA-G4-6625           TCGA-G4-6628 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSGALNACT1 MUTATED        1      0      0      0      0      1      0      0
  CSGALNACT1 WILD-TYPE     10      7      7      9      8      6     11      9
                      vv
clus                   CLUS_9
  CSGALNACT1 MUTATED        0
  CSGALNACT1 WILD-TYPE      5
D906V12, multiclass
[1] "Remove cluster labels:" "CSGALNACT1 MUTATED"    
clus
  CSGALNACT1 MUTATED CSGALNACT1 WILD-TYPE 
                   2                   72 
          TCGA-A6-5657           TCGA-A6-6137           TCGA-A6-6138 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-A6-6141           TCGA-A6-6142           TCGA-A6-6649 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-A6-6651           TCGA-A6-6653           TCGA-A6-6654 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-A6-6782           TCGA-AA-3511           TCGA-AD-5900 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AD-6548           TCGA-AD-6889           TCGA-AD-6901 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AD-6963           TCGA-AD-6964           TCGA-AD-6965 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AY-6196           TCGA-AZ-4323           TCGA-AZ-4616 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AZ-5403           TCGA-AZ-6598           TCGA-AZ-6600 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AZ-6601           TCGA-AZ-6603           TCGA-AZ-6605 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-AZ-6607           TCGA-CA-6718           TCGA-CA-6719 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-CK-5916           TCGA-CK-6748           TCGA-CM-5860 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-CM-6167           TCGA-CM-6674           TCGA-CM-6676 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-CM-6677           TCGA-CM-6678           TCGA-CM-6679 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-CM-6680           TCGA-D5-5537           TCGA-D5-6533 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-D5-6534           TCGA-D5-6536           TCGA-D5-6922 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-D5-6924           TCGA-DM-A0XD           TCGA-DM-A0XF 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-DM-A1D0           TCGA-DM-A1D7           TCGA-DM-A1D8 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-DM-A1D9           TCGA-DM-A1DA           TCGA-DM-A1HA 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-DM-A282           TCGA-DM-A285           TCGA-DM-A28F 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-F4-6459           TCGA-F4-6460           TCGA-F4-6569 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-F4-6570           TCGA-F4-6704           TCGA-F4-6805 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-F4-6807           TCGA-F4-6808           TCGA-F4-6809 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-G4-6299           TCGA-G4-6303           TCGA-G4-6306 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 
          TCGA-G4-6309           TCGA-G4-6625           TCGA-G4-6628 
"CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" "CSGALNACT1 WILD-TYPE" 

Clustering(907) Variable = CACHD1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACHD1 MUTATED        6      0      0      3      0
  CACHD1 WILD-TYPE     26     18     46     24     23
D907V1, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              6               26
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              3               24
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACHD1 MUTATED        6      2      1
  CACHD1 WILD-TYPE     37     65     35
D907V2, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              6               37
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACHD1 MUTATED        1      5     15
  CACHD1 WILD-TYPE     41    168    132
D907V3, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3             15              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACHD1 MUTATED        6      3      3
  CACHD1 WILD-TYPE     56     70     72
D907V4, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              3               70
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACHD1 MUTATED        1      5     10
  CACHD1 WILD-TYPE     69    115     90
D907V5, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACHD1 MUTATED        0      0      2      2      1      8      2      1
  CACHD1 WILD-TYPE     41     26     28     27     38     61     18     13
                  vv
clus               CLUS_9
  CACHD1 MUTATED        0
  CACHD1 WILD-TYPE     22
D907V6, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              8               61
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACHD1 MUTATED        5      4      4      8
  CACHD1 WILD-TYPE     95     68     68    113
D907V7, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              4               68
  CLUS_3              4               68
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACHD1 MUTATED        2      4      6      3      6
  CACHD1 WILD-TYPE     57     71     68    116     32
D907V8, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              6               68
  CLUS_4              3              116
  CLUS_5              6               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACHD1 MUTATED        3      7      1      1      7
  CACHD1 WILD-TYPE     48     69     60     70     88
D907V9, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              7               69
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACHD1 MUTATED        6      3      1      0      2      1      0      5
  CACHD1 WILD-TYPE     63     45     38     16     51     19     21     33
                  vv
clus               CLUS_9
  CACHD1 MUTATED        1
  CACHD1 WILD-TYPE     49
D907V10, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              5               33
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CACHD1 MUTATED        0      0      1      0      2      0
  CACHD1 WILD-TYPE     13     16     13     11      9      9
D907V11, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACHD1 MUTATED        0      0      0      0      1      1      1      0
  CACHD1 WILD-TYPE     11      7      7      9      7      6     10      9
                  vv
clus               CLUS_9
  CACHD1 MUTATED        0
  CACHD1 WILD-TYPE      5
D907V12, multiclass
        clus
vv       CACHD1 MUTATED CACHD1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(908) Variable = DBN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DBN1 MUTATED        1      0      0      0      0
  DBN1 WILD-TYPE     31     18     46     27     23
D908V1, multiclass
[1] "Remove cluster labels:" "DBN1 MUTATED"          
clus
  DBN1 MUTATED DBN1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AY-4071 
"DBN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DBN1 MUTATED        1      0      0
  DBN1 WILD-TYPE     42     67     36
D908V2, multiclass
[1] "Remove cluster labels:" "DBN1 MUTATED"          
clus
  DBN1 MUTATED DBN1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" "DBN1 WILD-TYPE" 
    TCGA-AY-4071 
"DBN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DBN1 MUTATED        2      3      4
  DBN1 WILD-TYPE     40    170    143
D908V3, multiclass
        clus
vv       DBN1 MUTATED DBN1 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            3            170
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DBN1 MUTATED        1      3      4
  DBN1 WILD-TYPE     61     70     71
D908V4, multiclass
        clus
vv       DBN1 MUTATED DBN1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            3             70
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DBN1 MUTATED        1      2      5
  DBN1 WILD-TYPE     69    118     95
D908V5, multiclass
        clus
vv       DBN1 MUTATED DBN1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DBN1 MUTATED        1      0      0      1      1      3      0      1      1
  DBN1 WILD-TYPE     40     26     30     28     38     66     20     13     21
D908V6, multiclass
        clus
vv       DBN1 MUTATED DBN1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DBN1 MUTATED        2      4      2      1
  DBN1 WILD-TYPE     98     68     70    120
D908V7, multiclass
        clus
vv       DBN1 MUTATED DBN1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DBN1 MUTATED        2      1      5      0      1
  DBN1 WILD-TYPE     57     74     69    119     37
D908V8, multiclass
        clus
vv       DBN1 MUTATED DBN1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DBN1 MUTATED        1      6      1      0      1
  DBN1 WILD-TYPE     50     70     60     71     94
D908V9, multiclass
        clus
vv       DBN1 MUTATED DBN1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DBN1 MUTATED        2      2      2      2      0      0      0      1      0
  DBN1 WILD-TYPE     67     46     37     14     53     20     21     37     50
D908V10, multiclass
        clus
vv       DBN1 MUTATED DBN1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            2             37
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DBN1 MUTATED        1      1      0      1      1      0
  DBN1 WILD-TYPE     12     15     14     10     10      9
D908V11, multiclass
        clus
vv       DBN1 MUTATED DBN1 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DBN1 MUTATED        1      0      0      1      0      0      0      2      0
  DBN1 WILD-TYPE     10      7      7      8      8      7     11      7      5
D908V12, multiclass
        clus
vv       DBN1 MUTATED DBN1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            2              7
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(909) Variable = CRTC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRTC1 MUTATED        0      0      1      0      0
  CRTC1 WILD-TYPE     32     18     45     27     23
D909V1, multiclass
[1] "Remove cluster labels:" "CRTC1 MUTATED"         
clus
  CRTC1 MUTATED CRTC1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AY-4071 
"CRTC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        0      0      1
  CRTC1 WILD-TYPE     43     67     35
D909V2, multiclass
[1] "Remove cluster labels:" "CRTC1 MUTATED"         
clus
  CRTC1 MUTATED CRTC1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AY-4071 
"CRTC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        0      2     11
  CRTC1 WILD-TYPE     42    171    136
D909V3, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        4      1      7
  CRTC1 WILD-TYPE     58     72     68
D909V4, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        1      3      7
  CRTC1 WILD-TYPE     69    117     93
D909V5, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CRTC1 MUTATED        0      0      0      2      1      6      2      0
  CRTC1 WILD-TYPE     41     26     30     27     38     63     18     14
                 vv
clus              CLUS_9
  CRTC1 MUTATED        0
  CRTC1 WILD-TYPE     22
D909V6, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC1 MUTATED        1      7      4      1
  CRTC1 WILD-TYPE     99     65     68    120
D909V7, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             7              65
  CLUS_3             4              68
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRTC1 MUTATED        0      2     10      1      0
  CRTC1 WILD-TYPE     59     73     64    118     38
D909V8, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3            10              64
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRTC1 MUTATED        0      9      2      0      2
  CRTC1 WILD-TYPE     51     67     59     71     93
D909V9, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             9              67
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CRTC1 MUTATED        3      2      1      2      3      0      0      1
  CRTC1 WILD-TYPE     66     46     38     14     50     20     21     37
                 vv
clus              CLUS_9
  CRTC1 MUTATED        1
  CRTC1 WILD-TYPE     49
D909V10, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CRTC1 MUTATED        0      0      2      0      1      0
  CRTC1 WILD-TYPE     13     16     12     11     10      9
D909V11, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CRTC1 MUTATED        0      0      0      1      1      0      1      0
  CRTC1 WILD-TYPE     11      7      7      8      7      7     10      9
                 vv
clus              CLUS_9
  CRTC1 MUTATED        0
  CRTC1 WILD-TYPE      5
D909V12, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(910) Variable = RRAGD MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRAGD MUTATED        0      0      0      1      0
  RRAGD WILD-TYPE     32     18     46     26     23
D910V1, multiclass
[1] "Remove cluster labels:" "RRAGD MUTATED"         
clus
  RRAGD MUTATED RRAGD WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3560      TCGA-AA-3561 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AY-4071 
"RRAGD WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRAGD MUTATED        0      1      0
  RRAGD WILD-TYPE     43     66     36
D910V2, multiclass
[1] "Remove cluster labels:" "RRAGD MUTATED"         
clus
  RRAGD MUTATED RRAGD WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3560      TCGA-AA-3561 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" "RRAGD WILD-TYPE" 
     TCGA-AY-4071 
"RRAGD WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRAGD MUTATED        1      4      2
  RRAGD WILD-TYPE     41    169    145
D910V3, multiclass
        clus
vv       RRAGD MUTATED RRAGD WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRAGD MUTATED        1      2      3
  RRAGD WILD-TYPE     61     71     72
D910V4, multiclass
        clus
vv       RRAGD MUTATED RRAGD WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRAGD MUTATED        0      5      1
  RRAGD WILD-TYPE     70    115     99
D910V5, multiclass
        clus
vv       RRAGD MUTATED RRAGD WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RRAGD MUTATED        0      0      1      2      0      1      0      2
  RRAGD WILD-TYPE     41     26     29     27     39     68     20     12
                 vv
clus              CLUS_9
  RRAGD MUTATED        0
  RRAGD WILD-TYPE     22
D910V6, multiclass
        clus
vv       RRAGD MUTATED RRAGD WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RRAGD MUTATED        3      3      0      0
  RRAGD WILD-TYPE     97     69     72    121
D910V7, multiclass
        clus
vv       RRAGD MUTATED RRAGD WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             0              72
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRAGD MUTATED        1      4      1      0      0
  RRAGD WILD-TYPE     58     71     73    119     38
D910V8, multiclass
        clus
vv       RRAGD MUTATED RRAGD WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRAGD MUTATED        3      1      1      0      2
  RRAGD WILD-TYPE     48     75     60     71     93
D910V9, multiclass
        clus
vv       RRAGD MUTATED RRAGD WILD-TYPE
  CLUS_1             3              48
  CLUS_2             1              75
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RRAGD MUTATED        2      1      1      0      0      1      0      0
  RRAGD WILD-TYPE     67     47     38     16     53     19     21     38
                 vv
clus              CLUS_9
  RRAGD MUTATED        2
  RRAGD WILD-TYPE     48
D910V10, multiclass
        clus
vv       RRAGD MUTATED RRAGD WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RRAGD MUTATED        0      0      0      0      0      0
  RRAGD WILD-TYPE     13     16     14     11     11      9
D910V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RRAGD MUTATED        0      0      0      0      0      0      0      0
  RRAGD WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  RRAGD MUTATED        0
  RRAGD WILD-TYPE      5
D910V12, multiclass

Clustering(911) Variable = CTNNA3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNA3 MUTATED        3      0      0      4      1
  CTNNA3 WILD-TYPE     29     18     46     23     22
D911V1, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              4               23
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNA3 MUTATED        5      2      1
  CTNNA3 WILD-TYPE     38     65     35
D911V2, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNA3 MUTATED        1      4     21
  CTNNA3 WILD-TYPE     41    169    126
D911V3, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             21              126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNA3 MUTATED        4      3     10
  CTNNA3 WILD-TYPE     58     70     65
D911V4, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              3               70
  CLUS_3             10               65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNA3 MUTATED        4      8      9
  CTNNA3 WILD-TYPE     66    112     91
D911V5, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              8              112
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTNNA3 MUTATED        0      0      3      0      2     10      2      2
  CTNNA3 WILD-TYPE     41     26     27     29     37     59     18     12
                  vv
clus               CLUS_9
  CTNNA3 MUTATED        2
  CTNNA3 WILD-TYPE     20
D911V6, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              3               27
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6             10               59
  CLUS_7              2               18
  CLUS_8              2               12
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNA3 MUTATED        2      9      7      8
  CTNNA3 WILD-TYPE     98     63     65    113
D911V7, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              9               63
  CLUS_3              7               65
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNA3 MUTATED        2      4     12      3      5
  CTNNA3 WILD-TYPE     57     71     62    116     33
D911V8, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3             12               62
  CLUS_4              3              116
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNA3 MUTATED        3     10      3      1      8
  CTNNA3 WILD-TYPE     48     66     58     70     87
D911V9, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              3               48
  CLUS_2             10               66
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTNNA3 MUTATED        4      3      1      5      4      2      0      4
  CTNNA3 WILD-TYPE     65     45     38     11     49     18     21     34
                  vv
clus               CLUS_9
  CTNNA3 MUTATED        2
  CTNNA3 WILD-TYPE     48
D911V10, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              5               11
  CLUS_5              4               49
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              4               34
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTNNA3 MUTATED        0      0      1      0      3      1
  CTNNA3 WILD-TYPE     13     16     13     11      8      8
D911V11, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTNNA3 MUTATED        0      0      0      1      2      0      1      1
  CTNNA3 WILD-TYPE     11      7      7      8      6      7     10      8
                  vv
clus               CLUS_9
  CTNNA3 MUTATED        0
  CTNNA3 WILD-TYPE      5
D911V12, multiclass
        clus
vv       CTNNA3 MUTATED CTNNA3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(912) Variable = EML4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EML4 MUTATED        3      0      0      0      0
  EML4 WILD-TYPE     29     18     46     27     23
D912V1, multiclass
        clus
vv       EML4 MUTATED EML4 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EML4 MUTATED        2      0      1
  EML4 WILD-TYPE     41     67     35
D912V2, multiclass
        clus
vv       EML4 MUTATED EML4 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EML4 MUTATED        1      3      6
  EML4 WILD-TYPE     41    170    141
D912V3, multiclass
        clus
vv       EML4 MUTATED EML4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EML4 MUTATED        2      3      2
  EML4 WILD-TYPE     60     70     73
D912V4, multiclass
        clus
vv       EML4 MUTATED EML4 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            3             70
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EML4 MUTATED        1      2      4
  EML4 WILD-TYPE     69    118     96
D912V5, multiclass
        clus
vv       EML4 MUTATED EML4 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EML4 MUTATED        2      0      0      1      1      3      0      0      0
  EML4 WILD-TYPE     39     26     30     28     38     66     20     14     22
D912V6, multiclass
        clus
vv       EML4 MUTATED EML4 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EML4 MUTATED        3      3      1      3
  EML4 WILD-TYPE     97     69     71    118
D912V7, multiclass
        clus
vv       EML4 MUTATED EML4 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            3             69
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EML4 MUTATED        2      4      1      1      2
  EML4 WILD-TYPE     57     71     73    118     36
D912V8, multiclass
        clus
vv       EML4 MUTATED EML4 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            4             71
  CLUS_3            1             73
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EML4 MUTATED        2      2      2      1      3
  EML4 WILD-TYPE     49     74     59     70     92
D912V9, multiclass
        clus
vv       EML4 MUTATED EML4 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            2             74
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EML4 MUTATED        2      2      0      1      1      1      0      2      1
  EML4 WILD-TYPE     67     46     39     15     52     19     21     36     49
D912V10, multiclass
        clus
vv       EML4 MUTATED EML4 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EML4 MUTATED        0      0      0      1      0      0
  EML4 WILD-TYPE     13     16     14     10     11      9
D912V11, multiclass
[1] "Remove cluster labels:" "EML4 MUTATED"          
clus
  EML4 MUTATED EML4 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6460 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-G4-6628 
"EML4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EML4 MUTATED        0      0      1      0      0      0      0      0      0
  EML4 WILD-TYPE     11      7      6      9      8      7     11      9      5
D912V12, multiclass
[1] "Remove cluster labels:" "EML4 MUTATED"          
clus
  EML4 MUTATED EML4 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6460 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" "EML4 WILD-TYPE" 
    TCGA-G4-6628 
"EML4 WILD-TYPE" 

Clustering(913) Variable = PLA2G15 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLA2G15 MUTATED        1      0      0      0      0
  PLA2G15 WILD-TYPE     31     18     46     27     23
D913V1, multiclass
[1] "Remove cluster labels:" "PLA2G15 MUTATED"       
clus
  PLA2G15 MUTATED PLA2G15 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3812 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AY-4071 
"PLA2G15 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLA2G15 MUTATED        1      0      0
  PLA2G15 WILD-TYPE     42     67     36
D913V2, multiclass
[1] "Remove cluster labels:" "PLA2G15 MUTATED"       
clus
  PLA2G15 MUTATED PLA2G15 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3812 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" "PLA2G15 WILD-TYPE" 
       TCGA-AY-4071 
"PLA2G15 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLA2G15 MUTATED        1      1      3
  PLA2G15 WILD-TYPE     41    172    144
D913V3, multiclass
        clus
vv       PLA2G15 MUTATED PLA2G15 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLA2G15 MUTATED        3      1      0
  PLA2G15 WILD-TYPE     59     72     75
D913V4, multiclass
        clus
vv       PLA2G15 MUTATED PLA2G15 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               0                75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLA2G15 MUTATED        0      2      3
  PLA2G15 WILD-TYPE     70    118     97
D913V5, multiclass
        clus
vv       PLA2G15 MUTATED PLA2G15 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLA2G15 MUTATED        1      0      0      1      1      2      0      0
  PLA2G15 WILD-TYPE     40     26     30     28     38     67     20     14
                   vv
clus                CLUS_9
  PLA2G15 MUTATED        0
  PLA2G15 WILD-TYPE     22
D913V6, multiclass
        clus
vv       PLA2G15 MUTATED PLA2G15 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLA2G15 MUTATED        1      1      2      1
  PLA2G15 WILD-TYPE     99     71     70    120
D913V7, multiclass
        clus
vv       PLA2G15 MUTATED PLA2G15 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLA2G15 MUTATED        1      1      2      0      1
  PLA2G15 WILD-TYPE     58     74     72    119     37
D913V8, multiclass
        clus
vv       PLA2G15 MUTATED PLA2G15 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLA2G15 MUTATED        0      2      1      2      0
  PLA2G15 WILD-TYPE     51     74     60     69     95
D913V9, multiclass
        clus
vv       PLA2G15 MUTATED PLA2G15 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               2                69
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLA2G15 MUTATED        1      2      0      1      1      0      0      0
  PLA2G15 WILD-TYPE     68     46     39     15     52     20     21     38
                   vv
clus                CLUS_9
  PLA2G15 MUTATED        0
  PLA2G15 WILD-TYPE     50
D913V10, multiclass
        clus
vv       PLA2G15 MUTATED PLA2G15 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLA2G15 MUTATED        0      1      0      0      1      1
  PLA2G15 WILD-TYPE     13     15     14     11     10      8
D913V11, multiclass
        clus
vv       PLA2G15 MUTATED PLA2G15 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLA2G15 MUTATED        0      0      0      0      0      1      1      1
  PLA2G15 WILD-TYPE     11      7      7      9      8      6     10      8
                   vv
clus                CLUS_9
  PLA2G15 MUTATED        0
  PLA2G15 WILD-TYPE      5
D913V12, multiclass
        clus
vv       PLA2G15 MUTATED PLA2G15 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(914) Variable = USP29 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP29 MUTATED        5      0      0      2      0
  USP29 WILD-TYPE     27     18     46     25     23
D914V1, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP29 MUTATED        5      1      1
  USP29 WILD-TYPE     38     66     35
D914V2, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP29 MUTATED        1      1     16
  USP29 WILD-TYPE     41    172    131
D914V3, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP29 MUTATED        3      1      7
  USP29 WILD-TYPE     59     72     68
D914V4, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP29 MUTATED        3      3      7
  USP29 WILD-TYPE     67    117     93
D914V5, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP29 MUTATED        1      0      2      1      2      6      1      0
  USP29 WILD-TYPE     40     26     28     28     37     63     19     14
                 vv
clus              CLUS_9
  USP29 MUTATED        0
  USP29 WILD-TYPE     22
D914V6, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP29 MUTATED        2      5      4      7
  USP29 WILD-TYPE     98     67     68    114
D914V7, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP29 MUTATED        0      4      7      3      4
  USP29 WILD-TYPE     59     71     67    116     34
D914V8, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             4              71
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP29 MUTATED        1      7      1      1      7
  USP29 WILD-TYPE     50     69     60     70     88
D914V9, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP29 MUTATED        2      3      1      1      3      1      1      4
  USP29 WILD-TYPE     67     45     38     15     50     19     20     34
                 vv
clus              CLUS_9
  USP29 MUTATED        1
  USP29 WILD-TYPE     49
D914V10, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USP29 MUTATED        0      1      0      0      2      0
  USP29 WILD-TYPE     13     15     14     11      9      9
D914V11, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP29 MUTATED        0      0      0      0      1      0      2      0
  USP29 WILD-TYPE     11      7      7      9      7      7      9      9
                 vv
clus              CLUS_9
  USP29 MUTATED        0
  USP29 WILD-TYPE      5
D914V12, multiclass
        clus
vv       USP29 MUTATED USP29 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(915) Variable = BAIAP2L1 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAIAP2L1 MUTATED        2      0      0      0      0
  BAIAP2L1 WILD-TYPE     30     18     46     27     23
D915V1, multiclass
[1] "Remove cluster labels:" "BAIAP2L1 MUTATED"      
clus
  BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3968         TCGA-AA-3971 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3979         TCGA-AA-3980 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3984         TCGA-AA-3986 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  BAIAP2L1 MUTATED        2      0      0
  BAIAP2L1 WILD-TYPE     41     67     36
D915V2, multiclass
[1] "Remove cluster labels:" "BAIAP2L1 MUTATED"      
clus
  BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3968         TCGA-AA-3971 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3979         TCGA-AA-3980 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3984         TCGA-AA-3986 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" "BAIAP2L1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  BAIAP2L1 MUTATED        1      0     11
  BAIAP2L1 WILD-TYPE     41    173    136
D915V3, multiclass
        clus
vv       BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                173
  CLUS_3               11                136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  BAIAP2L1 MUTATED        3      0      6
  BAIAP2L1 WILD-TYPE     59     73     69
D915V4, multiclass
        clus
vv       BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                0                 73
  CLUS_3                6                 69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  BAIAP2L1 MUTATED        2      2      4
  BAIAP2L1 WILD-TYPE     68    118     96
D915V5, multiclass
        clus
vv       BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                2                118
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BAIAP2L1 MUTATED        1      0      1      1      0      4      1      0
  BAIAP2L1 WILD-TYPE     40     26     29     28     39     65     19     14
                    vv
clus                 CLUS_9
  BAIAP2L1 MUTATED        0
  BAIAP2L1 WILD-TYPE     22
D915V6, multiclass
        clus
vv       BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                4                 65
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BAIAP2L1 MUTATED        0      5      4      3
  BAIAP2L1 WILD-TYPE    100     67     68    118
D915V7, multiclass
        clus
vv       BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                5                 67
  CLUS_3                4                 68
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAIAP2L1 MUTATED        0      1      8      0      3
  BAIAP2L1 WILD-TYPE     59     74     66    119     35
D915V8, multiclass
        clus
vv       BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                8                 66
  CLUS_4                0                119
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAIAP2L1 MUTATED        0      7      1      0      4
  BAIAP2L1 WILD-TYPE     51     69     60     71     91
D915V9, multiclass
        clus
vv       BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                7                 69
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BAIAP2L1 MUTATED        1      2      0      4      1      0      0      3
  BAIAP2L1 WILD-TYPE     68     46     39     12     52     20     21     35
                    vv
clus                 CLUS_9
  BAIAP2L1 MUTATED        1
  BAIAP2L1 WILD-TYPE     49
D915V10, multiclass
        clus
vv       BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                4                 12
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                3                 35
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BAIAP2L1 MUTATED        1      1      1      0      1      0
  BAIAP2L1 WILD-TYPE     12     15     13     11     10      9
D915V11, multiclass
        clus
vv       BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BAIAP2L1 MUTATED        0      0      0      1      2      0      1      0
  BAIAP2L1 WILD-TYPE     11      7      7      8      6      7     10      9
                    vv
clus                 CLUS_9
  BAIAP2L1 MUTATED        0
  BAIAP2L1 WILD-TYPE      5
D915V12, multiclass
        clus
vv       BAIAP2L1 MUTATED BAIAP2L1 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                2                  6
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(916) Variable = ZNF799 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF799 MUTATED        0      0      0      1      0
  ZNF799 WILD-TYPE     32     18     46     26     23
D916V1, multiclass
[1] "Remove cluster labels:" "ZNF799 MUTATED"        
clus
  ZNF799 MUTATED ZNF799 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF799 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF799 MUTATED        0      1      0
  ZNF799 WILD-TYPE     43     66     36
D916V2, multiclass
[1] "Remove cluster labels:" "ZNF799 MUTATED"        
clus
  ZNF799 MUTATED ZNF799 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF799 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF799 MUTATED        0      3      3
  ZNF799 WILD-TYPE     42    170    144
D916V3, multiclass
        clus
vv       ZNF799 MUTATED ZNF799 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF799 MUTATED        1      2      2
  ZNF799 WILD-TYPE     61     71     73
D916V4, multiclass
        clus
vv       ZNF799 MUTATED ZNF799 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF799 MUTATED        0      4      1
  ZNF799 WILD-TYPE     70    116     99
D916V5, multiclass
        clus
vv       ZNF799 MUTATED ZNF799 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF799 MUTATED        0      0      1      1      0      1      0      1
  ZNF799 WILD-TYPE     41     26     29     28     39     68     20     13
                  vv
clus               CLUS_9
  ZNF799 MUTATED        1
  ZNF799 WILD-TYPE     21
D916V6, multiclass
        clus
vv       ZNF799 MUTATED ZNF799 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF799 MUTATED        3      2      0      1
  ZNF799 WILD-TYPE     97     70     72    120
D916V7, multiclass
        clus
vv       ZNF799 MUTATED ZNF799 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              2               70
  CLUS_3              0               72
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF799 MUTATED        0      4      1      1      0
  ZNF799 WILD-TYPE     59     71     73    118     38
D916V8, multiclass
        clus
vv       ZNF799 MUTATED ZNF799 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              4               71
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF799 MUTATED        4      0      0      0      2
  ZNF799 WILD-TYPE     47     76     61     71     93
D916V9, multiclass
        clus
vv       ZNF799 MUTATED ZNF799 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              0               76
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF799 MUTATED        1      0      0      0      1      3      0      0
  ZNF799 WILD-TYPE     68     48     39     16     52     17     21     38
                  vv
clus               CLUS_9
  ZNF799 MUTATED        1
  ZNF799 WILD-TYPE     49
D916V10, multiclass
        clus
vv       ZNF799 MUTATED ZNF799 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              3               17
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF799 MUTATED        0      0      0      0      0      0
  ZNF799 WILD-TYPE     13     16     14     11     11      9
D916V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF799 MUTATED        0      0      0      0      0      0      0      0
  ZNF799 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  ZNF799 MUTATED        0
  ZNF799 WILD-TYPE      5
D916V12, multiclass

Clustering(917) Variable = ATIC MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATIC MUTATED        2      0      0      1      0
  ATIC WILD-TYPE     30     18     46     26     23
D917V1, multiclass
        clus
vv       ATIC MUTATED ATIC WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATIC MUTATED        3      0      0
  ATIC WILD-TYPE     40     67     36
D917V2, multiclass
        clus
vv       ATIC MUTATED ATIC WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATIC MUTATED        0      3     10
  ATIC WILD-TYPE     42    170    137
D917V3, multiclass
        clus
vv       ATIC MUTATED ATIC WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATIC MUTATED        1      2      6
  ATIC WILD-TYPE     61     71     69
D917V4, multiclass
        clus
vv       ATIC MUTATED ATIC WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATIC MUTATED        2      4      4
  ATIC WILD-TYPE     68    116     96
D917V5, multiclass
        clus
vv       ATIC MUTATED ATIC WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4            116
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATIC MUTATED        1      1      1      2      0      4      1      0      0
  ATIC WILD-TYPE     40     25     29     27     39     65     19     14     22
D917V6, multiclass
        clus
vv       ATIC MUTATED ATIC WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATIC MUTATED        3      4      2      4
  ATIC WILD-TYPE     97     68     70    117
D917V7, multiclass
        clus
vv       ATIC MUTATED ATIC WILD-TYPE
  CLUS_1            3             97
  CLUS_2            4             68
  CLUS_3            2             70
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATIC MUTATED        1      2      6      1      3
  ATIC WILD-TYPE     58     73     68    118     35
D917V8, multiclass
        clus
vv       ATIC MUTATED ATIC WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            6             68
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATIC MUTATED        2      5      1      1      3
  ATIC WILD-TYPE     49     71     60     70     92
D917V9, multiclass
        clus
vv       ATIC MUTATED ATIC WILD-TYPE
  CLUS_1            2             49
  CLUS_2            5             71
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATIC MUTATED        4      2      0      1      2      0      1      2      0
  ATIC WILD-TYPE     65     46     39     15     51     20     20     36     50
D917V10, multiclass
        clus
vv       ATIC MUTATED ATIC WILD-TYPE
  CLUS_1            4             65
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATIC MUTATED        0      0      0      0      2      0
  ATIC WILD-TYPE     13     16     14     11      9      9
D917V11, multiclass
[1] "Remove cluster labels:" "ATIC MUTATED"          
clus
  ATIC MUTATED ATIC WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-6748 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATIC MUTATED        0      0      0      0      0      1      1      0      0
  ATIC WILD-TYPE     11      7      7      9      8      6     10      9      5
D917V12, multiclass
[1] "Remove cluster labels:" "ATIC MUTATED"          
clus
  ATIC MUTATED ATIC WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-6748 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" "ATIC WILD-TYPE" 

Clustering(918) Variable = CPZ MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CPZ MUTATED        2      0      0      1      0
  CPZ WILD-TYPE     30     18     46     26     23
D918V1, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CPZ MUTATED        1      1      1
  CPZ WILD-TYPE     42     66     35
D918V2, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           1            42
  CLUS_2           1            66
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CPZ MUTATED        1      1     13
  CPZ WILD-TYPE     41    172    134
D918V3, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           1            41
  CLUS_2           1           172
  CLUS_3          13           134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CPZ MUTATED        6      0      6
  CPZ WILD-TYPE     56     73     69
D918V4, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           6            56
  CLUS_2           0            73
  CLUS_3           6            69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CPZ MUTATED        0      5      9
  CPZ WILD-TYPE     70    115     91
D918V5, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           0            70
  CLUS_2           5           115
  CLUS_3           9            91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CPZ MUTATED        0      0      1      4      0      8      1      0      0
  CPZ WILD-TYPE     41     26     29     25     39     61     19     14     22
D918V6, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           1            29
  CLUS_4           4            25
  CLUS_5           0            39
  CLUS_6           8            61
  CLUS_7           1            19
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CPZ MUTATED        0      8      4      3
  CPZ WILD-TYPE    100     64     68    118
D918V7, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           0           100
  CLUS_2           8            64
  CLUS_3           4            68
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CPZ MUTATED        1      2      9      2      1
  CPZ WILD-TYPE     58     73     65    117     37
D918V8, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           1            58
  CLUS_2           2            73
  CLUS_3           9            65
  CLUS_4           2           117
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CPZ MUTATED        1      8      2      1      3
  CPZ WILD-TYPE     50     68     59     70     92
D918V9, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           1            50
  CLUS_2           8            68
  CLUS_3           2            59
  CLUS_4           1            70
  CLUS_5           3            92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CPZ MUTATED        3      4      0      2      2      2      0      1      1
  CPZ WILD-TYPE     66     44     39     14     51     18     21     37     49
D918V10, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           3            66
  CLUS_2           4            44
  CLUS_3           0            39
  CLUS_4           2            14
  CLUS_5           2            51
  CLUS_6           2            18
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CPZ MUTATED        0      1      0      0      2      0
  CPZ WILD-TYPE     13     15     14     11      9      9
D918V11, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           0            13
  CLUS_2           1            15
  CLUS_3           0            14
  CLUS_4           0            11
  CLUS_5           2             9
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CPZ MUTATED        0      1      0      1      0      0      1      0      0
  CPZ WILD-TYPE     11      6      7      8      8      7     10      9      5
D918V12, multiclass
        clus
vv       CPZ MUTATED CPZ WILD-TYPE
  CLUS_1           0            11
  CLUS_2           1             6
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           1            10
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(919) Variable = GRIA4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRIA4 MUTATED        3      1      1      1      1
  GRIA4 WILD-TYPE     29     17     45     26     22
D919V1, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRIA4 MUTATED        3      2      2
  GRIA4 WILD-TYPE     40     65     34
D919V2, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRIA4 MUTATED        2     15     13
  GRIA4 WILD-TYPE     40    158    134
D919V3, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1             2              40
  CLUS_2            15             158
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRIA4 MUTATED        8     10      4
  GRIA4 WILD-TYPE     54     63     71
D919V4, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1             8              54
  CLUS_2            10              63
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRIA4 MUTATED        4      8     14
  GRIA4 WILD-TYPE     66    112     86
D919V5, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             8             112
  CLUS_3            14              86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRIA4 MUTATED        3      1      1      4      2     10      2      1
  GRIA4 WILD-TYPE     38     25     29     25     37     59     18     13
                 vv
clus              CLUS_9
  GRIA4 MUTATED        2
  GRIA4 WILD-TYPE     20
D919V6, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             2              37
  CLUS_6            10              59
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRIA4 MUTATED       10      8      6      6
  GRIA4 WILD-TYPE     90     64     66    115
D919V7, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1            10              90
  CLUS_2             8              64
  CLUS_3             6              66
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRIA4 MUTATED       10      7      5      5      3
  GRIA4 WILD-TYPE     49     68     69    114     35
D919V8, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1            10              49
  CLUS_2             7              68
  CLUS_3             5              69
  CLUS_4             5             114
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRIA4 MUTATED        3      7      7      6      7
  GRIA4 WILD-TYPE     48     69     54     65     88
D919V9, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             7              69
  CLUS_3             7              54
  CLUS_4             6              65
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRIA4 MUTATED        7      5      4      2      3      2      1      3
  GRIA4 WILD-TYPE     62     43     35     14     50     18     20     35
                 vv
clus              CLUS_9
  GRIA4 MUTATED        3
  GRIA4 WILD-TYPE     47
D919V10, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1             7              62
  CLUS_2             5              43
  CLUS_3             4              35
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GRIA4 MUTATED        1      1      0      2      0      2
  GRIA4 WILD-TYPE     12     15     14      9     11      7
D919V11, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             2               9
  CLUS_5             0              11
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRIA4 MUTATED        1      1      0      0      0      0      1      2
  GRIA4 WILD-TYPE     10      6      7      9      8      7     10      7
                 vv
clus              CLUS_9
  GRIA4 MUTATED        1
  GRIA4 WILD-TYPE      4
D919V12, multiclass
        clus
vv       GRIA4 MUTATED GRIA4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             2               7
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(920) Variable = NDUFAF1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDUFAF1 MUTATED        0      0      0      0      0
  NDUFAF1 WILD-TYPE     32     18     46     27     23
D920V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NDUFAF1 MUTATED        0      0      0
  NDUFAF1 WILD-TYPE     43     67     36
D920V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NDUFAF1 MUTATED        0      1      6
  NDUFAF1 WILD-TYPE     42    172    141
D920V3, multiclass
        clus
vv       NDUFAF1 MUTATED NDUFAF1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NDUFAF1 MUTATED        1      2      4
  NDUFAF1 WILD-TYPE     61     71     71
D920V4, multiclass
        clus
vv       NDUFAF1 MUTATED NDUFAF1 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               2                71
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NDUFAF1 MUTATED        3      1      2
  NDUFAF1 WILD-TYPE     67    119     98
D920V5, multiclass
        clus
vv       NDUFAF1 MUTATED NDUFAF1 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               1               119
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDUFAF1 MUTATED        1      0      0      0      1      3      0      1
  NDUFAF1 WILD-TYPE     40     26     30     29     38     66     20     13
                   vv
clus                CLUS_9
  NDUFAF1 MUTATED        0
  NDUFAF1 WILD-TYPE     22
D920V6, multiclass
        clus
vv       NDUFAF1 MUTATED NDUFAF1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NDUFAF1 MUTATED        3      3      1      0
  NDUFAF1 WILD-TYPE     97     69     71    121
D920V7, multiclass
        clus
vv       NDUFAF1 MUTATED NDUFAF1 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               3                69
  CLUS_3               1                71
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDUFAF1 MUTATED        1      3      3      0      0
  NDUFAF1 WILD-TYPE     58     72     71    119     38
D920V8, multiclass
        clus
vv       NDUFAF1 MUTATED NDUFAF1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               3                72
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDUFAF1 MUTATED        0      6      1      0      0
  NDUFAF1 WILD-TYPE     51     70     60     71     95
D920V9, multiclass
        clus
vv       NDUFAF1 MUTATED NDUFAF1 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               6                70
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDUFAF1 MUTATED        4      1      0      1      1      0      0      0
  NDUFAF1 WILD-TYPE     65     47     39     15     52     20     21     38
                   vv
clus                CLUS_9
  NDUFAF1 MUTATED        0
  NDUFAF1 WILD-TYPE     50
D920V10, multiclass
        clus
vv       NDUFAF1 MUTATED NDUFAF1 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NDUFAF1 MUTATED        0      0      0      0      1      0
  NDUFAF1 WILD-TYPE     13     16     14     11     10      9
D920V11, multiclass
[1] "Remove cluster labels:" "NDUFAF1 MUTATED"       
clus
  NDUFAF1 MUTATED NDUFAF1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-G4-6628 
"NDUFAF1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDUFAF1 MUTATED        0      0      0      0      0      1      0      0
  NDUFAF1 WILD-TYPE     11      7      7      9      8      6     11      9
                   vv
clus                CLUS_9
  NDUFAF1 MUTATED        0
  NDUFAF1 WILD-TYPE      5
D920V12, multiclass
[1] "Remove cluster labels:" "NDUFAF1 MUTATED"       
clus
  NDUFAF1 MUTATED NDUFAF1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" "NDUFAF1 WILD-TYPE" 
       TCGA-G4-6628 
"NDUFAF1 WILD-TYPE" 

Clustering(921) Variable = SKIL MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SKIL MUTATED        0      0      0      0      0
  SKIL WILD-TYPE     32     18     46     27     23
D921V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SKIL MUTATED        0      0      0
  SKIL WILD-TYPE     43     67     36
D921V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SKIL MUTATED        0      4      3
  SKIL WILD-TYPE     42    169    144
D921V3, multiclass
        clus
vv       SKIL MUTATED SKIL WILD-TYPE
  CLUS_1            0             42
  CLUS_2            4            169
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SKIL MUTATED        2      3      2
  SKIL WILD-TYPE     60     70     73
D921V4, multiclass
        clus
vv       SKIL MUTATED SKIL WILD-TYPE
  CLUS_1            2             60
  CLUS_2            3             70
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SKIL MUTATED        0      3      3
  SKIL WILD-TYPE     70    117     97
D921V5, multiclass
        clus
vv       SKIL MUTATED SKIL WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SKIL MUTATED        2      0      0      1      0      2      0      0      1
  SKIL WILD-TYPE     39     26     30     28     39     67     20     14     21
D921V6, multiclass
        clus
vv       SKIL MUTATED SKIL WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SKIL MUTATED        2      4      1      0
  SKIL WILD-TYPE     98     68     71    121
D921V7, multiclass
        clus
vv       SKIL MUTATED SKIL WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SKIL MUTATED        2      1      4      0      0
  SKIL WILD-TYPE     57     74     70    119     38
D921V8, multiclass
        clus
vv       SKIL MUTATED SKIL WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SKIL MUTATED        0      4      1      2      0
  SKIL WILD-TYPE     51     72     60     69     95
D921V9, multiclass
        clus
vv       SKIL MUTATED SKIL WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SKIL MUTATED        3      1      0      1      2      0      0      0      0
  SKIL WILD-TYPE     66     47     39     15     51     20     21     38     50
D921V10, multiclass
        clus
vv       SKIL MUTATED SKIL WILD-TYPE
  CLUS_1            3             66
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SKIL MUTATED        1      0      0      1      0      0
  SKIL WILD-TYPE     12     16     14     10     11      9
D921V11, multiclass
[1] "Remove cluster labels:" "SKIL MUTATED"          
clus
  SKIL MUTATED SKIL WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-F4-6459     TCGA-F4-6460 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SKIL MUTATED        0      0      1      1      0      0      0      0      0
  SKIL WILD-TYPE     11      7      6      8      8      7     11      9      5
D921V12, multiclass
[1] "Remove cluster labels:" "SKIL MUTATED"          
clus
  SKIL MUTATED SKIL WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-F4-6459     TCGA-F4-6460 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" "SKIL WILD-TYPE" 

Clustering(922) Variable = ATP10B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP10B MUTATED        2      0      0      0      0
  ATP10B WILD-TYPE     30     18     46     27     23
D922V1, multiclass
[1] "Remove cluster labels:" "ATP10B MUTATED"        
clus
  ATP10B MUTATED ATP10B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3846       TCGA-AA-3848 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP10B MUTATED        2      0      0
  ATP10B WILD-TYPE     41     67     36
D922V2, multiclass
[1] "Remove cluster labels:" "ATP10B MUTATED"        
clus
  ATP10B MUTATED ATP10B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3846       TCGA-AA-3848 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" "ATP10B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP10B MUTATED        1      4     10
  ATP10B WILD-TYPE     41    169    137
D922V3, multiclass
        clus
vv       ATP10B MUTATED ATP10B WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP10B MUTATED        4      4      5
  ATP10B WILD-TYPE     58     69     70
D922V4, multiclass
        clus
vv       ATP10B MUTATED ATP10B WILD-TYPE
  CLUS_1              4               58
  CLUS_2              4               69
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP10B MUTATED        2      5      7
  ATP10B WILD-TYPE     68    115     93
D922V5, multiclass
        clus
vv       ATP10B MUTATED ATP10B WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP10B MUTATED        3      1      1      1      3      3      1      0
  ATP10B WILD-TYPE     38     25     29     28     36     66     19     14
                  vv
clus               CLUS_9
  ATP10B MUTATED        1
  ATP10B WILD-TYPE     21
D922V6, multiclass
        clus
vv       ATP10B MUTATED ATP10B WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP10B MUTATED        3      6      4      2
  ATP10B WILD-TYPE     97     66     68    119
D922V7, multiclass
        clus
vv       ATP10B MUTATED ATP10B WILD-TYPE
  CLUS_1              3               97
  CLUS_2              6               66
  CLUS_3              4               68
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP10B MUTATED        4      3      6      0      2
  ATP10B WILD-TYPE     55     72     68    119     36
D922V8, multiclass
        clus
vv       ATP10B MUTATED ATP10B WILD-TYPE
  CLUS_1              4               55
  CLUS_2              3               72
  CLUS_3              6               68
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP10B MUTATED        2      6      5      0      2
  ATP10B WILD-TYPE     49     70     56     71     93
D922V9, multiclass
        clus
vv       ATP10B MUTATED ATP10B WILD-TYPE
  CLUS_1              2               49
  CLUS_2              6               70
  CLUS_3              5               56
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP10B MUTATED        3      4      0      2      3      1      0      1
  ATP10B WILD-TYPE     66     44     39     14     50     19     21     37
                  vv
clus               CLUS_9
  ATP10B MUTATED        1
  ATP10B WILD-TYPE     49
D922V10, multiclass
        clus
vv       ATP10B MUTATED ATP10B WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP10B MUTATED        0      0      0      0      3      1
  ATP10B WILD-TYPE     13     16     14     11      8      8
D922V11, multiclass
        clus
vv       ATP10B MUTATED ATP10B WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP10B MUTATED        0      0      0      1      0      2      1      0
  ATP10B WILD-TYPE     11      7      7      8      8      5     10      9
                  vv
clus               CLUS_9
  ATP10B MUTATED        0
  ATP10B WILD-TYPE      5
D922V12, multiclass
        clus
vv       ATP10B MUTATED ATP10B WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              2                5
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(923) Variable = NUP205 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP205 MUTATED        3      1      2      1      0
  NUP205 WILD-TYPE     29     17     44     26     23
D923V1, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              1               17
  CLUS_3              2               44
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP205 MUTATED        3      2      2
  NUP205 WILD-TYPE     40     65     34
D923V2, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP205 MUTATED        0      5     19
  NUP205 WILD-TYPE     42    168    128
D923V3, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              5              168
  CLUS_3             19              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP205 MUTATED        9      2      5
  NUP205 WILD-TYPE     53     71     70
D923V4, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              9               53
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUP205 MUTATED        5      4      8
  NUP205 WILD-TYPE     65    116     92
D923V5, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              5               65
  CLUS_2              4              116
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP205 MUTATED        2      4      2      0      1      4      3      1
  NUP205 WILD-TYPE     39     22     28     29     38     65     17     13
                  vv
clus               CLUS_9
  NUP205 MUTATED        0
  NUP205 WILD-TYPE     22
D923V6, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              4               22
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              3               17
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUP205 MUTATED        2      7      8      7
  NUP205 WILD-TYPE     98     65     64    114
D923V7, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              7               65
  CLUS_3              8               64
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP205 MUTATED        3      3     10      6      2
  NUP205 WILD-TYPE     56     72     64    113     36
D923V8, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3             10               64
  CLUS_4              6              113
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP205 MUTATED        1      8      4      3      8
  NUP205 WILD-TYPE     50     68     57     68     87
D923V9, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              8               68
  CLUS_3              4               57
  CLUS_4              3               68
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP205 MUTATED        3      6      0      2      2      2      3      2
  NUP205 WILD-TYPE     66     42     39     14     51     18     18     36
                  vv
clus               CLUS_9
  NUP205 MUTATED        4
  NUP205 WILD-TYPE     46
D923V10, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              6               42
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              3               18
  CLUS_8              2               36
  CLUS_9              4               46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUP205 MUTATED        0      2      1      0      1      1
  NUP205 WILD-TYPE     13     14     13     11     10      8
D923V11, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUP205 MUTATED        2      0      0      0      1      0      2      0
  NUP205 WILD-TYPE      9      7      7      9      7      7      9      9
                  vv
clus               CLUS_9
  NUP205 MUTATED        0
  NUP205 WILD-TYPE      5
D923V12, multiclass
        clus
vv       NUP205 MUTATED NUP205 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(924) Variable = ALK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALK MUTATED        7      0      1      2      1
  ALK WILD-TYPE     25     18     45     25     22
D924V1, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1           7            25
  CLUS_2           0            18
  CLUS_3           1            45
  CLUS_4           2            25
  CLUS_5           1            22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ALK MUTATED        8      2      1
  ALK WILD-TYPE     35     65     35
D924V2, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1           8            35
  CLUS_2           2            65
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ALK MUTATED        3     13     19
  ALK WILD-TYPE     39    160    128
D924V3, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1           3            39
  CLUS_2          13           160
  CLUS_3          19           128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ALK MUTATED        9      8      6
  ALK WILD-TYPE     53     65     69
D924V4, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1           9            53
  CLUS_2           8            65
  CLUS_3           6            69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ALK MUTATED        3     11     16
  ALK WILD-TYPE     67    109     84
D924V5, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1           3            67
  CLUS_2          11           109
  CLUS_3          16            84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALK MUTATED        2      2      2      4      4      9      4      0      3
  ALK WILD-TYPE     39     24     28     25     35     60     16     14     19
D924V6, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1           2            39
  CLUS_2           2            24
  CLUS_3           2            28
  CLUS_4           4            25
  CLUS_5           4            35
  CLUS_6           9            60
  CLUS_7           4            16
  CLUS_8           0            14
  CLUS_9           3            19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALK MUTATED       11      4      7     13
  ALK WILD-TYPE     89     68     65    108
D924V7, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1          11            89
  CLUS_2           4            68
  CLUS_3           7            65
  CLUS_4          13           108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALK MUTATED        4      8      9      5      9
  ALK WILD-TYPE     55     67     65    114     29
D924V8, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1           4            55
  CLUS_2           8            67
  CLUS_3           9            65
  CLUS_4           5           114
  CLUS_5           9            29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALK MUTATED        5      9      6      4     10
  ALK WILD-TYPE     46     67     55     67     85
D924V9, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1           5            46
  CLUS_2           9            67
  CLUS_3           6            55
  CLUS_4           4            67
  CLUS_5          10            85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALK MUTATED        7      6      1      2      7      3      1      6      1
  ALK WILD-TYPE     62     42     38     14     46     17     20     32     49
D924V10, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1           7            62
  CLUS_2           6            42
  CLUS_3           1            38
  CLUS_4           2            14
  CLUS_5           7            46
  CLUS_6           3            17
  CLUS_7           1            20
  CLUS_8           6            32
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ALK MUTATED        1      0      0      0      2      1
  ALK WILD-TYPE     12     16     14     11      9      8
D924V11, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1           1            12
  CLUS_2           0            16
  CLUS_3           0            14
  CLUS_4           0            11
  CLUS_5           2             9
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALK MUTATED        0      0      0      1      0      0      1      2      0
  ALK WILD-TYPE     11      7      7      8      8      7     10      7      5
D924V12, multiclass
        clus
vv       ALK MUTATED ALK WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           1            10
  CLUS_8           2             7
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(925) Variable = GRB14 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRB14 MUTATED        4      0      0      0      0
  GRB14 WILD-TYPE     28     18     46     27     23
D925V1, multiclass
        clus
vv       GRB14 MUTATED GRB14 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRB14 MUTATED        3      0      1
  GRB14 WILD-TYPE     40     67     35
D925V2, multiclass
        clus
vv       GRB14 MUTATED GRB14 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRB14 MUTATED        0      3      6
  GRB14 WILD-TYPE     42    170    141
D925V3, multiclass
        clus
vv       GRB14 MUTATED GRB14 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRB14 MUTATED        2      1      2
  GRB14 WILD-TYPE     60     72     73
D925V4, multiclass
        clus
vv       GRB14 MUTATED GRB14 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRB14 MUTATED        1      2      3
  GRB14 WILD-TYPE     69    118     97
D925V5, multiclass
        clus
vv       GRB14 MUTATED GRB14 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRB14 MUTATED        1      0      0      0      2      1      2      0
  GRB14 WILD-TYPE     40     26     30     29     37     68     18     14
                 vv
clus              CLUS_9
  GRB14 MUTATED        0
  GRB14 WILD-TYPE     22
D925V6, multiclass
        clus
vv       GRB14 MUTATED GRB14 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             1              68
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRB14 MUTATED        1      3      1      4
  GRB14 WILD-TYPE     99     69     71    117
D925V7, multiclass
        clus
vv       GRB14 MUTATED GRB14 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRB14 MUTATED        2      0      3      1      3
  GRB14 WILD-TYPE     57     75     71    118     35
D925V8, multiclass
        clus
vv       GRB14 MUTATED GRB14 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRB14 MUTATED        1      2      1      2      3
  GRB14 WILD-TYPE     50     74     60     69     92
D925V9, multiclass
        clus
vv       GRB14 MUTATED GRB14 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRB14 MUTATED        3      1      0      0      2      0      1      2
  GRB14 WILD-TYPE     66     47     39     16     51     20     20     36
                 vv
clus              CLUS_9
  GRB14 MUTATED        0
  GRB14 WILD-TYPE     50
D925V10, multiclass
        clus
vv       GRB14 MUTATED GRB14 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GRB14 MUTATED        0      0      0      1      0      0
  GRB14 WILD-TYPE     13     16     14     10     11      9
D925V11, multiclass
[1] "Remove cluster labels:" "GRB14 MUTATED"         
clus
  GRB14 MUTATED GRB14 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-G4-6628 
"GRB14 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRB14 MUTATED        0      0      0      0      0      0      1      0
  GRB14 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  GRB14 MUTATED        0
  GRB14 WILD-TYPE      5
D925V12, multiclass
[1] "Remove cluster labels:" "GRB14 MUTATED"         
clus
  GRB14 MUTATED GRB14 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" "GRB14 WILD-TYPE" 
     TCGA-G4-6628 
"GRB14 WILD-TYPE" 

Clustering(926) Variable = NSUN6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NSUN6 MUTATED        0      0      0      1      0
  NSUN6 WILD-TYPE     32     18     46     26     23
D926V1, multiclass
[1] "Remove cluster labels:" "NSUN6 MUTATED"         
clus
  NSUN6 MUTATED NSUN6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AY-4071 
"NSUN6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NSUN6 MUTATED        0      1      0
  NSUN6 WILD-TYPE     43     66     36
D926V2, multiclass
[1] "Remove cluster labels:" "NSUN6 MUTATED"         
clus
  NSUN6 MUTATED NSUN6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" "NSUN6 WILD-TYPE" 
     TCGA-AY-4071 
"NSUN6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NSUN6 MUTATED        1      0      7
  NSUN6 WILD-TYPE     41    173    140
D926V3, multiclass
        clus
vv       NSUN6 MUTATED NSUN6 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NSUN6 MUTATED        3      0      4
  NSUN6 WILD-TYPE     59     73     71
D926V4, multiclass
        clus
vv       NSUN6 MUTATED NSUN6 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NSUN6 MUTATED        2      4      2
  NSUN6 WILD-TYPE     68    116     98
D926V5, multiclass
        clus
vv       NSUN6 MUTATED NSUN6 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NSUN6 MUTATED        2      1      1      1      1      2      0      0
  NSUN6 WILD-TYPE     39     25     29     28     38     67     20     14
                 vv
clus              CLUS_9
  NSUN6 MUTATED        0
  NSUN6 WILD-TYPE     22
D926V6, multiclass
        clus
vv       NSUN6 MUTATED NSUN6 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NSUN6 MUTATED        0      3      3      2
  NSUN6 WILD-TYPE    100     69     69    119
D926V7, multiclass
        clus
vv       NSUN6 MUTATED NSUN6 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NSUN6 MUTATED        0      0      6      2      0
  NSUN6 WILD-TYPE     59     75     68    117     38
D926V8, multiclass
        clus
vv       NSUN6 MUTATED NSUN6 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NSUN6 MUTATED        0      4      1      0      3
  NSUN6 WILD-TYPE     51     72     60     71     92
D926V9, multiclass
        clus
vv       NSUN6 MUTATED NSUN6 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NSUN6 MUTATED        1      3      0      1      0      1      0      1
  NSUN6 WILD-TYPE     68     45     39     15     53     19     21     37
                 vv
clus              CLUS_9
  NSUN6 MUTATED        1
  NSUN6 WILD-TYPE     49
D926V10, multiclass
        clus
vv       NSUN6 MUTATED NSUN6 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NSUN6 MUTATED        0      2      0      0      1      0
  NSUN6 WILD-TYPE     13     14     14     11     10      9
D926V11, multiclass
        clus
vv       NSUN6 MUTATED NSUN6 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NSUN6 MUTATED        0      0      0      0      0      2      1      0
  NSUN6 WILD-TYPE     11      7      7      9      8      5     10      9
                 vv
clus              CLUS_9
  NSUN6 MUTATED        0
  NSUN6 WILD-TYPE      5
D926V12, multiclass
        clus
vv       NSUN6 MUTATED NSUN6 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             2               5
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(927) Variable = SAMD9L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAMD9L MUTATED        5      0      0      3      0
  SAMD9L WILD-TYPE     27     18     46     24     23
D927V1, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              3               24
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        5      2      1
  SAMD9L WILD-TYPE     38     65     35
D927V2, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              5               38
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        3      5     14
  SAMD9L WILD-TYPE     39    168    133
D927V3, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              3               39
  CLUS_2              5              168
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        3      6      6
  SAMD9L WILD-TYPE     59     67     69
D927V4, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              3               59
  CLUS_2              6               67
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        0     11      6
  SAMD9L WILD-TYPE     70    109     94
D927V5, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              0               70
  CLUS_2             11              109
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAMD9L MUTATED        1      2      1      1      4      4      1      2
  SAMD9L WILD-TYPE     40     24     29     28     35     65     19     12
                  vv
clus               CLUS_9
  SAMD9L MUTATED        1
  SAMD9L WILD-TYPE     21
D927V6, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              4               35
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SAMD9L MUTATED        5      6      3      8
  SAMD9L WILD-TYPE     95     66     69    113
D927V7, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              5               95
  CLUS_2              6               66
  CLUS_3              3               69
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAMD9L MUTATED        3      4      6      4      5
  SAMD9L WILD-TYPE     56     71     68    115     33
D927V8, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              3               56
  CLUS_2              4               71
  CLUS_3              6               68
  CLUS_4              4              115
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAMD9L MUTATED        2      5      2      5      7
  SAMD9L WILD-TYPE     49     71     59     66     88
D927V9, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              2               49
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              5               66
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAMD9L MUTATED        3      2      1      3      4      3      0      3
  SAMD9L WILD-TYPE     66     46     38     13     49     17     21     35
                  vv
clus               CLUS_9
  SAMD9L MUTATED        2
  SAMD9L WILD-TYPE     48
D927V10, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              4               49
  CLUS_6              3               17
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SAMD9L MUTATED        1      0      1      1      2      0
  SAMD9L WILD-TYPE     12     16     13     10      9      9
D927V11, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAMD9L MUTATED        0      0      0      2      0      0      0      2
  SAMD9L WILD-TYPE     11      7      7      7      8      7     11      7
                  vv
clus               CLUS_9
  SAMD9L MUTATED        1
  SAMD9L WILD-TYPE      4
D927V12, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              2                7
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(928) Variable = PPP2R5E MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R5E MUTATED        2      0      0      0      0
  PPP2R5E WILD-TYPE     30     18     46     27     23
D928V1, multiclass
[1] "Remove cluster labels:" "PPP2R5E MUTATED"       
clus
  PPP2R5E MUTATED PPP2R5E WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R5E MUTATED        2      0      0
  PPP2R5E WILD-TYPE     41     67     36
D928V2, multiclass
[1] "Remove cluster labels:" "PPP2R5E MUTATED"       
clus
  PPP2R5E MUTATED PPP2R5E WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" "PPP2R5E WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R5E MUTATED        0      0      8
  PPP2R5E WILD-TYPE     42    173    139
D928V3, multiclass
        clus
vv       PPP2R5E MUTATED PPP2R5E WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R5E MUTATED        2      0      4
  PPP2R5E WILD-TYPE     60     73     71
D928V4, multiclass
        clus
vv       PPP2R5E MUTATED PPP2R5E WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R5E MUTATED        1      1      5
  PPP2R5E WILD-TYPE     69    119     95
D928V5, multiclass
        clus
vv       PPP2R5E MUTATED PPP2R5E WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP2R5E MUTATED        2      1      0      0      0      3      1      0
  PPP2R5E WILD-TYPE     39     25     30     29     39     66     19     14
                   vv
clus                CLUS_9
  PPP2R5E MUTATED        0
  PPP2R5E WILD-TYPE     22
D928V6, multiclass
        clus
vv       PPP2R5E MUTATED PPP2R5E WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R5E MUTATED        0      3      3      2
  PPP2R5E WILD-TYPE    100     69     69    119
D928V7, multiclass
        clus
vv       PPP2R5E MUTATED PPP2R5E WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R5E MUTATED        1      1      3      1      2
  PPP2R5E WILD-TYPE     58     74     71    118     36
D928V8, multiclass
        clus
vv       PPP2R5E MUTATED PPP2R5E WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R5E MUTATED        0      3      2      0      2
  PPP2R5E WILD-TYPE     51     73     59     71     93
D928V9, multiclass
        clus
vv       PPP2R5E MUTATED PPP2R5E WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP2R5E MUTATED        1      2      0      2      0      0      0      2
  PPP2R5E WILD-TYPE     68     46     39     14     53     20     21     36
                   vv
clus                CLUS_9
  PPP2R5E MUTATED        0
  PPP2R5E WILD-TYPE     50
D928V10, multiclass
        clus
vv       PPP2R5E MUTATED PPP2R5E WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPP2R5E MUTATED        0      0      0      0      0      0
  PPP2R5E WILD-TYPE     13     16     14     11     11      9
D928V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP2R5E MUTATED        0      0      0      0      0      0      0      0
  PPP2R5E WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  PPP2R5E MUTATED        0
  PPP2R5E WILD-TYPE      5
D928V12, multiclass

Clustering(929) Variable = LUM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LUM MUTATED        1      0      1      1      0
  LUM WILD-TYPE     31     18     45     26     23
D929V1, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           1            31
  CLUS_2           0            18
  CLUS_3           1            45
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LUM MUTATED        1      2      0
  LUM WILD-TYPE     42     65     36
D929V2, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           1            42
  CLUS_2           2            65
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LUM MUTATED        2      4      6
  LUM WILD-TYPE     40    169    141
D929V3, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           2            40
  CLUS_2           4           169
  CLUS_3           6           141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LUM MUTATED        3      1      3
  LUM WILD-TYPE     59     72     72
D929V4, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           3            59
  CLUS_2           1            72
  CLUS_3           3            72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LUM MUTATED        1      6      4
  LUM WILD-TYPE     69    114     96
D929V5, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           1            69
  CLUS_2           6           114
  CLUS_3           4            96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LUM MUTATED        1      1      4      1      1      1      1      1      0
  LUM WILD-TYPE     40     25     26     28     38     68     19     13     22
D929V6, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           1            40
  CLUS_2           1            25
  CLUS_3           4            26
  CLUS_4           1            28
  CLUS_5           1            38
  CLUS_6           1            68
  CLUS_7           1            19
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LUM MUTATED        3      2      1      6
  LUM WILD-TYPE     97     70     71    115
D929V7, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           3            97
  CLUS_2           2            70
  CLUS_3           1            71
  CLUS_4           6           115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LUM MUTATED        1      3      2      3      3
  LUM WILD-TYPE     58     72     72    116     35
D929V8, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           1            58
  CLUS_2           3            72
  CLUS_3           2            72
  CLUS_4           3           116
  CLUS_5           3            35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LUM MUTATED        2      3      1      0      6
  LUM WILD-TYPE     49     73     60     71     89
D929V9, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           2            49
  CLUS_2           3            73
  CLUS_3           1            60
  CLUS_4           0            71
  CLUS_5           6            89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LUM MUTATED        1      1      2      1      2      1      0      3      1
  LUM WILD-TYPE     68     47     37     15     51     19     21     35     49
D929V10, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           1            68
  CLUS_2           1            47
  CLUS_3           2            37
  CLUS_4           1            15
  CLUS_5           2            51
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           3            35
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LUM MUTATED        0      1      0      1      0      1
  LUM WILD-TYPE     13     15     14     10     11      8
D929V11, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           0            13
  CLUS_2           1            15
  CLUS_3           0            14
  CLUS_4           1            10
  CLUS_5           0            11
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LUM MUTATED        1      0      0      0      0      1      1      0      0
  LUM WILD-TYPE     10      7      7      9      8      6     10      9      5
D929V12, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           1            10
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           0             9
  CLUS_5           0             8
  CLUS_6           1             6
  CLUS_7           1            10
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(930) Variable = MTTP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTTP MUTATED        5      0      0      1      0
  MTTP WILD-TYPE     27     18     46     26     23
D930V1, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTTP MUTATED        5      0      1
  MTTP WILD-TYPE     38     67     35
D930V2, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            5             38
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTTP MUTATED        3      3     16
  MTTP WILD-TYPE     39    170    131
D930V3, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            3             39
  CLUS_2            3            170
  CLUS_3           16            131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTTP MUTATED        6      3      7
  MTTP WILD-TYPE     56     70     68
D930V4, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            6             56
  CLUS_2            3             70
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTTP MUTATED        4      3     12
  MTTP WILD-TYPE     66    117     88
D930V5, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            4             66
  CLUS_2            3            117
  CLUS_3           12             88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTTP MUTATED        5      0      0      2      2      7      2      0      1
  MTTP WILD-TYPE     36     26     30     27     37     62     18     14     21
D930V6, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            5             36
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            7             62
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTTP MUTATED        3      7      6      7
  MTTP WILD-TYPE     97     65     66    114
D930V7, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            3             97
  CLUS_2            7             65
  CLUS_3            6             66
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTTP MUTATED        5      2      9      2      5
  MTTP WILD-TYPE     54     73     65    117     33
D930V8, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            5             54
  CLUS_2            2             73
  CLUS_3            9             65
  CLUS_4            2            117
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTTP MUTATED        1      8      5      3      5
  MTTP WILD-TYPE     50     68     56     68     90
D930V9, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            1             50
  CLUS_2            8             68
  CLUS_3            5             56
  CLUS_4            3             68
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTTP MUTATED        4      7      0      3      4      0      0      4      0
  MTTP WILD-TYPE     65     41     39     13     49     20     21     34     50
D930V10, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            4             65
  CLUS_2            7             41
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            4             49
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            4             34
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MTTP MUTATED        0      3      1      1      2      0
  MTTP WILD-TYPE     13     13     13     10      9      9
D930V11, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            0             13
  CLUS_2            3             13
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTTP MUTATED        1      1      1      1      0      2      1      0      0
  MTTP WILD-TYPE     10      6      6      8      8      5     10      9      5
D930V12, multiclass
        clus
vv       MTTP MUTATED MTTP WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            2              5
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(931) Variable = GAD2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAD2 MUTATED        4      0      1      0      0
  GAD2 WILD-TYPE     28     18     45     27     23
D931V1, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAD2 MUTATED        4      1      0
  GAD2 WILD-TYPE     39     66     36
D931V2, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAD2 MUTATED        1      4     11
  GAD2 WILD-TYPE     41    169    136
D931V3, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAD2 MUTATED        4      3      4
  GAD2 WILD-TYPE     58     70     71
D931V4, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAD2 MUTATED        1      6      7
  GAD2 WILD-TYPE     69    114     93
D931V5, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            6            114
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAD2 MUTATED        0      1      1      2      0      7      0      2      1
  GAD2 WILD-TYPE     41     25     29     27     39     62     20     12     21
D931V6, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            7             62
  CLUS_7            0             20
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAD2 MUTATED        3      5      3      5
  GAD2 WILD-TYPE     97     67     69    116
D931V7, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            5             67
  CLUS_3            3             69
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAD2 MUTATED        4      1      6      2      3
  GAD2 WILD-TYPE     55     74     68    117     35
D931V8, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            1             74
  CLUS_3            6             68
  CLUS_4            2            117
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAD2 MUTATED        1      6      4      0      4
  GAD2 WILD-TYPE     50     70     57     71     91
D931V9, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            6             70
  CLUS_3            4             57
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAD2 MUTATED        3      3      2      2      2      0      0      3      0
  GAD2 WILD-TYPE     66     45     37     14     51     20     21     35     50
D931V10, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             45
  CLUS_3            2             37
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GAD2 MUTATED        0      1      1      1      0      0
  GAD2 WILD-TYPE     13     15     13     10     11      9
D931V11, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAD2 MUTATED        0      1      0      0      1      0      1      0      0
  GAD2 WILD-TYPE     11      6      7      9      7      7     10      9      5
D931V12, multiclass
        clus
vv       GAD2 MUTATED GAD2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(932) Variable = UBR2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBR2 MUTATED        3      0      0      3      0
  UBR2 WILD-TYPE     29     18     46     24     23
D932V1, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR2 MUTATED        3      2      1
  UBR2 WILD-TYPE     40     65     35
D932V2, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR2 MUTATED        2      5      8
  UBR2 WILD-TYPE     40    168    139
D932V3, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            5            168
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR2 MUTATED        3      4      2
  UBR2 WILD-TYPE     59     69     73
D932V4, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            4             69
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR2 MUTATED        0      7      5
  UBR2 WILD-TYPE     70    113     95
D932V5, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            7            113
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBR2 MUTATED        2      0      1      4      1      4      0      0      0
  UBR2 WILD-TYPE     39     26     29     25     38     65     20     14     22
D932V6, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            4             25
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UBR2 MUTATED        4      2      3      5
  UBR2 WILD-TYPE     96     70     69    116
D932V7, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            2             70
  CLUS_3            3             69
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBR2 MUTATED        2      5      2      2      3
  UBR2 WILD-TYPE     57     70     72    117     35
D932V8, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            5             70
  CLUS_3            2             72
  CLUS_4            2            117
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBR2 MUTATED        1      2      4      2      5
  UBR2 WILD-TYPE     50     74     57     69     90
D932V9, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBR2 MUTATED        0      3      1      1      4      1      0      2      2
  UBR2 WILD-TYPE     69     45     38     15     49     19     21     36     48
D932V10, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UBR2 MUTATED        2      0      0      1      0      1
  UBR2 WILD-TYPE     11     16     14     10     11      8
D932V11, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBR2 MUTATED        0      0      1      2      0      1      0      0      0
  UBR2 WILD-TYPE     11      7      6      7      8      6     11      9      5
D932V12, multiclass
        clus
vv       UBR2 MUTATED UBR2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(933) Variable = SMC2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMC2 MUTATED        0      0      1      0      1
  SMC2 WILD-TYPE     32     18     45     27     22
D933V1, multiclass
[1] "Remove cluster labels:" "SMC2 MUTATED"          
clus
  SMC2 MUTATED SMC2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3980 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMC2 MUTATED        0      1      1
  SMC2 WILD-TYPE     43     66     35
D933V2, multiclass
[1] "Remove cluster labels:" "SMC2 MUTATED"          
clus
  SMC2 MUTATED SMC2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3980 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" "SMC2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMC2 MUTATED        3      8     14
  SMC2 WILD-TYPE     39    165    133
D933V3, multiclass
        clus
vv       SMC2 MUTATED SMC2 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            8            165
  CLUS_3           14            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMC2 MUTATED        5      8      9
  SMC2 WILD-TYPE     57     65     66
D933V4, multiclass
        clus
vv       SMC2 MUTATED SMC2 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            8             65
  CLUS_3            9             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMC2 MUTATED        4     10      8
  SMC2 WILD-TYPE     66    110     92
D933V5, multiclass
        clus
vv       SMC2 MUTATED SMC2 WILD-TYPE
  CLUS_1            4             66
  CLUS_2           10            110
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMC2 MUTATED        2      2      1      2      1      9      2      3      0
  SMC2 WILD-TYPE     39     24     29     27     38     60     18     11     22
D933V6, multiclass
        clus
vv       SMC2 MUTATED SMC2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            9             60
  CLUS_7            2             18
  CLUS_8            3             11
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMC2 MUTATED        7     12      4      2
  SMC2 WILD-TYPE     93     60     68    119
D933V7, multiclass
        clus
vv       SMC2 MUTATED SMC2 WILD-TYPE
  CLUS_1            7             93
  CLUS_2           12             60
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMC2 MUTATED        4     10      9      2      0
  SMC2 WILD-TYPE     55     65     65    117     38
D933V8, multiclass
        clus
vv       SMC2 MUTATED SMC2 WILD-TYPE
  CLUS_1            4             55
  CLUS_2           10             65
  CLUS_3            9             65
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMC2 MUTATED        4     10      4      6      1
  SMC2 WILD-TYPE     47     66     57     65     94
D933V9, multiclass
        clus
vv       SMC2 MUTATED SMC2 WILD-TYPE
  CLUS_1            4             47
  CLUS_2           10             66
  CLUS_3            4             57
  CLUS_4            6             65
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMC2 MUTATED        7      2      3      6      3      2      0      1      1
  SMC2 WILD-TYPE     62     46     36     10     50     18     21     37     49
D933V10, multiclass
        clus
vv       SMC2 MUTATED SMC2 WILD-TYPE
  CLUS_1            7             62
  CLUS_2            2             46
  CLUS_3            3             36
  CLUS_4            6             10
  CLUS_5            3             50
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMC2 MUTATED        2      0      1      0      3      0
  SMC2 WILD-TYPE     11     16     13     11      8      9
D933V11, multiclass
        clus
vv       SMC2 MUTATED SMC2 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMC2 MUTATED        0      0      0      3      1      0      1      1      0
  SMC2 WILD-TYPE     11      7      7      6      7      7     10      8      5
D933V12, multiclass
        clus
vv       SMC2 MUTATED SMC2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            3              6
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(934) Variable = PSD3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSD3 MUTATED        1      0      0      0      0
  PSD3 WILD-TYPE     31     18     46     27     23
D934V1, multiclass
[1] "Remove cluster labels:" "PSD3 MUTATED"          
clus
  PSD3 MUTATED PSD3 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AY-4071 
"PSD3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PSD3 MUTATED        1      0      0
  PSD3 WILD-TYPE     42     67     36
D934V2, multiclass
[1] "Remove cluster labels:" "PSD3 MUTATED"          
clus
  PSD3 MUTATED PSD3 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" "PSD3 WILD-TYPE" 
    TCGA-AY-4071 
"PSD3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PSD3 MUTATED        1      1      7
  PSD3 WILD-TYPE     41    172    140
D934V3, multiclass
        clus
vv       PSD3 MUTATED PSD3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PSD3 MUTATED        3      0      6
  PSD3 WILD-TYPE     59     73     69
D934V4, multiclass
        clus
vv       PSD3 MUTATED PSD3 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PSD3 MUTATED        1      3      5
  PSD3 WILD-TYPE     69    117     95
D934V5, multiclass
        clus
vv       PSD3 MUTATED PSD3 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PSD3 MUTATED        0      2      0      0      0      3      3      0      1
  PSD3 WILD-TYPE     41     24     30     29     39     66     17     14     21
D934V6, multiclass
        clus
vv       PSD3 MUTATED PSD3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            2             24
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PSD3 MUTATED        1      5      2      2
  PSD3 WILD-TYPE     99     67     70    119
D934V7, multiclass
        clus
vv       PSD3 MUTATED PSD3 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSD3 MUTATED        2      1      5      1      1
  PSD3 WILD-TYPE     57     74     69    118     37
D934V8, multiclass
        clus
vv       PSD3 MUTATED PSD3 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSD3 MUTATED        2      5      1      0      2
  PSD3 WILD-TYPE     49     71     60     71     93
D934V9, multiclass
        clus
vv       PSD3 MUTATED PSD3 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            5             71
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PSD3 MUTATED        1      1      0      4      1      0      0      1      2
  PSD3 WILD-TYPE     68     47     39     12     52     20     21     37     48
D934V10, multiclass
        clus
vv       PSD3 MUTATED PSD3 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PSD3 MUTATED        0      0      0      0      0      0
  PSD3 WILD-TYPE     13     16     14     11     11      9
D934V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PSD3 MUTATED        0      0      0      0      0      0      0      0      0
  PSD3 WILD-TYPE     11      7      7      9      8      7     11      9      5
D934V12, multiclass

Clustering(935) Variable = PANK1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PANK1 MUTATED        1      0      0      2      0
  PANK1 WILD-TYPE     31     18     46     25     23
D935V1, multiclass
        clus
vv       PANK1 MUTATED PANK1 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PANK1 MUTATED        2      1      0
  PANK1 WILD-TYPE     41     66     36
D935V2, multiclass
        clus
vv       PANK1 MUTATED PANK1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PANK1 MUTATED        0      0      7
  PANK1 WILD-TYPE     42    173    140
D935V3, multiclass
        clus
vv       PANK1 MUTATED PANK1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PANK1 MUTATED        1      0      4
  PANK1 WILD-TYPE     61     73     71
D935V4, multiclass
        clus
vv       PANK1 MUTATED PANK1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PANK1 MUTATED        1      2      4
  PANK1 WILD-TYPE     69    118     96
D935V5, multiclass
        clus
vv       PANK1 MUTATED PANK1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PANK1 MUTATED        0      0      1      0      2      3      1      0
  PANK1 WILD-TYPE     41     26     29     29     37     66     19     14
                 vv
clus              CLUS_9
  PANK1 MUTATED        0
  PANK1 WILD-TYPE     22
D935V6, multiclass
        clus
vv       PANK1 MUTATED PANK1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PANK1 MUTATED        0      4      0      3
  PANK1 WILD-TYPE    100     68     72    118
D935V7, multiclass
        clus
vv       PANK1 MUTATED PANK1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             0              72
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PANK1 MUTATED        0      1      3      1      2
  PANK1 WILD-TYPE     59     74     71    118     36
D935V8, multiclass
        clus
vv       PANK1 MUTATED PANK1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PANK1 MUTATED        0      3      0      0      3
  PANK1 WILD-TYPE     51     73     61     71     92
D935V9, multiclass
        clus
vv       PANK1 MUTATED PANK1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PANK1 MUTATED        1      0      0      2      0      1      0      1
  PANK1 WILD-TYPE     68     48     39     14     53     19     21     37
                 vv
clus              CLUS_9
  PANK1 MUTATED        1
  PANK1 WILD-TYPE     49
D935V10, multiclass
        clus
vv       PANK1 MUTATED PANK1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PANK1 MUTATED        0      0      0      0      1      0
  PANK1 WILD-TYPE     13     16     14     11     10      9
D935V11, multiclass
[1] "Remove cluster labels:" "PANK1 MUTATED"         
clus
  PANK1 MUTATED PANK1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-G4-6628 
"PANK1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PANK1 MUTATED        0      0      0      1      0      0      0      0
  PANK1 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  PANK1 MUTATED        0
  PANK1 WILD-TYPE      5
D935V12, multiclass
[1] "Remove cluster labels:" "PANK1 MUTATED"         
clus
  PANK1 MUTATED PANK1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" "PANK1 WILD-TYPE" 
     TCGA-G4-6628 
"PANK1 WILD-TYPE" 

Clustering(936) Variable = C4ORF49 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C4ORF49 MUTATED        0      0      0      0      0
  C4ORF49 WILD-TYPE     32     18     46     27     23
D936V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C4ORF49 MUTATED        0      0      0
  C4ORF49 WILD-TYPE     43     67     36
D936V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C4ORF49 MUTATED        0      2      3
  C4ORF49 WILD-TYPE     42    171    144
D936V3, multiclass
        clus
vv       C4ORF49 MUTATED C4ORF49 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C4ORF49 MUTATED        1      1      3
  C4ORF49 WILD-TYPE     61     72     72
D936V4, multiclass
        clus
vv       C4ORF49 MUTATED C4ORF49 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C4ORF49 MUTATED        0      3      2
  C4ORF49 WILD-TYPE     70    117     98
D936V5, multiclass
        clus
vv       C4ORF49 MUTATED C4ORF49 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C4ORF49 MUTATED        0      1      0      1      0      2      1      0
  C4ORF49 WILD-TYPE     41     25     30     28     39     67     19     14
                   vv
clus                CLUS_9
  C4ORF49 MUTATED        0
  C4ORF49 WILD-TYPE     22
D936V6, multiclass
        clus
vv       C4ORF49 MUTATED C4ORF49 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C4ORF49 MUTATED        1      3      0      1
  C4ORF49 WILD-TYPE     99     69     72    120
D936V7, multiclass
        clus
vv       C4ORF49 MUTATED C4ORF49 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               0                72
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C4ORF49 MUTATED        0      2      2      1      0
  C4ORF49 WILD-TYPE     59     73     72    118     38
D936V8, multiclass
        clus
vv       C4ORF49 MUTATED C4ORF49 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C4ORF49 MUTATED        1      2      1      0      1
  C4ORF49 WILD-TYPE     50     74     60     71     94
D936V9, multiclass
        clus
vv       C4ORF49 MUTATED C4ORF49 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C4ORF49 MUTATED        0      1      1      1      0      1      0      0
  C4ORF49 WILD-TYPE     69     47     38     15     53     19     21     38
                   vv
clus                CLUS_9
  C4ORF49 MUTATED        1
  C4ORF49 WILD-TYPE     49
D936V10, multiclass
        clus
vv       C4ORF49 MUTATED C4ORF49 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C4ORF49 MUTATED        0      0      0      0      0      0
  C4ORF49 WILD-TYPE     13     16     14     11     11      9
D936V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C4ORF49 MUTATED        0      0      0      0      0      0      0      0
  C4ORF49 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  C4ORF49 MUTATED        0
  C4ORF49 WILD-TYPE      5
D936V12, multiclass

Clustering(937) Variable = ADM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADM MUTATED        1      1      0      0      0
  ADM WILD-TYPE     31     17     46     27     23
D937V1, multiclass
[1] "Remove cluster labels:" "ADM MUTATED"           
clus
  ADM MUTATED ADM WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ADM MUTATED        2      0      0
  ADM WILD-TYPE     41     67     36
D937V2, multiclass
[1] "Remove cluster labels:" "ADM MUTATED"           
clus
  ADM MUTATED ADM WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" "ADM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ADM MUTATED        0      0      6
  ADM WILD-TYPE     42    173    141
D937V3, multiclass
        clus
vv       ADM MUTATED ADM WILD-TYPE
  CLUS_1           0            42
  CLUS_2           0           173
  CLUS_3           6           141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ADM MUTATED        2      0      2
  ADM WILD-TYPE     60     73     73
D937V4, multiclass
        clus
vv       ADM MUTATED ADM WILD-TYPE
  CLUS_1           2            60
  CLUS_2           0            73
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ADM MUTATED        1      1      3
  ADM WILD-TYPE     69    119     97
D937V5, multiclass
        clus
vv       ADM MUTATED ADM WILD-TYPE
  CLUS_1           1            69
  CLUS_2           1           119
  CLUS_3           3            97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ADM MUTATED        0      2      0      0      0      2      1      0      0
  ADM WILD-TYPE     41     24     30     29     39     67     19     14     22
D937V6, multiclass
        clus
vv       ADM MUTATED ADM WILD-TYPE
  CLUS_1           0            41
  CLUS_2           2            24
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           0            39
  CLUS_6           2            67
  CLUS_7           1            19
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADM MUTATED        0      3      0      3
  ADM WILD-TYPE    100     69     72    118
D937V7, multiclass
        clus
vv       ADM MUTATED ADM WILD-TYPE
  CLUS_1           0           100
  CLUS_2           3            69
  CLUS_3           0            72
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADM MUTATED        0      0      3      2      1
  ADM WILD-TYPE     59     75     71    117     37
D937V8, multiclass
        clus
vv       ADM MUTATED ADM WILD-TYPE
  CLUS_1           0            59
  CLUS_2           0            75
  CLUS_3           3            71
  CLUS_4           2           117
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADM MUTATED        0      3      0      0      3
  ADM WILD-TYPE     51     73     61     71     92
D937V9, multiclass
        clus
vv       ADM MUTATED ADM WILD-TYPE
  CLUS_1           0            51
  CLUS_2           3            73
  CLUS_3           0            61
  CLUS_4           0            71
  CLUS_5           3            92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ADM MUTATED        0      0      0      3      0      0      0      2      1
  ADM WILD-TYPE     69     48     39     13     53     20     21     36     49
D937V10, multiclass
        clus
vv       ADM MUTATED ADM WILD-TYPE
  CLUS_1           0            69
  CLUS_2           0            48
  CLUS_3           0            39
  CLUS_4           3            13
  CLUS_5           0            53
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           2            36
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADM MUTATED        0      0      0      0      0      0
  ADM WILD-TYPE     13     16     14     11     11      9
D937V11, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ADM MUTATED        0      0      0      0      0      0      0      0      0
  ADM WILD-TYPE     11      7      7      9      8      7     11      9      5
D937V12, multiclass

Clustering(938) Variable = DCAF12L2 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCAF12L2 MUTATED        2      0      0      1      0
  DCAF12L2 WILD-TYPE     30     18     46     26     23
D938V1, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  DCAF12L2 MUTATED        2      1      0
  DCAF12L2 WILD-TYPE     41     66     36
D938V2, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  DCAF12L2 MUTATED        0      7     10
  DCAF12L2 WILD-TYPE     42    166    137
D938V3, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                7                166
  CLUS_3               10                137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  DCAF12L2 MUTATED        3      4      7
  DCAF12L2 WILD-TYPE     59     69     68
D938V4, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                4                 69
  CLUS_3                7                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  DCAF12L2 MUTATED        2      5      6
  DCAF12L2 WILD-TYPE     68    115     94
D938V5, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                5                115
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCAF12L2 MUTATED        2      1      1      2      1      4      1      1
  DCAF12L2 WILD-TYPE     39     25     29     27     38     65     19     13
                    vv
clus                 CLUS_9
  DCAF12L2 MUTATED        0
  DCAF12L2 WILD-TYPE     22
D938V6, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                2                 27
  CLUS_5                1                 38
  CLUS_6                4                 65
  CLUS_7                1                 19
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DCAF12L2 MUTATED        4      4      6      3
  DCAF12L2 WILD-TYPE     96     68     66    118
D938V7, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                4                 96
  CLUS_2                4                 68
  CLUS_3                6                 66
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCAF12L2 MUTATED        5      2      7      1      2
  DCAF12L2 WILD-TYPE     54     73     67    118     36
D938V8, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                5                 54
  CLUS_2                2                 73
  CLUS_3                7                 67
  CLUS_4                1                118
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCAF12L2 MUTATED        2      8      4      1      2
  DCAF12L2 WILD-TYPE     49     68     57     70     93
D938V9, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                8                 68
  CLUS_3                4                 57
  CLUS_4                1                 70
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCAF12L2 MUTATED        4      4      1      3      1      2      0      2
  DCAF12L2 WILD-TYPE     65     44     38     13     52     18     21     36
                    vv
clus                 CLUS_9
  DCAF12L2 MUTATED        0
  DCAF12L2 WILD-TYPE     50
D938V10, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                4                 65
  CLUS_2                4                 44
  CLUS_3                1                 38
  CLUS_4                3                 13
  CLUS_5                1                 52
  CLUS_6                2                 18
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DCAF12L2 MUTATED        0      1      0      1      2      2
  DCAF12L2 WILD-TYPE     13     15     14     10      9      7
D938V11, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                0                 14
  CLUS_4                1                 10
  CLUS_5                2                  9
  CLUS_6                2                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCAF12L2 MUTATED        2      1      0      0      1      0      2      0
  DCAF12L2 WILD-TYPE      9      6      7      9      7      7      9      9
                    vv
clus                 CLUS_9
  DCAF12L2 MUTATED        0
  DCAF12L2 WILD-TYPE      5
D938V12, multiclass
        clus
vv       DCAF12L2 MUTATED DCAF12L2 WILD-TYPE
  CLUS_1                2                  9
  CLUS_2                1                  6
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(939) Variable = DIAPH2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DIAPH2 MUTATED        4      0      0      1      2
  DIAPH2 WILD-TYPE     28     18     46     26     21
D939V1, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              2               21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DIAPH2 MUTATED        4      1      2
  DIAPH2 WILD-TYPE     39     66     34
D939V2, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DIAPH2 MUTATED        2      7     11
  DIAPH2 WILD-TYPE     40    166    136
D939V3, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              7              166
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DIAPH2 MUTATED        3      2      8
  DIAPH2 WILD-TYPE     59     71     67
D939V4, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              8               67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DIAPH2 MUTATED        4      6      7
  DIAPH2 WILD-TYPE     66    114     93
D939V5, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              6              114
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DIAPH2 MUTATED        3      1      1      1      0      4      2      3
  DIAPH2 WILD-TYPE     38     25     29     28     39     65     18     11
                  vv
clus               CLUS_9
  DIAPH2 MUTATED        2
  DIAPH2 WILD-TYPE     20
D939V6, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              3               11
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DIAPH2 MUTATED        4      2      7      8
  DIAPH2 WILD-TYPE     96     70     65    113
D939V7, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              2               70
  CLUS_3              7               65
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DIAPH2 MUTATED        6      4      3      3      5
  DIAPH2 WILD-TYPE     53     71     71    116     33
D939V8, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              6               53
  CLUS_2              4               71
  CLUS_3              3               71
  CLUS_4              3              116
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DIAPH2 MUTATED        3      5      4      2      6
  DIAPH2 WILD-TYPE     48     71     57     69     89
D939V9, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              5               71
  CLUS_3              4               57
  CLUS_4              2               69
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DIAPH2 MUTATED        4      4      2      0      5      0      0      4
  DIAPH2 WILD-TYPE     65     44     37     16     48     20     21     34
                  vv
clus               CLUS_9
  DIAPH2 MUTATED        1
  DIAPH2 WILD-TYPE     49
D939V10, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              4               44
  CLUS_3              2               37
  CLUS_4              0               16
  CLUS_5              5               48
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              4               34
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DIAPH2 MUTATED        1      1      0      1      2      2
  DIAPH2 WILD-TYPE     12     15     14     10      9      7
D939V11, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DIAPH2 MUTATED        2      0      2      1      0      0      2      0
  DIAPH2 WILD-TYPE      9      7      5      8      8      7      9      9
                  vv
clus               CLUS_9
  DIAPH2 MUTATED        0
  DIAPH2 WILD-TYPE      5
D939V12, multiclass
        clus
vv       DIAPH2 MUTATED DIAPH2 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              2                5
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(940) Variable = FBXO34 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO34 MUTATED        1      0      0      0      0
  FBXO34 WILD-TYPE     31     18     46     27     23
D940V1, multiclass
[1] "Remove cluster labels:" "FBXO34 MUTATED"        
clus
  FBXO34 MUTATED FBXO34 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AY-4071 
"FBXO34 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO34 MUTATED        1      0      0
  FBXO34 WILD-TYPE     42     67     36
D940V2, multiclass
[1] "Remove cluster labels:" "FBXO34 MUTATED"        
clus
  FBXO34 MUTATED FBXO34 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AY-4071 
"FBXO34 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO34 MUTATED        1      1      7
  FBXO34 WILD-TYPE     41    172    140
D940V3, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO34 MUTATED        2      1      5
  FBXO34 WILD-TYPE     60     72     70
D940V4, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO34 MUTATED        0      4      4
  FBXO34 WILD-TYPE     70    116     96
D940V5, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO34 MUTATED        0      1      0      2      0      5      0      0
  FBXO34 WILD-TYPE     41     25     30     27     39     64     20     14
                  vv
clus               CLUS_9
  FBXO34 MUTATED        0
  FBXO34 WILD-TYPE     22
D940V6, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXO34 MUTATED        2      5      1      1
  FBXO34 WILD-TYPE     98     67     71    120
D940V7, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              5               67
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO34 MUTATED        0      4      4      1      0
  FBXO34 WILD-TYPE     59     71     70    118     38
D940V8, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              4               71
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO34 MUTATED        1      5      0      1      2
  FBXO34 WILD-TYPE     50     71     61     70     93
D940V9, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO34 MUTATED        3      1      0      3      0      0      1      0
  FBXO34 WILD-TYPE     66     47     39     13     53     20     20     38
                  vv
clus               CLUS_9
  FBXO34 MUTATED        1
  FBXO34 WILD-TYPE     49
D940V10, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FBXO34 MUTATED        0      0      0      0      2      0
  FBXO34 WILD-TYPE     13     16     14     11      9      9
D940V11, multiclass
[1] "Remove cluster labels:" "FBXO34 MUTATED"        
clus
  FBXO34 MUTATED FBXO34 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO34 MUTATED        0      0      0      1      0      0      1      0
  FBXO34 WILD-TYPE     11      7      7      8      8      7     10      9
                  vv
clus               CLUS_9
  FBXO34 MUTATED        0
  FBXO34 WILD-TYPE      5
D940V12, multiclass
[1] "Remove cluster labels:" "FBXO34 MUTATED"        
clus
  FBXO34 MUTATED FBXO34 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 

Clustering(941) Variable = SCN4A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCN4A MUTATED        4      0      2      0      0
  SCN4A WILD-TYPE     28     18     44     27     23
D941V1, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN4A MUTATED        4      2      0
  SCN4A WILD-TYPE     39     65     36
D941V2, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             4              39
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN4A MUTATED        3      5     15
  SCN4A WILD-TYPE     39    168    132
D941V3, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             3              39
  CLUS_2             5             168
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN4A MUTATED        7      3      7
  SCN4A WILD-TYPE     55     70     68
D941V4, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             7              55
  CLUS_2             3              70
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCN4A MUTATED        3      7      9
  SCN4A WILD-TYPE     67    113     91
D941V5, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             3              67
  CLUS_2             7             113
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCN4A MUTATED        2      1      1      1      5      8      0      0
  SCN4A WILD-TYPE     39     25     29     28     34     61     20     14
                 vv
clus              CLUS_9
  SCN4A MUTATED        1
  SCN4A WILD-TYPE     21
D941V6, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             5              34
  CLUS_6             8              61
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SCN4A MUTATED        4      6      6      7
  SCN4A WILD-TYPE     96     66     66    114
D941V7, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             4              96
  CLUS_2             6              66
  CLUS_3             6              66
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCN4A MUTATED        2      4     10      2      5
  SCN4A WILD-TYPE     57     71     64    117     33
D941V8, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3            10              64
  CLUS_4             2             117
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCN4A MUTATED        2      8      3      1      9
  SCN4A WILD-TYPE     49     68     58     70     86
D941V9, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             2              49
  CLUS_2             8              68
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCN4A MUTATED        2      7      2      1      0      1      0      7
  SCN4A WILD-TYPE     67     41     37     15     53     19     21     31
                 vv
clus              CLUS_9
  SCN4A MUTATED        3
  SCN4A WILD-TYPE     47
D941V10, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             2              67
  CLUS_2             7              41
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             7              31
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SCN4A MUTATED        1      1      0      0      2      0
  SCN4A WILD-TYPE     12     15     14     11      9      9
D941V11, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCN4A MUTATED        0      0      0      1      0      0      2      1
  SCN4A WILD-TYPE     11      7      7      8      8      7      9      8
                 vv
clus              CLUS_9
  SCN4A MUTATED        0
  SCN4A WILD-TYPE      5
D941V12, multiclass
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(942) Variable = SATB1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SATB1 MUTATED        1      0      1      0      0
  SATB1 WILD-TYPE     31     18     45     27     23
D942V1, multiclass
[1] "Remove cluster labels:" "SATB1 MUTATED"         
clus
  SATB1 MUTATED SATB1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3696 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SATB1 MUTATED        1      0      1
  SATB1 WILD-TYPE     42     67     35
D942V2, multiclass
[1] "Remove cluster labels:" "SATB1 MUTATED"         
clus
  SATB1 MUTATED SATB1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3696 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" "SATB1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SATB1 MUTATED        2      5      8
  SATB1 WILD-TYPE     40    168    139
D942V3, multiclass
        clus
vv       SATB1 MUTATED SATB1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SATB1 MUTATED        4      5      5
  SATB1 WILD-TYPE     58     68     70
D942V4, multiclass
        clus
vv       SATB1 MUTATED SATB1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             5              68
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SATB1 MUTATED        0      5     10
  SATB1 WILD-TYPE     70    115     90
D942V5, multiclass
        clus
vv       SATB1 MUTATED SATB1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SATB1 MUTATED        0      2      0      3      0      9      1      0
  SATB1 WILD-TYPE     41     24     30     26     39     60     19     14
                 vv
clus              CLUS_9
  SATB1 MUTATED        0
  SATB1 WILD-TYPE     22
D942V6, multiclass
        clus
vv       SATB1 MUTATED SATB1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             9              60
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SATB1 MUTATED        6      6      3      1
  SATB1 WILD-TYPE     94     66     69    120
D942V7, multiclass
        clus
vv       SATB1 MUTATED SATB1 WILD-TYPE
  CLUS_1             6              94
  CLUS_2             6              66
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SATB1 MUTATED        0      6      8      1      1
  SATB1 WILD-TYPE     59     69     66    118     37
D942V8, multiclass
        clus
vv       SATB1 MUTATED SATB1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             6              69
  CLUS_3             8              66
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SATB1 MUTATED        2     11      1      1      1
  SATB1 WILD-TYPE     49     65     60     70     94
D942V9, multiclass
        clus
vv       SATB1 MUTATED SATB1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2            11              65
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SATB1 MUTATED        5      2      1      4      1      1      1      1
  SATB1 WILD-TYPE     64     46     38     12     52     19     20     37
                 vv
clus              CLUS_9
  SATB1 MUTATED        0
  SATB1 WILD-TYPE     50
D942V10, multiclass
        clus
vv       SATB1 MUTATED SATB1 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SATB1 MUTATED        0      0      1      0      3      0
  SATB1 WILD-TYPE     13     16     13     11      8      9
D942V11, multiclass
        clus
vv       SATB1 MUTATED SATB1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SATB1 MUTATED        0      0      0      2      0      0      2      0
  SATB1 WILD-TYPE     11      7      7      7      8      7      9      9
                 vv
clus              CLUS_9
  SATB1 MUTATED        0
  SATB1 WILD-TYPE      5
D942V12, multiclass
        clus
vv       SATB1 MUTATED SATB1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(943) Variable = ZNF334 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF334 MUTATED        4      0      1      2      0
  ZNF334 WILD-TYPE     28     18     45     25     23
D943V1, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF334 MUTATED        4      2      1
  ZNF334 WILD-TYPE     39     65     35
D943V2, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF334 MUTATED        0      7     12
  ZNF334 WILD-TYPE     42    166    135
D943V3, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              7              166
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF334 MUTATED        8      2      2
  ZNF334 WILD-TYPE     54     71     73
D943V4, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              8               54
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF334 MUTATED        1      6      8
  ZNF334 WILD-TYPE     69    114     92
D943V5, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              6              114
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF334 MUTATED        2      2      1      2      2      4      2      0
  ZNF334 WILD-TYPE     39     24     29     27     37     65     18     14
                  vv
clus               CLUS_9
  ZNF334 MUTATED        0
  ZNF334 WILD-TYPE     22
D943V6, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF334 MUTATED        2      3      6      8
  ZNF334 WILD-TYPE     98     69     66    113
D943V7, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              6               66
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF334 MUTATED        4      3      3      5      4
  ZNF334 WILD-TYPE     55     72     71    114     34
D943V8, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              3               72
  CLUS_3              3               71
  CLUS_4              5              114
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF334 MUTATED        1      4      3      3      8
  ZNF334 WILD-TYPE     50     72     58     68     87
D943V9, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              3               58
  CLUS_4              3               68
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF334 MUTATED        3      4      2      0      1      2      0      5
  ZNF334 WILD-TYPE     66     44     37     16     52     18     21     33
                  vv
clus               CLUS_9
  ZNF334 MUTATED        2
  ZNF334 WILD-TYPE     48
D943V10, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               44
  CLUS_3              2               37
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              5               33
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF334 MUTATED        0      1      2      1      0      1
  ZNF334 WILD-TYPE     13     15     12     10     11      8
D943V11, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              1               10
  CLUS_5              0               11
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF334 MUTATED        2      0      0      0      0      0      2      1
  ZNF334 WILD-TYPE      9      7      7      9      8      7      9      8
                  vv
clus               CLUS_9
  ZNF334 MUTATED        0
  ZNF334 WILD-TYPE      5
D943V12, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(944) Variable = NCAPD3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCAPD3 MUTATED        2      1      1      1      0
  NCAPD3 WILD-TYPE     30     17     45     26     23
D944V1, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              1               17
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NCAPD3 MUTATED        3      2      0
  NCAPD3 WILD-TYPE     40     65     36
D944V2, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NCAPD3 MUTATED        0      7     18
  NCAPD3 WILD-TYPE     42    166    129
D944V3, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              7              166
  CLUS_3             18              129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NCAPD3 MUTATED        7      4     10
  NCAPD3 WILD-TYPE     55     69     65
D944V4, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              4               69
  CLUS_3             10               65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NCAPD3 MUTATED        4     11      8
  NCAPD3 WILD-TYPE     66    109     92
D944V5, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              4               66
  CLUS_2             11              109
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCAPD3 MUTATED        3      2      3      2      3      6      3      0
  NCAPD3 WILD-TYPE     38     24     27     27     36     63     17     14
                  vv
clus               CLUS_9
  NCAPD3 MUTATED        1
  NCAPD3 WILD-TYPE     21
D944V6, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              2               24
  CLUS_3              3               27
  CLUS_4              2               27
  CLUS_5              3               36
  CLUS_6              6               63
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NCAPD3 MUTATED        5      9      5      6
  NCAPD3 WILD-TYPE     95     63     67    115
D944V7, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              9               63
  CLUS_3              5               67
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCAPD3 MUTATED        3      6     10      4      2
  NCAPD3 WILD-TYPE     56     69     64    115     36
D944V8, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              6               69
  CLUS_3             10               64
  CLUS_4              4              115
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCAPD3 MUTATED        4     12      2      1      6
  NCAPD3 WILD-TYPE     47     64     59     70     89
D944V9, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              4               47
  CLUS_2             12               64
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCAPD3 MUTATED        7      4      1      4      2      2      1      1
  NCAPD3 WILD-TYPE     62     44     38     12     51     18     20     37
                  vv
clus               CLUS_9
  NCAPD3 MUTATED        3
  NCAPD3 WILD-TYPE     47
D944V10, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              7               62
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              4               12
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NCAPD3 MUTATED        2      0      1      0      3      0
  NCAPD3 WILD-TYPE     11     16     13     11      8      9
D944V11, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NCAPD3 MUTATED        0      0      0      1      2      0      1      1
  NCAPD3 WILD-TYPE     11      7      7      8      6      7     10      8
                  vv
clus               CLUS_9
  NCAPD3 MUTATED        1
  NCAPD3 WILD-TYPE      4
D944V12, multiclass
        clus
vv       NCAPD3 MUTATED NCAPD3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(945) Variable = KLF5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF5 MUTATED        1      0      0      0      0
  KLF5 WILD-TYPE     31     18     46     27     23
D945V1, multiclass
[1] "Remove cluster labels:" "KLF5 MUTATED"          
clus
  KLF5 MUTATED KLF5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A01K     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AY-4071 
"KLF5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF5 MUTATED        1      0      0
  KLF5 WILD-TYPE     42     67     36
D945V2, multiclass
[1] "Remove cluster labels:" "KLF5 MUTATED"          
clus
  KLF5 MUTATED KLF5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A01K     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AY-4071 
"KLF5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF5 MUTATED        2      4      5
  KLF5 WILD-TYPE     40    169    142
D945V3, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            4            169
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF5 MUTATED        3      4      3
  KLF5 WILD-TYPE     59     69     72
D945V4, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            4             69
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF5 MUTATED        0      4      7
  KLF5 WILD-TYPE     70    116     93
D945V5, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLF5 MUTATED        0      0      1      1      0      7      1      1      0
  KLF5 WILD-TYPE     41     26     29     28     39     62     19     13     22
D945V6, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            7             62
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLF5 MUTATED        5      3      2      1
  KLF5 WILD-TYPE     95     69     70    120
D945V7, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            5             95
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF5 MUTATED        1      4      5      0      1
  KLF5 WILD-TYPE     58     71     69    119     37
D945V8, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            4             71
  CLUS_3            5             69
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF5 MUTATED        3      2      3      2      0
  KLF5 WILD-TYPE     48     74     58     69     95
D945V9, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            2             74
  CLUS_3            3             58
  CLUS_4            2             69
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLF5 MUTATED        3      3      1      1      2      0      0      0      0
  KLF5 WILD-TYPE     66     45     38     15     51     20     21     38     50
D945V10, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLF5 MUTATED        0      1      0      0      0      0
  KLF5 WILD-TYPE     13     15     14     11     11      9
D945V11, multiclass
[1] "Remove cluster labels:" "KLF5 MUTATED"          
clus
  KLF5 MUTATED KLF5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-G4-6628 
"KLF5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLF5 MUTATED        1      0      0      0      0      0      0      0      0
  KLF5 WILD-TYPE     10      7      7      9      8      7     11      9      5
D945V12, multiclass
[1] "Remove cluster labels:" "KLF5 MUTATED"          
clus
  KLF5 MUTATED KLF5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" "KLF5 WILD-TYPE" 
    TCGA-G4-6628 
"KLF5 WILD-TYPE" 

Clustering(946) Variable = DSC2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DSC2 MUTATED        1      0      0      1      0
  DSC2 WILD-TYPE     31     18     46     26     23
D946V1, multiclass
[1] "Remove cluster labels:" "DSC2 MUTATED"          
clus
  DSC2 MUTATED DSC2 WILD-TYPE 
             2            144 
    TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSC2 MUTATED        2      0      0
  DSC2 WILD-TYPE     41     67     36
D946V2, multiclass
[1] "Remove cluster labels:" "DSC2 MUTATED"          
clus
  DSC2 MUTATED DSC2 WILD-TYPE 
             2            144 
    TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSC2 MUTATED        3      3      8
  DSC2 WILD-TYPE     39    170    139
D946V3, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            3            170
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSC2 MUTATED        5      2      5
  DSC2 WILD-TYPE     57     71     70
D946V4, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSC2 MUTATED        0      6      7
  DSC2 WILD-TYPE     70    114     93
D946V5, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            114
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DSC2 MUTATED        1      1      0      3      1      6      0      1      0
  DSC2 WILD-TYPE     40     25     30     26     38     63     20     13     22
D946V6, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            3             26
  CLUS_5            1             38
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DSC2 MUTATED        3      5      4      2
  DSC2 WILD-TYPE     97     67     68    119
D946V7, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            5             67
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DSC2 MUTATED        2      5      4      1      2
  DSC2 WILD-TYPE     57     70     70    118     36
D946V8, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            5             70
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DSC2 MUTATED        4      4      2      0      3
  DSC2 WILD-TYPE     47     72     59     71     92
D946V9, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            4             47
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DSC2 MUTATED        0      3      1      2      3      1      0      2      1
  DSC2 WILD-TYPE     69     45     38     14     50     19     21     36     49
D946V10, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DSC2 MUTATED        0      0      0      1      3      0
  DSC2 WILD-TYPE     13     16     14     10      8      9
D946V11, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DSC2 MUTATED        0      0      0      1      0      1      2      0      0
  DSC2 WILD-TYPE     11      7      7      8      8      6      9      9      5
D946V12, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(947) Variable = NUPL2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUPL2 MUTATED        2      0      0      2      0
  NUPL2 WILD-TYPE     30     18     46     25     23
D947V1, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUPL2 MUTATED        2      2      0
  NUPL2 WILD-TYPE     41     65     36
D947V2, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUPL2 MUTATED        1      2      7
  NUPL2 WILD-TYPE     41    171    140
D947V3, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUPL2 MUTATED        4      1      2
  NUPL2 WILD-TYPE     58     72     73
D947V4, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUPL2 MUTATED        1      4      5
  NUPL2 WILD-TYPE     69    116     95
D947V5, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUPL2 MUTATED        2      1      3      0      0      2      1      0
  NUPL2 WILD-TYPE     39     25     27     29     39     67     19     14
                 vv
clus              CLUS_9
  NUPL2 MUTATED        1
  NUPL2 WILD-TYPE     21
D947V6, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             3              27
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUPL2 MUTATED        2      2      2      5
  NUPL2 WILD-TYPE     98     70     70    116
D947V7, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUPL2 MUTATED        1      1      4      3      2
  NUPL2 WILD-TYPE     58     74     70    116     36
D947V8, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUPL2 MUTATED        0      3      2      1      3
  NUPL2 WILD-TYPE     51     73     59     70     92
D947V9, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUPL2 MUTATED        1      3      1      1      0      1      0      1
  NUPL2 WILD-TYPE     68     45     38     15     53     19     21     37
                 vv
clus              CLUS_9
  NUPL2 MUTATED        1
  NUPL2 WILD-TYPE     49
D947V10, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUPL2 MUTATED        1      1      0      0      1      1
  NUPL2 WILD-TYPE     12     15     14     11     10      8
D947V11, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUPL2 MUTATED        1      0      1      0      0      0      1      1
  NUPL2 WILD-TYPE     10      7      6      9      8      7     10      8
                 vv
clus              CLUS_9
  NUPL2 MUTATED        0
  NUPL2 WILD-TYPE      5
D947V12, multiclass
        clus
vv       NUPL2 MUTATED NUPL2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(948) Variable = ZSWIM3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZSWIM3 MUTATED        3      0      1      1      0
  ZSWIM3 WILD-TYPE     29     18     45     26     23
D948V1, multiclass
        clus
vv       ZSWIM3 MUTATED ZSWIM3 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZSWIM3 MUTATED        3      1      1
  ZSWIM3 WILD-TYPE     40     66     35
D948V2, multiclass
        clus
vv       ZSWIM3 MUTATED ZSWIM3 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZSWIM3 MUTATED        0      3      9
  ZSWIM3 WILD-TYPE     42    170    138
D948V3, multiclass
        clus
vv       ZSWIM3 MUTATED ZSWIM3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZSWIM3 MUTATED        1      1      5
  ZSWIM3 WILD-TYPE     61     72     70
D948V4, multiclass
        clus
vv       ZSWIM3 MUTATED ZSWIM3 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZSWIM3 MUTATED        2      2      5
  ZSWIM3 WILD-TYPE     68    118     95
D948V5, multiclass
        clus
vv       ZSWIM3 MUTATED ZSWIM3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZSWIM3 MUTATED        1      0      1      1      1      5      0      0
  ZSWIM3 WILD-TYPE     40     26     29     28     38     64     20     14
                  vv
clus               CLUS_9
  ZSWIM3 MUTATED        0
  ZSWIM3 WILD-TYPE     22
D948V6, multiclass
        clus
vv       ZSWIM3 MUTATED ZSWIM3 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZSWIM3 MUTATED        2      4      1      5
  ZSWIM3 WILD-TYPE     98     68     71    116
D948V7, multiclass
        clus
vv       ZSWIM3 MUTATED ZSWIM3 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              1               71
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZSWIM3 MUTATED        1      2      4      3      2
  ZSWIM3 WILD-TYPE     58     73     70    116     36
D948V8, multiclass
        clus
vv       ZSWIM3 MUTATED ZSWIM3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              4               70
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZSWIM3 MUTATED        0      4      1      1      5
  ZSWIM3 WILD-TYPE     51     72     60     70     90
D948V9, multiclass
        clus
vv       ZSWIM3 MUTATED ZSWIM3 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZSWIM3 MUTATED        3      1      0      2      1      2      0      2
  ZSWIM3 WILD-TYPE     66     47     39     14     52     18     21     36
                  vv
clus               CLUS_9
  ZSWIM3 MUTATED        0
  ZSWIM3 WILD-TYPE     50
D948V10, multiclass
        clus
vv       ZSWIM3 MUTATED ZSWIM3 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZSWIM3 MUTATED        0      0      0      0      0      0
  ZSWIM3 WILD-TYPE     13     16     14     11     11      9
D948V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZSWIM3 MUTATED        0      0      0      0      0      0      0      0
  ZSWIM3 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  ZSWIM3 MUTATED        0
  ZSWIM3 WILD-TYPE      5
D948V12, multiclass

Clustering(949) Variable = C5ORF34 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5ORF34 MUTATED        1      0      0      1      0
  C5ORF34 WILD-TYPE     31     18     46     26     23
D949V1, multiclass
[1] "Remove cluster labels:" "C5ORF34 MUTATED"       
clus
  C5ORF34 MUTATED C5ORF34 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF34 MUTATED        2      0      0
  C5ORF34 WILD-TYPE     41     67     36
D949V2, multiclass
[1] "Remove cluster labels:" "C5ORF34 MUTATED"       
clus
  C5ORF34 MUTATED C5ORF34 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF34 MUTATED        1      2      6
  C5ORF34 WILD-TYPE     41    171    141
D949V3, multiclass
        clus
vv       C5ORF34 MUTATED C5ORF34 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF34 MUTATED        3      1      4
  C5ORF34 WILD-TYPE     59     72     71
D949V4, multiclass
        clus
vv       C5ORF34 MUTATED C5ORF34 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF34 MUTATED        0      2      8
  C5ORF34 WILD-TYPE     70    118     92
D949V5, multiclass
        clus
vv       C5ORF34 MUTATED C5ORF34 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C5ORF34 MUTATED        1      0      0      1      0      6      1      1
  C5ORF34 WILD-TYPE     40     26     30     28     39     63     19     13
                   vv
clus                CLUS_9
  C5ORF34 MUTATED        0
  C5ORF34 WILD-TYPE     22
D949V6, multiclass
        clus
vv       C5ORF34 MUTATED C5ORF34 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               6                63
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C5ORF34 MUTATED        1      4      3      2
  C5ORF34 WILD-TYPE     99     68     69    119
D949V7, multiclass
        clus
vv       C5ORF34 MUTATED C5ORF34 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5ORF34 MUTATED        1      1      6      0      2
  C5ORF34 WILD-TYPE     58     74     68    119     36
D949V8, multiclass
        clus
vv       C5ORF34 MUTATED C5ORF34 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               6                68
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5ORF34 MUTATED        1      4      3      0      1
  C5ORF34 WILD-TYPE     50     72     58     71     94
D949V9, multiclass
        clus
vv       C5ORF34 MUTATED C5ORF34 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               4                72
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C5ORF34 MUTATED        0      4      0      3      0      1      0      1
  C5ORF34 WILD-TYPE     69     44     39     13     53     19     21     37
                   vv
clus                CLUS_9
  C5ORF34 MUTATED        0
  C5ORF34 WILD-TYPE     50
D949V10, multiclass
        clus
vv       C5ORF34 MUTATED C5ORF34 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C5ORF34 MUTATED        2      0      0      0      0      0
  C5ORF34 WILD-TYPE     11     16     14     11     11      9
D949V11, multiclass
[1] "Remove cluster labels:" "C5ORF34 MUTATED"       
clus
  C5ORF34 MUTATED C5ORF34 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C5ORF34 MUTATED        0      0      0      2      0      0      0      0
  C5ORF34 WILD-TYPE     11      7      7      7      8      7     11      9
                   vv
clus                CLUS_9
  C5ORF34 MUTATED        0
  C5ORF34 WILD-TYPE      5
D949V12, multiclass
[1] "Remove cluster labels:" "C5ORF34 MUTATED"       
clus
  C5ORF34 MUTATED C5ORF34 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" "C5ORF34 WILD-TYPE" 

Clustering(950) Variable = YSK4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  YSK4 MUTATED        5      0      0      2      0
  YSK4 WILD-TYPE     27     18     46     25     23
D950V1, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  YSK4 MUTATED        6      1      0
  YSK4 WILD-TYPE     37     66     36
D950V2, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  YSK4 MUTATED        1      7     18
  YSK4 WILD-TYPE     41    166    129
D950V3, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            7            166
  CLUS_3           18            129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  YSK4 MUTATED        6      6      7
  YSK4 WILD-TYPE     56     67     68
D950V4, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            6             67
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  YSK4 MUTATED        1     11     11
  YSK4 WILD-TYPE     69    109     89
D950V5, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1            1             69
  CLUS_2           11            109
  CLUS_3           11             89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  YSK4 MUTATED        2      0      3      2      3     11      1      0      1
  YSK4 WILD-TYPE     39     26     27     27     36     58     19     14     21
D950V6, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            3             27
  CLUS_4            2             27
  CLUS_5            3             36
  CLUS_6           11             58
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  YSK4 MUTATED        6      6      6      8
  YSK4 WILD-TYPE     94     66     66    113
D950V7, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1            6             94
  CLUS_2            6             66
  CLUS_3            6             66
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  YSK4 MUTATED        2      9      7      2      6
  YSK4 WILD-TYPE     57     66     67    117     32
D950V8, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            9             66
  CLUS_3            7             67
  CLUS_4            2            117
  CLUS_5            6             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  YSK4 MUTATED        3      9      4      3      6
  YSK4 WILD-TYPE     48     67     57     68     89
D950V9, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            9             67
  CLUS_3            4             57
  CLUS_4            3             68
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  YSK4 MUTATED       10      3      0      2      2      2      1      4      1
  YSK4 WILD-TYPE     59     45     39     14     51     18     20     34     49
D950V10, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1           10             59
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  YSK4 MUTATED        1      0      2      0      2      0
  YSK4 WILD-TYPE     12     16     12     11      9      9
D950V11, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  YSK4 MUTATED        0      0      0      1      1      0      2      1      0
  YSK4 WILD-TYPE     11      7      7      8      7      7      9      8      5
D950V12, multiclass
        clus
vv       YSK4 MUTATED YSK4 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(951) Variable = CBLN3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBLN3 MUTATED        0      0      0      0      0
  CBLN3 WILD-TYPE     32     18     46     27     23
D951V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CBLN3 MUTATED        0      0      0
  CBLN3 WILD-TYPE     43     67     36
D951V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CBLN3 MUTATED        0      1      5
  CBLN3 WILD-TYPE     42    172    142
D951V3, multiclass
        clus
vv       CBLN3 MUTATED CBLN3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CBLN3 MUTATED        3      0      3
  CBLN3 WILD-TYPE     59     73     72
D951V4, multiclass
        clus
vv       CBLN3 MUTATED CBLN3 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CBLN3 MUTATED        1      0      5
  CBLN3 WILD-TYPE     69    120     95
D951V5, multiclass
        clus
vv       CBLN3 MUTATED CBLN3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             0             120
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CBLN3 MUTATED        1      0      0      0      1      3      1      0
  CBLN3 WILD-TYPE     40     26     30     29     38     66     19     14
                 vv
clus              CLUS_9
  CBLN3 MUTATED        0
  CBLN3 WILD-TYPE     22
D951V6, multiclass
        clus
vv       CBLN3 MUTATED CBLN3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CBLN3 MUTATED        0      4      2      0
  CBLN3 WILD-TYPE    100     68     70    121
D951V7, multiclass
        clus
vv       CBLN3 MUTATED CBLN3 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBLN3 MUTATED        2      0      4      0      0
  CBLN3 WILD-TYPE     57     75     70    119     38
D951V8, multiclass
        clus
vv       CBLN3 MUTATED CBLN3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CBLN3 MUTATED        0      5      1      0      0
  CBLN3 WILD-TYPE     51     71     60     71     95
D951V9, multiclass
        clus
vv       CBLN3 MUTATED CBLN3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CBLN3 MUTATED        3      2      0      1      0      0      0      0
  CBLN3 WILD-TYPE     66     46     39     15     53     20     21     38
                 vv
clus              CLUS_9
  CBLN3 MUTATED        0
  CBLN3 WILD-TYPE     50
D951V10, multiclass
        clus
vv       CBLN3 MUTATED CBLN3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CBLN3 MUTATED        0      0      0      1      0      0
  CBLN3 WILD-TYPE     13     16     14     10     11      9
D951V11, multiclass
[1] "Remove cluster labels:" "CBLN3 MUTATED"         
clus
  CBLN3 MUTATED CBLN3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-G4-6628 
"CBLN3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CBLN3 MUTATED        0      0      0      0      0      0      1      0
  CBLN3 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  CBLN3 MUTATED        0
  CBLN3 WILD-TYPE      5
D951V12, multiclass
[1] "Remove cluster labels:" "CBLN3 MUTATED"         
clus
  CBLN3 MUTATED CBLN3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" "CBLN3 WILD-TYPE" 
     TCGA-G4-6628 
"CBLN3 WILD-TYPE" 

Clustering(952) Variable = GGA2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGA2 MUTATED        5      0      1      2      0
  GGA2 WILD-TYPE     27     18     45     25     23
D952V1, multiclass
        clus
vv       GGA2 MUTATED GGA2 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGA2 MUTATED        5      1      2
  GGA2 WILD-TYPE     38     66     34
D952V2, multiclass
        clus
vv       GGA2 MUTATED GGA2 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGA2 MUTATED        1      1     10
  GGA2 WILD-TYPE     41    172    137
D952V3, multiclass
        clus
vv       GGA2 MUTATED GGA2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGA2 MUTATED        2      0      2
  GGA2 WILD-TYPE     60     73     73
D952V4, multiclass
        clus
vv       GGA2 MUTATED GGA2 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGA2 MUTATED        1      4      4
  GGA2 WILD-TYPE     69    116     96
D952V5, multiclass
        clus
vv       GGA2 MUTATED GGA2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GGA2 MUTATED        0      1      1      1      3      3      0      0      0
  GGA2 WILD-TYPE     41     25     29     28     36     66     20     14     22
D952V6, multiclass
        clus
vv       GGA2 MUTATED GGA2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            3             36
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGA2 MUTATED        1      3      0      8
  GGA2 WILD-TYPE     99     69     72    113
D952V7, multiclass
        clus
vv       GGA2 MUTATED GGA2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            0             72
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGA2 MUTATED        0      1      2      4      5
  GGA2 WILD-TYPE     59     74     72    115     33
D952V8, multiclass
        clus
vv       GGA2 MUTATED GGA2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            2             72
  CLUS_4            4            115
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGA2 MUTATED        0      2      0      3      6
  GGA2 WILD-TYPE     51     74     61     68     89
D952V9, multiclass
        clus
vv       GGA2 MUTATED GGA2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            3             68
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GGA2 MUTATED        1      0      0      1      2      1      1      2      3
  GGA2 WILD-TYPE     68     48     39     15     51     19     20     36     47
D952V10, multiclass
        clus
vv       GGA2 MUTATED GGA2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GGA2 MUTATED        0      0      0      0      0      0
  GGA2 WILD-TYPE     13     16     14     11     11      9
D952V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GGA2 MUTATED        0      0      0      0      0      0      0      0      0
  GGA2 WILD-TYPE     11      7      7      9      8      7     11      9      5
D952V12, multiclass

Clustering(953) Variable = ING1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ING1 MUTATED        2      0      1      1      0
  ING1 WILD-TYPE     30     18     45     26     23
D953V1, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ING1 MUTATED        2      2      0
  ING1 WILD-TYPE     41     65     36
D953V2, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ING1 MUTATED        0      1      9
  ING1 WILD-TYPE     42    172    138
D953V3, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ING1 MUTATED        0      0      5
  ING1 WILD-TYPE     62     73     70
D953V4, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            0             62
  CLUS_2            0             73
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ING1 MUTATED        2      3      2
  ING1 WILD-TYPE     68    117     98
D953V5, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ING1 MUTATED        1      0      2      0      1      2      1      0      0
  ING1 WILD-TYPE     40     26     28     29     38     67     19     14     22
D953V6, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ING1 MUTATED        0      5      1      4
  ING1 WILD-TYPE    100     67     71    117
D953V7, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            5             67
  CLUS_3            1             71
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ING1 MUTATED        0      0      5      3      2
  ING1 WILD-TYPE     59     75     69    116     36
D953V8, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            5             69
  CLUS_4            3            116
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ING1 MUTATED        0      4      0      1      5
  ING1 WILD-TYPE     51     72     61     70     90
D953V9, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ING1 MUTATED        2      0      0      1      0      3      1      2      1
  ING1 WILD-TYPE     67     48     39     15     53     17     20     36     49
D953V10, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            3             17
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ING1 MUTATED        0      0      0      0      1      0
  ING1 WILD-TYPE     13     16     14     11     10      9
D953V11, multiclass
[1] "Remove cluster labels:" "ING1 MUTATED"          
clus
  ING1 MUTATED ING1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-G4-6628 
"ING1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ING1 MUTATED        0      0      0      0      1      0      0      0      0
  ING1 WILD-TYPE     11      7      7      9      7      7     11      9      5
D953V12, multiclass
[1] "Remove cluster labels:" "ING1 MUTATED"          
clus
  ING1 MUTATED ING1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-G4-6628 
"ING1 WILD-TYPE" 

Clustering(954) Variable = LYG1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LYG1 MUTATED        1      0      0      0      1
  LYG1 WILD-TYPE     31     18     46     27     22
D954V1, multiclass
[1] "Remove cluster labels:" "LYG1 MUTATED"          
clus
  LYG1 MUTATED LYG1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856     TCGA-AA-3858 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LYG1 MUTATED        1      0      1
  LYG1 WILD-TYPE     42     67     35
D954V2, multiclass
[1] "Remove cluster labels:" "LYG1 MUTATED"          
clus
  LYG1 MUTATED LYG1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856     TCGA-AA-3858 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LYG1 MUTATED        0      1      5
  LYG1 WILD-TYPE     42    172    142
D954V3, multiclass
        clus
vv       LYG1 MUTATED LYG1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LYG1 MUTATED        2      0      1
  LYG1 WILD-TYPE     60     73     74
D954V4, multiclass
        clus
vv       LYG1 MUTATED LYG1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LYG1 MUTATED        0      2      1
  LYG1 WILD-TYPE     70    118     99
D954V5, multiclass
        clus
vv       LYG1 MUTATED LYG1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LYG1 MUTATED        0      1      1      0      0      1      0      0      0
  LYG1 WILD-TYPE     41     25     29     29     39     68     20     14     22
D954V6, multiclass
        clus
vv       LYG1 MUTATED LYG1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LYG1 MUTATED        0      1      1      4
  LYG1 WILD-TYPE    100     71     71    117
D954V7, multiclass
        clus
vv       LYG1 MUTATED LYG1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LYG1 MUTATED        0      0      2      2      2
  LYG1 WILD-TYPE     59     75     72    117     36
D954V8, multiclass
        clus
vv       LYG1 MUTATED LYG1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            2             72
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LYG1 MUTATED        0      2      0      1      3
  LYG1 WILD-TYPE     51     74     61     70     92
D954V9, multiclass
        clus
vv       LYG1 MUTATED LYG1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LYG1 MUTATED        0      1      0      1      0      0      0      2      2
  LYG1 WILD-TYPE     69     47     39     15     53     20     21     36     48
D954V10, multiclass
        clus
vv       LYG1 MUTATED LYG1 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LYG1 MUTATED        0      0      0      0      1      0
  LYG1 WILD-TYPE     13     16     14     11     10      9
D954V11, multiclass
[1] "Remove cluster labels:" "LYG1 MUTATED"          
clus
  LYG1 MUTATED LYG1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-G4-6628 
"LYG1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LYG1 MUTATED        0      0      0      0      0      0      1      0      0
  LYG1 WILD-TYPE     11      7      7      9      8      7     10      9      5
D954V12, multiclass
[1] "Remove cluster labels:" "LYG1 MUTATED"          
clus
  LYG1 MUTATED LYG1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" "LYG1 WILD-TYPE" 
    TCGA-G4-6628 
"LYG1 WILD-TYPE" 

Clustering(955) Variable = PRPF4B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRPF4B MUTATED        1      0      1      1      0
  PRPF4B WILD-TYPE     31     18     45     26     23
D955V1, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRPF4B MUTATED        1      1      1
  PRPF4B WILD-TYPE     42     66     35
D955V2, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRPF4B MUTATED        0      5     10
  PRPF4B WILD-TYPE     42    168    137
D955V3, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              5              168
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRPF4B MUTATED        4      3      5
  PRPF4B WILD-TYPE     58     70     70
D955V4, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              4               58
  CLUS_2              3               70
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRPF4B MUTATED        1      4      6
  PRPF4B WILD-TYPE     69    116     94
D955V5, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRPF4B MUTATED        2      1      1      0      2      5      0      0
  PRPF4B WILD-TYPE     39     25     29     29     37     64     20     14
                  vv
clus               CLUS_9
  PRPF4B MUTATED        0
  PRPF4B WILD-TYPE     22
D955V6, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRPF4B MUTATED        5      3      5      2
  PRPF4B WILD-TYPE     95     69     67    119
D955V7, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              5               95
  CLUS_2              3               69
  CLUS_3              5               67
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRPF4B MUTATED        1      4      6      4      0
  PRPF4B WILD-TYPE     58     71     68    115     38
D955V8, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3              6               68
  CLUS_4              4              115
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRPF4B MUTATED        1      8      2      1      2
  PRPF4B WILD-TYPE     50     68     59     70     93
D955V9, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              1               50
  CLUS_2              8               68
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRPF4B MUTATED        2      4      2      2      1      1      0      1
  PRPF4B WILD-TYPE     67     44     37     14     52     19     21     37
                  vv
clus               CLUS_9
  PRPF4B MUTATED        1
  PRPF4B WILD-TYPE     49
D955V10, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               44
  CLUS_3              2               37
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRPF4B MUTATED        1      0      1      0      2      0
  PRPF4B WILD-TYPE     12     16     13     11      9      9
D955V11, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRPF4B MUTATED        0      0      0      0      0      2      1      1
  PRPF4B WILD-TYPE     11      7      7      9      8      5     10      8
                  vv
clus               CLUS_9
  PRPF4B MUTATED        0
  PRPF4B WILD-TYPE      5
D955V12, multiclass
        clus
vv       PRPF4B MUTATED PRPF4B WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              2                5
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(956) Variable = TDRD7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TDRD7 MUTATED        1      0      0      3      0
  TDRD7 WILD-TYPE     31     18     46     24     23
D956V1, multiclass
        clus
vv       TDRD7 MUTATED TDRD7 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TDRD7 MUTATED        2      2      0
  TDRD7 WILD-TYPE     41     65     36
D956V2, multiclass
        clus
vv       TDRD7 MUTATED TDRD7 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TDRD7 MUTATED        1      4     10
  TDRD7 WILD-TYPE     41    169    137
D956V3, multiclass
        clus
vv       TDRD7 MUTATED TDRD7 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TDRD7 MUTATED        4      3      4
  TDRD7 WILD-TYPE     58     70     71
D956V4, multiclass
        clus
vv       TDRD7 MUTATED TDRD7 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TDRD7 MUTATED        3      4      8
  TDRD7 WILD-TYPE     67    116     92
D956V5, multiclass
        clus
vv       TDRD7 MUTATED TDRD7 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             116
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TDRD7 MUTATED        2      0      1      3      2      5      1      1
  TDRD7 WILD-TYPE     39     26     29     26     37     64     19     13
                 vv
clus              CLUS_9
  TDRD7 MUTATED        0
  TDRD7 WILD-TYPE     22
D956V6, multiclass
        clus
vv       TDRD7 MUTATED TDRD7 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TDRD7 MUTATED        4      5      2      4
  TDRD7 WILD-TYPE     96     67     70    117
D956V7, multiclass
        clus
vv       TDRD7 MUTATED TDRD7 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TDRD7 MUTATED        3      3      5      1      3
  TDRD7 WILD-TYPE     56     72     69    118     35
D956V8, multiclass
        clus
vv       TDRD7 MUTATED TDRD7 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TDRD7 MUTATED        4      3      2      0      5
  TDRD7 WILD-TYPE     47     73     59     71     90
D956V9, multiclass
        clus
vv       TDRD7 MUTATED TDRD7 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TDRD7 MUTATED        4      3      0      1      1      1      0      3
  TDRD7 WILD-TYPE     65     45     39     15     52     19     21     35
                 vv
clus              CLUS_9
  TDRD7 MUTATED        1
  TDRD7 WILD-TYPE     49
D956V10, multiclass
        clus
vv       TDRD7 MUTATED TDRD7 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TDRD7 MUTATED        0      0      1      0      1      0
  TDRD7 WILD-TYPE     13     16     13     11     10      9
D956V11, multiclass
[1] "Remove cluster labels:" "TDRD7 MUTATED"         
clus
  TDRD7 MUTATED TDRD7 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TDRD7 MUTATED        0      0      0      0      1      0      1      0
  TDRD7 WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  TDRD7 MUTATED        0
  TDRD7 WILD-TYPE      5
D956V12, multiclass
[1] "Remove cluster labels:" "TDRD7 MUTATED"         
clus
  TDRD7 MUTATED TDRD7 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" "TDRD7 WILD-TYPE" 

Clustering(957) Variable = ADAMTS19 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAMTS19 MUTATED        2      0      0      2      0
  ADAMTS19 WILD-TYPE     30     18     46     25     23
D957V1, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ADAMTS19 MUTATED        3      1      0
  ADAMTS19 WILD-TYPE     40     66     36
D957V2, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ADAMTS19 MUTATED        0      4     15
  ADAMTS19 WILD-TYPE     42    169    132
D957V3, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                4                169
  CLUS_3               15                132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ADAMTS19 MUTATED        6      3      5
  ADAMTS19 WILD-TYPE     56     70     70
D957V4, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                6                 56
  CLUS_2                3                 70
  CLUS_3                5                 70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ADAMTS19 MUTATED        2      6     10
  ADAMTS19 WILD-TYPE     68    114     90
D957V5, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                6                114
  CLUS_3               10                 90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAMTS19 MUTATED        2      1      1      1      0      9      4      0
  ADAMTS19 WILD-TYPE     39     25     29     28     39     60     16     14
                    vv
clus                 CLUS_9
  ADAMTS19 MUTATED        0
  ADAMTS19 WILD-TYPE     22
D957V6, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                9                 60
  CLUS_7                4                 16
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAMTS19 MUTATED        3      7      5      4
  ADAMTS19 WILD-TYPE     97     65     67    117
D957V7, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                3                 97
  CLUS_2                7                 65
  CLUS_3                5                 67
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAMTS19 MUTATED        4      5      6      1      3
  ADAMTS19 WILD-TYPE     55     70     68    118     35
D957V8, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                4                 55
  CLUS_2                5                 70
  CLUS_3                6                 68
  CLUS_4                1                118
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAMTS19 MUTATED        3      6      2      2      5
  ADAMTS19 WILD-TYPE     48     70     59     69     90
D957V9, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                3                 48
  CLUS_2                6                 70
  CLUS_3                2                 59
  CLUS_4                2                 69
  CLUS_5                5                 90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAMTS19 MUTATED        3      3      0      2      4      2      1      2
  ADAMTS19 WILD-TYPE     66     45     39     14     49     18     20     36
                    vv
clus                 CLUS_9
  ADAMTS19 MUTATED        1
  ADAMTS19 WILD-TYPE     49
D957V10, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                4                 49
  CLUS_6                2                 18
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADAMTS19 MUTATED        1      1      1      1      0      0
  ADAMTS19 WILD-TYPE     12     15     13     10     11      9
D957V11, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                1                 10
  CLUS_5                0                 11
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAMTS19 MUTATED        1      0      0      1      0      1      1      0
  ADAMTS19 WILD-TYPE     10      7      7      8      8      6     10      9
                    vv
clus                 CLUS_9
  ADAMTS19 MUTATED        0
  ADAMTS19 WILD-TYPE      5
D957V12, multiclass
        clus
vv       ADAMTS19 MUTATED ADAMTS19 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(958) Variable = MALT1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MALT1 MUTATED        4      0      0      2      0
  MALT1 WILD-TYPE     28     18     46     25     23
D958V1, multiclass
        clus
vv       MALT1 MUTATED MALT1 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MALT1 MUTATED        5      1      0
  MALT1 WILD-TYPE     38     66     36
D958V2, multiclass
        clus
vv       MALT1 MUTATED MALT1 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MALT1 MUTATED        0      3      7
  MALT1 WILD-TYPE     42    170    140
D958V3, multiclass
        clus
vv       MALT1 MUTATED MALT1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MALT1 MUTATED        1      1      3
  MALT1 WILD-TYPE     61     72     72
D958V4, multiclass
        clus
vv       MALT1 MUTATED MALT1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MALT1 MUTATED        2      3      1
  MALT1 WILD-TYPE     68    117     99
D958V5, multiclass
        clus
vv       MALT1 MUTATED MALT1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MALT1 MUTATED        1      0      1      1      2      0      1      0
  MALT1 WILD-TYPE     40     26     29     28     37     69     19     14
                 vv
clus              CLUS_9
  MALT1 MUTATED        0
  MALT1 WILD-TYPE     22
D958V6, multiclass
        clus
vv       MALT1 MUTATED MALT1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             0              69
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MALT1 MUTATED        1      2      2      6
  MALT1 WILD-TYPE     99     70     70    115
D958V7, multiclass
        clus
vv       MALT1 MUTATED MALT1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MALT1 MUTATED        2      1      2      1      5
  MALT1 WILD-TYPE     57     74     72    118     33
D958V8, multiclass
        clus
vv       MALT1 MUTATED MALT1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MALT1 MUTATED        1      1      1      1      7
  MALT1 WILD-TYPE     50     75     60     70     88
D958V9, multiclass
        clus
vv       MALT1 MUTATED MALT1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MALT1 MUTATED        3      0      0      0      1      1      1      5
  MALT1 WILD-TYPE     66     48     39     16     52     19     20     33
                 vv
clus              CLUS_9
  MALT1 MUTATED        0
  MALT1 WILD-TYPE     50
D958V10, multiclass
        clus
vv       MALT1 MUTATED MALT1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             5              33
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MALT1 MUTATED        0      0      1      0      0      1
  MALT1 WILD-TYPE     13     16     13     11     11      8
D958V11, multiclass
[1] "Remove cluster labels:" "MALT1 MUTATED"         
clus
  MALT1 MUTATED MALT1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6628 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MALT1 MUTATED        1      0      0      0      1      0      0      0
  MALT1 WILD-TYPE     10      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  MALT1 MUTATED        0
  MALT1 WILD-TYPE      5
D958V12, multiclass
[1] "Remove cluster labels:" "MALT1 MUTATED"         
clus
  MALT1 MUTATED MALT1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6628 
"MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" "MALT1 WILD-TYPE" 

Clustering(959) Variable = JMJD6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JMJD6 MUTATED        0      0      0      1      0
  JMJD6 WILD-TYPE     32     18     46     26     23
D959V1, multiclass
[1] "Remove cluster labels:" "JMJD6 MUTATED"         
clus
  JMJD6 MUTATED JMJD6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AY-4071 
"JMJD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  JMJD6 MUTATED        0      1      0
  JMJD6 WILD-TYPE     43     66     36
D959V2, multiclass
[1] "Remove cluster labels:" "JMJD6 MUTATED"         
clus
  JMJD6 MUTATED JMJD6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AY-4071 
"JMJD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  JMJD6 MUTATED        1      1      6
  JMJD6 WILD-TYPE     41    172    141
D959V3, multiclass
        clus
vv       JMJD6 MUTATED JMJD6 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  JMJD6 MUTATED        2      0      4
  JMJD6 WILD-TYPE     60     73     71
D959V4, multiclass
        clus
vv       JMJD6 MUTATED JMJD6 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  JMJD6 MUTATED        2      3      2
  JMJD6 WILD-TYPE     68    117     98
D959V5, multiclass
        clus
vv       JMJD6 MUTATED JMJD6 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  JMJD6 MUTATED        1      0      2      0      1      2      1      0
  JMJD6 WILD-TYPE     40     26     28     29     38     67     19     14
                 vv
clus              CLUS_9
  JMJD6 MUTATED        0
  JMJD6 WILD-TYPE     22
D959V6, multiclass
        clus
vv       JMJD6 MUTATED JMJD6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  JMJD6 MUTATED        0      3      3      2
  JMJD6 WILD-TYPE    100     69     69    119
D959V7, multiclass
        clus
vv       JMJD6 MUTATED JMJD6 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JMJD6 MUTATED        2      1      3      1      1
  JMJD6 WILD-TYPE     57     74     71    118     37
D959V8, multiclass
        clus
vv       JMJD6 MUTATED JMJD6 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JMJD6 MUTATED        1      3      2      0      2
  JMJD6 WILD-TYPE     50     73     59     71     93
D959V9, multiclass
        clus
vv       JMJD6 MUTATED JMJD6 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  JMJD6 MUTATED        0      1      0      2      2      2      0      1
  JMJD6 WILD-TYPE     69     47     39     14     51     18     21     37
                 vv
clus              CLUS_9
  JMJD6 MUTATED        0
  JMJD6 WILD-TYPE     50
D959V10, multiclass
        clus
vv       JMJD6 MUTATED JMJD6 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  JMJD6 MUTATED        0      1      0      1      0      0
  JMJD6 WILD-TYPE     13     15     14     10     11      9
D959V11, multiclass
[1] "Remove cluster labels:" "JMJD6 MUTATED"         
clus
  JMJD6 MUTATED JMJD6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901      TCGA-AD-6963 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  JMJD6 MUTATED        0      0      0      0      0      1      1      0
  JMJD6 WILD-TYPE     11      7      7      9      8      6     10      9
                 vv
clus              CLUS_9
  JMJD6 MUTATED        0
  JMJD6 WILD-TYPE      5
D959V12, multiclass
[1] "Remove cluster labels:" "JMJD6 MUTATED"         
clus
  JMJD6 MUTATED JMJD6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901      TCGA-AD-6963 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" "JMJD6 WILD-TYPE" 

Clustering(960) Variable = THUMPD3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THUMPD3 MUTATED        1      0      0      1      0
  THUMPD3 WILD-TYPE     31     18     46     26     23
D960V1, multiclass
[1] "Remove cluster labels:" "THUMPD3 MUTATED"       
clus
  THUMPD3 MUTATED THUMPD3 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00F        TCGA-AA-A00J 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  THUMPD3 MUTATED        1      1      0
  THUMPD3 WILD-TYPE     42     66     36
D960V2, multiclass
[1] "Remove cluster labels:" "THUMPD3 MUTATED"       
clus
  THUMPD3 MUTATED THUMPD3 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00F        TCGA-AA-A00J 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" "THUMPD3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  THUMPD3 MUTATED        2      2      7
  THUMPD3 WILD-TYPE     40    171    140
D960V3, multiclass
        clus
vv       THUMPD3 MUTATED THUMPD3 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               2               171
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  THUMPD3 MUTATED        6      1      2
  THUMPD3 WILD-TYPE     56     72     73
D960V4, multiclass
        clus
vv       THUMPD3 MUTATED THUMPD3 WILD-TYPE
  CLUS_1               6                56
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  THUMPD3 MUTATED        0      3      8
  THUMPD3 WILD-TYPE     70    117     92
D960V5, multiclass
        clus
vv       THUMPD3 MUTATED THUMPD3 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THUMPD3 MUTATED        4      0      2      1      0      3      1      0
  THUMPD3 WILD-TYPE     37     26     28     28     39     66     19     14
                   vv
clus                CLUS_9
  THUMPD3 MUTATED        0
  THUMPD3 WILD-TYPE     22
D960V6, multiclass
        clus
vv       THUMPD3 MUTATED THUMPD3 WILD-TYPE
  CLUS_1               4                37
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  THUMPD3 MUTATED        0      5      4      2
  THUMPD3 WILD-TYPE    100     67     68    119
D960V7, multiclass
        clus
vv       THUMPD3 MUTATED THUMPD3 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               5                67
  CLUS_3               4                68
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THUMPD3 MUTATED        3      1      5      1      1
  THUMPD3 WILD-TYPE     56     74     69    118     37
D960V8, multiclass
        clus
vv       THUMPD3 MUTATED THUMPD3 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               1                74
  CLUS_3               5                69
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THUMPD3 MUTATED        1      4      3      0      2
  THUMPD3 WILD-TYPE     50     72     58     71     93
D960V9, multiclass
        clus
vv       THUMPD3 MUTATED THUMPD3 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               4                72
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THUMPD3 MUTATED        2      4      0      1      0      2      0      0
  THUMPD3 WILD-TYPE     67     44     39     15     53     18     21     38
                   vv
clus                CLUS_9
  THUMPD3 MUTATED        1
  THUMPD3 WILD-TYPE     49
D960V10, multiclass
        clus
vv       THUMPD3 MUTATED THUMPD3 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  THUMPD3 MUTATED        0      2      0      1      0      0
  THUMPD3 WILD-TYPE     13     14     14     10     11      9
D960V11, multiclass
        clus
vv       THUMPD3 MUTATED THUMPD3 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               2                14
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THUMPD3 MUTATED        2      0      1      0      0      0      0      0
  THUMPD3 WILD-TYPE      9      7      6      9      8      7     11      9
                   vv
clus                CLUS_9
  THUMPD3 MUTATED        0
  THUMPD3 WILD-TYPE      5
D960V12, multiclass
        clus
vv       THUMPD3 MUTATED THUMPD3 WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(961) Variable = STAU2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAU2 MUTATED        3      0      0      0      0
  STAU2 WILD-TYPE     29     18     46     27     23
D961V1, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAU2 MUTATED        2      0      1
  STAU2 WILD-TYPE     41     67     35
D961V2, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAU2 MUTATED        0      1      9
  STAU2 WILD-TYPE     42    172    138
D961V3, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAU2 MUTATED        3      0      4
  STAU2 WILD-TYPE     59     73     71
D961V4, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAU2 MUTATED        1      1      5
  STAU2 WILD-TYPE     69    119     95
D961V5, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAU2 MUTATED        2      0      0      0      0      4      0      1
  STAU2 WILD-TYPE     39     26     30     29     39     65     20     13
                 vv
clus              CLUS_9
  STAU2 MUTATED        0
  STAU2 WILD-TYPE     22
D961V6, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STAU2 MUTATED        1      3      3      3
  STAU2 WILD-TYPE     99     69     69    118
D961V7, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAU2 MUTATED        2      1      4      2      1
  STAU2 WILD-TYPE     57     74     70    117     37
D961V8, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAU2 MUTATED        0      4      2      2      1
  STAU2 WILD-TYPE     51     72     59     69     94
D961V9, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAU2 MUTATED        1      3      1      1      1      0      0      1
  STAU2 WILD-TYPE     68     45     38     15     52     20     21     37
                 vv
clus              CLUS_9
  STAU2 MUTATED        1
  STAU2 WILD-TYPE     49
D961V10, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STAU2 MUTATED        0      1      0      1      1      0
  STAU2 WILD-TYPE     13     15     14     10     10      9
D961V11, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAU2 MUTATED        0      0      0      0      0      0      3      0
  STAU2 WILD-TYPE     11      7      7      9      8      7      8      9
                 vv
clus              CLUS_9
  STAU2 MUTATED        0
  STAU2 WILD-TYPE      5
D961V12, multiclass
        clus
vv       STAU2 MUTATED STAU2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(962) Variable = KIAA1797 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1797 MUTATED        1      0      1      2      0
  KIAA1797 WILD-TYPE     31     18     45     25     23
D962V1, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                0                 18
  CLUS_3                1                 45
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1797 MUTATED        3      1      0
  KIAA1797 WILD-TYPE     40     66     36
D962V2, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1797 MUTATED        2      4     14
  KIAA1797 WILD-TYPE     40    169    133
D962V3, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                4                169
  CLUS_3               14                133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1797 MUTATED        4      3      9
  KIAA1797 WILD-TYPE     58     70     66
D962V4, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                3                 70
  CLUS_3                9                 66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1797 MUTATED        3      8      8
  KIAA1797 WILD-TYPE     67    112     92
D962V5, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                8                112
  CLUS_3                8                 92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1797 MUTATED        3      0      1      3      2      6      2      2
  KIAA1797 WILD-TYPE     38     26     29     26     37     63     18     12
                    vv
clus                 CLUS_9
  KIAA1797 MUTATED        0
  KIAA1797 WILD-TYPE     22
D962V6, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                3                 26
  CLUS_5                2                 37
  CLUS_6                6                 63
  CLUS_7                2                 18
  CLUS_8                2                 12
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1797 MUTATED        3     10      4      3
  KIAA1797 WILD-TYPE     97     62     68    118
D962V7, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                3                 97
  CLUS_2               10                 62
  CLUS_3                4                 68
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1797 MUTATED        2      6      8      1      3
  KIAA1797 WILD-TYPE     57     69     66    118     35
D962V8, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                6                 69
  CLUS_3                8                 66
  CLUS_4                1                118
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1797 MUTATED        4      6      4      1      3
  KIAA1797 WILD-TYPE     47     70     57     70     92
D962V9, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                4                 47
  CLUS_2                6                 70
  CLUS_3                4                 57
  CLUS_4                1                 70
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1797 MUTATED        5      4      0      2      1      2      1      2
  KIAA1797 WILD-TYPE     64     44     39     14     52     18     20     36
                    vv
clus                 CLUS_9
  KIAA1797 MUTATED        1
  KIAA1797 WILD-TYPE     49
D962V10, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                5                 64
  CLUS_2                4                 44
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                1                 52
  CLUS_6                2                 18
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA1797 MUTATED        0      1      1      0      1      0
  KIAA1797 WILD-TYPE     13     15     13     11     10      9
D962V11, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1797 MUTATED        0      0      0      1      1      0      1      0
  KIAA1797 WILD-TYPE     11      7      7      8      7      7     10      9
                    vv
clus                 CLUS_9
  KIAA1797 MUTATED        0
  KIAA1797 WILD-TYPE      5
D962V12, multiclass
        clus
vv       KIAA1797 MUTATED KIAA1797 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(963) Variable = MKI67 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MKI67 MUTATED       14      0      0      2      0
  MKI67 WILD-TYPE     18     18     46     25     23
D963V1, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1            14              18
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MKI67 MUTATED       14      1      1
  MKI67 WILD-TYPE     29     66     35
D963V2, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1            14              29
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MKI67 MUTATED        1      8     26
  MKI67 WILD-TYPE     41    165    121
D963V3, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             8             165
  CLUS_3            26             121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MKI67 MUTATED        8      6      7
  MKI67 WILD-TYPE     54     67     68
D963V4, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             6              67
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MKI67 MUTATED        1     12     16
  MKI67 WILD-TYPE     69    108     84
D963V5, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             1              69
  CLUS_2            12             108
  CLUS_3            16              84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MKI67 MUTATED        0      2      2      3      5     10      5      0
  MKI67 WILD-TYPE     41     24     28     26     34     59     15     14
                 vv
clus              CLUS_9
  MKI67 MUTATED        2
  MKI67 WILD-TYPE     20
D963V6, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             3              26
  CLUS_5             5              34
  CLUS_6            10              59
  CLUS_7             5              15
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MKI67 MUTATED        5      6      9     16
  MKI67 WILD-TYPE     95     66     63    105
D963V7, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             6              66
  CLUS_3             9              63
  CLUS_4            16             105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MKI67 MUTATED        3      6     10      4     13
  MKI67 WILD-TYPE     56     69     64    115     25
D963V8, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             6              69
  CLUS_3            10              64
  CLUS_4             4             115
  CLUS_5            13              25
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MKI67 MUTATED        4     13      2      1     12
  MKI67 WILD-TYPE     47     63     59     70     83
D963V9, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             4              47
  CLUS_2            13              63
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5            12              83
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MKI67 MUTATED        3      6      3      4      3      3      1      8
  MKI67 WILD-TYPE     66     42     36     12     50     17     20     30
                 vv
clus              CLUS_9
  MKI67 MUTATED        1
  MKI67 WILD-TYPE     49
D963V10, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             6              42
  CLUS_3             3              36
  CLUS_4             4              12
  CLUS_5             3              50
  CLUS_6             3              17
  CLUS_7             1              20
  CLUS_8             8              30
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MKI67 MUTATED        0      1      1      1      4      0
  MKI67 WILD-TYPE     13     15     13     10      7      9
D963V11, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MKI67 MUTATED        0      1      0      2      1      0      2      1
  MKI67 WILD-TYPE     11      6      7      7      7      7      9      8
                 vv
clus              CLUS_9
  MKI67 MUTATED        0
  MKI67 WILD-TYPE      5
D963V12, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(964) Variable = HAUS6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAUS6 MUTATED        2      0      0      1      1
  HAUS6 WILD-TYPE     30     18     46     26     22
D964V1, multiclass
        clus
vv       HAUS6 MUTATED HAUS6 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS6 MUTATED        3      0      1
  HAUS6 WILD-TYPE     40     67     35
D964V2, multiclass
        clus
vv       HAUS6 MUTATED HAUS6 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS6 MUTATED        1      3      8
  HAUS6 WILD-TYPE     41    170    139
D964V3, multiclass
        clus
vv       HAUS6 MUTATED HAUS6 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS6 MUTATED        2      2      4
  HAUS6 WILD-TYPE     60     71     71
D964V4, multiclass
        clus
vv       HAUS6 MUTATED HAUS6 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS6 MUTATED        1      4      4
  HAUS6 WILD-TYPE     69    116     96
D964V5, multiclass
        clus
vv       HAUS6 MUTATED HAUS6 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HAUS6 MUTATED        0      0      0      3      2      3      0      0
  HAUS6 WILD-TYPE     41     26     30     26     37     66     20     14
                 vv
clus              CLUS_9
  HAUS6 MUTATED        1
  HAUS6 WILD-TYPE     21
D964V6, multiclass
        clus
vv       HAUS6 MUTATED HAUS6 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HAUS6 MUTATED        3      3      1      5
  HAUS6 WILD-TYPE     97     69     71    116
D964V7, multiclass
        clus
vv       HAUS6 MUTATED HAUS6 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAUS6 MUTATED        0      4      3      3      2
  HAUS6 WILD-TYPE     59     71     71    116     36
D964V8, multiclass
        clus
vv       HAUS6 MUTATED HAUS6 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             4              71
  CLUS_3             3              71
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAUS6 MUTATED        1      3      0      4      4
  HAUS6 WILD-TYPE     50     73     61     67     91
D964V9, multiclass
        clus
vv       HAUS6 MUTATED HAUS6 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             4              67
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HAUS6 MUTATED        2      1      1      2      1      0      1      2
  HAUS6 WILD-TYPE     67     47     38     14     52     20     20     36
                 vv
clus              CLUS_9
  HAUS6 MUTATED        2
  HAUS6 WILD-TYPE     48
D964V10, multiclass
        clus
vv       HAUS6 MUTATED HAUS6 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HAUS6 MUTATED        0      0      0      0      1      1
  HAUS6 WILD-TYPE     13     16     14     11     10      8
D964V11, multiclass
[1] "Remove cluster labels:" "HAUS6 MUTATED"         
clus
  HAUS6 MUTATED HAUS6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HAUS6 MUTATED        0      0      0      0      0      0      1      1
  HAUS6 WILD-TYPE     11      7      7      9      8      7     10      8
                 vv
clus              CLUS_9
  HAUS6 MUTATED        0
  HAUS6 WILD-TYPE      5
D964V12, multiclass
[1] "Remove cluster labels:" "HAUS6 MUTATED"         
clus
  HAUS6 MUTATED HAUS6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" "HAUS6 WILD-TYPE" 

Clustering(965) Variable = DNAH6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH6 MUTATED        1      0      0      0      0
  DNAH6 WILD-TYPE     31     18     46     27     23
D965V1, multiclass
[1] "Remove cluster labels:" "DNAH6 MUTATED"         
clus
  DNAH6 MUTATED DNAH6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AY-4071 
"DNAH6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNAH6 MUTATED        1      0      0
  DNAH6 WILD-TYPE     42     67     36
D965V2, multiclass
[1] "Remove cluster labels:" "DNAH6 MUTATED"         
clus
  DNAH6 MUTATED DNAH6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" "DNAH6 WILD-TYPE" 
     TCGA-AY-4071 
"DNAH6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNAH6 MUTATED        2      1     17
  DNAH6 WILD-TYPE     40    172    130
D965V3, multiclass
        clus
vv       DNAH6 MUTATED DNAH6 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3            17             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNAH6 MUTATED       10      0      9
  DNAH6 WILD-TYPE     52     73     66
D965V4, multiclass
        clus
vv       DNAH6 MUTATED DNAH6 WILD-TYPE
  CLUS_1            10              52
  CLUS_2             0              73
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNAH6 MUTATED        5      3     10
  DNAH6 WILD-TYPE     65    117     90
D965V5, multiclass
        clus
vv       DNAH6 MUTATED DNAH6 WILD-TYPE
  CLUS_1             5              65
  CLUS_2             3             117
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH6 MUTATED        3      2      0      1      1      8      1      1
  DNAH6 WILD-TYPE     38     24     30     28     38     61     19     13
                 vv
clus              CLUS_9
  DNAH6 MUTATED        1
  DNAH6 WILD-TYPE     21
D965V6, multiclass
        clus
vv       DNAH6 MUTATED DNAH6 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             8              61
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNAH6 MUTATED        2      8      8      2
  DNAH6 WILD-TYPE     98     64     64    119
D965V7, multiclass
        clus
vv       DNAH6 MUTATED DNAH6 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             8              64
  CLUS_3             8              64
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH6 MUTATED        3      1     14      1      1
  DNAH6 WILD-TYPE     56     74     60    118     37
D965V8, multiclass
        clus
vv       DNAH6 MUTATED DNAH6 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3            14              60
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH6 MUTATED        1     10      5      0      4
  DNAH6 WILD-TYPE     50     66     56     71     91
D965V9, multiclass
        clus
vv       DNAH6 MUTATED DNAH6 WILD-TYPE
  CLUS_1             1              50
  CLUS_2            10              66
  CLUS_3             5              56
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH6 MUTATED        2      8      0      5      0      0      0      2
  DNAH6 WILD-TYPE     67     40     39     11     53     20     21     36
                 vv
clus              CLUS_9
  DNAH6 MUTATED        3
  DNAH6 WILD-TYPE     47
D965V10, multiclass
        clus
vv       DNAH6 MUTATED DNAH6 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             8              40
  CLUS_3             0              39
  CLUS_4             5              11
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNAH6 MUTATED        0      1      2      0      4      0
  DNAH6 WILD-TYPE     13     15     12     11      7      9
D965V11, multiclass
        clus
vv       DNAH6 MUTATED DNAH6 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH6 MUTATED        0      0      0      2      1      2      2      0
  DNAH6 WILD-TYPE     11      7      7      7      7      5      9      9
                 vv
clus              CLUS_9
  DNAH6 MUTATED        0
  DNAH6 WILD-TYPE      5
D965V12, multiclass
        clus
vv       DNAH6 MUTATED DNAH6 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             2               5
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(966) Variable = TRYX3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRYX3 MUTATED        0      0      0      1      0
  TRYX3 WILD-TYPE     32     18     46     26     23
D966V1, multiclass
[1] "Remove cluster labels:" "TRYX3 MUTATED"         
clus
  TRYX3 MUTATED TRYX3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AY-4071 
"TRYX3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRYX3 MUTATED        1      0      0
  TRYX3 WILD-TYPE     42     67     36
D966V2, multiclass
[1] "Remove cluster labels:" "TRYX3 MUTATED"         
clus
  TRYX3 MUTATED TRYX3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AY-4071 
"TRYX3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRYX3 MUTATED        0      2      4
  TRYX3 WILD-TYPE     42    171    143
D966V3, multiclass
        clus
vv       TRYX3 MUTATED TRYX3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRYX3 MUTATED        2      2      1
  TRYX3 WILD-TYPE     60     71     74
D966V4, multiclass
        clus
vv       TRYX3 MUTATED TRYX3 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRYX3 MUTATED        1      1      2
  TRYX3 WILD-TYPE     69    119     98
D966V5, multiclass
        clus
vv       TRYX3 MUTATED TRYX3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRYX3 MUTATED        1      0      0      1      1      1      0      0
  TRYX3 WILD-TYPE     40     26     30     28     38     68     20     14
                 vv
clus              CLUS_9
  TRYX3 MUTATED        0
  TRYX3 WILD-TYPE     22
D966V6, multiclass
        clus
vv       TRYX3 MUTATED TRYX3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRYX3 MUTATED        1      1      3      1
  TRYX3 WILD-TYPE     99     71     69    120
D966V7, multiclass
        clus
vv       TRYX3 MUTATED TRYX3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRYX3 MUTATED        1      1      3      0      1
  TRYX3 WILD-TYPE     58     74     71    119     37
D966V8, multiclass
        clus
vv       TRYX3 MUTATED TRYX3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRYX3 MUTATED        1      2      2      0      1
  TRYX3 WILD-TYPE     50     74     59     71     94
D966V9, multiclass
        clus
vv       TRYX3 MUTATED TRYX3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRYX3 MUTATED        1      2      0      0      2      1      0      0
  TRYX3 WILD-TYPE     68     46     39     16     51     19     21     38
                 vv
clus              CLUS_9
  TRYX3 MUTATED        0
  TRYX3 WILD-TYPE     50
D966V10, multiclass
        clus
vv       TRYX3 MUTATED TRYX3 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRYX3 MUTATED        0      0      1      0      1      0
  TRYX3 WILD-TYPE     13     16     13     11     10      9
D966V11, multiclass
[1] "Remove cluster labels:" "TRYX3 MUTATED"         
clus
  TRYX3 MUTATED TRYX3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRYX3 MUTATED        0      0      0      0      1      0      1      0
  TRYX3 WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  TRYX3 MUTATED        0
  TRYX3 WILD-TYPE      5
D966V12, multiclass
[1] "Remove cluster labels:" "TRYX3 MUTATED"         
clus
  TRYX3 MUTATED TRYX3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" "TRYX3 WILD-TYPE" 

Clustering(967) Variable = PER3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PER3 MUTATED        3      0      0      3      1
  PER3 WILD-TYPE     29     18     46     24     22
D967V1, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PER3 MUTATED        3      3      1
  PER3 WILD-TYPE     40     64     35
D967V2, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            3             64
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PER3 MUTATED        2      2     13
  PER3 WILD-TYPE     40    171    134
D967V3, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2            171
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PER3 MUTATED        3      1      6
  PER3 WILD-TYPE     59     72     69
D967V4, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PER3 MUTATED        1      5      5
  PER3 WILD-TYPE     69    115     95
D967V5, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PER3 MUTATED        2      2      1      2      0      3      1      0      0
  PER3 WILD-TYPE     39     24     29     27     39     66     19     14     22
D967V6, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PER3 MUTATED        1      7      3      6
  PER3 WILD-TYPE     99     65     69    115
D967V7, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            7             65
  CLUS_3            3             69
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PER3 MUTATED        1      3      5      5      3
  PER3 WILD-TYPE     58     72     69    114     35
D967V8, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            5             69
  CLUS_4            5            114
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PER3 MUTATED        2      6      1      2      4
  PER3 WILD-TYPE     49     70     60     69     91
D967V9, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PER3 MUTATED        3      2      0      2      3      0      2      1      2
  PER3 WILD-TYPE     66     46     39     14     50     20     19     37     48
D967V10, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            2             19
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PER3 MUTATED        0      0      0      0      2      1
  PER3 WILD-TYPE     13     16     14     11      9      8
D967V11, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PER3 MUTATED        1      0      0      1      0      0      1      0      0
  PER3 WILD-TYPE     10      7      7      8      8      7     10      9      5
D967V12, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(968) Variable = ZNF443 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF443 MUTATED        1      0      1      3      0
  ZNF443 WILD-TYPE     31     18     45     24     23
D968V1, multiclass
        clus
vv       ZNF443 MUTATED ZNF443 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              3               24
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF443 MUTATED        2      3      0
  ZNF443 WILD-TYPE     41     64     36
D968V2, multiclass
        clus
vv       ZNF443 MUTATED ZNF443 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              3               64
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF443 MUTATED        0      1      7
  ZNF443 WILD-TYPE     42    172    140
D968V3, multiclass
        clus
vv       ZNF443 MUTATED ZNF443 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF443 MUTATED        2      0      1
  ZNF443 WILD-TYPE     60     73     74
D968V4, multiclass
        clus
vv       ZNF443 MUTATED ZNF443 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF443 MUTATED        0      3      4
  ZNF443 WILD-TYPE     70    117     96
D968V5, multiclass
        clus
vv       ZNF443 MUTATED ZNF443 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF443 MUTATED        1      0      2      1      1      2      0      0
  ZNF443 WILD-TYPE     40     26     28     28     38     67     20     14
                  vv
clus               CLUS_9
  ZNF443 MUTATED        0
  ZNF443 WILD-TYPE     22
D968V6, multiclass
        clus
vv       ZNF443 MUTATED ZNF443 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF443 MUTATED        0      1      2      5
  ZNF443 WILD-TYPE    100     71     70    116
D968V7, multiclass
        clus
vv       ZNF443 MUTATED ZNF443 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF443 MUTATED        1      0      2      3      2
  ZNF443 WILD-TYPE     58     75     72    116     36
D968V8, multiclass
        clus
vv       ZNF443 MUTATED ZNF443 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF443 MUTATED        0      2      1      0      4
  ZNF443 WILD-TYPE     51     74     60     71     91
D968V9, multiclass
        clus
vv       ZNF443 MUTATED ZNF443 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF443 MUTATED        1      2      1      0      1      1      1      0
  ZNF443 WILD-TYPE     68     46     38     16     52     19     20     38
                  vv
clus               CLUS_9
  ZNF443 MUTATED        0
  ZNF443 WILD-TYPE     50
D968V10, multiclass
        clus
vv       ZNF443 MUTATED ZNF443 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF443 MUTATED        0      0      1      0      0      0
  ZNF443 WILD-TYPE     13     16     13     11     11      9
D968V11, multiclass
[1] "Remove cluster labels:" "ZNF443 MUTATED"        
clus
  ZNF443 MUTATED ZNF443 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF443 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF443 MUTATED        0      0      0      0      0      1      0      0
  ZNF443 WILD-TYPE     11      7      7      9      8      6     11      9
                  vv
clus               CLUS_9
  ZNF443 MUTATED        0
  ZNF443 WILD-TYPE      5
D968V12, multiclass
[1] "Remove cluster labels:" "ZNF443 MUTATED"        
clus
  ZNF443 MUTATED ZNF443 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" "ZNF443 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF443 WILD-TYPE" 

Clustering(969) Variable = ACAT2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACAT2 MUTATED        1      0      0      1      0
  ACAT2 WILD-TYPE     31     18     46     26     23
D969V1, multiclass
[1] "Remove cluster labels:" "ACAT2 MUTATED"         
clus
  ACAT2 MUTATED ACAT2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACAT2 MUTATED        1      1      0
  ACAT2 WILD-TYPE     42     66     36
D969V2, multiclass
[1] "Remove cluster labels:" "ACAT2 MUTATED"         
clus
  ACAT2 MUTATED ACAT2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACAT2 MUTATED        0      2      6
  ACAT2 WILD-TYPE     42    171    141
D969V3, multiclass
        clus
vv       ACAT2 MUTATED ACAT2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACAT2 MUTATED        2      2      2
  ACAT2 WILD-TYPE     60     71     73
D969V4, multiclass
        clus
vv       ACAT2 MUTATED ACAT2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACAT2 MUTATED        0      5      2
  ACAT2 WILD-TYPE     70    115     98
D969V5, multiclass
        clus
vv       ACAT2 MUTATED ACAT2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACAT2 MUTATED        0      2      1      0      1      3      0      0
  ACAT2 WILD-TYPE     41     24     29     29     38     66     20     14
                 vv
clus              CLUS_9
  ACAT2 MUTATED        0
  ACAT2 WILD-TYPE     22
D969V6, multiclass
        clus
vv       ACAT2 MUTATED ACAT2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACAT2 MUTATED        3      2      1      2
  ACAT2 WILD-TYPE     97     70     71    119
D969V7, multiclass
        clus
vv       ACAT2 MUTATED ACAT2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACAT2 MUTATED        1      3      2      1      1
  ACAT2 WILD-TYPE     58     72     72    118     37
D969V8, multiclass
        clus
vv       ACAT2 MUTATED ACAT2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACAT2 MUTATED        2      4      0      0      2
  ACAT2 WILD-TYPE     49     72     61     71     93
D969V9, multiclass
        clus
vv       ACAT2 MUTATED ACAT2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACAT2 MUTATED        2      1      0      1      2      1      0      1
  ACAT2 WILD-TYPE     67     47     39     15     51     19     21     37
                 vv
clus              CLUS_9
  ACAT2 MUTATED        0
  ACAT2 WILD-TYPE     50
D969V10, multiclass
        clus
vv       ACAT2 MUTATED ACAT2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACAT2 MUTATED        0      0      0      0      2      0
  ACAT2 WILD-TYPE     13     16     14     11      9      9
D969V11, multiclass
[1] "Remove cluster labels:" "ACAT2 MUTATED"         
clus
  ACAT2 MUTATED ACAT2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACAT2 MUTATED        0      0      0      1      0      0      1      0
  ACAT2 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  ACAT2 MUTATED        0
  ACAT2 WILD-TYPE      5
D969V12, multiclass
[1] "Remove cluster labels:" "ACAT2 MUTATED"         
clus
  ACAT2 MUTATED ACAT2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" "ACAT2 WILD-TYPE" 

Clustering(970) Variable = TRIM46 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM46 MUTATED        2      0      0      0      0
  TRIM46 WILD-TYPE     30     18     46     27     23
D970V1, multiclass
[1] "Remove cluster labels:" "TRIM46 MUTATED"        
clus
  TRIM46 MUTATED TRIM46 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3846       TCGA-AA-3848 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM46 MUTATED        2      0      0
  TRIM46 WILD-TYPE     41     67     36
D970V2, multiclass
[1] "Remove cluster labels:" "TRIM46 MUTATED"        
clus
  TRIM46 MUTATED TRIM46 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3846       TCGA-AA-3848 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" "TRIM46 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM46 MUTATED        2      1     12
  TRIM46 WILD-TYPE     40    172    135
D970V3, multiclass
        clus
vv       TRIM46 MUTATED TRIM46 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1              172
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM46 MUTATED        6      0      6
  TRIM46 WILD-TYPE     56     73     69
D970V4, multiclass
        clus
vv       TRIM46 MUTATED TRIM46 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              0               73
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM46 MUTATED        1      7      6
  TRIM46 WILD-TYPE     69    113     94
D970V5, multiclass
        clus
vv       TRIM46 MUTATED TRIM46 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              7              113
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM46 MUTATED        0      2      1      2      3      5      1      0
  TRIM46 WILD-TYPE     41     24     29     27     36     64     19     14
                  vv
clus               CLUS_9
  TRIM46 MUTATED        0
  TRIM46 WILD-TYPE     22
D970V6, multiclass
        clus
vv       TRIM46 MUTATED TRIM46 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              3               36
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM46 MUTATED        1      8      3      3
  TRIM46 WILD-TYPE     99     64     69    118
D970V7, multiclass
        clus
vv       TRIM46 MUTATED TRIM46 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              8               64
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM46 MUTATED        1      2      8      1      3
  TRIM46 WILD-TYPE     58     73     66    118     35
D970V8, multiclass
        clus
vv       TRIM46 MUTATED TRIM46 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              8               66
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM46 MUTATED        1      8      1      0      5
  TRIM46 WILD-TYPE     50     68     60     71     90
D970V9, multiclass
        clus
vv       TRIM46 MUTATED TRIM46 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              8               68
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM46 MUTATED        1      4      0      2      3      1      0      3
  TRIM46 WILD-TYPE     68     44     39     14     50     19     21     35
                  vv
clus               CLUS_9
  TRIM46 MUTATED        1
  TRIM46 WILD-TYPE     49
D970V10, multiclass
        clus
vv       TRIM46 MUTATED TRIM46 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM46 MUTATED        0      0      1      0      3      0
  TRIM46 WILD-TYPE     13     16     13     11      8      9
D970V11, multiclass
        clus
vv       TRIM46 MUTATED TRIM46 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM46 MUTATED        0      0      0      1      1      0      2      0
  TRIM46 WILD-TYPE     11      7      7      8      7      7      9      9
                  vv
clus               CLUS_9
  TRIM46 MUTATED        0
  TRIM46 WILD-TYPE      5
D970V12, multiclass
        clus
vv       TRIM46 MUTATED TRIM46 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(971) Variable = C16ORF45 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C16ORF45 MUTATED        0      0      0      1      1
  C16ORF45 WILD-TYPE     32     18     46     26     22
D971V1, multiclass
[1] "Remove cluster labels:" "C16ORF45 MUTATED"      
clus
  C16ORF45 MUTATED C16ORF45 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3984         TCGA-AA-3986 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C16ORF45 MUTATED        0      1      1
  C16ORF45 WILD-TYPE     43     66     35
D971V2, multiclass
[1] "Remove cluster labels:" "C16ORF45 MUTATED"      
clus
  C16ORF45 MUTATED C16ORF45 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3984         TCGA-AA-3986 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C16ORF45 MUTATED        0      3      2
  C16ORF45 WILD-TYPE     42    170    145
D971V3, multiclass
        clus
vv       C16ORF45 MUTATED C16ORF45 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3                2                145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C16ORF45 MUTATED        2      1      0
  C16ORF45 WILD-TYPE     60     72     75
D971V4, multiclass
        clus
vv       C16ORF45 MUTATED C16ORF45 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                1                 72
  CLUS_3                0                 75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C16ORF45 MUTATED        1      1      2
  C16ORF45 WILD-TYPE     69    119     98
D971V5, multiclass
        clus
vv       C16ORF45 MUTATED C16ORF45 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                1                119
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C16ORF45 MUTATED        0      0      0      0      1      2      0      1
  C16ORF45 WILD-TYPE     41     26     30     29     38     67     20     13
                    vv
clus                 CLUS_9
  C16ORF45 MUTATED        0
  C16ORF45 WILD-TYPE     22
D971V6, multiclass
        clus
vv       C16ORF45 MUTATED C16ORF45 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                2                 67
  CLUS_7                0                 20
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C16ORF45 MUTATED        1      1      1      2
  C16ORF45 WILD-TYPE     99     71     71    119
D971V7, multiclass
        clus
vv       C16ORF45 MUTATED C16ORF45 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                1                 71
  CLUS_3                1                 71
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C16ORF45 MUTATED        0      1      2      2      0
  C16ORF45 WILD-TYPE     59     74     72    117     38
D971V8, multiclass
        clus
vv       C16ORF45 MUTATED C16ORF45 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                2                 72
  CLUS_4                2                117
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C16ORF45 MUTATED        0      0      2      2      1
  C16ORF45 WILD-TYPE     51     76     59     69     94
D971V9, multiclass
        clus
vv       C16ORF45 MUTATED C16ORF45 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                0                 76
  CLUS_3                2                 59
  CLUS_4                2                 69
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C16ORF45 MUTATED        2      1      0      0      0      0      0      0
  C16ORF45 WILD-TYPE     67     47     39     16     53     20     21     38
                    vv
clus                 CLUS_9
  C16ORF45 MUTATED        2
  C16ORF45 WILD-TYPE     48
D971V10, multiclass
        clus
vv       C16ORF45 MUTATED C16ORF45 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C16ORF45 MUTATED        1      0      1      0      0      0
  C16ORF45 WILD-TYPE     12     16     13     11     11      9
D971V11, multiclass
[1] "Remove cluster labels:" "C16ORF45 MUTATED"      
clus
  C16ORF45 MUTATED C16ORF45 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-6142         TCGA-A6-6649         TCGA-A6-6651 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6781 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C16ORF45 MUTATED        0      0      0      1      1      0      0      0
  C16ORF45 WILD-TYPE     11      7      7      8      7      7     11      9
                    vv
clus                 CLUS_9
  C16ORF45 MUTATED        0
  C16ORF45 WILD-TYPE      5
D971V12, multiclass
[1] "Remove cluster labels:" "C16ORF45 MUTATED"      
clus
  C16ORF45 MUTATED C16ORF45 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-6142         TCGA-A6-6649         TCGA-A6-6651 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6781 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" "C16ORF45 WILD-TYPE" 

Clustering(972) Variable = APBB1IP MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APBB1IP MUTATED        1      1      0      2      0
  APBB1IP WILD-TYPE     31     17     46     25     23
D972V1, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               1                31
  CLUS_2               1                17
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  APBB1IP MUTATED        3      0      1
  APBB1IP WILD-TYPE     40     67     35
D972V2, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               3                40
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  APBB1IP MUTATED        0      7     11
  APBB1IP WILD-TYPE     42    166    136
D972V3, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               0                42
  CLUS_2               7               166
  CLUS_3              11               136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  APBB1IP MUTATED        6      2      6
  APBB1IP WILD-TYPE     56     71     69
D972V4, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               6                56
  CLUS_2               2                71
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  APBB1IP MUTATED        1      8      4
  APBB1IP WILD-TYPE     69    112     96
D972V5, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               1                69
  CLUS_2               8               112
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APBB1IP MUTATED        1      1      2      1      2      3      2      1
  APBB1IP WILD-TYPE     40     25     28     28     37     66     18     13
                   vv
clus                CLUS_9
  APBB1IP MUTATED        0
  APBB1IP WILD-TYPE     22
D972V6, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               3                66
  CLUS_7               2                18
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APBB1IP MUTATED        5      2      6      5
  APBB1IP WILD-TYPE     95     70     66    116
D972V7, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               5                95
  CLUS_2               2                70
  CLUS_3               6                66
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APBB1IP MUTATED        3      4      6      2      3
  APBB1IP WILD-TYPE     56     71     68    117     35
D972V8, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               3                56
  CLUS_2               4                71
  CLUS_3               6                68
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APBB1IP MUTATED        3      5      5      2      2
  APBB1IP WILD-TYPE     48     71     56     69     93
D972V9, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               3                48
  CLUS_2               5                71
  CLUS_3               5                56
  CLUS_4               2                69
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APBB1IP MUTATED        4      3      0      1      4      1      3      0
  APBB1IP WILD-TYPE     65     45     39     15     49     19     18     38
                   vv
clus                CLUS_9
  APBB1IP MUTATED        1
  APBB1IP WILD-TYPE     49
D972V10, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               4                65
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               4                49
  CLUS_6               1                19
  CLUS_7               3                18
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  APBB1IP MUTATED        1      2      2      0      1      0
  APBB1IP WILD-TYPE     12     14     12     11     10      9
D972V11, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               1                12
  CLUS_2               2                14
  CLUS_3               2                12
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APBB1IP MUTATED        0      1      0      0      2      1      1      0
  APBB1IP WILD-TYPE     11      6      7      9      6      6     10      9
                   vv
clus                CLUS_9
  APBB1IP MUTATED        1
  APBB1IP WILD-TYPE      4
D972V12, multiclass
        clus
vv       APBB1IP MUTATED APBB1IP WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               2                 6
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(973) Variable = HSD17B11 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSD17B11 MUTATED        0      0      0      0      0
  HSD17B11 WILD-TYPE     32     18     46     27     23
D973V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HSD17B11 MUTATED        0      0      0
  HSD17B11 WILD-TYPE     43     67     36
D973V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HSD17B11 MUTATED        0      2      2
  HSD17B11 WILD-TYPE     42    171    145
D973V3, multiclass
        clus
vv       HSD17B11 MUTATED HSD17B11 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                2                171
  CLUS_3                2                145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HSD17B11 MUTATED        1      2      1
  HSD17B11 WILD-TYPE     61     71     74
D973V4, multiclass
        clus
vv       HSD17B11 MUTATED HSD17B11 WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                2                 71
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HSD17B11 MUTATED        0      0      3
  HSD17B11 WILD-TYPE     70    120     97
D973V5, multiclass
        clus
vv       HSD17B11 MUTATED HSD17B11 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                0                120
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HSD17B11 MUTATED        1      0      0      0      0      2      0      0
  HSD17B11 WILD-TYPE     40     26     30     29     39     67     20     14
                    vv
clus                 CLUS_9
  HSD17B11 MUTATED        0
  HSD17B11 WILD-TYPE     22
D973V6, multiclass
        clus
vv       HSD17B11 MUTATED HSD17B11 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                2                 67
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HSD17B11 MUTATED        2      1      1      0
  HSD17B11 WILD-TYPE     98     71     71    121
D973V7, multiclass
        clus
vv       HSD17B11 MUTATED HSD17B11 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                1                 71
  CLUS_3                1                 71
  CLUS_4                0                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSD17B11 MUTATED        1      2      1      0      0
  HSD17B11 WILD-TYPE     58     73     73    119     38
D973V8, multiclass
        clus
vv       HSD17B11 MUTATED HSD17B11 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                2                 73
  CLUS_3                1                 73
  CLUS_4                0                119
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSD17B11 MUTATED        1      2      1      0      0
  HSD17B11 WILD-TYPE     50     74     60     71     95
D973V9, multiclass
        clus
vv       HSD17B11 MUTATED HSD17B11 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                2                 74
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                0                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HSD17B11 MUTATED        1      1      0      1      0      1      0      0
  HSD17B11 WILD-TYPE     68     47     39     15     53     19     21     38
                    vv
clus                 CLUS_9
  HSD17B11 MUTATED        0
  HSD17B11 WILD-TYPE     50
D973V10, multiclass
        clus
vv       HSD17B11 MUTATED HSD17B11 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HSD17B11 MUTATED        1      0      0      0      0      0
  HSD17B11 WILD-TYPE     12     16     14     11     11      9
D973V11, multiclass
[1] "Remove cluster labels:" "HSD17B11 MUTATED"      
clus
  HSD17B11 MUTATED HSD17B11 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6676         TCGA-CM-6677 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-D5-5537         TCGA-D5-6533         TCGA-D5-6534 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-D5-6536         TCGA-D5-6922         TCGA-D5-6924 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-DM-A0XD         TCGA-DM-A0XF         TCGA-DM-A1D0 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-DM-A1D7         TCGA-DM-A1D8         TCGA-DM-A1D9 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-DM-A1DA         TCGA-DM-A1HA         TCGA-DM-A282 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-DM-A285         TCGA-DM-A28F         TCGA-F4-6459 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6570 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-F4-6704         TCGA-F4-6805         TCGA-F4-6807 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-G4-6628 
"HSD17B11 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HSD17B11 MUTATED        0      0      0      0      0      0      0      0
  HSD17B11 WILD-TYPE     11      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  HSD17B11 MUTATED        1
  HSD17B11 WILD-TYPE      4
D973V12, multiclass
[1] "Remove cluster labels:" "HSD17B11 MUTATED"      
clus
  HSD17B11 MUTATED HSD17B11 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6676         TCGA-CM-6677 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-D5-5537         TCGA-D5-6533         TCGA-D5-6534 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-D5-6536         TCGA-D5-6922         TCGA-D5-6924 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-DM-A0XD         TCGA-DM-A0XF         TCGA-DM-A1D0 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-DM-A1D7         TCGA-DM-A1D8         TCGA-DM-A1D9 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-DM-A1DA         TCGA-DM-A1HA         TCGA-DM-A282 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-DM-A285         TCGA-DM-A28F         TCGA-F4-6459 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6570 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-F4-6704         TCGA-F4-6805         TCGA-F4-6807 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" "HSD17B11 WILD-TYPE" 
        TCGA-G4-6628 
"HSD17B11 WILD-TYPE" 

Clustering(974) Variable = DPCR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPCR1 MUTATED        0      0      0      1      0
  DPCR1 WILD-TYPE     32     18     46     26     23
D974V1, multiclass
[1] "Remove cluster labels:" "DPCR1 MUTATED"         
clus
  DPCR1 MUTATED DPCR1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AY-4071 
"DPCR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        0      1      0
  DPCR1 WILD-TYPE     43     66     36
D974V2, multiclass
[1] "Remove cluster labels:" "DPCR1 MUTATED"         
clus
  DPCR1 MUTATED DPCR1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AY-4071 
"DPCR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        0      3      9
  DPCR1 WILD-TYPE     42    170    138
D974V3, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        6      2      3
  DPCR1 WILD-TYPE     56     71     72
D974V4, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        2      4      5
  DPCR1 WILD-TYPE     68    116     95
D974V5, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DPCR1 MUTATED        2      1      1      1      0      3      1      1
  DPCR1 WILD-TYPE     39     25     29     28     39     66     19     13
                 vv
clus              CLUS_9
  DPCR1 MUTATED        1
  DPCR1 WILD-TYPE     21
D974V6, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DPCR1 MUTATED        2      4      4      2
  DPCR1 WILD-TYPE     98     68     68    119
D974V7, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPCR1 MUTATED        3      2      5      2      0
  DPCR1 WILD-TYPE     56     73     69    117     38
D974V8, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPCR1 MUTATED        1      6      3      0      2
  DPCR1 WILD-TYPE     50     70     58     71     93
D974V9, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DPCR1 MUTATED        4      3      0      1      2      1      0      0
  DPCR1 WILD-TYPE     65     45     39     15     51     19     21     38
                 vv
clus              CLUS_9
  DPCR1 MUTATED        1
  DPCR1 WILD-TYPE     49
D974V10, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DPCR1 MUTATED        0      1      2      0      2      0
  DPCR1 WILD-TYPE     13     15     12     11      9      9
D974V11, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DPCR1 MUTATED        0      0      0      0      3      2      0      0
  DPCR1 WILD-TYPE     11      7      7      9      5      5     11      9
                 vv
clus              CLUS_9
  DPCR1 MUTATED        0
  DPCR1 WILD-TYPE      5
D974V12, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             3               5
  CLUS_6             2               5
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(975) Variable = DCLRE1A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCLRE1A MUTATED        2      0      0      1      0
  DCLRE1A WILD-TYPE     30     18     46     26     23
D975V1, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DCLRE1A MUTATED        3      0      0
  DCLRE1A WILD-TYPE     40     67     36
D975V2, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               3                40
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DCLRE1A MUTATED        0      2      8
  DCLRE1A WILD-TYPE     42    171    139
D975V3, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DCLRE1A MUTATED        1      2      2
  DCLRE1A WILD-TYPE     61     71     73
D975V4, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               1                61
  CLUS_2               2                71
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DCLRE1A MUTATED        2      4      3
  DCLRE1A WILD-TYPE     68    116     97
D975V5, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               2                68
  CLUS_2               4               116
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCLRE1A MUTATED        0      3      2      0      1      2      0      1
  DCLRE1A WILD-TYPE     41     23     28     29     38     67     20     13
                   vv
clus                CLUS_9
  DCLRE1A MUTATED        0
  DCLRE1A WILD-TYPE     22
D975V6, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               0                41
  CLUS_2               3                23
  CLUS_3               2                28
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DCLRE1A MUTATED        2      2      2      4
  DCLRE1A WILD-TYPE     98     70     70    117
D975V7, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               2                98
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCLRE1A MUTATED        1      1      4      0      4
  DCLRE1A WILD-TYPE     58     74     70    119     34
D975V8, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               4                70
  CLUS_4               0               119
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCLRE1A MUTATED        0      3      0      2      4
  DCLRE1A WILD-TYPE     51     73     61     69     91
D975V9, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               0                61
  CLUS_4               2                69
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCLRE1A MUTATED        3      1      0      1      0      0      1      3
  DCLRE1A WILD-TYPE     66     47     39     15     53     20     20     35
                   vv
clus                CLUS_9
  DCLRE1A MUTATED        0
  DCLRE1A WILD-TYPE     50
D975V10, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               3                66
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               3                35
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DCLRE1A MUTATED        0      0      1      1      1      0
  DCLRE1A WILD-TYPE     13     16     13     10     10      9
D975V11, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCLRE1A MUTATED        0      0      0      1      0      0      1      1
  DCLRE1A WILD-TYPE     11      7      7      8      8      7     10      8
                   vv
clus                CLUS_9
  DCLRE1A MUTATED        0
  DCLRE1A WILD-TYPE      5
D975V12, multiclass
        clus
vv       DCLRE1A MUTATED DCLRE1A WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(976) Variable = C7ORF50 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF50 MUTATED        0      0      1      0      0
  C7ORF50 WILD-TYPE     32     18     45     27     23
D976V1, multiclass
[1] "Remove cluster labels:" "C7ORF50 MUTATED"       
clus
  C7ORF50 MUTATED C7ORF50 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AY-4071 
"C7ORF50 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF50 MUTATED        0      0      1
  C7ORF50 WILD-TYPE     43     67     35
D976V2, multiclass
[1] "Remove cluster labels:" "C7ORF50 MUTATED"       
clus
  C7ORF50 MUTATED C7ORF50 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AY-4071 
"C7ORF50 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF50 MUTATED        1      1      3
  C7ORF50 WILD-TYPE     41    172    144
D976V3, multiclass
        clus
vv       C7ORF50 MUTATED C7ORF50 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF50 MUTATED        0      0      4
  C7ORF50 WILD-TYPE     62     73     71
D976V4, multiclass
        clus
vv       C7ORF50 MUTATED C7ORF50 WILD-TYPE
  CLUS_1               0                62
  CLUS_2               0                73
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF50 MUTATED        0      2      2
  C7ORF50 WILD-TYPE     70    118     98
D976V5, multiclass
        clus
vv       C7ORF50 MUTATED C7ORF50 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF50 MUTATED        0      0      0      2      0      2      0      0
  C7ORF50 WILD-TYPE     41     26     30     27     39     67     20     14
                   vv
clus                CLUS_9
  C7ORF50 MUTATED        0
  C7ORF50 WILD-TYPE     22
D976V6, multiclass
        clus
vv       C7ORF50 MUTATED C7ORF50 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C7ORF50 MUTATED        0      4      0      1
  C7ORF50 WILD-TYPE    100     68     72    120
D976V7, multiclass
        clus
vv       C7ORF50 MUTATED C7ORF50 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               4                68
  CLUS_3               0                72
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF50 MUTATED        0      0      4      1      0
  C7ORF50 WILD-TYPE     59     75     70    118     38
D976V8, multiclass
        clus
vv       C7ORF50 MUTATED C7ORF50 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF50 MUTATED        0      4      0      0      1
  C7ORF50 WILD-TYPE     51     72     61     71     94
D976V9, multiclass
        clus
vv       C7ORF50 MUTATED C7ORF50 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF50 MUTATED        1      0      0      3      0      0      0      0
  C7ORF50 WILD-TYPE     68     48     39     13     53     20     21     38
                   vv
clus                CLUS_9
  C7ORF50 MUTATED        1
  C7ORF50 WILD-TYPE     49
D976V10, multiclass
        clus
vv       C7ORF50 MUTATED C7ORF50 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C7ORF50 MUTATED        0      0      0      0      1      0
  C7ORF50 WILD-TYPE     13     16     14     11     10      9
D976V11, multiclass
[1] "Remove cluster labels:" "C7ORF50 MUTATED"       
clus
  C7ORF50 MUTATED C7ORF50 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-G4-6628 
"C7ORF50 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF50 MUTATED        0      0      0      1      0      0      0      0
  C7ORF50 WILD-TYPE     11      7      7      8      8      7     11      9
                   vv
clus                CLUS_9
  C7ORF50 MUTATED        0
  C7ORF50 WILD-TYPE      5
D976V12, multiclass
[1] "Remove cluster labels:" "C7ORF50 MUTATED"       
clus
  C7ORF50 MUTATED C7ORF50 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" "C7ORF50 WILD-TYPE" 
       TCGA-G4-6628 
"C7ORF50 WILD-TYPE" 

Clustering(977) Variable = WDR5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR5 MUTATED        0      0      0      1      0
  WDR5 WILD-TYPE     32     18     46     26     23
D977V1, multiclass
[1] "Remove cluster labels:" "WDR5 MUTATED"          
clus
  WDR5 MUTATED WDR5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AY-4071 
"WDR5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WDR5 MUTATED        1      0      0
  WDR5 WILD-TYPE     42     67     36
D977V2, multiclass
[1] "Remove cluster labels:" "WDR5 MUTATED"          
clus
  WDR5 MUTATED WDR5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AY-4071 
"WDR5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WDR5 MUTATED        0      2      4
  WDR5 WILD-TYPE     42    171    143
D977V3, multiclass
        clus
vv       WDR5 MUTATED WDR5 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WDR5 MUTATED        3      0      2
  WDR5 WILD-TYPE     59     73     73
D977V4, multiclass
        clus
vv       WDR5 MUTATED WDR5 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WDR5 MUTATED        1      3      2
  WDR5 WILD-TYPE     69    117     98
D977V5, multiclass
        clus
vv       WDR5 MUTATED WDR5 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WDR5 MUTATED        0      0      0      1      1      2      0      1      1
  WDR5 WILD-TYPE     41     26     30     28     38     67     20     13     21
D977V6, multiclass
        clus
vv       WDR5 MUTATED WDR5 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WDR5 MUTATED        1      2      2      1
  WDR5 WILD-TYPE     99     70     70    120
D977V7, multiclass
        clus
vv       WDR5 MUTATED WDR5 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR5 MUTATED        1      1      3      0      1
  WDR5 WILD-TYPE     58     74     71    119     37
D977V8, multiclass
        clus
vv       WDR5 MUTATED WDR5 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR5 MUTATED        1      3      1      0      1
  WDR5 WILD-TYPE     50     73     60     71     94
D977V9, multiclass
        clus
vv       WDR5 MUTATED WDR5 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WDR5 MUTATED        1      2      1      1      0      0      0      1      0
  WDR5 WILD-TYPE     68     46     38     15     53     20     21     37     50
D977V10, multiclass
        clus
vv       WDR5 MUTATED WDR5 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WDR5 MUTATED        0      1      0      0      1      0
  WDR5 WILD-TYPE     13     15     14     11     10      9
D977V11, multiclass
[1] "Remove cluster labels:" "WDR5 MUTATED"          
clus
  WDR5 MUTATED WDR5 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-G4-6299 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6625     TCGA-G4-6628 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WDR5 MUTATED        0      1      0      1      0      0      0      0      0
  WDR5 WILD-TYPE     11      6      7      8      8      7     11      9      5
D977V12, multiclass
[1] "Remove cluster labels:" "WDR5 MUTATED"          
clus
  WDR5 MUTATED WDR5 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-G4-6299 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6625     TCGA-G4-6628 
"WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" "WDR5 WILD-TYPE" 

Clustering(978) Variable = MAGI1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGI1 MUTATED        4      0      1      2      1
  MAGI1 WILD-TYPE     28     18     45     25     22
D978V1, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAGI1 MUTATED        4      2      2
  MAGI1 WILD-TYPE     39     65     34
D978V2, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAGI1 MUTATED        1      4     18
  MAGI1 WILD-TYPE     41    169    129
D978V3, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            18             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAGI1 MUTATED        4      3      7
  MAGI1 WILD-TYPE     58     70     68
D978V4, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAGI1 MUTATED        4     11      5
  MAGI1 WILD-TYPE     66    109     95
D978V5, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2            11             109
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGI1 MUTATED        2      1      2      2      4      4      2      2
  MAGI1 WILD-TYPE     39     25     28     27     35     65     18     12
                 vv
clus              CLUS_9
  MAGI1 MUTATED        1
  MAGI1 WILD-TYPE     21
D978V6, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             4              35
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAGI1 MUTATED        3      8      3      9
  MAGI1 WILD-TYPE     97     64     69    112
D978V7, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             8              64
  CLUS_3             3              69
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGI1 MUTATED        2      3      8      6      4
  MAGI1 WILD-TYPE     57     72     66    113     34
D978V8, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             8              66
  CLUS_4             6             113
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGI1 MUTATED        1      7      3      2      9
  MAGI1 WILD-TYPE     50     69     58     69     86
D978V9, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGI1 MUTATED        1      2      2      4      3      3      1      5
  MAGI1 WILD-TYPE     68     46     37     12     50     17     20     33
                 vv
clus              CLUS_9
  MAGI1 MUTATED        1
  MAGI1 WILD-TYPE     49
D978V10, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             4              12
  CLUS_5             3              50
  CLUS_6             3              17
  CLUS_7             1              20
  CLUS_8             5              33
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAGI1 MUTATED        0      0      1      0      3      0
  MAGI1 WILD-TYPE     13     16     13     11      8      9
D978V11, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGI1 MUTATED        0      0      0      2      1      0      1      0
  MAGI1 WILD-TYPE     11      7      7      7      7      7     10      9
                 vv
clus              CLUS_9
  MAGI1 MUTATED        0
  MAGI1 WILD-TYPE      5
D978V12, multiclass
        clus
vv       MAGI1 MUTATED MAGI1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(979) Variable = PARG MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARG MUTATED        0      0      0      0      0
  PARG WILD-TYPE     32     18     46     27     23
D979V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PARG MUTATED        0      0      0
  PARG WILD-TYPE     43     67     36
D979V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PARG MUTATED        0      2      9
  PARG WILD-TYPE     42    171    138
D979V3, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PARG MUTATED        5      1      5
  PARG WILD-TYPE     57     72     70
D979V4, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PARG MUTATED        2      2      6
  PARG WILD-TYPE     68    118     94
D979V5, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            2             68
  CLUS_2            2            118
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PARG MUTATED        2      1      0      1      1      5      0      0      0
  PARG WILD-TYPE     39     25     30     28     38     64     20     14     22
D979V6, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PARG MUTATED        2      4      4      1
  PARG WILD-TYPE     98     68     68    120
D979V7, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            4             68
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARG MUTATED        2      2      6      1      0
  PARG WILD-TYPE     57     73     68    118     38
D979V8, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            6             68
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARG MUTATED        1      5      3      0      2
  PARG WILD-TYPE     50     71     58     71     93
D979V9, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PARG MUTATED        2      4      0      2      1      0      0      1      1
  PARG WILD-TYPE     67     44     39     14     52     20     21     37     49
D979V10, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PARG MUTATED        0      0      1      1      0      0
  PARG WILD-TYPE     13     16     13     10     11      9
D979V11, multiclass
[1] "Remove cluster labels:" "PARG MUTATED"          
clus
  PARG MUTATED PARG WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6460     TCGA-F4-6569 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PARG MUTATED        0      0      1      0      0      1      0      0      0
  PARG WILD-TYPE     11      7      6      9      8      6     11      9      5
D979V12, multiclass
[1] "Remove cluster labels:" "PARG MUTATED"          
clus
  PARG MUTATED PARG WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6460     TCGA-F4-6569 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 

Clustering(980) Variable = VPS52 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS52 MUTATED        3      1      0      1      0
  VPS52 WILD-TYPE     29     17     46     26     23
D980V1, multiclass
        clus
vv       VPS52 MUTATED VPS52 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPS52 MUTATED        4      0      1
  VPS52 WILD-TYPE     39     67     35
D980V2, multiclass
        clus
vv       VPS52 MUTATED VPS52 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPS52 MUTATED        1      1      8
  VPS52 WILD-TYPE     41    172    139
D980V3, multiclass
        clus
vv       VPS52 MUTATED VPS52 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPS52 MUTATED        3      1      2
  VPS52 WILD-TYPE     59     72     73
D980V4, multiclass
        clus
vv       VPS52 MUTATED VPS52 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPS52 MUTATED        2      1      6
  VPS52 WILD-TYPE     68    119     94
D980V5, multiclass
        clus
vv       VPS52 MUTATED VPS52 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS52 MUTATED        1      1      0      1      1      4      1      0
  VPS52 WILD-TYPE     40     25     30     28     38     65     19     14
                 vv
clus              CLUS_9
  VPS52 MUTATED        0
  VPS52 WILD-TYPE     22
D980V6, multiclass
        clus
vv       VPS52 MUTATED VPS52 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VPS52 MUTATED        1      3      2      5
  VPS52 WILD-TYPE     99     69     70    116
D980V7, multiclass
        clus
vv       VPS52 MUTATED VPS52 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS52 MUTATED        2      1      3      2      3
  VPS52 WILD-TYPE     57     74     71    117     35
D980V8, multiclass
        clus
vv       VPS52 MUTATED VPS52 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS52 MUTATED        0      2      2      2      4
  VPS52 WILD-TYPE     51     74     59     69     91
D980V9, multiclass
        clus
vv       VPS52 MUTATED VPS52 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS52 MUTATED        2      2      0      1      1      0      1      3
  VPS52 WILD-TYPE     67     46     39     15     52     20     20     35
                 vv
clus              CLUS_9
  VPS52 MUTATED        0
  VPS52 WILD-TYPE     50
D980V10, multiclass
        clus
vv       VPS52 MUTATED VPS52 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VPS52 MUTATED        0      0      1      0      0      0
  VPS52 WILD-TYPE     13     16     13     11     11      9
D980V11, multiclass
[1] "Remove cluster labels:" "VPS52 MUTATED"         
clus
  VPS52 MUTATED VPS52 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-G4-6628 
"VPS52 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS52 MUTATED        1      0      0      0      0      0      0      0
  VPS52 WILD-TYPE     10      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  VPS52 MUTATED        0
  VPS52 WILD-TYPE      5
D980V12, multiclass
[1] "Remove cluster labels:" "VPS52 MUTATED"         
clus
  VPS52 MUTATED VPS52 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" "VPS52 WILD-TYPE" 
     TCGA-G4-6628 
"VPS52 WILD-TYPE" 

Clustering(981) Variable = RRM2B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRM2B MUTATED        0      0      0      0      0
  RRM2B WILD-TYPE     32     18     46     27     23
D981V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRM2B MUTATED        0      0      0
  RRM2B WILD-TYPE     43     67     36
D981V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRM2B MUTATED        0      1      4
  RRM2B WILD-TYPE     42    172    143
D981V3, multiclass
        clus
vv       RRM2B MUTATED RRM2B WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRM2B MUTATED        2      2      1
  RRM2B WILD-TYPE     60     71     74
D981V4, multiclass
        clus
vv       RRM2B MUTATED RRM2B WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRM2B MUTATED        0      4      1
  RRM2B WILD-TYPE     70    116     99
D981V5, multiclass
        clus
vv       RRM2B MUTATED RRM2B WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RRM2B MUTATED        0      1      0      0      0      2      1      0
  RRM2B WILD-TYPE     41     25     30     29     39     67     19     14
                 vv
clus              CLUS_9
  RRM2B MUTATED        1
  RRM2B WILD-TYPE     21
D981V6, multiclass
        clus
vv       RRM2B MUTATED RRM2B WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RRM2B MUTATED        2      1      1      1
  RRM2B WILD-TYPE     98     71     71    120
D981V7, multiclass
        clus
vv       RRM2B MUTATED RRM2B WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRM2B MUTATED        0      2      2      1      0
  RRM2B WILD-TYPE     59     73     72    118     38
D981V8, multiclass
        clus
vv       RRM2B MUTATED RRM2B WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRM2B MUTATED        1      3      0      0      1
  RRM2B WILD-TYPE     50     73     61     71     94
D981V9, multiclass
        clus
vv       RRM2B MUTATED RRM2B WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RRM2B MUTATED        1      1      0      0      1      1      0      0
  RRM2B WILD-TYPE     68     47     39     16     52     19     21     38
                 vv
clus              CLUS_9
  RRM2B MUTATED        1
  RRM2B WILD-TYPE     49
D981V10, multiclass
        clus
vv       RRM2B MUTATED RRM2B WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RRM2B MUTATED        0      0      0      0      1      0
  RRM2B WILD-TYPE     13     16     14     11     10      9
D981V11, multiclass
[1] "Remove cluster labels:" "RRM2B MUTATED"         
clus
  RRM2B MUTATED RRM2B WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-G4-6628 
"RRM2B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RRM2B MUTATED        0      0      0      0      0      0      1      0
  RRM2B WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  RRM2B MUTATED        0
  RRM2B WILD-TYPE      5
D981V12, multiclass
[1] "Remove cluster labels:" "RRM2B MUTATED"         
clus
  RRM2B MUTATED RRM2B WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" "RRM2B WILD-TYPE" 
     TCGA-G4-6628 
"RRM2B WILD-TYPE" 

Clustering(982) Variable = OR4C15 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4C15 MUTATED        0      0      0      1      0
  OR4C15 WILD-TYPE     32     18     46     26     23
D982V1, multiclass
[1] "Remove cluster labels:" "OR4C15 MUTATED"        
clus
  OR4C15 MUTATED OR4C15 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AY-4071 
"OR4C15 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4C15 MUTATED        1      0      0
  OR4C15 WILD-TYPE     42     67     36
D982V2, multiclass
[1] "Remove cluster labels:" "OR4C15 MUTATED"        
clus
  OR4C15 MUTATED OR4C15 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" "OR4C15 WILD-TYPE" 
      TCGA-AY-4071 
"OR4C15 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4C15 MUTATED        0      3     10
  OR4C15 WILD-TYPE     42    170    137
D982V3, multiclass
        clus
vv       OR4C15 MUTATED OR4C15 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4C15 MUTATED        6      1      4
  OR4C15 WILD-TYPE     56     72     71
D982V4, multiclass
        clus
vv       OR4C15 MUTATED OR4C15 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4C15 MUTATED        2      6      5
  OR4C15 WILD-TYPE     68    114     95
D982V5, multiclass
        clus
vv       OR4C15 MUTATED OR4C15 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              6              114
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4C15 MUTATED        0      3      3      1      1      4      1      0
  OR4C15 WILD-TYPE     41     23     27     28     38     65     19     14
                  vv
clus               CLUS_9
  OR4C15 MUTATED        0
  OR4C15 WILD-TYPE     22
D982V6, multiclass
        clus
vv       OR4C15 MUTATED OR4C15 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              3               23
  CLUS_3              3               27
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR4C15 MUTATED        3      4      3      3
  OR4C15 WILD-TYPE     97     68     69    118
D982V7, multiclass
        clus
vv       OR4C15 MUTATED OR4C15 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              4               68
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4C15 MUTATED        1      4      5      1      2
  OR4C15 WILD-TYPE     58     71     69    118     36
D982V8, multiclass
        clus
vv       OR4C15 MUTATED OR4C15 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4C15 MUTATED        1      5      1      2      3
  OR4C15 WILD-TYPE     50     71     60     69     92
D982V9, multiclass
        clus
vv       OR4C15 MUTATED OR4C15 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4C15 MUTATED        6      2      1      0      0      0      0      1
  OR4C15 WILD-TYPE     63     46     38     16     53     20     21     37
                  vv
clus               CLUS_9
  OR4C15 MUTATED        2
  OR4C15 WILD-TYPE     48
D982V10, multiclass
        clus
vv       OR4C15 MUTATED OR4C15 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR4C15 MUTATED        1      0      1      0      1      0
  OR4C15 WILD-TYPE     12     16     13     11     10      9
D982V11, multiclass
        clus
vv       OR4C15 MUTATED OR4C15 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4C15 MUTATED        1      0      0      0      0      0      1      1
  OR4C15 WILD-TYPE     10      7      7      9      8      7     10      8
                  vv
clus               CLUS_9
  OR4C15 MUTATED        0
  OR4C15 WILD-TYPE      5
D982V12, multiclass
        clus
vv       OR4C15 MUTATED OR4C15 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(983) Variable = MANBA MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MANBA MUTATED        5      0      0      1      0
  MANBA WILD-TYPE     27     18     46     26     23
D983V1, multiclass
        clus
vv       MANBA MUTATED MANBA WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MANBA MUTATED        6      0      0
  MANBA WILD-TYPE     37     67     36
D983V2, multiclass
        clus
vv       MANBA MUTATED MANBA WILD-TYPE
  CLUS_1             6              37
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MANBA MUTATED        0      2     10
  MANBA WILD-TYPE     42    171    137
D983V3, multiclass
        clus
vv       MANBA MUTATED MANBA WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MANBA MUTATED        3      2      1
  MANBA WILD-TYPE     59     71     74
D983V4, multiclass
        clus
vv       MANBA MUTATED MANBA WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MANBA MUTATED        0      3      7
  MANBA WILD-TYPE     70    117     93
D983V5, multiclass
        clus
vv       MANBA MUTATED MANBA WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MANBA MUTATED        0      0      0      1      0      7      1      0
  MANBA WILD-TYPE     41     26     30     28     39     62     19     14
                 vv
clus              CLUS_9
  MANBA MUTATED        1
  MANBA WILD-TYPE     21
D983V6, multiclass
        clus
vv       MANBA MUTATED MANBA WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MANBA MUTATED        2      3      2      5
  MANBA WILD-TYPE     98     69     70    116
D983V7, multiclass
        clus
vv       MANBA MUTATED MANBA WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MANBA MUTATED        1      4      1      1      5
  MANBA WILD-TYPE     58     71     73    118     33
D983V8, multiclass
        clus
vv       MANBA MUTATED MANBA WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MANBA MUTATED        0      3      2      0      5
  MANBA WILD-TYPE     51     73     59     71     90
D983V9, multiclass
        clus
vv       MANBA MUTATED MANBA WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MANBA MUTATED        1      1      2      0      1      0      1      3
  MANBA WILD-TYPE     68     47     37     16     52     20     20     35
                 vv
clus              CLUS_9
  MANBA MUTATED        1
  MANBA WILD-TYPE     49
D983V10, multiclass
        clus
vv       MANBA MUTATED MANBA WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MANBA MUTATED        1      0      1      0      0      0
  MANBA WILD-TYPE     12     16     13     11     11      9
D983V11, multiclass
[1] "Remove cluster labels:" "MANBA MUTATED"         
clus
  MANBA MUTATED MANBA WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MANBA MUTATED        0      0      0      0      1      0      0      1
  MANBA WILD-TYPE     11      7      7      9      7      7     11      8
                 vv
clus              CLUS_9
  MANBA MUTATED        0
  MANBA WILD-TYPE      5
D983V12, multiclass
[1] "Remove cluster labels:" "MANBA MUTATED"         
clus
  MANBA MUTATED MANBA WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" "MANBA WILD-TYPE" 

Clustering(984) Variable = IKBKB MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IKBKB MUTATED        0      0      0      1      0
  IKBKB WILD-TYPE     32     18     46     26     23
D984V1, multiclass
[1] "Remove cluster labels:" "IKBKB MUTATED"         
clus
  IKBKB MUTATED IKBKB WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AY-4071 
"IKBKB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKBKB MUTATED        0      1      0
  IKBKB WILD-TYPE     43     66     36
D984V2, multiclass
[1] "Remove cluster labels:" "IKBKB MUTATED"         
clus
  IKBKB MUTATED IKBKB WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" "IKBKB WILD-TYPE" 
     TCGA-AY-4071 
"IKBKB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKBKB MUTATED        1      3      3
  IKBKB WILD-TYPE     41    170    144
D984V3, multiclass
        clus
vv       IKBKB MUTATED IKBKB WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKBKB MUTATED        1      2      2
  IKBKB WILD-TYPE     61     71     73
D984V4, multiclass
        clus
vv       IKBKB MUTATED IKBKB WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKBKB MUTATED        1      5      1
  IKBKB WILD-TYPE     69    115     99
D984V5, multiclass
        clus
vv       IKBKB MUTATED IKBKB WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IKBKB MUTATED        1      1      1      2      0      0      1      1
  IKBKB WILD-TYPE     40     25     29     27     39     69     19     13
                 vv
clus              CLUS_9
  IKBKB MUTATED        0
  IKBKB WILD-TYPE     22
D984V6, multiclass
        clus
vv       IKBKB MUTATED IKBKB WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             0              69
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IKBKB MUTATED        3      1      1      2
  IKBKB WILD-TYPE     97     71     71    119
D984V7, multiclass
        clus
vv       IKBKB MUTATED IKBKB WILD-TYPE
  CLUS_1             3              97
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IKBKB MUTATED        1      3      1      2      0
  IKBKB WILD-TYPE     58     72     73    117     38
D984V8, multiclass
        clus
vv       IKBKB MUTATED IKBKB WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             1              73
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IKBKB MUTATED        3      0      2      1      1
  IKBKB WILD-TYPE     48     76     59     70     94
D984V9, multiclass
        clus
vv       IKBKB MUTATED IKBKB WILD-TYPE
  CLUS_1             3              48
  CLUS_2             0              76
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IKBKB MUTATED        1      1      1      0      2      1      0      0
  IKBKB WILD-TYPE     68     47     38     16     51     19     21     38
                 vv
clus              CLUS_9
  IKBKB MUTATED        1
  IKBKB WILD-TYPE     49
D984V10, multiclass
        clus
vv       IKBKB MUTATED IKBKB WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IKBKB MUTATED        0      0      0      0      0      0
  IKBKB WILD-TYPE     13     16     14     11     11      9
D984V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IKBKB MUTATED        0      0      0      0      0      0      0      0
  IKBKB WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  IKBKB MUTATED        0
  IKBKB WILD-TYPE      5
D984V12, multiclass

Clustering(985) Variable = PIK3C2G MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3C2G MUTATED        3      0      0      1      1
  PIK3C2G WILD-TYPE     29     18     46     26     22
D985V1, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               1                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2G MUTATED        2      1      2
  PIK3C2G WILD-TYPE     41     66     34
D985V2, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               2                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2G MUTATED        1      4     15
  PIK3C2G WILD-TYPE     41    169    132
D985V3, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               1                41
  CLUS_2               4               169
  CLUS_3              15               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2G MUTATED        7      4      4
  PIK3C2G WILD-TYPE     55     69     71
D985V4, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               7                55
  CLUS_2               4                69
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2G MUTATED        1      5     10
  PIK3C2G WILD-TYPE     69    115     90
D985V5, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               115
  CLUS_3              10                90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3C2G MUTATED        2      0      1      1      0      6      3      3
  PIK3C2G WILD-TYPE     39     26     29     28     39     63     17     11
                   vv
clus                CLUS_9
  PIK3C2G MUTATED        0
  PIK3C2G WILD-TYPE     22
D985V6, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               6                63
  CLUS_7               3                17
  CLUS_8               3                11
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3C2G MUTATED        4      6      5      5
  PIK3C2G WILD-TYPE     96     66     67    116
D985V7, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               4                96
  CLUS_2               6                66
  CLUS_3               5                67
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3C2G MUTATED        3      4      8      3      2
  PIK3C2G WILD-TYPE     56     71     66    116     36
D985V8, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               3                56
  CLUS_2               4                71
  CLUS_3               8                66
  CLUS_4               3               116
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3C2G MUTATED        3      7      3      5      2
  PIK3C2G WILD-TYPE     48     69     58     66     93
D985V9, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               3                48
  CLUS_2               7                69
  CLUS_3               3                58
  CLUS_4               5                66
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3C2G MUTATED        5      5      2      2      2      2      0      2
  PIK3C2G WILD-TYPE     64     43     37     14     51     18     21     36
                   vv
clus                CLUS_9
  PIK3C2G MUTATED        0
  PIK3C2G WILD-TYPE     50
D985V10, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               5                64
  CLUS_2               5                43
  CLUS_3               2                37
  CLUS_4               2                14
  CLUS_5               2                51
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3C2G MUTATED        1      1      1      0      1      0
  PIK3C2G WILD-TYPE     12     15     13     11     10      9
D985V11, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               1                12
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3C2G MUTATED        0      0      0      2      0      2      0      0
  PIK3C2G WILD-TYPE     11      7      7      7      8      5     11      9
                   vv
clus                CLUS_9
  PIK3C2G MUTATED        0
  PIK3C2G WILD-TYPE      5
D985V12, multiclass
        clus
vv       PIK3C2G MUTATED PIK3C2G WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               2                 5
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(986) Variable = RTN4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RTN4 MUTATED        5      1      0      1      0
  RTN4 WILD-TYPE     27     17     46     26     23
D986V1, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTN4 MUTATED        6      1      0
  RTN4 WILD-TYPE     37     66     36
D986V2, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTN4 MUTATED        1      0     18
  RTN4 WILD-TYPE     41    173    129
D986V3, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3           18            129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTN4 MUTATED        5      0      8
  RTN4 WILD-TYPE     57     73     67
D986V4, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            0             73
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTN4 MUTATED        4      6      7
  RTN4 WILD-TYPE     66    114     93
D986V5, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            4             66
  CLUS_2            6            114
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RTN4 MUTATED        3      1      1      0      4      6      0      1      1
  RTN4 WILD-TYPE     38     25     29     29     35     63     20     13     21
D986V6, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            4             35
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RTN4 MUTATED        1      6      4      8
  RTN4 WILD-TYPE     99     66     68    113
D986V7, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            6             66
  CLUS_3            4             68
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RTN4 MUTATED        1      2      8      3      5
  RTN4 WILD-TYPE     58     73     66    116     33
D986V8, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            8             66
  CLUS_4            3            116
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RTN4 MUTATED        0      7      3      0      8
  RTN4 WILD-TYPE     51     69     58     71     87
D986V9, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            7             69
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RTN4 MUTATED        3      3      1      2      0      2      1      4      2
  RTN4 WILD-TYPE     66     45     38     14     53     18     20     34     48
D986V10, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RTN4 MUTATED        0      1      1      0      1      0
  RTN4 WILD-TYPE     13     15     13     11     10      9
D986V11, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RTN4 MUTATED        0      0      0      0      0      0      3      0      0
  RTN4 WILD-TYPE     11      7      7      9      8      7      8      9      5
D986V12, multiclass
        clus
vv       RTN4 MUTATED RTN4 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            3              8
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(987) Variable = C7ORF58 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF58 MUTATED        3      0      0      2      0
  C7ORF58 WILD-TYPE     29     18     46     25     23
D987V1, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF58 MUTATED        4      1      0
  C7ORF58 WILD-TYPE     39     66     36
D987V2, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF58 MUTATED        1      4     16
  C7ORF58 WILD-TYPE     41    169    131
D987V3, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               4               169
  CLUS_3              16               131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF58 MUTATED        9      4      3
  C7ORF58 WILD-TYPE     53     69     72
D987V4, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               9                53
  CLUS_2               4                69
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF58 MUTATED        1      7     11
  C7ORF58 WILD-TYPE     69    113     89
D987V5, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               7               113
  CLUS_3              11                89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF58 MUTATED        3      1      1      2      1      9      0      2
  C7ORF58 WILD-TYPE     38     25     29     27     38     60     20     12
                   vv
clus                CLUS_9
  C7ORF58 MUTATED        0
  C7ORF58 WILD-TYPE     22
D987V6, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               9                60
  CLUS_7               0                20
  CLUS_8               2                12
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C7ORF58 MUTATED        4      6      6      5
  C7ORF58 WILD-TYPE     96     66     66    116
D987V7, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               4                96
  CLUS_2               6                66
  CLUS_3               6                66
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF58 MUTATED        3      5      8      2      3
  C7ORF58 WILD-TYPE     56     70     66    117     35
D987V8, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               5                70
  CLUS_3               8                66
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF58 MUTATED        0     10      5      0      5
  C7ORF58 WILD-TYPE     51     66     56     71     90
D987V9, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               0                51
  CLUS_2              10                66
  CLUS_3               5                56
  CLUS_4               0                71
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF58 MUTATED        3      8      0      1      2      2      2      1
  C7ORF58 WILD-TYPE     66     40     39     15     51     18     19     37
                   vv
clus                CLUS_9
  C7ORF58 MUTATED        1
  C7ORF58 WILD-TYPE     49
D987V10, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               8                40
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               2                18
  CLUS_7               2                19
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C7ORF58 MUTATED        0      0      0      2      3      0
  C7ORF58 WILD-TYPE     13     16     14      9      8      9
D987V11, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               2                 9
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF58 MUTATED        0      0      1      1      0      0      3      0
  C7ORF58 WILD-TYPE     11      7      6      8      8      7      8      9
                   vv
clus                CLUS_9
  C7ORF58 MUTATED        0
  C7ORF58 WILD-TYPE      5
D987V12, multiclass
        clus
vv       C7ORF58 MUTATED C7ORF58 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               3                 8
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(988) Variable = WDR75 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR75 MUTATED        3      0      0      1      1
  WDR75 WILD-TYPE     29     18     46     26     22
D988V1, multiclass
        clus
vv       WDR75 MUTATED WDR75 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR75 MUTATED        3      0      2
  WDR75 WILD-TYPE     40     67     34
D988V2, multiclass
        clus
vv       WDR75 MUTATED WDR75 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR75 MUTATED        2      1      5
  WDR75 WILD-TYPE     40    172    142
D988V3, multiclass
        clus
vv       WDR75 MUTATED WDR75 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR75 MUTATED        0      0      3
  WDR75 WILD-TYPE     62     73     72
D988V4, multiclass
        clus
vv       WDR75 MUTATED WDR75 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR75 MUTATED        3      2      1
  WDR75 WILD-TYPE     67    118     99
D988V5, multiclass
        clus
vv       WDR75 MUTATED WDR75 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             2             118
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR75 MUTATED        0      1      1      0      1      1      1      0
  WDR75 WILD-TYPE     41     25     29     29     38     68     19     14
                 vv
clus              CLUS_9
  WDR75 MUTATED        1
  WDR75 WILD-TYPE     21
D988V6, multiclass
        clus
vv       WDR75 MUTATED WDR75 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WDR75 MUTATED        1      0      2      5
  WDR75 WILD-TYPE     99     72     70    116
D988V7, multiclass
        clus
vv       WDR75 MUTATED WDR75 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             0              72
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR75 MUTATED        2      0      1      2      3
  WDR75 WILD-TYPE     57     75     73    117     35
D988V8, multiclass
        clus
vv       WDR75 MUTATED WDR75 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             1              73
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR75 MUTATED        1      1      1      2      1
  WDR75 WILD-TYPE     50     75     60     69     94
D988V9, multiclass
        clus
vv       WDR75 MUTATED WDR75 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR75 MUTATED        0      1      0      1      1      0      0      1
  WDR75 WILD-TYPE     69     47     39     15     52     20     21     37
                 vv
clus              CLUS_9
  WDR75 MUTATED        2
  WDR75 WILD-TYPE     48
D988V10, multiclass
        clus
vv       WDR75 MUTATED WDR75 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WDR75 MUTATED        0      0      0      0      1      0
  WDR75 WILD-TYPE     13     16     14     11     10      9
D988V11, multiclass
[1] "Remove cluster labels:" "WDR75 MUTATED"         
clus
  WDR75 MUTATED WDR75 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-G4-6628 
"WDR75 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR75 MUTATED        0      0      0      0      1      0      0      0
  WDR75 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  WDR75 MUTATED        0
  WDR75 WILD-TYPE      5
D988V12, multiclass
[1] "Remove cluster labels:" "WDR75 MUTATED"         
clus
  WDR75 MUTATED WDR75 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" "WDR75 WILD-TYPE" 
     TCGA-G4-6628 
"WDR75 WILD-TYPE" 

Clustering(989) Variable = FAM20B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM20B MUTATED        1      0      0      1      0
  FAM20B WILD-TYPE     31     18     46     26     23
D989V1, multiclass
[1] "Remove cluster labels:" "FAM20B MUTATED"        
clus
  FAM20B MUTATED FAM20B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM20B MUTATED        2      0      0
  FAM20B WILD-TYPE     41     67     36
D989V2, multiclass
[1] "Remove cluster labels:" "FAM20B MUTATED"        
clus
  FAM20B MUTATED FAM20B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" "FAM20B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM20B MUTATED        0      3      7
  FAM20B WILD-TYPE     42    170    140
D989V3, multiclass
        clus
vv       FAM20B MUTATED FAM20B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM20B MUTATED        6      0      2
  FAM20B WILD-TYPE     56     73     73
D989V4, multiclass
        clus
vv       FAM20B MUTATED FAM20B WILD-TYPE
  CLUS_1              6               56
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM20B MUTATED        0      5      3
  FAM20B WILD-TYPE     70    115     97
D989V5, multiclass
        clus
vv       FAM20B MUTATED FAM20B WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              115
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM20B MUTATED        0      2      0      1      1      2      1      1
  FAM20B WILD-TYPE     41     24     30     28     38     67     19     13
                  vv
clus               CLUS_9
  FAM20B MUTATED        0
  FAM20B WILD-TYPE     22
D989V6, multiclass
        clus
vv       FAM20B MUTATED FAM20B WILD-TYPE
  CLUS_1              0               41
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM20B MUTATED        2      3      2      3
  FAM20B WILD-TYPE     98     69     70    118
D989V7, multiclass
        clus
vv       FAM20B MUTATED FAM20B WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM20B MUTATED        2      1      4      1      2
  FAM20B WILD-TYPE     57     74     70    118     36
D989V8, multiclass
        clus
vv       FAM20B MUTATED FAM20B WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM20B MUTATED        1      6      0      0      2
  FAM20B WILD-TYPE     50     70     61     71     93
D989V9, multiclass
        clus
vv       FAM20B MUTATED FAM20B WILD-TYPE
  CLUS_1              1               50
  CLUS_2              6               70
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM20B MUTATED        2      2      1      2      0      0      0      1
  FAM20B WILD-TYPE     67     46     38     14     53     20     21     37
                  vv
clus               CLUS_9
  FAM20B MUTATED        1
  FAM20B WILD-TYPE     49
D989V10, multiclass
        clus
vv       FAM20B MUTATED FAM20B WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM20B MUTATED        0      0      0      1      3      0
  FAM20B WILD-TYPE     13     16     14     10      8      9
D989V11, multiclass
        clus
vv       FAM20B MUTATED FAM20B WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM20B MUTATED        0      0      0      2      0      1      1      0
  FAM20B WILD-TYPE     11      7      7      7      8      6     10      9
                  vv
clus               CLUS_9
  FAM20B MUTATED        0
  FAM20B WILD-TYPE      5
D989V12, multiclass
        clus
vv       FAM20B MUTATED FAM20B WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(990) Variable = CEP164 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEP164 MUTATED        5      0      0      2      0
  CEP164 WILD-TYPE     27     18     46     25     23
D990V1, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP164 MUTATED        6      1      0
  CEP164 WILD-TYPE     37     66     36
D990V2, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              6               37
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP164 MUTATED        1      4     18
  CEP164 WILD-TYPE     41    169    129
D990V3, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             18              129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP164 MUTATED        4      1     10
  CEP164 WILD-TYPE     58     72     65
D990V4, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3             10               65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP164 MUTATED        1      9      7
  CEP164 WILD-TYPE     69    111     93
D990V5, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              9              111
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEP164 MUTATED        1      2      3      3      2      5      0      0
  CEP164 WILD-TYPE     40     24     27     26     37     64     20     14
                  vv
clus               CLUS_9
  CEP164 MUTATED        1
  CEP164 WILD-TYPE     21
D990V6, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              3               27
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CEP164 MUTATED        2      8      5      8
  CEP164 WILD-TYPE     98     64     67    113
D990V7, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              8               64
  CLUS_3              5               67
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEP164 MUTATED        2      4      9      1      7
  CEP164 WILD-TYPE     57     71     65    118     31
D990V8, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              9               65
  CLUS_4              1              118
  CLUS_5              7               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEP164 MUTATED        1     11      5      0      6
  CEP164 WILD-TYPE     50     65     56     71     89
D990V9, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              1               50
  CLUS_2             11               65
  CLUS_3              5               56
  CLUS_4              0               71
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEP164 MUTATED        6      4      0      4      1      2      2      4
  CEP164 WILD-TYPE     63     44     39     12     52     18     19     34
                  vv
clus               CLUS_9
  CEP164 MUTATED        0
  CEP164 WILD-TYPE     50
D990V10, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              4               12
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              2               19
  CLUS_8              4               34
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CEP164 MUTATED        0      1      0      0      3      0
  CEP164 WILD-TYPE     13     15     14     11      8      9
D990V11, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEP164 MUTATED        0      1      0      2      0      1      0      0
  CEP164 WILD-TYPE     11      6      7      7      8      6     11      9
                  vv
clus               CLUS_9
  CEP164 MUTATED        0
  CEP164 WILD-TYPE      5
D990V12, multiclass
        clus
vv       CEP164 MUTATED CEP164 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(991) Variable = SF1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SF1 MUTATED        3      0      0      0      0
  SF1 WILD-TYPE     29     18     46     27     23
D991V1, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           3            29
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           0            27
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SF1 MUTATED        3      0      0
  SF1 WILD-TYPE     40     67     36
D991V2, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           3            40
  CLUS_2           0            67
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SF1 MUTATED        0      4     10
  SF1 WILD-TYPE     42    169    137
D991V3, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           0            42
  CLUS_2           4           169
  CLUS_3          10           137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SF1 MUTATED        4      3      2
  SF1 WILD-TYPE     58     70     73
D991V4, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           4            58
  CLUS_2           3            70
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SF1 MUTATED        1      2      8
  SF1 WILD-TYPE     69    118     92
D991V5, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           1            69
  CLUS_2           2           118
  CLUS_3           8            92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SF1 MUTATED        1      0      3      0      1      6      0      0      0
  SF1 WILD-TYPE     40     26     27     29     38     63     20     14     22
D991V6, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           3            27
  CLUS_4           0            29
  CLUS_5           1            38
  CLUS_6           6            63
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SF1 MUTATED        3      3      4      4
  SF1 WILD-TYPE     97     69     68    117
D991V7, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           3            97
  CLUS_2           3            69
  CLUS_3           4            68
  CLUS_4           4           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SF1 MUTATED        4      2      4      0      4
  SF1 WILD-TYPE     55     73     70    119     34
D991V8, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           4            55
  CLUS_2           2            73
  CLUS_3           4            70
  CLUS_4           0           119
  CLUS_5           4            34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SF1 MUTATED        1      3      5      1      4
  SF1 WILD-TYPE     50     73     56     70     91
D991V9, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           1            50
  CLUS_2           3            73
  CLUS_3           5            56
  CLUS_4           1            70
  CLUS_5           4            91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SF1 MUTATED        0      5      1      2      1      0      0      4      1
  SF1 WILD-TYPE     69     43     38     14     52     20     21     34     49
D991V10, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           0            69
  CLUS_2           5            43
  CLUS_3           1            38
  CLUS_4           2            14
  CLUS_5           1            52
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           4            34
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SF1 MUTATED        1      1      0      1      1      0
  SF1 WILD-TYPE     12     15     14     10     10      9
D991V11, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           1            12
  CLUS_2           1            15
  CLUS_3           0            14
  CLUS_4           1            10
  CLUS_5           1            10
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SF1 MUTATED        0      1      1      0      0      1      1      0      0
  SF1 WILD-TYPE     11      6      6      9      8      6     10      9      5
D991V12, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           0            11
  CLUS_2           1             6
  CLUS_3           1             6
  CLUS_4           0             9
  CLUS_5           0             8
  CLUS_6           1             6
  CLUS_7           1            10
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(992) Variable = KIF16B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF16B MUTATED        6      0      0      2      0
  KIF16B WILD-TYPE     26     18     46     25     23
D992V1, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              6               26
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF16B MUTATED        8      0      0
  KIF16B WILD-TYPE     35     67     36
D992V2, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              8               35
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF16B MUTATED        3      2     20
  KIF16B WILD-TYPE     39    171    127
D992V3, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              3               39
  CLUS_2              2              171
  CLUS_3             20              127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF16B MUTATED        5      5      7
  KIF16B WILD-TYPE     57     68     68
D992V4, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              5               57
  CLUS_2              5               68
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF16B MUTATED        4      7      9
  KIF16B WILD-TYPE     66    113     91
D992V5, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              4               66
  CLUS_2              7              113
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF16B MUTATED        2      0      2      3      1      8      2      1
  KIF16B WILD-TYPE     39     26     28     26     38     61     18     13
                  vv
clus               CLUS_9
  KIF16B MUTATED        1
  KIF16B WILD-TYPE     21
D992V6, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              1               38
  CLUS_6              8               61
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIF16B MUTATED        5      6      6      9
  KIF16B WILD-TYPE     95     66     66    112
D992V7, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              5               95
  CLUS_2              6               66
  CLUS_3              6               66
  CLUS_4              9              112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF16B MUTATED        3      7      7      0      9
  KIF16B WILD-TYPE     56     68     67    119     29
D992V8, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              3               56
  CLUS_2              7               68
  CLUS_3              7               67
  CLUS_4              0              119
  CLUS_5              9               29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF16B MUTATED        4     10      2      0      8
  KIF16B WILD-TYPE     47     66     59     71     87
D992V9, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              4               47
  CLUS_2             10               66
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF16B MUTATED        4      3      2      4      3      0      1      6
  KIF16B WILD-TYPE     65     45     37     12     50     20     20     32
                  vv
clus               CLUS_9
  KIF16B MUTATED        1
  KIF16B WILD-TYPE     49
D992V10, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              4               65
  CLUS_2              3               45
  CLUS_3              2               37
  CLUS_4              4               12
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              6               32
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIF16B MUTATED        0      1      0      0      3      0
  KIF16B WILD-TYPE     13     15     14     11      8      9
D992V11, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF16B MUTATED        1      0      1      1      1      0      0      0
  KIF16B WILD-TYPE     10      7      6      8      7      7     11      9
                  vv
clus               CLUS_9
  KIF16B MUTATED        0
  KIF16B WILD-TYPE      5
D992V12, multiclass
        clus
vv       KIF16B MUTATED KIF16B WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(993) Variable = COL6A5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL6A5 MUTATED        3      0      1      1      0
  COL6A5 WILD-TYPE     29     18     45     26     23
D993V1, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL6A5 MUTATED        3      0      2
  COL6A5 WILD-TYPE     40     67     34
D993V2, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL6A5 MUTATED        2     10     20
  COL6A5 WILD-TYPE     40    163    127
D993V3, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1              2               40
  CLUS_2             10              163
  CLUS_3             20              127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL6A5 MUTATED       12      7      8
  COL6A5 WILD-TYPE     50     66     67
D993V4, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1             12               50
  CLUS_2              7               66
  CLUS_3              8               67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL6A5 MUTATED        2     11     17
  COL6A5 WILD-TYPE     68    109     83
D993V5, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1              2               68
  CLUS_2             11              109
  CLUS_3             17               83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL6A5 MUTATED        1      1      2      5      1     11      2      3
  COL6A5 WILD-TYPE     40     25     28     24     38     58     18     11
                  vv
clus               CLUS_9
  COL6A5 MUTATED        4
  COL6A5 WILD-TYPE     18
D993V6, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              5               24
  CLUS_5              1               38
  CLUS_6             11               58
  CLUS_7              2               18
  CLUS_8              3               11
  CLUS_9              4               18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL6A5 MUTATED        9     10      8      6
  COL6A5 WILD-TYPE     91     62     64    115
D993V7, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1              9               91
  CLUS_2             10               62
  CLUS_3              8               64
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL6A5 MUTATED        8      6     12      3      4
  COL6A5 WILD-TYPE     51     69     62    116     34
D993V8, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1              8               51
  CLUS_2              6               69
  CLUS_3             12               62
  CLUS_4              3              116
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL6A5 MUTATED        5     11      6      5      5
  COL6A5 WILD-TYPE     46     65     55     66     90
D993V9, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1              5               46
  CLUS_2             11               65
  CLUS_3              6               55
  CLUS_4              5               66
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL6A5 MUTATED        8      5      2      7      4      0      0      3
  COL6A5 WILD-TYPE     61     43     37      9     49     20     21     35
                  vv
clus               CLUS_9
  COL6A5 MUTATED        3
  COL6A5 WILD-TYPE     47
D993V10, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1              8               61
  CLUS_2              5               43
  CLUS_3              2               37
  CLUS_4              7                9
  CLUS_5              4               49
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  COL6A5 MUTATED        1      1      2      3      3      0
  COL6A5 WILD-TYPE     12     15     12      8      8      9
D993V11, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              3                8
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL6A5 MUTATED        0      1      0      2      1      0      3      2
  COL6A5 WILD-TYPE     11      6      7      7      7      7      8      7
                  vv
clus               CLUS_9
  COL6A5 MUTATED        1
  COL6A5 WILD-TYPE      4
D993V12, multiclass
        clus
vv       COL6A5 MUTATED COL6A5 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              3                8
  CLUS_8              2                7
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(994) Variable = CYP2C18 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP2C18 MUTATED        0      0      0      0      0
  CYP2C18 WILD-TYPE     32     18     46     27     23
D994V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP2C18 MUTATED        0      0      0
  CYP2C18 WILD-TYPE     43     67     36
D994V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP2C18 MUTATED        0      3      2
  CYP2C18 WILD-TYPE     42    170    145
D994V3, multiclass
        clus
vv       CYP2C18 MUTATED CYP2C18 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP2C18 MUTATED        2      1      2
  CYP2C18 WILD-TYPE     60     72     73
D994V4, multiclass
        clus
vv       CYP2C18 MUTATED CYP2C18 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP2C18 MUTATED        1      1      2
  CYP2C18 WILD-TYPE     69    119     98
D994V5, multiclass
        clus
vv       CYP2C18 MUTATED CYP2C18 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP2C18 MUTATED        2      1      0      0      0      1      0      0
  CYP2C18 WILD-TYPE     39     25     30     29     39     68     20     14
                   vv
clus                CLUS_9
  CYP2C18 MUTATED        0
  CYP2C18 WILD-TYPE     22
D994V6, multiclass
        clus
vv       CYP2C18 MUTATED CYP2C18 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYP2C18 MUTATED        2      2      1      0
  CYP2C18 WILD-TYPE     98     70     71    121
D994V7, multiclass
        clus
vv       CYP2C18 MUTATED CYP2C18 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               2                70
  CLUS_3               1                71
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP2C18 MUTATED        3      0      2      0      0
  CYP2C18 WILD-TYPE     56     75     72    119     38
D994V8, multiclass
        clus
vv       CYP2C18 MUTATED CYP2C18 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               0                75
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP2C18 MUTATED        1      2      2      0      0
  CYP2C18 WILD-TYPE     50     74     59     71     95
D994V9, multiclass
        clus
vv       CYP2C18 MUTATED CYP2C18 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP2C18 MUTATED        2      2      0      1      0      0      0      0
  CYP2C18 WILD-TYPE     67     46     39     15     53     20     21     38
                   vv
clus                CLUS_9
  CYP2C18 MUTATED        0
  CYP2C18 WILD-TYPE     50
D994V10, multiclass
        clus
vv       CYP2C18 MUTATED CYP2C18 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CYP2C18 MUTATED        0      1      0      0      1      1
  CYP2C18 WILD-TYPE     13     15     14     11     10      8
D994V11, multiclass
        clus
vv       CYP2C18 MUTATED CYP2C18 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP2C18 MUTATED        2      0      0      1      0      0      0      0
  CYP2C18 WILD-TYPE      9      7      7      8      8      7     11      9
                   vv
clus                CLUS_9
  CYP2C18 MUTATED        0
  CYP2C18 WILD-TYPE      5
D994V12, multiclass
        clus
vv       CYP2C18 MUTATED CYP2C18 WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(995) Variable = ITGA5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITGA5 MUTATED        3      1      1      1      0
  ITGA5 WILD-TYPE     29     17     45     26     23
D995V1, multiclass
        clus
vv       ITGA5 MUTATED ITGA5 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGA5 MUTATED        3      3      0
  ITGA5 WILD-TYPE     40     64     36
D995V2, multiclass
        clus
vv       ITGA5 MUTATED ITGA5 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGA5 MUTATED        0      4     12
  ITGA5 WILD-TYPE     42    169    135
D995V3, multiclass
        clus
vv       ITGA5 MUTATED ITGA5 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGA5 MUTATED        4      2      4
  ITGA5 WILD-TYPE     58     71     71
D995V4, multiclass
        clus
vv       ITGA5 MUTATED ITGA5 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGA5 MUTATED        2      8      5
  ITGA5 WILD-TYPE     68    112     95
D995V5, multiclass
        clus
vv       ITGA5 MUTATED ITGA5 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             8             112
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITGA5 MUTATED        1      1      3      2      0      6      1      0
  ITGA5 WILD-TYPE     40     25     27     27     39     63     19     14
                 vv
clus              CLUS_9
  ITGA5 MUTATED        1
  ITGA5 WILD-TYPE     21
D995V6, multiclass
        clus
vv       ITGA5 MUTATED ITGA5 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             3              27
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITGA5 MUTATED        3      6      3      4
  ITGA5 WILD-TYPE     97     66     69    117
D995V7, multiclass
        clus
vv       ITGA5 MUTATED ITGA5 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             6              66
  CLUS_3             3              69
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITGA5 MUTATED        1      3      5      4      3
  ITGA5 WILD-TYPE     58     72     69    115     35
D995V8, multiclass
        clus
vv       ITGA5 MUTATED ITGA5 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             4             115
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITGA5 MUTATED        1      4      3      2      4
  ITGA5 WILD-TYPE     50     72     58     69     91
D995V9, multiclass
        clus
vv       ITGA5 MUTATED ITGA5 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITGA5 MUTATED        3      3      2      0      1      2      1      1
  ITGA5 WILD-TYPE     66     45     37     16     52     18     20     37
                 vv
clus              CLUS_9
  ITGA5 MUTATED        1
  ITGA5 WILD-TYPE     49
D995V10, multiclass
        clus
vv       ITGA5 MUTATED ITGA5 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ITGA5 MUTATED        0      0      0      0      0      1
  ITGA5 WILD-TYPE     13     16     14     11     11      8
D995V11, multiclass
[1] "Remove cluster labels:" "ITGA5 MUTATED"         
clus
  ITGA5 MUTATED ITGA5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-G4-6628 
"ITGA5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITGA5 MUTATED        0      0      0      0      0      0      0      1
  ITGA5 WILD-TYPE     11      7      7      9      8      7     11      8
                 vv
clus              CLUS_9
  ITGA5 MUTATED        0
  ITGA5 WILD-TYPE      5
D995V12, multiclass
[1] "Remove cluster labels:" "ITGA5 MUTATED"         
clus
  ITGA5 MUTATED ITGA5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" "ITGA5 WILD-TYPE" 
     TCGA-G4-6628 
"ITGA5 WILD-TYPE" 

Clustering(996) Variable = KRTAP5-3 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP5-3 MUTATED        1      0      0      0      0
  KRTAP5-3 WILD-TYPE     31     18     46     27     23
D996V1, multiclass
[1] "Remove cluster labels:" "KRTAP5-3 MUTATED"      
clus
  KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3968         TCGA-AA-3971 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AY-4071 
"KRTAP5-3 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP5-3 MUTATED        1      0      0
  KRTAP5-3 WILD-TYPE     42     67     36
D996V2, multiclass
[1] "Remove cluster labels:" "KRTAP5-3 MUTATED"      
clus
  KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3968         TCGA-AA-3971 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" "KRTAP5-3 WILD-TYPE" 
        TCGA-AY-4071 
"KRTAP5-3 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP5-3 MUTATED        0      2      2
  KRTAP5-3 WILD-TYPE     42    171    145
D996V3, multiclass
        clus
vv       KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                2                171
  CLUS_3                2                145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP5-3 MUTATED        1      1      1
  KRTAP5-3 WILD-TYPE     61     72     74
D996V4, multiclass
        clus
vv       KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                1                 72
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP5-3 MUTATED        1      0      2
  KRTAP5-3 WILD-TYPE     69    120     98
D996V5, multiclass
        clus
vv       KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                0                120
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRTAP5-3 MUTATED        3      0      0      0      0      0      0      0
  KRTAP5-3 WILD-TYPE     38     26     30     29     39     69     20     14
                    vv
clus                 CLUS_9
  KRTAP5-3 MUTATED        0
  KRTAP5-3 WILD-TYPE     22
D996V6, multiclass
        clus
vv       KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                0                 69
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP5-3 MUTATED        1      0      2      1
  KRTAP5-3 WILD-TYPE     99     72     70    120
D996V7, multiclass
        clus
vv       KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                0                 72
  CLUS_3                2                 70
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP5-3 MUTATED        3      0      0      0      1
  KRTAP5-3 WILD-TYPE     56     75     74    119     37
D996V8, multiclass
        clus
vv       KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                0                 75
  CLUS_3                0                 74
  CLUS_4                0                119
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP5-3 MUTATED        1      0      2      0      1
  KRTAP5-3 WILD-TYPE     50     76     59     71     94
D996V9, multiclass
        clus
vv       KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                0                 76
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRTAP5-3 MUTATED        0      3      0      0      0      0      0      1
  KRTAP5-3 WILD-TYPE     69     45     39     16     53     20     21     37
                    vv
clus                 CLUS_9
  KRTAP5-3 MUTATED        0
  KRTAP5-3 WILD-TYPE     50
D996V10, multiclass
        clus
vv       KRTAP5-3 MUTATED KRTAP5-3 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRTAP5-3 MUTATED        0      0      0      0      0      0
  KRTAP5-3 WILD-TYPE     13     16     14     11     11      9
D996V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRTAP5-3 MUTATED        0      0      0      0      0      0      0      0
  KRTAP5-3 WILD-TYPE     11      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  KRTAP5-3 MUTATED        0
  KRTAP5-3 WILD-TYPE      5
D996V12, multiclass

Clustering(997) Variable = NOL9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOL9 MUTATED        0      0      1      0      1
  NOL9 WILD-TYPE     32     18     45     27     22
D997V1, multiclass
[1] "Remove cluster labels:" "NOL9 MUTATED"          
clus
  NOL9 MUTATED NOL9 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3984     TCGA-AA-3986 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02H 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOL9 MUTATED        0      1      1
  NOL9 WILD-TYPE     43     66     35
D997V2, multiclass
[1] "Remove cluster labels:" "NOL9 MUTATED"          
clus
  NOL9 MUTATED NOL9 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3984     TCGA-AA-3986 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02H 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOL9 MUTATED        0      3      4
  NOL9 WILD-TYPE     42    170    143
D997V3, multiclass
        clus
vv       NOL9 MUTATED NOL9 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOL9 MUTATED        1      0      4
  NOL9 WILD-TYPE     61     73     71
D997V4, multiclass
        clus
vv       NOL9 MUTATED NOL9 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NOL9 MUTATED        0      3      4
  NOL9 WILD-TYPE     70    117     96
D997V5, multiclass
        clus
vv       NOL9 MUTATED NOL9 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOL9 MUTATED        1      0      1      0      1      4      0      0      0
  NOL9 WILD-TYPE     40     26     29     29     38     65     20     14     22
D997V6, multiclass
        clus
vv       NOL9 MUTATED NOL9 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOL9 MUTATED        1      3      2      1
  NOL9 WILD-TYPE     99     69     70    120
D997V7, multiclass
        clus
vv       NOL9 MUTATED NOL9 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOL9 MUTATED        1      0      4      2      0
  NOL9 WILD-TYPE     58     75     70    117     38
D997V8, multiclass
        clus
vv       NOL9 MUTATED NOL9 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOL9 MUTATED        1      4      0      1      1
  NOL9 WILD-TYPE     50     72     61     70     94
D997V9, multiclass
        clus
vv       NOL9 MUTATED NOL9 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOL9 MUTATED        2      1      0      2      0      0      0      0      2
  NOL9 WILD-TYPE     67     47     39     14     53     20     21     38     48
D997V10, multiclass
        clus
vv       NOL9 MUTATED NOL9 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NOL9 MUTATED        0      1      1      0      0      0
  NOL9 WILD-TYPE     13     15     13     11     11      9
D997V11, multiclass
[1] "Remove cluster labels:" "NOL9 MUTATED"          
clus
  NOL9 MUTATED NOL9 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CK-5916 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NOL9 MUTATED        0      0      1      0      0      0      1      0      0
  NOL9 WILD-TYPE     11      7      6      9      8      7     10      9      5
D997V12, multiclass
[1] "Remove cluster labels:" "NOL9 MUTATED"          
clus
  NOL9 MUTATED NOL9 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CK-5916 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 

Clustering(998) Variable = RAPGEF6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAPGEF6 MUTATED        2      0      2      1      0
  RAPGEF6 WILD-TYPE     30     18     44     26     23
D998V1, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               2                44
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAPGEF6 MUTATED        2      3      0
  RAPGEF6 WILD-TYPE     41     64     36
D998V2, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               3                64
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAPGEF6 MUTATED        1      4     12
  RAPGEF6 WILD-TYPE     41    169    135
D998V3, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               4               169
  CLUS_3              12               135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAPGEF6 MUTATED        7      2      3
  RAPGEF6 WILD-TYPE     55     71     72
D998V4, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               7                55
  CLUS_2               2                71
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAPGEF6 MUTATED        3      5      5
  RAPGEF6 WILD-TYPE     67    115     95
D998V5, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               5               115
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAPGEF6 MUTATED        2      1      3      0      1      4      1      1
  RAPGEF6 WILD-TYPE     39     25     27     29     38     65     19     13
                   vv
clus                CLUS_9
  RAPGEF6 MUTATED        0
  RAPGEF6 WILD-TYPE     22
D998V6, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               3                27
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAPGEF6 MUTATED        2      2      8      5
  RAPGEF6 WILD-TYPE     98     70     64    116
D998V7, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               2                70
  CLUS_3               8                64
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAPGEF6 MUTATED        4      1      7      3      2
  RAPGEF6 WILD-TYPE     55     74     67    116     36
D998V8, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               1                74
  CLUS_3               7                67
  CLUS_4               3               116
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAPGEF6 MUTATED        1      5      6      1      4
  RAPGEF6 WILD-TYPE     50     71     55     70     91
D998V9, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               5                71
  CLUS_3               6                55
  CLUS_4               1                70
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAPGEF6 MUTATED        1      5      1      3      1      2      0      3
  RAPGEF6 WILD-TYPE     68     43     38     13     52     18     21     35
                   vv
clus                CLUS_9
  RAPGEF6 MUTATED        1
  RAPGEF6 WILD-TYPE     49
D998V10, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               5                43
  CLUS_3               1                38
  CLUS_4               3                13
  CLUS_5               1                52
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAPGEF6 MUTATED        0      0      0      1      3      0
  RAPGEF6 WILD-TYPE     13     16     14     10      8      9
D998V11, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAPGEF6 MUTATED        0      0      1      1      1      1      0      0
  RAPGEF6 WILD-TYPE     11      7      6      8      7      6     11      9
                   vv
clus                CLUS_9
  RAPGEF6 MUTATED        0
  RAPGEF6 WILD-TYPE      5
D998V12, multiclass
        clus
vv       RAPGEF6 MUTATED RAPGEF6 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(999) Variable = ERCC3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC3 MUTATED        4      1      0      1      0
  ERCC3 WILD-TYPE     28     17     46     26     23
D999V1, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC3 MUTATED        3      2      1
  ERCC3 WILD-TYPE     40     65     35
D999V2, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC3 MUTATED        2      3     13
  ERCC3 WILD-TYPE     40    170    134
D999V3, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC3 MUTATED        6      1      6
  ERCC3 WILD-TYPE     56     72     69
D999V4, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC3 MUTATED        3      5      8
  ERCC3 WILD-TYPE     67    115     92
D999V5, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             5             115
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC3 MUTATED        1      1      2      2      3      4      2      0
  ERCC3 WILD-TYPE     40     25     28     27     36     65     18     14
                 vv
clus              CLUS_9
  ERCC3 MUTATED        1
  ERCC3 WILD-TYPE     21
D999V6, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERCC3 MUTATED        2      5      6      6
  ERCC3 WILD-TYPE     98     67     66    115
D999V7, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             6              66
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC3 MUTATED        4      2      7      3      3
  ERCC3 WILD-TYPE     55     73     67    116     35
D999V8, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             2              73
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC3 MUTATED        0      5      5      3      5
  ERCC3 WILD-TYPE     51     71     56     68     90
D999V9, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             5              56
  CLUS_4             3              68
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC3 MUTATED        6      3      0      2      3      1      0      3
  ERCC3 WILD-TYPE     63     45     39     14     50     19     21     35
                 vv
clus              CLUS_9
  ERCC3 MUTATED        0
  ERCC3 WILD-TYPE     50
D999V10, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERCC3 MUTATED        1      1      1      0      1      0
  ERCC3 WILD-TYPE     12     15     13     11     10      9
D999V11, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC3 MUTATED        1      1      0      0      1      0      0      1
  ERCC3 WILD-TYPE     10      6      7      9      7      7     11      8
                 vv
clus              CLUS_9
  ERCC3 MUTATED        0
  ERCC3 WILD-TYPE      5
D999V12, multiclass
        clus
vv       ERCC3 MUTATED ERCC3 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1000) Variable = GABPA MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABPA MUTATED        2      0      0      2      0
  GABPA WILD-TYPE     30     18     46     25     23
D1000V1, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABPA MUTATED        3      1      0
  GABPA WILD-TYPE     40     66     36
D1000V2, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABPA MUTATED        1      2      8
  GABPA WILD-TYPE     41    171    139
D1000V3, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABPA MUTATED        1      2      4
  GABPA WILD-TYPE     61     71     71
D1000V4, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABPA MUTATED        0      3      6
  GABPA WILD-TYPE     70    117     94
D1000V5, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABPA MUTATED        0      1      1      0      0      6      0      1
  GABPA WILD-TYPE     41     25     29     29     39     63     20     13
                 vv
clus              CLUS_9
  GABPA MUTATED        0
  GABPA WILD-TYPE     22
D1000V6, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GABPA MUTATED        2      3      2      4
  GABPA WILD-TYPE     98     69     70    117
D1000V7, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABPA MUTATED        1      2      4      2      2
  GABPA WILD-TYPE     58     73     70    117     36
D1000V8, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABPA MUTATED        1      3      2      1      3
  GABPA WILD-TYPE     50     73     59     70     92
D1000V9, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABPA MUTATED        0      1      2      2      1      2      1      1
  GABPA WILD-TYPE     69     47     37     14     52     18     20     37
                 vv
clus              CLUS_9
  GABPA MUTATED        0
  GABPA WILD-TYPE     50
D1000V10, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             2              37
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GABPA MUTATED        1      0      1      1      1      0
  GABPA WILD-TYPE     12     16     13     10     10      9
D1000V11, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABPA MUTATED        0      0      0      1      0      1      0      1
  GABPA WILD-TYPE     11      7      7      8      8      6     11      8
                 vv
clus              CLUS_9
  GABPA MUTATED        1
  GABPA WILD-TYPE      4
D1000V12, multiclass
        clus
vv       GABPA MUTATED GABPA WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1001) Variable = NXF3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NXF3 MUTATED        1      0      0      0      0
  NXF3 WILD-TYPE     31     18     46     27     23
D1001V1, multiclass
[1] "Remove cluster labels:" "NXF3 MUTATED"          
clus
  NXF3 MUTATED NXF3 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AY-4071 
"NXF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXF3 MUTATED        1      0      0
  NXF3 WILD-TYPE     42     67     36
D1001V2, multiclass
[1] "Remove cluster labels:" "NXF3 MUTATED"          
clus
  NXF3 MUTATED NXF3 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AY-4071 
"NXF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXF3 MUTATED        0      6      4
  NXF3 WILD-TYPE     42    167    143
D1001V3, multiclass
        clus
vv       NXF3 MUTATED NXF3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            6            167
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXF3 MUTATED        2      6      1
  NXF3 WILD-TYPE     60     67     74
D1001V4, multiclass
        clus
vv       NXF3 MUTATED NXF3 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            6             67
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXF3 MUTATED        0      2      4
  NXF3 WILD-TYPE     70    118     96
D1001V5, multiclass
        clus
vv       NXF3 MUTATED NXF3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NXF3 MUTATED        1      0      1      0      0      3      0      0      1
  NXF3 WILD-TYPE     40     26     29     29     39     66     20     14     21
D1001V6, multiclass
        clus
vv       NXF3 MUTATED NXF3 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NXF3 MUTATED        6      1      2      1
  NXF3 WILD-TYPE     94     71     70    120
D1001V7, multiclass
        clus
vv       NXF3 MUTATED NXF3 WILD-TYPE
  CLUS_1            6             94
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NXF3 MUTATED        2      5      2      0      1
  NXF3 WILD-TYPE     57     70     72    119     37
D1001V8, multiclass
        clus
vv       NXF3 MUTATED NXF3 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            5             70
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NXF3 MUTATED        5      2      1      2      0
  NXF3 WILD-TYPE     46     74     60     69     95
D1001V9, multiclass
        clus
vv       NXF3 MUTATED NXF3 WILD-TYPE
  CLUS_1            5             46
  CLUS_2            2             74
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NXF3 MUTATED        4      1      0      1      1      2      0      1      0
  NXF3 WILD-TYPE     65     47     39     15     52     18     21     37     50
D1001V10, multiclass
        clus
vv       NXF3 MUTATED NXF3 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NXF3 MUTATED        0      0      0      0      1      0
  NXF3 WILD-TYPE     13     16     14     11     10      9
D1001V11, multiclass
[1] "Remove cluster labels:" "NXF3 MUTATED"          
clus
  NXF3 MUTATED NXF3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-G4-6628 
"NXF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NXF3 MUTATED        0      0      0      0      0      1      0      0      0
  NXF3 WILD-TYPE     11      7      7      9      8      6     11      9      5
D1001V12, multiclass
[1] "Remove cluster labels:" "NXF3 MUTATED"          
clus
  NXF3 MUTATED NXF3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" "NXF3 WILD-TYPE" 
    TCGA-G4-6628 
"NXF3 WILD-TYPE" 

Clustering(1002) Variable = LRIG2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRIG2 MUTATED        2      0      0      0      0
  LRIG2 WILD-TYPE     30     18     46     27     23
D1002V1, multiclass
[1] "Remove cluster labels:" "LRIG2 MUTATED"         
clus
  LRIG2 MUTATED LRIG2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRIG2 MUTATED        2      0      0
  LRIG2 WILD-TYPE     41     67     36
D1002V2, multiclass
[1] "Remove cluster labels:" "LRIG2 MUTATED"         
clus
  LRIG2 MUTATED LRIG2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRIG2 MUTATED        0      0      9
  LRIG2 WILD-TYPE     42    173    138
D1002V3, multiclass
        clus
vv       LRIG2 MUTATED LRIG2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRIG2 MUTATED        2      0      5
  LRIG2 WILD-TYPE     60     73     70
D1002V4, multiclass
        clus
vv       LRIG2 MUTATED LRIG2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRIG2 MUTATED        1      4      3
  LRIG2 WILD-TYPE     69    116     97
D1002V5, multiclass
        clus
vv       LRIG2 MUTATED LRIG2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRIG2 MUTATED        0      1      0      1      2      1      3      0
  LRIG2 WILD-TYPE     41     25     30     28     37     68     17     14
                 vv
clus              CLUS_9
  LRIG2 MUTATED        0
  LRIG2 WILD-TYPE     22
D1002V6, multiclass
        clus
vv       LRIG2 MUTATED LRIG2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             1              68
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRIG2 MUTATED        0      4      2      3
  LRIG2 WILD-TYPE    100     68     70    118
D1002V7, multiclass
        clus
vv       LRIG2 MUTATED LRIG2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRIG2 MUTATED        0      2      4      1      2
  LRIG2 WILD-TYPE     59     73     70    118     36
D1002V8, multiclass
        clus
vv       LRIG2 MUTATED LRIG2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRIG2 MUTATED        1      5      0      0      3
  LRIG2 WILD-TYPE     50     71     61     71     92
D1002V9, multiclass
        clus
vv       LRIG2 MUTATED LRIG2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRIG2 MUTATED        3      0      0      1      3      0      0      1
  LRIG2 WILD-TYPE     66     48     39     15     50     20     21     37
                 vv
clus              CLUS_9
  LRIG2 MUTATED        1
  LRIG2 WILD-TYPE     49
D1002V10, multiclass
        clus
vv       LRIG2 MUTATED LRIG2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LRIG2 MUTATED        0      0      0      0      1      0
  LRIG2 WILD-TYPE     13     16     14     11     10      9
D1002V11, multiclass
[1] "Remove cluster labels:" "LRIG2 MUTATED"         
clus
  LRIG2 MUTATED LRIG2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-G4-6628 
"LRIG2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRIG2 MUTATED        0      0      0      0      1      0      0      0
  LRIG2 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  LRIG2 MUTATED        0
  LRIG2 WILD-TYPE      5
D1002V12, multiclass
[1] "Remove cluster labels:" "LRIG2 MUTATED"         
clus
  LRIG2 MUTATED LRIG2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" "LRIG2 WILD-TYPE" 
     TCGA-G4-6628 
"LRIG2 WILD-TYPE" 

Clustering(1003) Variable = BRSK1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRSK1 MUTATED        7      0      1      0      0
  BRSK1 WILD-TYPE     25     18     45     27     23
D1003V1, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             7              25
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRSK1 MUTATED        7      1      0
  BRSK1 WILD-TYPE     36     66     36
D1003V2, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRSK1 MUTATED        2      5     10
  BRSK1 WILD-TYPE     40    168    137
D1003V3, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRSK1 MUTATED        1      2      6
  BRSK1 WILD-TYPE     61     71     69
D1003V4, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRSK1 MUTATED        2      7      4
  BRSK1 WILD-TYPE     68    113     96
D1003V5, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             7             113
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BRSK1 MUTATED        1      0      1      2      4      2      2      1
  BRSK1 WILD-TYPE     40     26     29     27     35     67     18     13
                 vv
clus              CLUS_9
  BRSK1 MUTATED        0
  BRSK1 WILD-TYPE     22
D1003V6, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             4              35
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRSK1 MUTATED        3      5      1      8
  BRSK1 WILD-TYPE     97     67     71    113
D1003V7, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRSK1 MUTATED        2      2      5      1      7
  BRSK1 WILD-TYPE     57     73     69    118     31
D1003V8, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRSK1 MUTATED        2      5      0      3      7
  BRSK1 WILD-TYPE     49     71     61     68     88
D1003V9, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             3              68
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BRSK1 MUTATED        1      1      0      3      4      0      0      8
  BRSK1 WILD-TYPE     68     47     39     13     49     20     21     30
                 vv
clus              CLUS_9
  BRSK1 MUTATED        0
  BRSK1 WILD-TYPE     50
D1003V10, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             4              49
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             8              30
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRSK1 MUTATED        0      0      0      2      1      0
  BRSK1 WILD-TYPE     13     16     14      9     10      9
D1003V11, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             2               9
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BRSK1 MUTATED        0      0      0      1      0      0      1      1
  BRSK1 WILD-TYPE     11      7      7      8      8      7     10      8
                 vv
clus              CLUS_9
  BRSK1 MUTATED        0
  BRSK1 WILD-TYPE      5
D1003V12, multiclass
        clus
vv       BRSK1 MUTATED BRSK1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1004) Variable = E2F5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  E2F5 MUTATED        1      0      1      0      0
  E2F5 WILD-TYPE     31     18     45     27     23
D1004V1, multiclass
[1] "Remove cluster labels:" "E2F5 MUTATED"          
clus
  E2F5 MUTATED E2F5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3696 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  E2F5 MUTATED        1      0      1
  E2F5 WILD-TYPE     42     67     35
D1004V2, multiclass
[1] "Remove cluster labels:" "E2F5 MUTATED"          
clus
  E2F5 MUTATED E2F5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3696 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  E2F5 MUTATED        1      2      4
  E2F5 WILD-TYPE     41    171    143
D1004V3, multiclass
        clus
vv       E2F5 MUTATED E2F5 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  E2F5 MUTATED        4      0      1
  E2F5 WILD-TYPE     58     73     74
D1004V4, multiclass
        clus
vv       E2F5 MUTATED E2F5 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  E2F5 MUTATED        0      1      5
  E2F5 WILD-TYPE     70    119     95
D1004V5, multiclass
        clus
vv       E2F5 MUTATED E2F5 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  E2F5 MUTATED        1      0      0      0      1      2      1      1      0
  E2F5 WILD-TYPE     40     26     30     29     38     67     19     13     22
D1004V6, multiclass
        clus
vv       E2F5 MUTATED E2F5 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  E2F5 MUTATED        2      2      2      1
  E2F5 WILD-TYPE     98     70     70    120
D1004V7, multiclass
        clus
vv       E2F5 MUTATED E2F5 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  E2F5 MUTATED        2      2      1      1      1
  E2F5 WILD-TYPE     57     73     73    118     37
D1004V8, multiclass
        clus
vv       E2F5 MUTATED E2F5 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            1             73
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  E2F5 MUTATED        1      2      2      0      2
  E2F5 WILD-TYPE     50     74     59     71     93
D1004V9, multiclass
        clus
vv       E2F5 MUTATED E2F5 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  E2F5 MUTATED        1      2      1      0      0      0      1      1      1
  E2F5 WILD-TYPE     68     46     38     16     53     20     20     37     49
D1004V10, multiclass
        clus
vv       E2F5 MUTATED E2F5 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  E2F5 MUTATED        0      0      0      1      0      0
  E2F5 WILD-TYPE     13     16     14     10     11      9
D1004V11, multiclass
[1] "Remove cluster labels:" "E2F5 MUTATED"          
clus
  E2F5 MUTATED E2F5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-G4-6628 
"E2F5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  E2F5 MUTATED        0      0      0      0      0      0      1      0      0
  E2F5 WILD-TYPE     11      7      7      9      8      7     10      9      5
D1004V12, multiclass
[1] "Remove cluster labels:" "E2F5 MUTATED"          
clus
  E2F5 MUTATED E2F5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" "E2F5 WILD-TYPE" 
    TCGA-G4-6628 
"E2F5 WILD-TYPE" 

Clustering(1005) Variable = SEC31A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEC31A MUTATED        2      0      0      0      1
  SEC31A WILD-TYPE     30     18     46     27     22
D1005V1, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEC31A MUTATED        2      0      1
  SEC31A WILD-TYPE     41     67     35
D1005V2, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEC31A MUTATED        1      2     10
  SEC31A WILD-TYPE     41    171    137
D1005V3, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEC31A MUTATED        4      1      5
  SEC31A WILD-TYPE     58     72     70
D1005V4, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEC31A MUTATED        3      3      4
  SEC31A WILD-TYPE     67    117     96
D1005V5, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              3               67
  CLUS_2              3              117
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEC31A MUTATED        2      1      0      1      1      2      1      2
  SEC31A WILD-TYPE     39     25     30     28     38     67     19     12
                  vv
clus               CLUS_9
  SEC31A MUTATED        0
  SEC31A WILD-TYPE     22
D1005V6, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SEC31A MUTATED        2      4      4      3
  SEC31A WILD-TYPE     98     68     68    118
D1005V7, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              4               68
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEC31A MUTATED        2      2      6      1      2
  SEC31A WILD-TYPE     57     73     68    118     36
D1005V8, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEC31A MUTATED        1      5      3      2      2
  SEC31A WILD-TYPE     50     71     58     69     93
D1005V9, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              3               58
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEC31A MUTATED        3      3      1      3      1      0      0      2
  SEC31A WILD-TYPE     66     45     38     13     52     20     21     36
                  vv
clus               CLUS_9
  SEC31A MUTATED        0
  SEC31A WILD-TYPE     50
D1005V10, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SEC31A MUTATED        0      1      0      0      3      0
  SEC31A WILD-TYPE     13     15     14     11      8      9
D1005V11, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEC31A MUTATED        0      1      0      2      1      0      0      0
  SEC31A WILD-TYPE     11      6      7      7      7      7     11      9
                  vv
clus               CLUS_9
  SEC31A MUTATED        0
  SEC31A WILD-TYPE      5
D1005V12, multiclass
        clus
vv       SEC31A MUTATED SEC31A WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1006) Variable = CTSZ MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTSZ MUTATED        1      0      1      0      0
  CTSZ WILD-TYPE     31     18     45     27     23
D1006V1, multiclass
[1] "Remove cluster labels:" "CTSZ MUTATED"          
clus
  CTSZ MUTATED CTSZ WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTSZ MUTATED        1      0      1
  CTSZ WILD-TYPE     42     67     35
D1006V2, multiclass
[1] "Remove cluster labels:" "CTSZ MUTATED"          
clus
  CTSZ MUTATED CTSZ WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTSZ MUTATED        1      3      2
  CTSZ WILD-TYPE     41    170    145
D1006V3, multiclass
        clus
vv       CTSZ MUTATED CTSZ WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTSZ MUTATED        1      3      0
  CTSZ WILD-TYPE     61     70     75
D1006V4, multiclass
        clus
vv       CTSZ MUTATED CTSZ WILD-TYPE
  CLUS_1            1             61
  CLUS_2            3             70
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTSZ MUTATED        1      2      3
  CTSZ WILD-TYPE     69    118     97
D1006V5, multiclass
        clus
vv       CTSZ MUTATED CTSZ WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTSZ MUTATED        1      0      0      1      2      1      0      0      1
  CTSZ WILD-TYPE     40     26     30     28     37     68     20     14     21
D1006V6, multiclass
        clus
vv       CTSZ MUTATED CTSZ WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTSZ MUTATED        1      1      2      2
  CTSZ WILD-TYPE     99     71     70    119
D1006V7, multiclass
        clus
vv       CTSZ MUTATED CTSZ WILD-TYPE
  CLUS_1            1             99
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTSZ MUTATED        2      1      1      1      1
  CTSZ WILD-TYPE     57     74     73    118     37
D1006V8, multiclass
        clus
vv       CTSZ MUTATED CTSZ WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            1             73
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTSZ MUTATED        0      1      3      1      1
  CTSZ WILD-TYPE     51     75     58     70     94
D1006V9, multiclass
        clus
vv       CTSZ MUTATED CTSZ WILD-TYPE
  CLUS_1            0             51
  CLUS_2            1             75
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTSZ MUTATED        2      2      0      0      0      0      0      1      1
  CTSZ WILD-TYPE     67     46     39     16     53     20     21     37     49
D1006V10, multiclass
        clus
vv       CTSZ MUTATED CTSZ WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTSZ MUTATED        0      0      0      1      0      0
  CTSZ WILD-TYPE     13     16     14     10     11      9
D1006V11, multiclass
[1] "Remove cluster labels:" "CTSZ MUTATED"          
clus
  CTSZ MUTATED CTSZ WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-G4-6628 
"CTSZ WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTSZ MUTATED        0      0      1      0      0      0      0      0      0
  CTSZ WILD-TYPE     11      7      6      9      8      7     11      9      5
D1006V12, multiclass
[1] "Remove cluster labels:" "CTSZ MUTATED"          
clus
  CTSZ MUTATED CTSZ WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" "CTSZ WILD-TYPE" 
    TCGA-G4-6628 
"CTSZ WILD-TYPE" 

Clustering(1007) Variable = NUFIP1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUFIP1 MUTATED        0      0      0      1      0
  NUFIP1 WILD-TYPE     32     18     46     26     23
D1007V1, multiclass
[1] "Remove cluster labels:" "NUFIP1 MUTATED"        
clus
  NUFIP1 MUTATED NUFIP1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AY-4071 
"NUFIP1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUFIP1 MUTATED        0      1      0
  NUFIP1 WILD-TYPE     43     66     36
D1007V2, multiclass
[1] "Remove cluster labels:" "NUFIP1 MUTATED"        
clus
  NUFIP1 MUTATED NUFIP1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" "NUFIP1 WILD-TYPE" 
      TCGA-AY-4071 
"NUFIP1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUFIP1 MUTATED        0      0      8
  NUFIP1 WILD-TYPE     42    173    139
D1007V3, multiclass
        clus
vv       NUFIP1 MUTATED NUFIP1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUFIP1 MUTATED        3      0      3
  NUFIP1 WILD-TYPE     59     73     72
D1007V4, multiclass
        clus
vv       NUFIP1 MUTATED NUFIP1 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUFIP1 MUTATED        1      2      3
  NUFIP1 WILD-TYPE     69    118     97
D1007V5, multiclass
        clus
vv       NUFIP1 MUTATED NUFIP1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUFIP1 MUTATED        1      1      2      0      0      2      0      0
  NUFIP1 WILD-TYPE     40     25     28     29     39     67     20     14
                  vv
clus               CLUS_9
  NUFIP1 MUTATED        0
  NUFIP1 WILD-TYPE     22
D1007V6, multiclass
        clus
vv       NUFIP1 MUTATED NUFIP1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUFIP1 MUTATED        0      4      1      3
  NUFIP1 WILD-TYPE    100     68     71    118
D1007V7, multiclass
        clus
vv       NUFIP1 MUTATED NUFIP1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUFIP1 MUTATED        1      2      2      2      1
  NUFIP1 WILD-TYPE     58     73     72    117     37
D1007V8, multiclass
        clus
vv       NUFIP1 MUTATED NUFIP1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUFIP1 MUTATED        0      3      1      0      4
  NUFIP1 WILD-TYPE     51     73     60     71     91
D1007V9, multiclass
        clus
vv       NUFIP1 MUTATED NUFIP1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUFIP1 MUTATED        0      1      0      2      1      1      0      1
  NUFIP1 WILD-TYPE     69     47     39     14     52     19     21     37
                  vv
clus               CLUS_9
  NUFIP1 MUTATED        2
  NUFIP1 WILD-TYPE     48
D1007V10, multiclass
        clus
vv       NUFIP1 MUTATED NUFIP1 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUFIP1 MUTATED        0      0      0      0      0      0
  NUFIP1 WILD-TYPE     13     16     14     11     11      9
D1007V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUFIP1 MUTATED        0      0      0      0      0      0      0      0
  NUFIP1 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  NUFIP1 MUTATED        0
  NUFIP1 WILD-TYPE      5
D1007V12, multiclass

Clustering(1008) Variable = OR5H15 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5H15 MUTATED        0      0      0      0      0
  OR5H15 WILD-TYPE     32     18     46     27     23
D1008V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR5H15 MUTATED        0      0      0
  OR5H15 WILD-TYPE     43     67     36
D1008V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR5H15 MUTATED        1      2      2
  OR5H15 WILD-TYPE     41    171    145
D1008V3, multiclass
        clus
vv       OR5H15 MUTATED OR5H15 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR5H15 MUTATED        2      0      3
  OR5H15 WILD-TYPE     60     73     72
D1008V4, multiclass
        clus
vv       OR5H15 MUTATED OR5H15 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR5H15 MUTATED        1      1      3
  OR5H15 WILD-TYPE     69    119     97
D1008V5, multiclass
        clus
vv       OR5H15 MUTATED OR5H15 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5H15 MUTATED        1      0      0      1      0      2      1      0
  OR5H15 WILD-TYPE     40     26     30     28     39     67     19     14
                  vv
clus               CLUS_9
  OR5H15 MUTATED        0
  OR5H15 WILD-TYPE     22
D1008V6, multiclass
        clus
vv       OR5H15 MUTATED OR5H15 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR5H15 MUTATED        1      2      2      0
  OR5H15 WILD-TYPE     99     70     70    121
D1008V7, multiclass
        clus
vv       OR5H15 MUTATED OR5H15 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5H15 MUTATED        2      0      3      0      0
  OR5H15 WILD-TYPE     57     75     71    119     38
D1008V8, multiclass
        clus
vv       OR5H15 MUTATED OR5H15 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5H15 MUTATED        1      2      1      0      1
  OR5H15 WILD-TYPE     50     74     60     71     94
D1008V9, multiclass
        clus
vv       OR5H15 MUTATED OR5H15 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5H15 MUTATED        0      4      0      0      0      0      0      1
  OR5H15 WILD-TYPE     69     44     39     16     53     20     21     37
                  vv
clus               CLUS_9
  OR5H15 MUTATED        0
  OR5H15 WILD-TYPE     50
D1008V10, multiclass
        clus
vv       OR5H15 MUTATED OR5H15 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR5H15 MUTATED        0      1      0      0      0      0
  OR5H15 WILD-TYPE     13     15     14     11     11      9
D1008V11, multiclass
[1] "Remove cluster labels:" "OR5H15 MUTATED"        
clus
  OR5H15 MUTATED OR5H15 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-G4-6628 
"OR5H15 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5H15 MUTATED        1      0      0      0      0      0      0      0
  OR5H15 WILD-TYPE     10      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  OR5H15 MUTATED        0
  OR5H15 WILD-TYPE      5
D1008V12, multiclass
[1] "Remove cluster labels:" "OR5H15 MUTATED"        
clus
  OR5H15 MUTATED OR5H15 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" "OR5H15 WILD-TYPE" 
      TCGA-G4-6628 
"OR5H15 WILD-TYPE" 

Clustering(1009) Variable = TPR MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPR MUTATED        5      0      1      4      0
  TPR WILD-TYPE     27     18     45     23     23
D1009V1, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           5            27
  CLUS_2           0            18
  CLUS_3           1            45
  CLUS_4           4            23
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TPR MUTATED        6      2      2
  TPR WILD-TYPE     37     65     34
D1009V2, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           6            37
  CLUS_2           2            65
  CLUS_3           2            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TPR MUTATED        2      5     17
  TPR WILD-TYPE     40    168    130
D1009V3, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           2            40
  CLUS_2           5           168
  CLUS_3          17           130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TPR MUTATED        4      3      6
  TPR WILD-TYPE     58     70     69
D1009V4, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           4            58
  CLUS_2           3            70
  CLUS_3           6            69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TPR MUTATED        2     10      5
  TPR WILD-TYPE     68    110     95
D1009V5, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           2            68
  CLUS_2          10           110
  CLUS_3           5            95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TPR MUTATED        1      1      2      4      4      2      0      2      1
  TPR WILD-TYPE     40     25     28     25     35     67     20     12     21
D1009V6, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           1            40
  CLUS_2           1            25
  CLUS_3           2            28
  CLUS_4           4            25
  CLUS_5           4            35
  CLUS_6           2            67
  CLUS_7           0            20
  CLUS_8           2            12
  CLUS_9           1            21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TPR MUTATED        2      6      4     12
  TPR WILD-TYPE     98     66     68    109
D1009V7, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           2            98
  CLUS_2           6            66
  CLUS_3           4            68
  CLUS_4          12           109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPR MUTATED        1      3      7      6      7
  TPR WILD-TYPE     58     72     67    113     31
D1009V8, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           1            58
  CLUS_2           3            72
  CLUS_3           7            67
  CLUS_4           6           113
  CLUS_5           7            31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPR MUTATED        2      5      2      5      9
  TPR WILD-TYPE     49     71     59     66     86
D1009V9, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           2            49
  CLUS_2           5            71
  CLUS_3           2            59
  CLUS_4           5            66
  CLUS_5           9            86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TPR MUTATED        3      2      0      1      6      1      0      7      3
  TPR WILD-TYPE     66     46     39     15     47     19     21     31     47
D1009V10, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           3            66
  CLUS_2           2            46
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           6            47
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           7            31
  CLUS_9           3            47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TPR MUTATED        0      0      2      0      2      0
  TPR WILD-TYPE     13     16     12     11      9      9
D1009V11, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           0            13
  CLUS_2           0            16
  CLUS_3           2            12
  CLUS_4           0            11
  CLUS_5           2             9
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TPR MUTATED        0      0      0      1      2      1      0      0      0
  TPR WILD-TYPE     11      7      7      8      6      6     11      9      5
D1009V12, multiclass
        clus
vv       TPR MUTATED TPR WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           2             6
  CLUS_6           1             6
  CLUS_7           0            11
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1010) Variable = BAZ2B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAZ2B MUTATED        3      0      0      1      0
  BAZ2B WILD-TYPE     29     18     46     26     23
D1010V1, multiclass
        clus
vv       BAZ2B MUTATED BAZ2B WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BAZ2B MUTATED        3      1      0
  BAZ2B WILD-TYPE     40     66     36
D1010V2, multiclass
        clus
vv       BAZ2B MUTATED BAZ2B WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BAZ2B MUTATED        0      4     11
  BAZ2B WILD-TYPE     42    169    136
D1010V3, multiclass
        clus
vv       BAZ2B MUTATED BAZ2B WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BAZ2B MUTATED        4      4      3
  BAZ2B WILD-TYPE     58     69     72
D1010V4, multiclass
        clus
vv       BAZ2B MUTATED BAZ2B WILD-TYPE
  CLUS_1             4              58
  CLUS_2             4              69
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BAZ2B MUTATED        0      6      7
  BAZ2B WILD-TYPE     70    114     93
D1010V5, multiclass
        clus
vv       BAZ2B MUTATED BAZ2B WILD-TYPE
  CLUS_1             0              70
  CLUS_2             6             114
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BAZ2B MUTATED        2      1      1      1      2      5      0      0
  BAZ2B WILD-TYPE     39     25     29     28     37     64     20     14
                 vv
clus              CLUS_9
  BAZ2B MUTATED        1
  BAZ2B WILD-TYPE     21
D1010V6, multiclass
        clus
vv       BAZ2B MUTATED BAZ2B WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BAZ2B MUTATED        2      4      4      5
  BAZ2B WILD-TYPE     98     68     68    116
D1010V7, multiclass
        clus
vv       BAZ2B MUTATED BAZ2B WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAZ2B MUTATED        2      3      5      2      3
  BAZ2B WILD-TYPE     57     72     69    117     35
D1010V8, multiclass
        clus
vv       BAZ2B MUTATED BAZ2B WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAZ2B MUTATED        3      5      2      0      5
  BAZ2B WILD-TYPE     48     71     59     71     90
D1010V9, multiclass
        clus
vv       BAZ2B MUTATED BAZ2B WILD-TYPE
  CLUS_1             3              48
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BAZ2B MUTATED        1      3      1      3      1      2      0      3
  BAZ2B WILD-TYPE     68     45     38     13     52     18     21     35
                 vv
clus              CLUS_9
  BAZ2B MUTATED        1
  BAZ2B WILD-TYPE     49
D1010V10, multiclass
        clus
vv       BAZ2B MUTATED BAZ2B WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BAZ2B MUTATED        0      0      0      1      1      0
  BAZ2B WILD-TYPE     13     16     14     10     10      9
D1010V11, multiclass
[1] "Remove cluster labels:" "BAZ2B MUTATED"         
clus
  BAZ2B MUTATED BAZ2B WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BAZ2B MUTATED        0      0      1      0      0      0      1      0
  BAZ2B WILD-TYPE     11      7      6      9      8      7     10      9
                 vv
clus              CLUS_9
  BAZ2B MUTATED        0
  BAZ2B WILD-TYPE      5
D1010V12, multiclass
[1] "Remove cluster labels:" "BAZ2B MUTATED"         
clus
  BAZ2B MUTATED BAZ2B WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" "BAZ2B WILD-TYPE" 

Clustering(1011) Variable = USP44 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP44 MUTATED        5      0      0      3      0
  USP44 WILD-TYPE     27     18     46     24     23
D1011V1, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP44 MUTATED        6      1      1
  USP44 WILD-TYPE     37     66     35
D1011V2, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP44 MUTATED        1      3     12
  USP44 WILD-TYPE     41    170    135
D1011V3, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP44 MUTATED        2      1      4
  USP44 WILD-TYPE     60     72     71
D1011V4, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP44 MUTATED        2      5      6
  USP44 WILD-TYPE     68    115     94
D1011V5, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP44 MUTATED        0      1      2      1      3      5      0      0
  USP44 WILD-TYPE     41     25     28     28     36     64     20     14
                 vv
clus              CLUS_9
  USP44 MUTATED        1
  USP44 WILD-TYPE     21
D1011V6, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP44 MUTATED        2      4      1      9
  USP44 WILD-TYPE     98     68     71    112
D1011V7, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP44 MUTATED        2      1      4      4      5
  USP44 WILD-TYPE     57     74     70    115     33
D1011V8, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             4             115
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP44 MUTATED        1      5      1      1      6
  USP44 WILD-TYPE     50     71     60     70     89
D1011V9, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP44 MUTATED        1      1      0      3      3      1      1      4
  USP44 WILD-TYPE     68     47     39     13     50     19     20     34
                 vv
clus              CLUS_9
  USP44 MUTATED        0
  USP44 WILD-TYPE     50
D1011V10, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USP44 MUTATED        2      1      0      0      1      0
  USP44 WILD-TYPE     11     15     14     11     10      9
D1011V11, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  USP44 MUTATED        0      1      0      2      0      0      0      0
  USP44 WILD-TYPE     11      6      7      7      8      7     11      9
                 vv
clus              CLUS_9
  USP44 MUTATED        1
  USP44 WILD-TYPE      4
D1011V12, multiclass
        clus
vv       USP44 MUTATED USP44 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1012) Variable = EIF4G2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF4G2 MUTATED        4      0      0      2      0
  EIF4G2 WILD-TYPE     28     18     46     25     23
D1012V1, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4G2 MUTATED        4      1      1
  EIF4G2 WILD-TYPE     39     66     35
D1012V2, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4G2 MUTATED        3      1     11
  EIF4G2 WILD-TYPE     39    172    136
D1012V3, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              1              172
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4G2 MUTATED        3      1      5
  EIF4G2 WILD-TYPE     59     72     70
D1012V4, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4G2 MUTATED        0      4      8
  EIF4G2 WILD-TYPE     70    116     92
D1012V5, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF4G2 MUTATED        1      0      1      1      2      6      1      0
  EIF4G2 WILD-TYPE     40     26     29     28     37     63     19     14
                  vv
clus               CLUS_9
  EIF4G2 MUTATED        0
  EIF4G2 WILD-TYPE     22
D1012V6, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF4G2 MUTATED        3      4      2      6
  EIF4G2 WILD-TYPE     97     68     70    115
D1012V7, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF4G2 MUTATED        3      2      4      2      4
  EIF4G2 WILD-TYPE     56     73     70    117     34
D1012V8, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              2               73
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF4G2 MUTATED        2      4      1      3      4
  EIF4G2 WILD-TYPE     49     72     60     68     91
D1012V9, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF4G2 MUTATED        1      2      0      2      4      2      1      1
  EIF4G2 WILD-TYPE     68     46     39     14     49     18     20     37
                  vv
clus               CLUS_9
  EIF4G2 MUTATED        1
  EIF4G2 WILD-TYPE     49
D1012V10, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              4               49
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EIF4G2 MUTATED        1      1      0      0      1      0
  EIF4G2 WILD-TYPE     12     15     14     11     10      9
D1012V11, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF4G2 MUTATED        0      1      0      0      0      0      1      1
  EIF4G2 WILD-TYPE     11      6      7      9      8      7     10      8
                  vv
clus               CLUS_9
  EIF4G2 MUTATED        0
  EIF4G2 WILD-TYPE      5
D1012V12, multiclass
        clus
vv       EIF4G2 MUTATED EIF4G2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1013) Variable = EYS MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EYS MUTATED        7      0      0      3      1
  EYS WILD-TYPE     25     18     46     24     22
D1013V1, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1           7            25
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           3            24
  CLUS_5           1            22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  EYS MUTATED        9      1      1
  EYS WILD-TYPE     34     66     35
D1013V2, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1           9            34
  CLUS_2           1            66
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  EYS MUTATED        2      9     25
  EYS WILD-TYPE     40    164    122
D1013V3, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1           2            40
  CLUS_2           9           164
  CLUS_3          25           122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  EYS MUTATED       11      7     10
  EYS WILD-TYPE     51     66     65
D1013V4, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1          11            51
  CLUS_2           7            66
  CLUS_3          10            65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  EYS MUTATED        5     14     13
  EYS WILD-TYPE     65    106     87
D1013V5, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1           5            65
  CLUS_2          14           106
  CLUS_3          13            87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EYS MUTATED        2      1      0      6      3     12      4      2      2
  EYS WILD-TYPE     39     25     30     23     36     57     16     12     20
D1013V6, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1           2            39
  CLUS_2           1            25
  CLUS_3           0            30
  CLUS_4           6            23
  CLUS_5           3            36
  CLUS_6          12            57
  CLUS_7           4            16
  CLUS_8           2            12
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EYS MUTATED        6     11     11     10
  EYS WILD-TYPE     94     61     61    111
D1013V7, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1           6            94
  CLUS_2          11            61
  CLUS_3          11            61
  CLUS_4          10           111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EYS MUTATED        7      5     15      3      8
  EYS WILD-TYPE     52     70     59    116     30
D1013V8, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1           7            52
  CLUS_2           5            70
  CLUS_3          15            59
  CLUS_4           3           116
  CLUS_5           8            30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EYS MUTATED        2     14      7      6      7
  EYS WILD-TYPE     49     62     54     65     88
D1013V9, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1           2            49
  CLUS_2          14            62
  CLUS_3           7            54
  CLUS_4           6            65
  CLUS_5           7            88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EYS MUTATED        9      6      2      5      5      1      1      6      1
  EYS WILD-TYPE     60     42     37     11     48     19     20     32     49
D1013V10, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1           9            60
  CLUS_2           6            42
  CLUS_3           2            37
  CLUS_4           5            11
  CLUS_5           5            48
  CLUS_6           1            19
  CLUS_7           1            20
  CLUS_8           6            32
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EYS MUTATED        2      0      4      2      2      2
  EYS WILD-TYPE     11     16     10      9      9      7
D1013V11, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1           2            11
  CLUS_2           0            16
  CLUS_3           4            10
  CLUS_4           2             9
  CLUS_5           2             9
  CLUS_6           2             7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EYS MUTATED        1      0      0      1      4      0      3      3      0
  EYS WILD-TYPE     10      7      7      8      4      7      8      6      5
D1013V12, multiclass
        clus
vv       EYS MUTATED EYS WILD-TYPE
  CLUS_1           1            10
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           4             4
  CLUS_6           0             7
  CLUS_7           3             8
  CLUS_8           3             6
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1014) Variable = ST8SIA6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST8SIA6 MUTATED        1      0      0      1      0
  ST8SIA6 WILD-TYPE     31     18     46     26     23
D1014V1, multiclass
[1] "Remove cluster labels:" "ST8SIA6 MUTATED"       
clus
  ST8SIA6 MUTATED ST8SIA6 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00F        TCGA-AA-A00J 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ST8SIA6 MUTATED        1      1      0
  ST8SIA6 WILD-TYPE     42     66     36
D1014V2, multiclass
[1] "Remove cluster labels:" "ST8SIA6 MUTATED"       
clus
  ST8SIA6 MUTATED ST8SIA6 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00F        TCGA-AA-A00J 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ST8SIA6 MUTATED        0      0     10
  ST8SIA6 WILD-TYPE     42    173    137
D1014V3, multiclass
        clus
vv       ST8SIA6 MUTATED ST8SIA6 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3              10               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ST8SIA6 MUTATED        3      0      5
  ST8SIA6 WILD-TYPE     59     73     70
D1014V4, multiclass
        clus
vv       ST8SIA6 MUTATED ST8SIA6 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ST8SIA6 MUTATED        1      3      3
  ST8SIA6 WILD-TYPE     69    117     97
D1014V5, multiclass
        clus
vv       ST8SIA6 MUTATED ST8SIA6 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ST8SIA6 MUTATED        1      0      2      1      1      2      0      0
  ST8SIA6 WILD-TYPE     40     26     28     28     38     67     20     14
                   vv
clus                CLUS_9
  ST8SIA6 MUTATED        0
  ST8SIA6 WILD-TYPE     22
D1014V6, multiclass
        clus
vv       ST8SIA6 MUTATED ST8SIA6 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ST8SIA6 MUTATED        0      5      3      2
  ST8SIA6 WILD-TYPE    100     67     69    119
D1014V7, multiclass
        clus
vv       ST8SIA6 MUTATED ST8SIA6 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               5                67
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST8SIA6 MUTATED        1      1      6      1      1
  ST8SIA6 WILD-TYPE     58     74     68    118     37
D1014V8, multiclass
        clus
vv       ST8SIA6 MUTATED ST8SIA6 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               6                68
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST8SIA6 MUTATED        0      3      3      0      3
  ST8SIA6 WILD-TYPE     51     73     58     71     92
D1014V9, multiclass
        clus
vv       ST8SIA6 MUTATED ST8SIA6 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ST8SIA6 MUTATED        1      2      0      2      1      1      0      1
  ST8SIA6 WILD-TYPE     68     46     39     14     52     19     21     37
                   vv
clus                CLUS_9
  ST8SIA6 MUTATED        1
  ST8SIA6 WILD-TYPE     49
D1014V10, multiclass
        clus
vv       ST8SIA6 MUTATED ST8SIA6 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ST8SIA6 MUTATED        0      0      1      0      0      0
  ST8SIA6 WILD-TYPE     13     16     13     11     11      9
D1014V11, multiclass
[1] "Remove cluster labels:" "ST8SIA6 MUTATED"       
clus
  ST8SIA6 MUTATED ST8SIA6 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-G4-6628 
"ST8SIA6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ST8SIA6 MUTATED        0      0      0      0      1      0      0      0
  ST8SIA6 WILD-TYPE     11      7      7      9      7      7     11      9
                   vv
clus                CLUS_9
  ST8SIA6 MUTATED        0
  ST8SIA6 WILD-TYPE      5
D1014V12, multiclass
[1] "Remove cluster labels:" "ST8SIA6 MUTATED"       
clus
  ST8SIA6 MUTATED ST8SIA6 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" "ST8SIA6 WILD-TYPE" 
       TCGA-G4-6628 
"ST8SIA6 WILD-TYPE" 

Clustering(1015) Variable = C6ORF222 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF222 MUTATED        1      0      0      2      0
  C6ORF222 WILD-TYPE     31     18     46     25     23
D1015V1, multiclass
        clus
vv       C6ORF222 MUTATED C6ORF222 WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF222 MUTATED        2      1      0
  C6ORF222 WILD-TYPE     41     66     36
D1015V2, multiclass
        clus
vv       C6ORF222 MUTATED C6ORF222 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF222 MUTATED        0      0      6
  C6ORF222 WILD-TYPE     42    173    141
D1015V3, multiclass
        clus
vv       C6ORF222 MUTATED C6ORF222 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                6                141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF222 MUTATED        0      0      3
  C6ORF222 WILD-TYPE     62     73     72
D1015V4, multiclass
        clus
vv       C6ORF222 MUTATED C6ORF222 WILD-TYPE
  CLUS_1                0                 62
  CLUS_2                0                 73
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF222 MUTATED        0      2      3
  C6ORF222 WILD-TYPE     70    118     97
D1015V5, multiclass
        clus
vv       C6ORF222 MUTATED C6ORF222 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                118
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF222 MUTATED        0      0      1      1      1      2      0      0
  C6ORF222 WILD-TYPE     41     26     29     28     38     67     20     14
                    vv
clus                 CLUS_9
  C6ORF222 MUTATED        0
  C6ORF222 WILD-TYPE     22
D1015V6, multiclass
        clus
vv       C6ORF222 MUTATED C6ORF222 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                1                 38
  CLUS_6                2                 67
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C6ORF222 MUTATED        0      3      0      3
  C6ORF222 WILD-TYPE    100     69     72    118
D1015V7, multiclass
        clus
vv       C6ORF222 MUTATED C6ORF222 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                3                 69
  CLUS_3                0                 72
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF222 MUTATED        0      0      3      1      2
  C6ORF222 WILD-TYPE     59     75     71    118     36
D1015V8, multiclass
        clus
vv       C6ORF222 MUTATED C6ORF222 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                3                 71
  CLUS_4                1                118
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF222 MUTATED        0      3      0      0      2
  C6ORF222 WILD-TYPE     51     73     61     71     93
D1015V9, multiclass
        clus
vv       C6ORF222 MUTATED C6ORF222 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                3                 73
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF222 MUTATED        1      0      0      2      0      1      0      1
  C6ORF222 WILD-TYPE     68     48     39     14     53     19     21     37
                    vv
clus                 CLUS_9
  C6ORF222 MUTATED        0
  C6ORF222 WILD-TYPE     50
D1015V10, multiclass
        clus
vv       C6ORF222 MUTATED C6ORF222 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                0                 48
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C6ORF222 MUTATED        0      0      0      0      1      0
  C6ORF222 WILD-TYPE     13     16     14     11     10      9
D1015V11, multiclass
[1] "Remove cluster labels:" "C6ORF222 MUTATED"      
clus
  C6ORF222 MUTATED C6ORF222 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6654         TCGA-A6-6781 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-G4-6628 
"C6ORF222 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF222 MUTATED        0      0      0      1      0      0      0      0
  C6ORF222 WILD-TYPE     11      7      7      8      8      7     11      9
                    vv
clus                 CLUS_9
  C6ORF222 MUTATED        0
  C6ORF222 WILD-TYPE      5
D1015V12, multiclass
[1] "Remove cluster labels:" "C6ORF222 MUTATED"      
clus
  C6ORF222 MUTATED C6ORF222 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6654         TCGA-A6-6781 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" "C6ORF222 WILD-TYPE" 
        TCGA-G4-6628 
"C6ORF222 WILD-TYPE" 

Clustering(1016) Variable = TPK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPK1 MUTATED        0      0      0      0      0
  TPK1 WILD-TYPE     32     18     46     27     23
D1016V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TPK1 MUTATED        0      0      0
  TPK1 WILD-TYPE     43     67     36
D1016V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TPK1 MUTATED        1      2      2
  TPK1 WILD-TYPE     41    171    145
D1016V3, multiclass
        clus
vv       TPK1 MUTATED TPK1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TPK1 MUTATED        0      2      3
  TPK1 WILD-TYPE     62     71     72
D1016V4, multiclass
        clus
vv       TPK1 MUTATED TPK1 WILD-TYPE
  CLUS_1            0             62
  CLUS_2            2             71
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TPK1 MUTATED        0      1      2
  TPK1 WILD-TYPE     70    119     98
D1016V5, multiclass
        clus
vv       TPK1 MUTATED TPK1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TPK1 MUTATED        1      0      0      0      0      2      0      0      0
  TPK1 WILD-TYPE     40     26     30     29     39     67     20     14     22
D1016V6, multiclass
        clus
vv       TPK1 MUTATED TPK1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TPK1 MUTATED        1      2      2      0
  TPK1 WILD-TYPE     99     70     70    121
D1016V7, multiclass
        clus
vv       TPK1 MUTATED TPK1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPK1 MUTATED        2      2      1      0      0
  TPK1 WILD-TYPE     57     73     73    119     38
D1016V8, multiclass
        clus
vv       TPK1 MUTATED TPK1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPK1 MUTATED        0      2      2      1      0
  TPK1 WILD-TYPE     51     74     59     70     95
D1016V9, multiclass
        clus
vv       TPK1 MUTATED TPK1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TPK1 MUTATED        3      0      0      0      1      1      0      0      0
  TPK1 WILD-TYPE     66     48     39     16     52     19     21     38     50
D1016V10, multiclass
        clus
vv       TPK1 MUTATED TPK1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TPK1 MUTATED        0      0      1      0      0      1
  TPK1 WILD-TYPE     13     16     13     11     11      8
D1016V11, multiclass
[1] "Remove cluster labels:" "TPK1 MUTATED"          
clus
  TPK1 MUTATED TPK1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6141     TCGA-A6-6142 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6963 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TPK1 MUTATED        1      0      0      0      1      0      0      0      0
  TPK1 WILD-TYPE     10      7      7      9      7      7     11      9      5
D1016V12, multiclass
[1] "Remove cluster labels:" "TPK1 MUTATED"          
clus
  TPK1 MUTATED TPK1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6141     TCGA-A6-6142 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6963 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" "TPK1 WILD-TYPE" 

Clustering(1017) Variable = ZNF555 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF555 MUTATED        4      0      0      0      0
  ZNF555 WILD-TYPE     28     18     46     27     23
D1017V1, multiclass
        clus
vv       ZNF555 MUTATED ZNF555 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF555 MUTATED        4      0      0
  ZNF555 WILD-TYPE     39     67     36
D1017V2, multiclass
        clus
vv       ZNF555 MUTATED ZNF555 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF555 MUTATED        0      1      7
  ZNF555 WILD-TYPE     42    172    140
D1017V3, multiclass
        clus
vv       ZNF555 MUTATED ZNF555 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF555 MUTATED        1      0      3
  ZNF555 WILD-TYPE     61     73     72
D1017V4, multiclass
        clus
vv       ZNF555 MUTATED ZNF555 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF555 MUTATED        0      5      2
  ZNF555 WILD-TYPE     70    115     98
D1017V5, multiclass
        clus
vv       ZNF555 MUTATED ZNF555 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              115
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF555 MUTATED        0      2      0      0      1      2      1      0
  ZNF555 WILD-TYPE     41     24     30     29     38     67     19     14
                  vv
clus               CLUS_9
  ZNF555 MUTATED        1
  ZNF555 WILD-TYPE     21
D1017V6, multiclass
        clus
vv       ZNF555 MUTATED ZNF555 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF555 MUTATED        0      3      0      5
  ZNF555 WILD-TYPE    100     69     72    116
D1017V7, multiclass
        clus
vv       ZNF555 MUTATED ZNF555 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              0               72
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF555 MUTATED        0      2      1      1      4
  ZNF555 WILD-TYPE     59     73     73    118     34
D1017V8, multiclass
        clus
vv       ZNF555 MUTATED ZNF555 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF555 MUTATED        2      0      2      0      4
  ZNF555 WILD-TYPE     49     76     59     71     91
D1017V9, multiclass
        clus
vv       ZNF555 MUTATED ZNF555 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              0               76
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF555 MUTATED        1      1      0      0      0      2      1      2
  ZNF555 WILD-TYPE     68     47     39     16     53     18     20     36
                  vv
clus               CLUS_9
  ZNF555 MUTATED        1
  ZNF555 WILD-TYPE     49
D1017V10, multiclass
        clus
vv       ZNF555 MUTATED ZNF555 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF555 MUTATED        0      0      0      0      0      0
  ZNF555 WILD-TYPE     13     16     14     11     11      9
D1017V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF555 MUTATED        0      0      0      0      0      0      0      0
  ZNF555 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  ZNF555 MUTATED        0
  ZNF555 WILD-TYPE      5
D1017V12, multiclass

Clustering(1018) Variable = CASP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP1 MUTATED        2      0      0      0      0
  CASP1 WILD-TYPE     30     18     46     27     23
D1018V1, multiclass
[1] "Remove cluster labels:" "CASP1 MUTATED"         
clus
  CASP1 MUTATED CASP1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3812 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP1 MUTATED        2      0      0
  CASP1 WILD-TYPE     41     67     36
D1018V2, multiclass
[1] "Remove cluster labels:" "CASP1 MUTATED"         
clus
  CASP1 MUTATED CASP1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3812 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP1 MUTATED        1      0      5
  CASP1 WILD-TYPE     41    173    142
D1018V3, multiclass
        clus
vv       CASP1 MUTATED CASP1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP1 MUTATED        1      0      3
  CASP1 WILD-TYPE     61     73     72
D1018V4, multiclass
        clus
vv       CASP1 MUTATED CASP1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP1 MUTATED        0      2      1
  CASP1 WILD-TYPE     70    118     99
D1018V5, multiclass
        clus
vv       CASP1 MUTATED CASP1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP1 MUTATED        0      0      0      1      1      1      0      0
  CASP1 WILD-TYPE     41     26     30     28     38     68     20     14
                 vv
clus              CLUS_9
  CASP1 MUTATED        0
  CASP1 WILD-TYPE     22
D1018V6, multiclass
        clus
vv       CASP1 MUTATED CASP1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP1 MUTATED        0      3      1      2
  CASP1 WILD-TYPE    100     69     71    119
D1018V7, multiclass
        clus
vv       CASP1 MUTATED CASP1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP1 MUTATED        0      0      4      0      2
  CASP1 WILD-TYPE     59     75     70    119     36
D1018V8, multiclass
        clus
vv       CASP1 MUTATED CASP1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP1 MUTATED        0      4      0      1      1
  CASP1 WILD-TYPE     51     72     61     70     94
D1018V9, multiclass
        clus
vv       CASP1 MUTATED CASP1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP1 MUTATED        1      0      0      3      1      0      0      1
  CASP1 WILD-TYPE     68     48     39     13     52     20     21     37
                 vv
clus              CLUS_9
  CASP1 MUTATED        0
  CASP1 WILD-TYPE     50
D1018V10, multiclass
        clus
vv       CASP1 MUTATED CASP1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CASP1 MUTATED        0      0      1      0      0      0
  CASP1 WILD-TYPE     13     16     13     11     11      9
D1018V11, multiclass
[1] "Remove cluster labels:" "CASP1 MUTATED"         
clus
  CASP1 MUTATED CASP1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-G4-6625 
"CASP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP1 MUTATED        0      0      0      0      0      0      1      0
  CASP1 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  CASP1 MUTATED        0
  CASP1 WILD-TYPE      5
D1018V12, multiclass
[1] "Remove cluster labels:" "CASP1 MUTATED"         
clus
  CASP1 MUTATED CASP1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309 
"CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" "CASP1 WILD-TYPE" 
     TCGA-G4-6625 
"CASP1 WILD-TYPE" 

Clustering(1019) Variable = IFNA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFNA2 MUTATED        2      0      0      1      0
  IFNA2 WILD-TYPE     30     18     46     26     23
D1019V1, multiclass
        clus
vv       IFNA2 MUTATED IFNA2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFNA2 MUTATED        3      0      0
  IFNA2 WILD-TYPE     40     67     36
D1019V2, multiclass
        clus
vv       IFNA2 MUTATED IFNA2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFNA2 MUTATED        1      1      7
  IFNA2 WILD-TYPE     41    172    140
D1019V3, multiclass
        clus
vv       IFNA2 MUTATED IFNA2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFNA2 MUTATED        2      2      2
  IFNA2 WILD-TYPE     60     71     73
D1019V4, multiclass
        clus
vv       IFNA2 MUTATED IFNA2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFNA2 MUTATED        0      3      5
  IFNA2 WILD-TYPE     70    117     95
D1019V5, multiclass
        clus
vv       IFNA2 MUTATED IFNA2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFNA2 MUTATED        0      1      0      1      0      5      0      1
  IFNA2 WILD-TYPE     41     25     30     28     39     64     20     13
                 vv
clus              CLUS_9
  IFNA2 MUTATED        0
  IFNA2 WILD-TYPE     22
D1019V6, multiclass
        clus
vv       IFNA2 MUTATED IFNA2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFNA2 MUTATED        2      3      1      3
  IFNA2 WILD-TYPE     98     69     71    118
D1019V7, multiclass
        clus
vv       IFNA2 MUTATED IFNA2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFNA2 MUTATED        0      2      4      1      2
  IFNA2 WILD-TYPE     59     73     70    118     36
D1019V8, multiclass
        clus
vv       IFNA2 MUTATED IFNA2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFNA2 MUTATED        2      2      1      1      2
  IFNA2 WILD-TYPE     49     74     60     70     93
D1019V9, multiclass
        clus
vv       IFNA2 MUTATED IFNA2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFNA2 MUTATED        3      1      1      1      0      0      1      1
  IFNA2 WILD-TYPE     66     47     38     15     53     20     20     37
                 vv
clus              CLUS_9
  IFNA2 MUTATED        0
  IFNA2 WILD-TYPE     50
D1019V10, multiclass
        clus
vv       IFNA2 MUTATED IFNA2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IFNA2 MUTATED        0      0      0      0      0      0
  IFNA2 WILD-TYPE     13     16     14     11     11      9
D1019V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFNA2 MUTATED        0      0      0      0      0      0      0      0
  IFNA2 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  IFNA2 MUTATED        0
  IFNA2 WILD-TYPE      5
D1019V12, multiclass

Clustering(1020) Variable = IL1RL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL1RL1 MUTATED        1      0      0      0      0
  IL1RL1 WILD-TYPE     31     18     46     27     23
D1020V1, multiclass
[1] "Remove cluster labels:" "IL1RL1 MUTATED"        
clus
  IL1RL1 MUTATED IL1RL1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3812 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AY-4071 
"IL1RL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IL1RL1 MUTATED        1      0      0
  IL1RL1 WILD-TYPE     42     67     36
D1020V2, multiclass
[1] "Remove cluster labels:" "IL1RL1 MUTATED"        
clus
  IL1RL1 MUTATED IL1RL1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3812 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" "IL1RL1 WILD-TYPE" 
      TCGA-AY-4071 
"IL1RL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IL1RL1 MUTATED        2      3      9
  IL1RL1 WILD-TYPE     40    170    138
D1020V3, multiclass
        clus
vv       IL1RL1 MUTATED IL1RL1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3              170
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IL1RL1 MUTATED        7      2      3
  IL1RL1 WILD-TYPE     55     71     72
D1020V4, multiclass
        clus
vv       IL1RL1 MUTATED IL1RL1 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IL1RL1 MUTATED        2      4      7
  IL1RL1 WILD-TYPE     68    116     93
D1020V5, multiclass
        clus
vv       IL1RL1 MUTATED IL1RL1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL1RL1 MUTATED        2      0      1      1      1      5      1      1
  IL1RL1 WILD-TYPE     39     26     29     28     38     64     19     13
                  vv
clus               CLUS_9
  IL1RL1 MUTATED        1
  IL1RL1 WILD-TYPE     21
D1020V6, multiclass
        clus
vv       IL1RL1 MUTATED IL1RL1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL1RL1 MUTATED        2      3      7      2
  IL1RL1 WILD-TYPE     98     69     65    119
D1020V7, multiclass
        clus
vv       IL1RL1 MUTATED IL1RL1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              7               65
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL1RL1 MUTATED        2      3      7      0      2
  IL1RL1 WILD-TYPE     57     72     67    119     36
D1020V8, multiclass
        clus
vv       IL1RL1 MUTATED IL1RL1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL1RL1 MUTATED        1      5      5      2      1
  IL1RL1 WILD-TYPE     50     71     56     69     94
D1020V9, multiclass
        clus
vv       IL1RL1 MUTATED IL1RL1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              5               56
  CLUS_4              2               69
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL1RL1 MUTATED        3      5      0      1      4      0      0      1
  IL1RL1 WILD-TYPE     66     43     39     15     49     20     21     37
                  vv
clus               CLUS_9
  IL1RL1 MUTATED        0
  IL1RL1 WILD-TYPE     50
D1020V10, multiclass
        clus
vv       IL1RL1 MUTATED IL1RL1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              5               43
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              4               49
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL1RL1 MUTATED        0      1      2      0      2      2
  IL1RL1 WILD-TYPE     13     15     12     11      9      7
D1020V11, multiclass
        clus
vv       IL1RL1 MUTATED IL1RL1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL1RL1 MUTATED        3      0      0      1      0      2      1      0
  IL1RL1 WILD-TYPE      8      7      7      8      8      5     10      9
                  vv
clus               CLUS_9
  IL1RL1 MUTATED        0
  IL1RL1 WILD-TYPE      5
D1020V12, multiclass
        clus
vv       IL1RL1 MUTATED IL1RL1 WILD-TYPE
  CLUS_1              3                8
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              2                5
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1021) Variable = UGT1A1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT1A1 MUTATED        2      0      1      0      0
  UGT1A1 WILD-TYPE     30     18     45     27     23
D1021V1, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A1 MUTATED        2      1      0
  UGT1A1 WILD-TYPE     41     66     36
D1021V2, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A1 MUTATED        2      2      7
  UGT1A1 WILD-TYPE     40    171    140
D1021V3, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              2              171
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A1 MUTATED        2      2      3
  UGT1A1 WILD-TYPE     60     71     72
D1021V4, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A1 MUTATED        1      4      3
  UGT1A1 WILD-TYPE     69    116     97
D1021V5, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT1A1 MUTATED        0      1      0      1      2      3      0      1
  UGT1A1 WILD-TYPE     41     25     30     28     37     66     20     13
                  vv
clus               CLUS_9
  UGT1A1 MUTATED        0
  UGT1A1 WILD-TYPE     22
D1021V6, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UGT1A1 MUTATED        3      2      3      3
  UGT1A1 WILD-TYPE     97     70     69    118
D1021V7, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT1A1 MUTATED        0      3      5      1      2
  UGT1A1 WILD-TYPE     59     72     69    118     36
D1021V8, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT1A1 MUTATED        2      5      0      0      4
  UGT1A1 WILD-TYPE     49     71     61     71     91
D1021V9, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT1A1 MUTATED        3      1      1      2      1      0      1      2
  UGT1A1 WILD-TYPE     66     47     38     14     52     20     20     36
                  vv
clus               CLUS_9
  UGT1A1 MUTATED        0
  UGT1A1 WILD-TYPE     50
D1021V10, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UGT1A1 MUTATED        1      0      1      0      2      0
  UGT1A1 WILD-TYPE     12     16     13     11      9      9
D1021V11, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT1A1 MUTATED        0      0      0      1      0      0      2      0
  UGT1A1 WILD-TYPE     11      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  UGT1A1 MUTATED        1
  UGT1A1 WILD-TYPE      4
D1021V12, multiclass
        clus
vv       UGT1A1 MUTATED UGT1A1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1022) Variable = PTPRR MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRR MUTATED        1      0      0      0      0
  PTPRR WILD-TYPE     31     18     46     27     23
D1022V1, multiclass
[1] "Remove cluster labels:" "PTPRR MUTATED"         
clus
  PTPRR MUTATED PTPRR WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AY-4071 
"PTPRR WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRR MUTATED        1      0      0
  PTPRR WILD-TYPE     42     67     36
D1022V2, multiclass
[1] "Remove cluster labels:" "PTPRR MUTATED"         
clus
  PTPRR MUTATED PTPRR WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AY-4071 
"PTPRR WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRR MUTATED        0      1      9
  PTPRR WILD-TYPE     42    172    138
D1022V3, multiclass
        clus
vv       PTPRR MUTATED PTPRR WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRR MUTATED        5      0      4
  PTPRR WILD-TYPE     57     73     71
D1022V4, multiclass
        clus
vv       PTPRR MUTATED PTPRR WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRR MUTATED        1      2      6
  PTPRR WILD-TYPE     69    118     94
D1022V5, multiclass
        clus
vv       PTPRR MUTATED PTPRR WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRR MUTATED        0      0      0      1      1      4      2      1
  PTPRR WILD-TYPE     41     26     30     28     38     65     18     13
                 vv
clus              CLUS_9
  PTPRR MUTATED        0
  PTPRR WILD-TYPE     22
D1022V6, multiclass
        clus
vv       PTPRR MUTATED PTPRR WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRR MUTATED        1      6      2      1
  PTPRR WILD-TYPE     99     66     70    120
D1022V7, multiclass
        clus
vv       PTPRR MUTATED PTPRR WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRR MUTATED        0      2      7      0      1
  PTPRR WILD-TYPE     59     73     67    119     37
D1022V8, multiclass
        clus
vv       PTPRR MUTATED PTPRR WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             7              67
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRR MUTATED        2      5      1      0      2
  PTPRR WILD-TYPE     49     71     60     71     93
D1022V9, multiclass
        clus
vv       PTPRR MUTATED PTPRR WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRR MUTATED        1      2      1      3      2      0      0      0
  PTPRR WILD-TYPE     68     46     38     13     51     20     21     38
                 vv
clus              CLUS_9
  PTPRR MUTATED        1
  PTPRR WILD-TYPE     49
D1022V10, multiclass
        clus
vv       PTPRR MUTATED PTPRR WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPRR MUTATED        0      0      1      0      1      0
  PTPRR WILD-TYPE     13     16     13     11     10      9
D1022V11, multiclass
[1] "Remove cluster labels:" "PTPRR MUTATED"         
clus
  PTPRR MUTATED PTPRR WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRR MUTATED        0      0      0      0      1      0      1      0
  PTPRR WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  PTPRR MUTATED        0
  PTPRR WILD-TYPE      5
D1022V12, multiclass
[1] "Remove cluster labels:" "PTPRR MUTATED"         
clus
  PTPRR MUTATED PTPRR WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" "PTPRR WILD-TYPE" 

Clustering(1023) Variable = STK11 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK11 MUTATED        0      0      0      0      0
  STK11 WILD-TYPE     32     18     46     27     23
D1023V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED        0      0      0
  STK11 WILD-TYPE     43     67     36
D1023V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED        3     17     11
  STK11 WILD-TYPE     39    156    136
D1023V3, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             3              39
  CLUS_2            17             156
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED        7     11     13
  STK11 WILD-TYPE     55     62     62
D1023V4, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             7              55
  CLUS_2            11              62
  CLUS_3            13              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED        3     11      9
  STK11 WILD-TYPE     67    109     91
D1023V5, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             3              67
  CLUS_2            11             109
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK11 MUTATED        2      1      1      2      3      7      3      1
  STK11 WILD-TYPE     39     25     29     27     36     62     17     13
                 vv
clus              CLUS_9
  STK11 MUTATED        3
  STK11 WILD-TYPE     19
D1023V6, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6             7              62
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK11 MUTATED       13     10      7      1
  STK11 WILD-TYPE     87     62     65    120
D1023V7, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            13              87
  CLUS_2            10              62
  CLUS_3             7              65
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK11 MUTATED        6     14     10      1      0
  STK11 WILD-TYPE     53     61     64    118     38
D1023V8, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             6              53
  CLUS_2            14              61
  CLUS_3            10              64
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK11 MUTATED       12     12      4      3      0
  STK11 WILD-TYPE     39     64     57     68     95
D1023V9, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            12              39
  CLUS_2            12              64
  CLUS_3             4              57
  CLUS_4             3              68
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK11 MUTATED        9      7      5      1      5      4      0      0
  STK11 WILD-TYPE     60     41     34     15     48     16     21     38
                 vv
clus              CLUS_9
  STK11 MUTATED        0
  STK11 WILD-TYPE     50
D1023V10, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             9              60
  CLUS_2             7              41
  CLUS_3             5              34
  CLUS_4             1              15
  CLUS_5             5              48
  CLUS_6             4              16
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK11 MUTATED        3      1      0      0      1      1
  STK11 WILD-TYPE     10     15     14     11     10      8
D1023V11, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             3              10
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK11 MUTATED        0      0      1      0      0      0      1      3
  STK11 WILD-TYPE     11      7      6      9      8      7     10      6
                 vv
clus              CLUS_9
  STK11 MUTATED        1
  STK11 WILD-TYPE      4
D1023V12, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             3               6
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1024) Variable = AGFG2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGFG2 MUTATED        3      0      0      0      0
  AGFG2 WILD-TYPE     29     18     46     27     23
D1024V1, multiclass
        clus
vv       AGFG2 MUTATED AGFG2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGFG2 MUTATED        3      0      0
  AGFG2 WILD-TYPE     40     67     36
D1024V2, multiclass
        clus
vv       AGFG2 MUTATED AGFG2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGFG2 MUTATED        0      0      9
  AGFG2 WILD-TYPE     42    173    138
D1024V3, multiclass
        clus
vv       AGFG2 MUTATED AGFG2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGFG2 MUTATED        2      0      4
  AGFG2 WILD-TYPE     60     73     71
D1024V4, multiclass
        clus
vv       AGFG2 MUTATED AGFG2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGFG2 MUTATED        2      1      4
  AGFG2 WILD-TYPE     68    119     96
D1024V5, multiclass
        clus
vv       AGFG2 MUTATED AGFG2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGFG2 MUTATED        1      0      0      0      4      2      0      0
  AGFG2 WILD-TYPE     40     26     30     29     35     67     20     14
                 vv
clus              CLUS_9
  AGFG2 MUTATED        0
  AGFG2 WILD-TYPE     22
D1024V6, multiclass
        clus
vv       AGFG2 MUTATED AGFG2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             4              35
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AGFG2 MUTATED        0      4      2      3
  AGFG2 WILD-TYPE    100     68     70    118
D1024V7, multiclass
        clus
vv       AGFG2 MUTATED AGFG2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGFG2 MUTATED        1      0      5      0      3
  AGFG2 WILD-TYPE     58     75     69    119     35
D1024V8, multiclass
        clus
vv       AGFG2 MUTATED AGFG2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGFG2 MUTATED        0      4      1      0      4
  AGFG2 WILD-TYPE     51     72     60     71     91
D1024V9, multiclass
        clus
vv       AGFG2 MUTATED AGFG2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGFG2 MUTATED        2      2      0      1      0      1      0      3
  AGFG2 WILD-TYPE     67     46     39     15     53     19     21     35
                 vv
clus              CLUS_9
  AGFG2 MUTATED        0
  AGFG2 WILD-TYPE     50
D1024V10, multiclass
        clus
vv       AGFG2 MUTATED AGFG2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AGFG2 MUTATED        0      0      0      0      1      0
  AGFG2 WILD-TYPE     13     16     14     11     10      9
D1024V11, multiclass
[1] "Remove cluster labels:" "AGFG2 MUTATED"         
clus
  AGFG2 MUTATED AGFG2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-G4-6628 
"AGFG2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGFG2 MUTATED        0      0      0      0      0      0      1      0
  AGFG2 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  AGFG2 MUTATED        0
  AGFG2 WILD-TYPE      5
D1024V12, multiclass
[1] "Remove cluster labels:" "AGFG2 MUTATED"         
clus
  AGFG2 MUTATED AGFG2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" "AGFG2 WILD-TYPE" 
     TCGA-G4-6628 
"AGFG2 WILD-TYPE" 

Clustering(1025) Variable = MFSD9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFSD9 MUTATED        2      0      0      1      0
  MFSD9 WILD-TYPE     30     18     46     26     23
D1025V1, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD9 MUTATED        1      1      1
  MFSD9 WILD-TYPE     42     66     35
D1025V2, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD9 MUTATED        0      1     11
  MFSD9 WILD-TYPE     42    172    136
D1025V3, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD9 MUTATED        3      1      5
  MFSD9 WILD-TYPE     59     72     70
D1025V4, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD9 MUTATED        1      3      5
  MFSD9 WILD-TYPE     69    117     95
D1025V5, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MFSD9 MUTATED        0      2      0      1      1      5      0      0
  MFSD9 WILD-TYPE     41     24     30     28     38     64     20     14
                 vv
clus              CLUS_9
  MFSD9 MUTATED        0
  MFSD9 WILD-TYPE     22
D1025V6, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MFSD9 MUTATED        2      5      3      2
  MFSD9 WILD-TYPE     98     67     69    119
D1025V7, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFSD9 MUTATED        0      3      6      2      1
  MFSD9 WILD-TYPE     59     72     68    117     37
D1025V8, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFSD9 MUTATED        1      5      0      3      3
  MFSD9 WILD-TYPE     50     71     61     68     92
D1025V9, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             3              68
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MFSD9 MUTATED        2      1      0      2      4      1      0      1
  MFSD9 WILD-TYPE     67     47     39     14     49     19     21     37
                 vv
clus              CLUS_9
  MFSD9 MUTATED        1
  MFSD9 WILD-TYPE     49
D1025V10, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             4              49
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MFSD9 MUTATED        1      0      1      0      1      0
  MFSD9 WILD-TYPE     12     16     13     11     10      9
D1025V11, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MFSD9 MUTATED        0      0      0      1      1      1      0      0
  MFSD9 WILD-TYPE     11      7      7      8      7      6     11      9
                 vv
clus              CLUS_9
  MFSD9 MUTATED        0
  MFSD9 WILD-TYPE      5
D1025V12, multiclass
        clus
vv       MFSD9 MUTATED MFSD9 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1026) Variable = C7ORF66 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF66 MUTATED        1      0      0      0      0
  C7ORF66 WILD-TYPE     31     18     46     27     23
D1026V1, multiclass
[1] "Remove cluster labels:" "C7ORF66 MUTATED"       
clus
  C7ORF66 MUTATED C7ORF66 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AY-4071 
"C7ORF66 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF66 MUTATED        0      0      1
  C7ORF66 WILD-TYPE     43     67     35
D1026V2, multiclass
[1] "Remove cluster labels:" "C7ORF66 MUTATED"       
clus
  C7ORF66 MUTATED C7ORF66 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" "C7ORF66 WILD-TYPE" 
       TCGA-AY-4071 
"C7ORF66 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF66 MUTATED        1      1      5
  C7ORF66 WILD-TYPE     41    172    142
D1026V3, multiclass
        clus
vv       C7ORF66 MUTATED C7ORF66 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF66 MUTATED        2      1      3
  C7ORF66 WILD-TYPE     60     72     72
D1026V4, multiclass
        clus
vv       C7ORF66 MUTATED C7ORF66 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF66 MUTATED        1      1      3
  C7ORF66 WILD-TYPE     69    119     97
D1026V5, multiclass
        clus
vv       C7ORF66 MUTATED C7ORF66 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF66 MUTATED        3      0      0      0      0      2      0      0
  C7ORF66 WILD-TYPE     38     26     30     29     39     67     20     14
                   vv
clus                CLUS_9
  C7ORF66 MUTATED        0
  C7ORF66 WILD-TYPE     22
D1026V6, multiclass
        clus
vv       C7ORF66 MUTATED C7ORF66 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C7ORF66 MUTATED        1      1      4      1
  C7ORF66 WILD-TYPE     99     71     68    120
D1026V7, multiclass
        clus
vv       C7ORF66 MUTATED C7ORF66 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               4                68
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF66 MUTATED        1      2      3      1      0
  C7ORF66 WILD-TYPE     58     73     71    118     38
D1026V8, multiclass
        clus
vv       C7ORF66 MUTATED C7ORF66 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               3                71
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF66 MUTATED        1      3      1      2      0
  C7ORF66 WILD-TYPE     50     73     60     69     95
D1026V9, multiclass
        clus
vv       C7ORF66 MUTATED C7ORF66 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               2                69
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF66 MUTATED        2      2      1      1      1      0      0      0
  C7ORF66 WILD-TYPE     67     46     38     15     52     20     21     38
                   vv
clus                CLUS_9
  C7ORF66 MUTATED        0
  C7ORF66 WILD-TYPE     50
D1026V10, multiclass
        clus
vv       C7ORF66 MUTATED C7ORF66 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C7ORF66 MUTATED        0      1      1      0      1      0
  C7ORF66 WILD-TYPE     13     15     13     11     10      9
D1026V11, multiclass
        clus
vv       C7ORF66 MUTATED C7ORF66 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF66 MUTATED        1      1      0      0      0      1      0      0
  C7ORF66 WILD-TYPE     10      6      7      9      8      6     11      9
                   vv
clus                CLUS_9
  C7ORF66 MUTATED        0
  C7ORF66 WILD-TYPE      5
D1026V12, multiclass
        clus
vv       C7ORF66 MUTATED C7ORF66 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1027) Variable = MCART1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCART1 MUTATED        2      0      0      0      0
  MCART1 WILD-TYPE     30     18     46     27     23
D1027V1, multiclass
[1] "Remove cluster labels:" "MCART1 MUTATED"        
clus
  MCART1 MUTATED MCART1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MCART1 MUTATED        2      0      0
  MCART1 WILD-TYPE     41     67     36
D1027V2, multiclass
[1] "Remove cluster labels:" "MCART1 MUTATED"        
clus
  MCART1 MUTATED MCART1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" "MCART1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MCART1 MUTATED        3      1      8
  MCART1 WILD-TYPE     39    172    139
D1027V3, multiclass
        clus
vv       MCART1 MUTATED MCART1 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MCART1 MUTATED        4      0      6
  MCART1 WILD-TYPE     58     73     69
D1027V4, multiclass
        clus
vv       MCART1 MUTATED MCART1 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MCART1 MUTATED        1      4      5
  MCART1 WILD-TYPE     69    116     95
D1027V5, multiclass
        clus
vv       MCART1 MUTATED MCART1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MCART1 MUTATED        0      1      1      1      3      2      1      1
  MCART1 WILD-TYPE     41     25     29     28     36     67     19     13
                  vv
clus               CLUS_9
  MCART1 MUTATED        0
  MCART1 WILD-TYPE     22
D1027V6, multiclass
        clus
vv       MCART1 MUTATED MCART1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MCART1 MUTATED        1      7      2      2
  MCART1 WILD-TYPE     99     65     70    119
D1027V7, multiclass
        clus
vv       MCART1 MUTATED MCART1 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              7               65
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCART1 MUTATED        2      3      4      1      2
  MCART1 WILD-TYPE     57     72     70    118     36
D1027V8, multiclass
        clus
vv       MCART1 MUTATED MCART1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCART1 MUTATED        1      4      2      1      4
  MCART1 WILD-TYPE     50     72     59     70     91
D1027V9, multiclass
        clus
vv       MCART1 MUTATED MCART1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MCART1 MUTATED        3      0      0      3      1      1      1      2
  MCART1 WILD-TYPE     66     48     39     13     52     19     20     36
                  vv
clus               CLUS_9
  MCART1 MUTATED        1
  MCART1 WILD-TYPE     49
D1027V10, multiclass
        clus
vv       MCART1 MUTATED MCART1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MCART1 MUTATED        1      1      0      0      1      0
  MCART1 WILD-TYPE     12     15     14     11     10      9
D1027V11, multiclass
        clus
vv       MCART1 MUTATED MCART1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MCART1 MUTATED        1      0      0      1      0      0      0      1
  MCART1 WILD-TYPE     10      7      7      8      8      7     11      8
                  vv
clus               CLUS_9
  MCART1 MUTATED        0
  MCART1 WILD-TYPE      5
D1027V12, multiclass
        clus
vv       MCART1 MUTATED MCART1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1028) Variable = P2RX7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  P2RX7 MUTATED        1      0      1      0      0
  P2RX7 WILD-TYPE     31     18     45     27     23
D1028V1, multiclass
[1] "Remove cluster labels:" "P2RX7 MUTATED"         
clus
  P2RX7 MUTATED P2RX7 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  P2RX7 MUTATED        1      1      0
  P2RX7 WILD-TYPE     42     66     36
D1028V2, multiclass
[1] "Remove cluster labels:" "P2RX7 MUTATED"         
clus
  P2RX7 MUTATED P2RX7 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  P2RX7 MUTATED        1      4      7
  P2RX7 WILD-TYPE     41    169    140
D1028V3, multiclass
        clus
vv       P2RX7 MUTATED P2RX7 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  P2RX7 MUTATED        2      1      7
  P2RX7 WILD-TYPE     60     72     68
D1028V4, multiclass
        clus
vv       P2RX7 MUTATED P2RX7 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  P2RX7 MUTATED        2      3      3
  P2RX7 WILD-TYPE     68    117     97
D1028V5, multiclass
        clus
vv       P2RX7 MUTATED P2RX7 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  P2RX7 MUTATED        0      1      1      1      0      2      0      0
  P2RX7 WILD-TYPE     41     25     29     28     39     67     20     14
                 vv
clus              CLUS_9
  P2RX7 MUTATED        3
  P2RX7 WILD-TYPE     19
D1028V6, multiclass
        clus
vv       P2RX7 MUTATED P2RX7 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  P2RX7 MUTATED        4      3      4      1
  P2RX7 WILD-TYPE     96     69     68    120
D1028V7, multiclass
        clus
vv       P2RX7 MUTATED P2RX7 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  P2RX7 MUTATED        1      4      5      1      1
  P2RX7 WILD-TYPE     58     71     69    118     37
D1028V8, multiclass
        clus
vv       P2RX7 MUTATED P2RX7 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  P2RX7 MUTATED        3      5      2      1      1
  P2RX7 WILD-TYPE     48     71     59     70     94
D1028V9, multiclass
        clus
vv       P2RX7 MUTATED P2RX7 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  P2RX7 MUTATED        3      3      1      1      3      0      0      1
  P2RX7 WILD-TYPE     66     45     38     15     50     20     21     37
                 vv
clus              CLUS_9
  P2RX7 MUTATED        0
  P2RX7 WILD-TYPE     50
D1028V10, multiclass
        clus
vv       P2RX7 MUTATED P2RX7 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  P2RX7 MUTATED        0      0      0      0      1      0
  P2RX7 WILD-TYPE     13     16     14     11     10      9
D1028V11, multiclass
[1] "Remove cluster labels:" "P2RX7 MUTATED"         
clus
  P2RX7 MUTATED P2RX7 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A282 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-G4-6628 
"P2RX7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  P2RX7 MUTATED        0      0      0      1      0      0      0      0
  P2RX7 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  P2RX7 MUTATED        0
  P2RX7 WILD-TYPE      5
D1028V12, multiclass
[1] "Remove cluster labels:" "P2RX7 MUTATED"         
clus
  P2RX7 MUTATED P2RX7 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A282 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" "P2RX7 WILD-TYPE" 
     TCGA-G4-6628 
"P2RX7 WILD-TYPE" 

Clustering(1029) Variable = SSX2IP MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SSX2IP MUTATED        0      0      0      2      0
  SSX2IP WILD-TYPE     32     18     46     25     23
D1029V1, multiclass
[1] "Remove cluster labels:" "SSX2IP MUTATED"        
clus
  SSX2IP MUTATED SSX2IP WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3560       TCGA-AA-3561 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SSX2IP MUTATED        0      2      0
  SSX2IP WILD-TYPE     43     65     36
D1029V2, multiclass
[1] "Remove cluster labels:" "SSX2IP MUTATED"        
clus
  SSX2IP MUTATED SSX2IP WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3560       TCGA-AA-3561 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SSX2IP MUTATED        1      3      4
  SSX2IP WILD-TYPE     41    170    143
D1029V3, multiclass
        clus
vv       SSX2IP MUTATED SSX2IP WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SSX2IP MUTATED        2      0      3
  SSX2IP WILD-TYPE     60     73     72
D1029V4, multiclass
        clus
vv       SSX2IP MUTATED SSX2IP WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SSX2IP MUTATED        2      2      3
  SSX2IP WILD-TYPE     68    118     97
D1029V5, multiclass
        clus
vv       SSX2IP MUTATED SSX2IP WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SSX2IP MUTATED        1      0      2      1      1      1      1      0
  SSX2IP WILD-TYPE     40     26     28     28     38     68     19     14
                  vv
clus               CLUS_9
  SSX2IP MUTATED        0
  SSX2IP WILD-TYPE     22
D1029V6, multiclass
        clus
vv       SSX2IP MUTATED SSX2IP WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SSX2IP MUTATED        1      2      2      2
  SSX2IP WILD-TYPE     99     70     70    119
D1029V7, multiclass
        clus
vv       SSX2IP MUTATED SSX2IP WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SSX2IP MUTATED        2      0      3      1      1
  SSX2IP WILD-TYPE     57     75     71    118     37
D1029V8, multiclass
        clus
vv       SSX2IP MUTATED SSX2IP WILD-TYPE
  CLUS_1              2               57
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SSX2IP MUTATED        1      1      2      0      4
  SSX2IP WILD-TYPE     50     75     59     71     91
D1029V9, multiclass
        clus
vv       SSX2IP MUTATED SSX2IP WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SSX2IP MUTATED        1      3      0      0      0      1      0      2
  SSX2IP WILD-TYPE     68     45     39     16     53     19     21     36
                  vv
clus               CLUS_9
  SSX2IP MUTATED        1
  SSX2IP WILD-TYPE     49
D1029V10, multiclass
        clus
vv       SSX2IP MUTATED SSX2IP WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SSX2IP MUTATED        0      1      0      0      0      1
  SSX2IP WILD-TYPE     13     15     14     11     11      8
D1029V11, multiclass
[1] "Remove cluster labels:" "SSX2IP MUTATED"        
clus
  SSX2IP MUTATED SSX2IP WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-6598 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SSX2IP MUTATED        2      0      0      0      0      0      0      0
  SSX2IP WILD-TYPE      9      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  SSX2IP MUTATED        0
  SSX2IP WILD-TYPE      5
D1029V12, multiclass
[1] "Remove cluster labels:" "SSX2IP MUTATED"        
clus
  SSX2IP MUTATED SSX2IP WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-6598 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" "SSX2IP WILD-TYPE" 

Clustering(1030) Variable = MRPS5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPS5 MUTATED        1      0      0      1      0
  MRPS5 WILD-TYPE     31     18     46     26     23
D1030V1, multiclass
[1] "Remove cluster labels:" "MRPS5 MUTATED"         
clus
  MRPS5 MUTATED MRPS5 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MRPS5 MUTATED        2      0      0
  MRPS5 WILD-TYPE     41     67     36
D1030V2, multiclass
[1] "Remove cluster labels:" "MRPS5 MUTATED"         
clus
  MRPS5 MUTATED MRPS5 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MRPS5 MUTATED        2      1      8
  MRPS5 WILD-TYPE     40    172    139
D1030V3, multiclass
        clus
vv       MRPS5 MUTATED MRPS5 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MRPS5 MUTATED        2      4      3
  MRPS5 WILD-TYPE     60     69     72
D1030V4, multiclass
        clus
vv       MRPS5 MUTATED MRPS5 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             4              69
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MRPS5 MUTATED        1      4      5
  MRPS5 WILD-TYPE     69    116     95
D1030V5, multiclass
        clus
vv       MRPS5 MUTATED MRPS5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPS5 MUTATED        1      1      0      1      0      3      3      0
  MRPS5 WILD-TYPE     40     25     30     28     39     66     17     14
                 vv
clus              CLUS_9
  MRPS5 MUTATED        1
  MRPS5 WILD-TYPE     21
D1030V6, multiclass
        clus
vv       MRPS5 MUTATED MRPS5 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MRPS5 MUTATED        3      5      1      2
  MRPS5 WILD-TYPE     97     67     71    119
D1030V7, multiclass
        clus
vv       MRPS5 MUTATED MRPS5 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPS5 MUTATED        1      3      5      1      1
  MRPS5 WILD-TYPE     58     72     69    118     37
D1030V8, multiclass
        clus
vv       MRPS5 MUTATED MRPS5 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPS5 MUTATED        3      5      1      0      1
  MRPS5 WILD-TYPE     48     71     60     71     94
D1030V9, multiclass
        clus
vv       MRPS5 MUTATED MRPS5 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPS5 MUTATED        5      1      0      0      2      1      1      0
  MRPS5 WILD-TYPE     64     47     39     16     51     19     20     38
                 vv
clus              CLUS_9
  MRPS5 MUTATED        0
  MRPS5 WILD-TYPE     50
D1030V10, multiclass
        clus
vv       MRPS5 MUTATED MRPS5 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MRPS5 MUTATED        0      1      0      0      0      0
  MRPS5 WILD-TYPE     13     15     14     11     11      9
D1030V11, multiclass
[1] "Remove cluster labels:" "MRPS5 MUTATED"         
clus
  MRPS5 MUTATED MRPS5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-G4-6628 
"MRPS5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPS5 MUTATED        1      0      0      0      0      0      0      0
  MRPS5 WILD-TYPE     10      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  MRPS5 MUTATED        0
  MRPS5 WILD-TYPE      5
D1030V12, multiclass
[1] "Remove cluster labels:" "MRPS5 MUTATED"         
clus
  MRPS5 MUTATED MRPS5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" "MRPS5 WILD-TYPE" 
     TCGA-G4-6628 
"MRPS5 WILD-TYPE" 

Clustering(1031) Variable = DUSP19 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP19 MUTATED        0      0      0      1      0
  DUSP19 WILD-TYPE     32     18     46     26     23
D1031V1, multiclass
[1] "Remove cluster labels:" "DUSP19 MUTATED"        
clus
  DUSP19 MUTATED DUSP19 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AY-4071 
"DUSP19 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DUSP19 MUTATED        1      0      0
  DUSP19 WILD-TYPE     42     67     36
D1031V2, multiclass
[1] "Remove cluster labels:" "DUSP19 MUTATED"        
clus
  DUSP19 MUTATED DUSP19 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AY-4071 
"DUSP19 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DUSP19 MUTATED        0      4      5
  DUSP19 WILD-TYPE     42    169    142
D1031V3, multiclass
        clus
vv       DUSP19 MUTATED DUSP19 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DUSP19 MUTATED        3      2      3
  DUSP19 WILD-TYPE     59     71     72
D1031V4, multiclass
        clus
vv       DUSP19 MUTATED DUSP19 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DUSP19 MUTATED        1      4      4
  DUSP19 WILD-TYPE     69    116     96
D1031V5, multiclass
        clus
vv       DUSP19 MUTATED DUSP19 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP19 MUTATED        1      0      0      1      0      5      0      0
  DUSP19 WILD-TYPE     40     26     30     28     39     64     20     14
                  vv
clus               CLUS_9
  DUSP19 MUTATED        2
  DUSP19 WILD-TYPE     20
D1031V6, multiclass
        clus
vv       DUSP19 MUTATED DUSP19 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DUSP19 MUTATED        1      2      4      2
  DUSP19 WILD-TYPE     99     70     68    119
D1031V7, multiclass
        clus
vv       DUSP19 MUTATED DUSP19 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              4               68
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP19 MUTATED        2      3      2      1      1
  DUSP19 WILD-TYPE     57     72     72    118     37
D1031V8, multiclass
        clus
vv       DUSP19 MUTATED DUSP19 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP19 MUTATED        4      2      1      0      1
  DUSP19 WILD-TYPE     47     74     60     71     94
D1031V9, multiclass
        clus
vv       DUSP19 MUTATED DUSP19 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP19 MUTATED        3      2      0      0      2      0      0      0
  DUSP19 WILD-TYPE     66     46     39     16     51     20     21     38
                  vv
clus               CLUS_9
  DUSP19 MUTATED        1
  DUSP19 WILD-TYPE     49
D1031V10, multiclass
        clus
vv       DUSP19 MUTATED DUSP19 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DUSP19 MUTATED        0      1      0      0      0      0
  DUSP19 WILD-TYPE     13     15     14     11     11      9
D1031V11, multiclass
[1] "Remove cluster labels:" "DUSP19 MUTATED"        
clus
  DUSP19 MUTATED DUSP19 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CK-5916 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-G4-6628 
"DUSP19 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP19 MUTATED        0      0      1      0      0      0      0      0
  DUSP19 WILD-TYPE     11      7      6      9      8      7     11      9
                  vv
clus               CLUS_9
  DUSP19 MUTATED        0
  DUSP19 WILD-TYPE      5
D1031V12, multiclass
[1] "Remove cluster labels:" "DUSP19 MUTATED"        
clus
  DUSP19 MUTATED DUSP19 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CK-5916 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" "DUSP19 WILD-TYPE" 
      TCGA-G4-6628 
"DUSP19 WILD-TYPE" 

Clustering(1032) Variable = STK35 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK35 MUTATED        1      0      0      0      0
  STK35 WILD-TYPE     31     18     46     27     23
D1032V1, multiclass
[1] "Remove cluster labels:" "STK35 MUTATED"         
clus
  STK35 MUTATED STK35 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AY-4071 
"STK35 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK35 MUTATED        1      0      0
  STK35 WILD-TYPE     42     67     36
D1032V2, multiclass
[1] "Remove cluster labels:" "STK35 MUTATED"         
clus
  STK35 MUTATED STK35 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AY-4071 
"STK35 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK35 MUTATED        0      0      6
  STK35 WILD-TYPE     42    173    141
D1032V3, multiclass
        clus
vv       STK35 MUTATED STK35 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK35 MUTATED        2      0      3
  STK35 WILD-TYPE     60     73     72
D1032V4, multiclass
        clus
vv       STK35 MUTATED STK35 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK35 MUTATED        2      0      3
  STK35 WILD-TYPE     68    120     97
D1032V5, multiclass
        clus
vv       STK35 MUTATED STK35 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             0             120
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK35 MUTATED        1      0      0      0      0      2      1      1
  STK35 WILD-TYPE     40     26     30     29     39     67     19     13
                 vv
clus              CLUS_9
  STK35 MUTATED        0
  STK35 WILD-TYPE     22
D1032V6, multiclass
        clus
vv       STK35 MUTATED STK35 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK35 MUTATED        0      2      3      1
  STK35 WILD-TYPE    100     70     69    120
D1032V7, multiclass
        clus
vv       STK35 MUTATED STK35 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK35 MUTATED        1      1      3      0      1
  STK35 WILD-TYPE     58     74     71    119     37
D1032V8, multiclass
        clus
vv       STK35 MUTATED STK35 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK35 MUTATED        0      4      1      0      1
  STK35 WILD-TYPE     51     72     60     71     94
D1032V9, multiclass
        clus
vv       STK35 MUTATED STK35 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK35 MUTATED        1      1      1      2      0      0      0      1
  STK35 WILD-TYPE     68     47     38     14     53     20     21     37
                 vv
clus              CLUS_9
  STK35 MUTATED        0
  STK35 WILD-TYPE     50
D1032V10, multiclass
        clus
vv       STK35 MUTATED STK35 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK35 MUTATED        0      1      0      0      1      0
  STK35 WILD-TYPE     13     15     14     11     10      9
D1032V11, multiclass
[1] "Remove cluster labels:" "STK35 MUTATED"         
clus
  STK35 MUTATED STK35 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6653      TCGA-A6-6654 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK35 MUTATED        0      1      0      0      1      0      0      0
  STK35 WILD-TYPE     11      6      7      9      7      7     11      9
                 vv
clus              CLUS_9
  STK35 MUTATED        0
  STK35 WILD-TYPE      5
D1032V12, multiclass
[1] "Remove cluster labels:" "STK35 MUTATED"         
clus
  STK35 MUTATED STK35 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6653      TCGA-A6-6654 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" "STK35 WILD-TYPE" 

Clustering(1033) Variable = CCDC110 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC110 MUTATED        2      0      0      2      0
  CCDC110 WILD-TYPE     30     18     46     25     23
D1033V1, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC110 MUTATED        1      2      1
  CCDC110 WILD-TYPE     42     65     35
D1033V2, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               2                65
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC110 MUTATED        1      1     11
  CCDC110 WILD-TYPE     41    172    136
D1033V3, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3              11               136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC110 MUTATED        3      1      5
  CCDC110 WILD-TYPE     59     72     70
D1033V4, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC110 MUTATED        1      6      3
  CCDC110 WILD-TYPE     69    114     97
D1033V5, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               6               114
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC110 MUTATED        2      1      1      4      0      1      1      0
  CCDC110 WILD-TYPE     39     25     29     25     39     68     19     14
                   vv
clus                CLUS_9
  CCDC110 MUTATED        0
  CCDC110 WILD-TYPE     22
D1033V6, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               4                25
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC110 MUTATED        0      5      4      4
  CCDC110 WILD-TYPE    100     67     68    117
D1033V7, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               5                67
  CLUS_3               4                68
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC110 MUTATED        2      0      6      4      1
  CCDC110 WILD-TYPE     57     75     68    115     37
D1033V8, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               0                75
  CLUS_3               6                68
  CLUS_4               4               115
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC110 MUTATED        0      6      2      1      4
  CCDC110 WILD-TYPE     51     70     59     70     91
D1033V9, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               6                70
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC110 MUTATED        1      4      0      3      2      1      0      1
  CCDC110 WILD-TYPE     68     44     39     13     51     19     21     37
                   vv
clus                CLUS_9
  CCDC110 MUTATED        1
  CCDC110 WILD-TYPE     49
D1033V10, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC110 MUTATED        0      0      0      0      3      0
  CCDC110 WILD-TYPE     13     16     14     11      8      9
D1033V11, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC110 MUTATED        0      0      0      1      1      0      1      0
  CCDC110 WILD-TYPE     11      7      7      8      7      7     10      9
                   vv
clus                CLUS_9
  CCDC110 MUTATED        0
  CCDC110 WILD-TYPE      5
D1033V12, multiclass
        clus
vv       CCDC110 MUTATED CCDC110 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1034) Variable = RC3H2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RC3H2 MUTATED        0      0      0      1      0
  RC3H2 WILD-TYPE     32     18     46     26     23
D1034V1, multiclass
[1] "Remove cluster labels:" "RC3H2 MUTATED"         
clus
  RC3H2 MUTATED RC3H2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AY-4071 
"RC3H2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RC3H2 MUTATED        1      0      0
  RC3H2 WILD-TYPE     42     67     36
D1034V2, multiclass
[1] "Remove cluster labels:" "RC3H2 MUTATED"         
clus
  RC3H2 MUTATED RC3H2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" "RC3H2 WILD-TYPE" 
     TCGA-AY-4071 
"RC3H2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RC3H2 MUTATED        0      3      6
  RC3H2 WILD-TYPE     42    170    141
D1034V3, multiclass
        clus
vv       RC3H2 MUTATED RC3H2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RC3H2 MUTATED        4      1      3
  RC3H2 WILD-TYPE     58     72     72
D1034V4, multiclass
        clus
vv       RC3H2 MUTATED RC3H2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RC3H2 MUTATED        1      3      5
  RC3H2 WILD-TYPE     69    117     95
D1034V5, multiclass
        clus
vv       RC3H2 MUTATED RC3H2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RC3H2 MUTATED        2      1      0      0      1      4      0      1
  RC3H2 WILD-TYPE     39     25     30     29     38     65     20     13
                 vv
clus              CLUS_9
  RC3H2 MUTATED        0
  RC3H2 WILD-TYPE     22
D1034V6, multiclass
        clus
vv       RC3H2 MUTATED RC3H2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RC3H2 MUTATED        1      3      4      1
  RC3H2 WILD-TYPE     99     69     68    120
D1034V7, multiclass
        clus
vv       RC3H2 MUTATED RC3H2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RC3H2 MUTATED        3      1      4      0      1
  RC3H2 WILD-TYPE     56     74     70    119     37
D1034V8, multiclass
        clus
vv       RC3H2 MUTATED RC3H2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RC3H2 MUTATED        2      4      1      1      1
  RC3H2 WILD-TYPE     49     72     60     70     94
D1034V9, multiclass
        clus
vv       RC3H2 MUTATED RC3H2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RC3H2 MUTATED        3      3      1      1      0      0      0      1
  RC3H2 WILD-TYPE     66     45     38     15     53     20     21     37
                 vv
clus              CLUS_9
  RC3H2 MUTATED        0
  RC3H2 WILD-TYPE     50
D1034V10, multiclass
        clus
vv       RC3H2 MUTATED RC3H2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RC3H2 MUTATED        0      0      1      2      0      0
  RC3H2 WILD-TYPE     13     16     13      9     11      9
D1034V11, multiclass
        clus
vv       RC3H2 MUTATED RC3H2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             2               9
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RC3H2 MUTATED        0      0      1      0      0      1      1      0
  RC3H2 WILD-TYPE     11      7      6      9      8      6     10      9
                 vv
clus              CLUS_9
  RC3H2 MUTATED        0
  RC3H2 WILD-TYPE      5
D1034V12, multiclass
        clus
vv       RC3H2 MUTATED RC3H2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1035) Variable = LEO1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEO1 MUTATED        0      0      0      2      0
  LEO1 WILD-TYPE     32     18     46     25     23
D1035V1, multiclass
[1] "Remove cluster labels:" "LEO1 MUTATED"          
clus
  LEO1 MUTATED LEO1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LEO1 MUTATED        2      0      0
  LEO1 WILD-TYPE     41     67     36
D1035V2, multiclass
[1] "Remove cluster labels:" "LEO1 MUTATED"          
clus
  LEO1 MUTATED LEO1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" "LEO1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LEO1 MUTATED        1      2      7
  LEO1 WILD-TYPE     41    171    140
D1035V3, multiclass
        clus
vv       LEO1 MUTATED LEO1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LEO1 MUTATED        4      1      3
  LEO1 WILD-TYPE     58     72     72
D1035V4, multiclass
        clus
vv       LEO1 MUTATED LEO1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LEO1 MUTATED        1      4      4
  LEO1 WILD-TYPE     69    116     96
D1035V5, multiclass
        clus
vv       LEO1 MUTATED LEO1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LEO1 MUTATED        1      2      0      1      1      3      0      0      1
  LEO1 WILD-TYPE     40     24     30     28     38     66     20     14     21
D1035V6, multiclass
        clus
vv       LEO1 MUTATED LEO1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LEO1 MUTATED        0      3      4      3
  LEO1 WILD-TYPE    100     69     68    118
D1035V7, multiclass
        clus
vv       LEO1 MUTATED LEO1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            3             69
  CLUS_3            4             68
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEO1 MUTATED        3      2      2      1      2
  LEO1 WILD-TYPE     56     73     72    118     36
D1035V8, multiclass
        clus
vv       LEO1 MUTATED LEO1 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEO1 MUTATED        0      2      4      0      3
  LEO1 WILD-TYPE     51     74     57     71     92
D1035V9, multiclass
        clus
vv       LEO1 MUTATED LEO1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            4             57
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LEO1 MUTATED        1      3      0      1      1      0      0      1      2
  LEO1 WILD-TYPE     68     45     39     15     52     20     21     37     48
D1035V10, multiclass
        clus
vv       LEO1 MUTATED LEO1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LEO1 MUTATED        0      1      0      0      1      1
  LEO1 WILD-TYPE     13     15     14     11     10      8
D1035V11, multiclass
        clus
vv       LEO1 MUTATED LEO1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LEO1 MUTATED        1      1      0      1      0      0      0      0      0
  LEO1 WILD-TYPE     10      6      7      8      8      7     11      9      5
D1035V12, multiclass
        clus
vv       LEO1 MUTATED LEO1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1036) Variable = ANKRD23 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD23 MUTATED        0      0      0      0      0
  ANKRD23 WILD-TYPE     32     18     46     27     23
D1036V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD23 MUTATED        0      0      0
  ANKRD23 WILD-TYPE     43     67     36
D1036V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD23 MUTATED        0      0      4
  ANKRD23 WILD-TYPE     42    173    143
D1036V3, multiclass
        clus
vv       ANKRD23 MUTATED ANKRD23 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD23 MUTATED        2      0      2
  ANKRD23 WILD-TYPE     60     73     73
D1036V4, multiclass
        clus
vv       ANKRD23 MUTATED ANKRD23 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD23 MUTATED        1      0      3
  ANKRD23 WILD-TYPE     69    120     97
D1036V5, multiclass
        clus
vv       ANKRD23 MUTATED ANKRD23 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               0               120
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD23 MUTATED        0      0      0      0      1      3      0      0
  ANKRD23 WILD-TYPE     41     26     30     29     38     66     20     14
                   vv
clus                CLUS_9
  ANKRD23 MUTATED        0
  ANKRD23 WILD-TYPE     22
D1036V6, multiclass
        clus
vv       ANKRD23 MUTATED ANKRD23 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKRD23 MUTATED        0      3      1      0
  ANKRD23 WILD-TYPE    100     69     71    121
D1036V7, multiclass
        clus
vv       ANKRD23 MUTATED ANKRD23 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               1                71
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD23 MUTATED        0      0      4      0      0
  ANKRD23 WILD-TYPE     59     75     70    119     38
D1036V8, multiclass
        clus
vv       ANKRD23 MUTATED ANKRD23 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               4                70
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD23 MUTATED        0      3      0      0      1
  ANKRD23 WILD-TYPE     51     73     61     71     94
D1036V9, multiclass
        clus
vv       ANKRD23 MUTATED ANKRD23 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD23 MUTATED        1      0      0      2      0      0      0      1
  ANKRD23 WILD-TYPE     68     48     39     14     53     20     21     37
                   vv
clus                CLUS_9
  ANKRD23 MUTATED        0
  ANKRD23 WILD-TYPE     50
D1036V10, multiclass
        clus
vv       ANKRD23 MUTATED ANKRD23 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANKRD23 MUTATED        0      0      1      0      0      0
  ANKRD23 WILD-TYPE     13     16     13     11     11      9
D1036V11, multiclass
[1] "Remove cluster labels:" "ANKRD23 MUTATED"       
clus
  ANKRD23 MUTATED ANKRD23 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-G4-6625 
"ANKRD23 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD23 MUTATED        0      0      0      0      0      0      1      0
  ANKRD23 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  ANKRD23 MUTATED        0
  ANKRD23 WILD-TYPE      5
D1036V12, multiclass
[1] "Remove cluster labels:" "ANKRD23 MUTATED"       
clus
  ANKRD23 MUTATED ANKRD23 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" "ANKRD23 WILD-TYPE" 
       TCGA-G4-6625 
"ANKRD23 WILD-TYPE" 

Clustering(1037) Variable = FBXL19 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXL19 MUTATED        1      0      0      0      0
  FBXL19 WILD-TYPE     31     18     46     27     23
D1037V1, multiclass
[1] "Remove cluster labels:" "FBXL19 MUTATED"        
clus
  FBXL19 MUTATED FBXL19 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AY-4071 
"FBXL19 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXL19 MUTATED        1      0      0
  FBXL19 WILD-TYPE     42     67     36
D1037V2, multiclass
[1] "Remove cluster labels:" "FBXL19 MUTATED"        
clus
  FBXL19 MUTATED FBXL19 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AY-4071 
"FBXL19 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXL19 MUTATED        0      3      4
  FBXL19 WILD-TYPE     42    170    143
D1037V3, multiclass
        clus
vv       FBXL19 MUTATED FBXL19 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXL19 MUTATED        2      2      2
  FBXL19 WILD-TYPE     60     71     73
D1037V4, multiclass
        clus
vv       FBXL19 MUTATED FBXL19 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXL19 MUTATED        1      5      0
  FBXL19 WILD-TYPE     69    115    100
D1037V5, multiclass
        clus
vv       FBXL19 MUTATED FBXL19 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              0              100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXL19 MUTATED        0      2      0      1      0      0      1      1
  FBXL19 WILD-TYPE     41     24     30     28     39     69     19     13
                  vv
clus               CLUS_9
  FBXL19 MUTATED        1
  FBXL19 WILD-TYPE     21
D1037V6, multiclass
        clus
vv       FBXL19 MUTATED FBXL19 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              0               69
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXL19 MUTATED        2      3      1      1
  FBXL19 WILD-TYPE     98     69     71    120
D1037V7, multiclass
        clus
vv       FBXL19 MUTATED FBXL19 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXL19 MUTATED        1      3      1      1      1
  FBXL19 WILD-TYPE     58     72     73    118     37
D1037V8, multiclass
        clus
vv       FBXL19 MUTATED FBXL19 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXL19 MUTATED        2      2      1      0      2
  FBXL19 WILD-TYPE     49     74     60     71     93
D1037V9, multiclass
        clus
vv       FBXL19 MUTATED FBXL19 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXL19 MUTATED        1      1      0      1      0      2      1      1
  FBXL19 WILD-TYPE     68     47     39     15     53     18     20     37
                  vv
clus               CLUS_9
  FBXL19 MUTATED        0
  FBXL19 WILD-TYPE     50
D1037V10, multiclass
        clus
vv       FBXL19 MUTATED FBXL19 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FBXL19 MUTATED        0      1      0      0      1      0
  FBXL19 WILD-TYPE     13     15     14     11     10      9
D1037V11, multiclass
[1] "Remove cluster labels:" "FBXL19 MUTATED"        
clus
  FBXL19 MUTATED FBXL19 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-G4-6299 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6625       TCGA-G4-6628 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXL19 MUTATED        0      1      0      1      0      0      0      0
  FBXL19 WILD-TYPE     11      6      7      8      8      7     11      9
                  vv
clus               CLUS_9
  FBXL19 MUTATED        0
  FBXL19 WILD-TYPE      5
D1037V12, multiclass
[1] "Remove cluster labels:" "FBXL19 MUTATED"        
clus
  FBXL19 MUTATED FBXL19 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-G4-6299 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6625       TCGA-G4-6628 
"FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" "FBXL19 WILD-TYPE" 

Clustering(1038) Variable = BFSP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BFSP1 MUTATED        1      0      0      0      0
  BFSP1 WILD-TYPE     31     18     46     27     23
D1038V1, multiclass
[1] "Remove cluster labels:" "BFSP1 MUTATED"         
clus
  BFSP1 MUTATED BFSP1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AY-4071 
"BFSP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BFSP1 MUTATED        0      0      1
  BFSP1 WILD-TYPE     43     67     35
D1038V2, multiclass
[1] "Remove cluster labels:" "BFSP1 MUTATED"         
clus
  BFSP1 MUTATED BFSP1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" "BFSP1 WILD-TYPE" 
     TCGA-AY-4071 
"BFSP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BFSP1 MUTATED        2      3      3
  BFSP1 WILD-TYPE     40    170    144
D1038V3, multiclass
        clus
vv       BFSP1 MUTATED BFSP1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BFSP1 MUTATED        3      0      4
  BFSP1 WILD-TYPE     59     73     71
D1038V4, multiclass
        clus
vv       BFSP1 MUTATED BFSP1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BFSP1 MUTATED        3      2      1
  BFSP1 WILD-TYPE     67    118     99
D1038V5, multiclass
        clus
vv       BFSP1 MUTATED BFSP1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             2             118
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BFSP1 MUTATED        1      1      0      1      0      1      1      1
  BFSP1 WILD-TYPE     40     25     30     28     39     68     19     13
                 vv
clus              CLUS_9
  BFSP1 MUTATED        0
  BFSP1 WILD-TYPE     22
D1038V6, multiclass
        clus
vv       BFSP1 MUTATED BFSP1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BFSP1 MUTATED        2      2      3      1
  BFSP1 WILD-TYPE     98     70     69    120
D1038V7, multiclass
        clus
vv       BFSP1 MUTATED BFSP1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BFSP1 MUTATED        2      1      4      1      0
  BFSP1 WILD-TYPE     57     74     70    118     38
D1038V8, multiclass
        clus
vv       BFSP1 MUTATED BFSP1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BFSP1 MUTATED        1      3      3      1      0
  BFSP1 WILD-TYPE     50     73     58     70     95
D1038V9, multiclass
        clus
vv       BFSP1 MUTATED BFSP1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BFSP1 MUTATED        3      2      0      1      2      0      0      0
  BFSP1 WILD-TYPE     66     46     39     15     51     20     21     38
                 vv
clus              CLUS_9
  BFSP1 MUTATED        0
  BFSP1 WILD-TYPE     50
D1038V10, multiclass
        clus
vv       BFSP1 MUTATED BFSP1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BFSP1 MUTATED        0      1      2      0      1      1
  BFSP1 WILD-TYPE     13     15     12     11     10      8
D1038V11, multiclass
        clus
vv       BFSP1 MUTATED BFSP1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BFSP1 MUTATED        0      1      0      0      3      1      0      0
  BFSP1 WILD-TYPE     11      6      7      9      5      6     11      9
                 vv
clus              CLUS_9
  BFSP1 MUTATED        0
  BFSP1 WILD-TYPE      5
D1038V12, multiclass
        clus
vv       BFSP1 MUTATED BFSP1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             3               5
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1039) Variable = C18ORF19 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C18ORF19 MUTATED        3      0      0      0      0
  C18ORF19 WILD-TYPE     29     18     46     27     23
D1039V1, multiclass
        clus
vv       C18ORF19 MUTATED C18ORF19 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                0                 27
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C18ORF19 MUTATED        3      0      0
  C18ORF19 WILD-TYPE     40     67     36
D1039V2, multiclass
        clus
vv       C18ORF19 MUTATED C18ORF19 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                0                 67
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C18ORF19 MUTATED        0      3      5
  C18ORF19 WILD-TYPE     42    170    142
D1039V3, multiclass
        clus
vv       C18ORF19 MUTATED C18ORF19 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3                5                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C18ORF19 MUTATED        3      1      1
  C18ORF19 WILD-TYPE     59     72     74
D1039V4, multiclass
        clus
vv       C18ORF19 MUTATED C18ORF19 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                1                 72
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C18ORF19 MUTATED        1      3      3
  C18ORF19 WILD-TYPE     69    117     97
D1039V5, multiclass
        clus
vv       C18ORF19 MUTATED C18ORF19 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                3                117
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C18ORF19 MUTATED        1      2      1      0      1      1      1      0
  C18ORF19 WILD-TYPE     40     24     29     29     38     68     19     14
                    vv
clus                 CLUS_9
  C18ORF19 MUTATED        0
  C18ORF19 WILD-TYPE     22
D1039V6, multiclass
        clus
vv       C18ORF19 MUTATED C18ORF19 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                2                 24
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                1                 68
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C18ORF19 MUTATED        0      2      3      3
  C18ORF19 WILD-TYPE    100     70     69    118
D1039V7, multiclass
        clus
vv       C18ORF19 MUTATED C18ORF19 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                2                 70
  CLUS_3                3                 69
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C18ORF19 MUTATED        2      1      2      0      3
  C18ORF19 WILD-TYPE     57     74     72    119     35
D1039V8, multiclass
        clus
vv       C18ORF19 MUTATED C18ORF19 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                1                 74
  CLUS_3                2                 72
  CLUS_4                0                119
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C18ORF19 MUTATED        1      2      2      1      2
  C18ORF19 WILD-TYPE     50     74     59     70     93
D1039V9, multiclass
        clus
vv       C18ORF19 MUTATED C18ORF19 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                2                 74
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C18ORF19 MUTATED        0      3      0      1      0      1      0      3
  C18ORF19 WILD-TYPE     69     45     39     15     53     19     21     35
                    vv
clus                 CLUS_9
  C18ORF19 MUTATED        0
  C18ORF19 WILD-TYPE     50
D1039V10, multiclass
        clus
vv       C18ORF19 MUTATED C18ORF19 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                3                 35
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C18ORF19 MUTATED        0      1      0      0      1      0
  C18ORF19 WILD-TYPE     13     15     14     11     10      9
D1039V11, multiclass
[1] "Remove cluster labels:" "C18ORF19 MUTATED"      
clus
  C18ORF19 MUTATED C18ORF19 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6781 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6901 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AD-6963         TCGA-AD-6964         TCGA-AD-6965 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AY-6196         TCGA-AZ-4323         TCGA-AZ-4616 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AZ-5403         TCGA-AZ-6598         TCGA-AZ-6600 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AZ-6601         TCGA-AZ-6603         TCGA-AZ-6605 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C18ORF19 MUTATED        0      1      0      1      0      0      0      0
  C18ORF19 WILD-TYPE     11      6      7      8      8      7     11      9
                    vv
clus                 CLUS_9
  C18ORF19 MUTATED        0
  C18ORF19 WILD-TYPE      5
D1039V12, multiclass
[1] "Remove cluster labels:" "C18ORF19 MUTATED"      
clus
  C18ORF19 MUTATED C18ORF19 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6781 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6901 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AD-6963         TCGA-AD-6964         TCGA-AD-6965 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AY-6196         TCGA-AZ-4323         TCGA-AZ-4616 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AZ-5403         TCGA-AZ-6598         TCGA-AZ-6600 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AZ-6601         TCGA-AZ-6603         TCGA-AZ-6605 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" "C18ORF19 WILD-TYPE" 

Clustering(1040) Variable = RNF20 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF20 MUTATED        2      0      0      2      1
  RNF20 WILD-TYPE     30     18     46     25     22
D1040V1, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF20 MUTATED        2      2      1
  RNF20 WILD-TYPE     41     65     35
D1040V2, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF20 MUTATED        3      2     13
  RNF20 WILD-TYPE     39    171    134
D1040V3, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             2             171
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF20 MUTATED        7      0      6
  RNF20 WILD-TYPE     55     73     69
D1040V4, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             0              73
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF20 MUTATED        0      5      8
  RNF20 WILD-TYPE     70    115     92
D1040V5, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF20 MUTATED        1      2      1      1      1      5      2      0
  RNF20 WILD-TYPE     40     24     29     28     38     64     18     14
                 vv
clus              CLUS_9
  RNF20 MUTATED        0
  RNF20 WILD-TYPE     22
D1040V6, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF20 MUTATED        3      5      8      2
  RNF20 WILD-TYPE     97     67     64    119
D1040V7, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             8              64
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF20 MUTATED        1      4      8      3      2
  RNF20 WILD-TYPE     58     71     66    116     36
D1040V8, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             8              66
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF20 MUTATED        0      8      3      2      4
  RNF20 WILD-TYPE     51     68     58     69     91
D1040V9, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             8              68
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF20 MUTATED        3      4      0      1      5      0      0      3
  RNF20 WILD-TYPE     66     44     39     15     48     20     21     35
                 vv
clus              CLUS_9
  RNF20 MUTATED        1
  RNF20 WILD-TYPE     49
D1040V10, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             5              48
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF20 MUTATED        0      1      3      0      2      0
  RNF20 WILD-TYPE     13     15     11     11      9      9
D1040V11, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             3              11
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF20 MUTATED        1      1      0      1      1      1      1      0
  RNF20 WILD-TYPE     10      6      7      8      7      6     10      9
                 vv
clus              CLUS_9
  RNF20 MUTATED        0
  RNF20 WILD-TYPE      5
D1040V12, multiclass
        clus
vv       RNF20 MUTATED RNF20 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1041) Variable = TRIM24 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM24 MUTATED        3      0      1      1      0
  TRIM24 WILD-TYPE     29     18     45     26     23
D1041V1, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM24 MUTATED        3      1      1
  TRIM24 WILD-TYPE     40     66     35
D1041V2, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM24 MUTATED        4      5      8
  TRIM24 WILD-TYPE     38    168    139
D1041V3, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              4               38
  CLUS_2              5              168
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM24 MUTATED        4      2      6
  TRIM24 WILD-TYPE     58     71     69
D1041V4, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              2               71
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM24 MUTATED        3      7      5
  TRIM24 WILD-TYPE     67    113     95
D1041V5, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              7              113
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM24 MUTATED        2      0      2      1      1      4      3      0
  TRIM24 WILD-TYPE     39     26     28     28     38     65     17     14
                  vv
clus               CLUS_9
  TRIM24 MUTATED        2
  TRIM24 WILD-TYPE     20
D1041V6, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM24 MUTATED        4      5      4      4
  TRIM24 WILD-TYPE     96     67     68    117
D1041V7, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              5               67
  CLUS_3              4               68
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM24 MUTATED        3      3      6      2      3
  TRIM24 WILD-TYPE     56     72     68    117     35
D1041V8, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3              6               68
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM24 MUTATED        2      6      4      3      0
  TRIM24 WILD-TYPE     49     70     57     68     95
D1041V9, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              6               70
  CLUS_3              4               57
  CLUS_4              3               68
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM24 MUTATED        5      4      0      1      3      1      1      0
  TRIM24 WILD-TYPE     64     44     39     15     50     19     20     38
                  vv
clus               CLUS_9
  TRIM24 MUTATED        0
  TRIM24 WILD-TYPE     50
D1041V10, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM24 MUTATED        3      3      1      0      1      1
  TRIM24 WILD-TYPE     10     13     13     11     10      8
D1041V11, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              3               10
  CLUS_2              3               13
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM24 MUTATED        3      0      1      1      0      0      3      1
  TRIM24 WILD-TYPE      8      7      6      8      8      7      8      8
                  vv
clus               CLUS_9
  TRIM24 MUTATED        0
  TRIM24 WILD-TYPE      5
D1041V12, multiclass
        clus
vv       TRIM24 MUTATED TRIM24 WILD-TYPE
  CLUS_1              3                8
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              3                8
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1042) Variable = ODAM MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ODAM MUTATED        1      0      0      0      0
  ODAM WILD-TYPE     31     18     46     27     23
D1042V1, multiclass
[1] "Remove cluster labels:" "ODAM MUTATED"          
clus
  ODAM MUTATED ODAM WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AY-4071 
"ODAM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ODAM MUTATED        1      0      0
  ODAM WILD-TYPE     42     67     36
D1042V2, multiclass
[1] "Remove cluster labels:" "ODAM MUTATED"          
clus
  ODAM MUTATED ODAM WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AY-4071 
"ODAM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ODAM MUTATED        1      2      2
  ODAM WILD-TYPE     41    171    145
D1042V3, multiclass
        clus
vv       ODAM MUTATED ODAM WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ODAM MUTATED        1      1      2
  ODAM WILD-TYPE     61     72     73
D1042V4, multiclass
        clus
vv       ODAM MUTATED ODAM WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ODAM MUTATED        1      1      1
  ODAM WILD-TYPE     69    119     99
D1042V5, multiclass
        clus
vv       ODAM MUTATED ODAM WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ODAM MUTATED        0      0      0      1      1      1      0      0      0
  ODAM WILD-TYPE     41     26     30     28     38     68     20     14     22
D1042V6, multiclass
        clus
vv       ODAM MUTATED ODAM WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ODAM MUTATED        3      0      1      1
  ODAM WILD-TYPE     97     72     71    120
D1042V7, multiclass
        clus
vv       ODAM MUTATED ODAM WILD-TYPE
  CLUS_1            3             97
  CLUS_2            0             72
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ODAM MUTATED        1      3      0      0      1
  ODAM WILD-TYPE     58     72     74    119     37
D1042V8, multiclass
        clus
vv       ODAM MUTATED ODAM WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            0             74
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ODAM MUTATED        0      1      1      2      1
  ODAM WILD-TYPE     51     75     60     69     94
D1042V9, multiclass
        clus
vv       ODAM MUTATED ODAM WILD-TYPE
  CLUS_1            0             51
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ODAM MUTATED        2      0      0      0      2      0      0      1      0
  ODAM WILD-TYPE     67     48     39     16     51     20     21     37     50
D1042V10, multiclass
        clus
vv       ODAM MUTATED ODAM WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ODAM MUTATED        1      0      0      0      0      0
  ODAM WILD-TYPE     12     16     14     11     11      9
D1042V11, multiclass
[1] "Remove cluster labels:" "ODAM MUTATED"          
clus
  ODAM MUTATED ODAM WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-G4-6628 
"ODAM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ODAM MUTATED        0      0      0      1      0      0      0      0      0
  ODAM WILD-TYPE     11      7      7      8      8      7     11      9      5
D1042V12, multiclass
[1] "Remove cluster labels:" "ODAM MUTATED"          
clus
  ODAM MUTATED ODAM WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625 
"ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" "ODAM WILD-TYPE" 
    TCGA-G4-6628 
"ODAM WILD-TYPE" 

Clustering(1043) Variable = CDKL2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDKL2 MUTATED        3      0      0      1      0
  CDKL2 WILD-TYPE     29     18     46     26     23
D1043V1, multiclass
        clus
vv       CDKL2 MUTATED CDKL2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDKL2 MUTATED        2      1      1
  CDKL2 WILD-TYPE     41     66     35
D1043V2, multiclass
        clus
vv       CDKL2 MUTATED CDKL2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDKL2 MUTATED        0      2      9
  CDKL2 WILD-TYPE     42    171    138
D1043V3, multiclass
        clus
vv       CDKL2 MUTATED CDKL2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDKL2 MUTATED        2      2      3
  CDKL2 WILD-TYPE     60     71     72
D1043V4, multiclass
        clus
vv       CDKL2 MUTATED CDKL2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDKL2 MUTATED        2      4      1
  CDKL2 WILD-TYPE     68    116     99
D1043V5, multiclass
        clus
vv       CDKL2 MUTATED CDKL2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDKL2 MUTATED        3      1      2      0      0      0      0      1
  CDKL2 WILD-TYPE     38     25     28     29     39     69     20     13
                 vv
clus              CLUS_9
  CDKL2 MUTATED        0
  CDKL2 WILD-TYPE     22
D1043V6, multiclass
        clus
vv       CDKL2 MUTATED CDKL2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             0              69
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDKL2 MUTATED        1      4      2      4
  CDKL2 WILD-TYPE     99     68     70    117
D1043V7, multiclass
        clus
vv       CDKL2 MUTATED CDKL2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDKL2 MUTATED        2      3      2      2      2
  CDKL2 WILD-TYPE     57     72     72    117     36
D1043V8, multiclass
        clus
vv       CDKL2 MUTATED CDKL2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDKL2 MUTATED        3      2      2      1      3
  CDKL2 WILD-TYPE     48     74     59     70     92
D1043V9, multiclass
        clus
vv       CDKL2 MUTATED CDKL2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDKL2 MUTATED        0      2      1      2      1      4      0      1
  CDKL2 WILD-TYPE     69     46     38     14     52     16     21     37
                 vv
clus              CLUS_9
  CDKL2 MUTATED        0
  CDKL2 WILD-TYPE     50
D1043V10, multiclass
        clus
vv       CDKL2 MUTATED CDKL2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             4              16
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDKL2 MUTATED        0      1      0      0      0      0
  CDKL2 WILD-TYPE     13     15     14     11     11      9
D1043V11, multiclass
[1] "Remove cluster labels:" "CDKL2 MUTATED"         
clus
  CDKL2 MUTATED CDKL2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6674 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-G4-6628 
"CDKL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDKL2 MUTATED        0      1      0      0      0      0      0      0
  CDKL2 WILD-TYPE     11      6      7      9      8      7     11      9
                 vv
clus              CLUS_9
  CDKL2 MUTATED        0
  CDKL2 WILD-TYPE      5
D1043V12, multiclass
[1] "Remove cluster labels:" "CDKL2 MUTATED"         
clus
  CDKL2 MUTATED CDKL2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6674 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" "CDKL2 WILD-TYPE" 
     TCGA-G4-6628 
"CDKL2 WILD-TYPE" 

Clustering(1044) Variable = LRP2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRP2 MUTATED       14      2      2      3      2
  LRP2 WILD-TYPE     18     16     44     24     21
D1044V1, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1           14             18
  CLUS_2            2             16
  CLUS_3            2             44
  CLUS_4            3             24
  CLUS_5            2             21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LRP2 MUTATED       15      4      4
  LRP2 WILD-TYPE     28     63     32
D1044V2, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1           15             28
  CLUS_2            4             63
  CLUS_3            4             32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LRP2 MUTATED        6     24     47
  LRP2 WILD-TYPE     36    149    100
D1044V3, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1            6             36
  CLUS_2           24            149
  CLUS_3           47            100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LRP2 MUTATED       17     11     22
  LRP2 WILD-TYPE     45     62     53
D1044V4, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1           17             45
  CLUS_2           11             62
  CLUS_3           22             53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LRP2 MUTATED        9     23     30
  LRP2 WILD-TYPE     61     97     70
D1044V5, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1            9             61
  CLUS_2           23             97
  CLUS_3           30             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LRP2 MUTATED        9      5      4      8      8     20      2      3      3
  LRP2 WILD-TYPE     32     21     26     21     31     49     18     11     19
D1044V6, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1            9             32
  CLUS_2            5             21
  CLUS_3            4             26
  CLUS_4            8             21
  CLUS_5            8             31
  CLUS_6           20             49
  CLUS_7            2             18
  CLUS_8            3             11
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRP2 MUTATED       18     17     18     24
  LRP2 WILD-TYPE     82     55     54     97
D1044V7, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1           18             82
  CLUS_2           17             55
  CLUS_3           18             54
  CLUS_4           24             97
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRP2 MUTATED       12     15     23     12     15
  LRP2 WILD-TYPE     47     60     51    107     23
D1044V8, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1           12             47
  CLUS_2           15             60
  CLUS_3           23             51
  CLUS_4           12            107
  CLUS_5           15             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRP2 MUTATED       11     23     15      8     17
  LRP2 WILD-TYPE     40     53     46     63     78
D1044V9, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1           11             40
  CLUS_2           23             53
  CLUS_3           15             46
  CLUS_4            8             63
  CLUS_5           17             78
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LRP2 MUTATED       11     13      5      7     11      6      8      8      5
  LRP2 WILD-TYPE     58     35     34      9     42     14     13     30     45
D1044V10, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1           11             58
  CLUS_2           13             35
  CLUS_3            5             34
  CLUS_4            7              9
  CLUS_5           11             42
  CLUS_6            6             14
  CLUS_7            8             13
  CLUS_8            8             30
  CLUS_9            5             45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LRP2 MUTATED        1      4      4      2      5      2
  LRP2 WILD-TYPE     12     12     10      9      6      7
D1044V11, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            4             12
  CLUS_3            4             10
  CLUS_4            2              9
  CLUS_5            5              6
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LRP2 MUTATED        2      2      2      2      1      2      4      2      1
  LRP2 WILD-TYPE      9      5      5      7      7      5      7      7      4
D1044V12, multiclass
        clus
vv       LRP2 MUTATED LRP2 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            2              5
  CLUS_3            2              5
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            2              5
  CLUS_7            4              7
  CLUS_8            2              7
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1045) Variable = KCNG4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNG4 MUTATED        0      0      0      2      0
  KCNG4 WILD-TYPE     32     18     46     25     23
D1045V1, multiclass
[1] "Remove cluster labels:" "KCNG4 MUTATED"         
clus
  KCNG4 MUTATED KCNG4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNG4 MUTATED        0      2      0
  KCNG4 WILD-TYPE     43     65     36
D1045V2, multiclass
[1] "Remove cluster labels:" "KCNG4 MUTATED"         
clus
  KCNG4 MUTATED KCNG4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" "KCNG4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNG4 MUTATED        0      6      4
  KCNG4 WILD-TYPE     42    167    143
D1045V3, multiclass
        clus
vv       KCNG4 MUTATED KCNG4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             6             167
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNG4 MUTATED        2      1      5
  KCNG4 WILD-TYPE     60     72     70
D1045V4, multiclass
        clus
vv       KCNG4 MUTATED KCNG4 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNG4 MUTATED        1      6      1
  KCNG4 WILD-TYPE     69    114     99
D1045V5, multiclass
        clus
vv       KCNG4 MUTATED KCNG4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNG4 MUTATED        0      1      2      3      0      1      1      0
  KCNG4 WILD-TYPE     41     25     28     26     39     68     19     14
                 vv
clus              CLUS_9
  KCNG4 MUTATED        0
  KCNG4 WILD-TYPE     22
D1045V6, multiclass
        clus
vv       KCNG4 MUTATED KCNG4 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCNG4 MUTATED        4      2      2      2
  KCNG4 WILD-TYPE     96     70     70    119
D1045V7, multiclass
        clus
vv       KCNG4 MUTATED KCNG4 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNG4 MUTATED        1      4      3      2      0
  KCNG4 WILD-TYPE     58     71     71    117     38
D1045V8, multiclass
        clus
vv       KCNG4 MUTATED KCNG4 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNG4 MUTATED        1      4      1      3      1
  KCNG4 WILD-TYPE     50     72     60     68     94
D1045V9, multiclass
        clus
vv       KCNG4 MUTATED KCNG4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             3              68
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNG4 MUTATED        4      1      0      1      2      1      0      0
  KCNG4 WILD-TYPE     65     47     39     15     51     19     21     38
                 vv
clus              CLUS_9
  KCNG4 MUTATED        1
  KCNG4 WILD-TYPE     49
D1045V10, multiclass
        clus
vv       KCNG4 MUTATED KCNG4 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KCNG4 MUTATED        1      1      0      1      1      2
  KCNG4 WILD-TYPE     12     15     14     10     10      7
D1045V11, multiclass
        clus
vv       KCNG4 MUTATED KCNG4 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNG4 MUTATED        1      0      0      1      0      1      1      1
  KCNG4 WILD-TYPE     10      7      7      8      8      6     10      8
                 vv
clus              CLUS_9
  KCNG4 MUTATED        1
  KCNG4 WILD-TYPE      4
D1045V12, multiclass
        clus
vv       KCNG4 MUTATED KCNG4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1046) Variable = PAK7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK7 MUTATED        1      0      0      4      0
  PAK7 WILD-TYPE     31     18     46     23     23
D1046V1, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            4             23
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK7 MUTATED        2      3      0
  PAK7 WILD-TYPE     41     64     36
D1046V2, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            3             64
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK7 MUTATED        2      5     12
  PAK7 WILD-TYPE     40    168    135
D1046V3, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            5            168
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK7 MUTATED        6      3      6
  PAK7 WILD-TYPE     56     70     69
D1046V4, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            3             70
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK7 MUTATED        2      5     10
  PAK7 WILD-TYPE     68    115     90
D1046V5, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK7 MUTATED        2      2      2      0      1      7      2      1      0
  PAK7 WILD-TYPE     39     24     28     29     38     62     18     13     22
D1046V6, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            2             24
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            7             62
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAK7 MUTATED        6      6      4      4
  PAK7 WILD-TYPE     94     66     68    117
D1046V7, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            6             94
  CLUS_2            6             66
  CLUS_3            4             68
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK7 MUTATED        2      6      7      3      2
  PAK7 WILD-TYPE     57     69     67    116     36
D1046V8, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            6             69
  CLUS_3            7             67
  CLUS_4            3            116
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK7 MUTATED        3      6      5      0      5
  PAK7 WILD-TYPE     48     70     56     71     90
D1046V9, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            6             70
  CLUS_3            5             56
  CLUS_4            0             71
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK7 MUTATED        3      3      0      3      5      2      0      1      2
  PAK7 WILD-TYPE     66     45     39     13     48     18     21     37     48
D1046V10, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            5             48
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAK7 MUTATED        1      1      1      0      2      1
  PAK7 WILD-TYPE     12     15     13     11      9      8
D1046V11, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK7 MUTATED        0      0      1      1      2      2      0      0      0
  PAK7 WILD-TYPE     11      7      6      8      6      5     11      9      5
D1046V12, multiclass
        clus
vv       PAK7 MUTATED PAK7 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            2              6
  CLUS_6            2              5
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1047) Variable = CHD7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD7 MUTATED        7      1      1      3      0
  CHD7 WILD-TYPE     25     17     45     24     23
D1047V1, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1            7             25
  CLUS_2            1             17
  CLUS_3            1             45
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD7 MUTATED        6      5      1
  CHD7 WILD-TYPE     37     62     35
D1047V2, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            5             62
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD7 MUTATED        4      7     24
  CHD7 WILD-TYPE     38    166    123
D1047V3, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1            4             38
  CLUS_2            7            166
  CLUS_3           24            123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD7 MUTATED       11      4     11
  CHD7 WILD-TYPE     51     69     64
D1047V4, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1           11             51
  CLUS_2            4             69
  CLUS_3           11             64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD7 MUTATED        5     12     15
  CHD7 WILD-TYPE     65    108     85
D1047V5, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1            5             65
  CLUS_2           12            108
  CLUS_3           15             85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD7 MUTATED        1      3      2      3      5     11      2      2      3
  CHD7 WILD-TYPE     40     23     28     26     34     58     18     12     19
D1047V6, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            3             23
  CLUS_3            2             28
  CLUS_4            3             26
  CLUS_5            5             34
  CLUS_6           11             58
  CLUS_7            2             18
  CLUS_8            2             12
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD7 MUTATED        5     12      8     12
  CHD7 WILD-TYPE     95     60     64    109
D1047V7, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1            5             95
  CLUS_2           12             60
  CLUS_3            8             64
  CLUS_4           12            109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD7 MUTATED        3      6     15      7      6
  CHD7 WILD-TYPE     56     69     59    112     32
D1047V8, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            6             69
  CLUS_3           15             59
  CLUS_4            7            112
  CLUS_5            6             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD7 MUTATED        3     13      5      2     12
  CHD7 WILD-TYPE     48     63     56     69     83
D1047V9, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1            3             48
  CLUS_2           13             63
  CLUS_3            5             56
  CLUS_4            2             69
  CLUS_5           12             83
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD7 MUTATED        4      5      3      8      2      3      2      6      2
  CHD7 WILD-TYPE     65     43     36      8     51     17     19     32     48
D1047V10, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            5             43
  CLUS_3            3             36
  CLUS_4            8              8
  CLUS_5            2             51
  CLUS_6            3             17
  CLUS_7            2             19
  CLUS_8            6             32
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHD7 MUTATED        0      0      2      0      3      2
  CHD7 WILD-TYPE     13     16     12     11      8      7
D1047V11, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            2              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD7 MUTATED        1      0      0      3      0      1      1      1      0
  CHD7 WILD-TYPE     10      7      7      6      8      6     10      8      5
D1047V12, multiclass
        clus
vv       CHD7 MUTATED CHD7 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            3              6
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1048) Variable = ZNF585B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF585B MUTATED        1      0      0      1      0
  ZNF585B WILD-TYPE     31     18     46     26     23
D1048V1, multiclass
[1] "Remove cluster labels:" "ZNF585B MUTATED"       
clus
  ZNF585B MUTATED ZNF585B WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF585B MUTATED        1      1      0
  ZNF585B WILD-TYPE     42     66     36
D1048V2, multiclass
[1] "Remove cluster labels:" "ZNF585B MUTATED"       
clus
  ZNF585B MUTATED ZNF585B WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF585B MUTATED        0      2      5
  ZNF585B WILD-TYPE     42    171    142
D1048V3, multiclass
        clus
vv       ZNF585B MUTATED ZNF585B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF585B MUTATED        1      1      3
  ZNF585B WILD-TYPE     61     72     72
D1048V4, multiclass
        clus
vv       ZNF585B MUTATED ZNF585B WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF585B MUTATED        1      5      0
  ZNF585B WILD-TYPE     69    115    100
D1048V5, multiclass
        clus
vv       ZNF585B MUTATED ZNF585B WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               115
  CLUS_3               0               100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF585B MUTATED        0      1      1      0      1      0      1      1
  ZNF585B WILD-TYPE     41     25     29     29     38     69     19     13
                   vv
clus                CLUS_9
  ZNF585B MUTATED        1
  ZNF585B WILD-TYPE     21
D1048V6, multiclass
        clus
vv       ZNF585B MUTATED ZNF585B WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               0                69
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF585B MUTATED        1      1      3      2
  ZNF585B WILD-TYPE     99     71     69    119
D1048V7, multiclass
        clus
vv       ZNF585B MUTATED ZNF585B WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF585B MUTATED        2      1      2      1      1
  ZNF585B WILD-TYPE     57     74     72    118     37
D1048V8, multiclass
        clus
vv       ZNF585B MUTATED ZNF585B WILD-TYPE
  CLUS_1               2                57
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF585B MUTATED        2      1      2      0      2
  ZNF585B WILD-TYPE     49     75     59     71     93
D1048V9, multiclass
        clus
vv       ZNF585B MUTATED ZNF585B WILD-TYPE
  CLUS_1               2                49
  CLUS_2               1                75
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF585B MUTATED        2      1      1      1      0      1      0      1
  ZNF585B WILD-TYPE     67     47     38     15     53     19     21     37
                   vv
clus                CLUS_9
  ZNF585B MUTATED        0
  ZNF585B WILD-TYPE     50
D1048V10, multiclass
        clus
vv       ZNF585B MUTATED ZNF585B WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF585B MUTATED        0      0      0      1      1      0
  ZNF585B WILD-TYPE     13     16     14     10     10      9
D1048V11, multiclass
[1] "Remove cluster labels:" "ZNF585B MUTATED"       
clus
  ZNF585B MUTATED ZNF585B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF585B MUTATED        0      0      0      0      1      0      1      0
  ZNF585B WILD-TYPE     11      7      7      9      7      7     10      9
                   vv
clus                CLUS_9
  ZNF585B MUTATED        0
  ZNF585B WILD-TYPE      5
D1048V12, multiclass
[1] "Remove cluster labels:" "ZNF585B MUTATED"       
clus
  ZNF585B MUTATED ZNF585B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" "ZNF585B WILD-TYPE" 

Clustering(1049) Variable = NSUN2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NSUN2 MUTATED        2      0      0      0      1
  NSUN2 WILD-TYPE     30     18     46     27     22
D1049V1, multiclass
        clus
vv       NSUN2 MUTATED NSUN2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NSUN2 MUTATED        2      0      1
  NSUN2 WILD-TYPE     41     67     35
D1049V2, multiclass
        clus
vv       NSUN2 MUTATED NSUN2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NSUN2 MUTATED        0      4      7
  NSUN2 WILD-TYPE     42    169    140
D1049V3, multiclass
        clus
vv       NSUN2 MUTATED NSUN2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NSUN2 MUTATED        6      0      2
  NSUN2 WILD-TYPE     56     73     73
D1049V4, multiclass
        clus
vv       NSUN2 MUTATED NSUN2 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NSUN2 MUTATED        1      1      7
  NSUN2 WILD-TYPE     69    119     93
D1049V5, multiclass
        clus
vv       NSUN2 MUTATED NSUN2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NSUN2 MUTATED        1      0      0      1      0      6      1      0
  NSUN2 WILD-TYPE     40     26     30     28     39     63     19     14
                 vv
clus              CLUS_9
  NSUN2 MUTATED        0
  NSUN2 WILD-TYPE     22
D1049V6, multiclass
        clus
vv       NSUN2 MUTATED NSUN2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NSUN2 MUTATED        2      4      3      2
  NSUN2 WILD-TYPE     98     68     69    119
D1049V7, multiclass
        clus
vv       NSUN2 MUTATED NSUN2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NSUN2 MUTATED        1      3      5      1      1
  NSUN2 WILD-TYPE     58     72     69    118     37
D1049V8, multiclass
        clus
vv       NSUN2 MUTATED NSUN2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NSUN2 MUTATED        1      4      3      2      1
  NSUN2 WILD-TYPE     50     72     58     69     94
D1049V9, multiclass
        clus
vv       NSUN2 MUTATED NSUN2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NSUN2 MUTATED        2      3      0      0      1      1      1      1
  NSUN2 WILD-TYPE     67     45     39     16     52     19     20     37
                 vv
clus              CLUS_9
  NSUN2 MUTATED        2
  NSUN2 WILD-TYPE     48
D1049V10, multiclass
        clus
vv       NSUN2 MUTATED NSUN2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NSUN2 MUTATED        0      0      2      0      0      0
  NSUN2 WILD-TYPE     13     16     12     11     11      9
D1049V11, multiclass
[1] "Remove cluster labels:" "NSUN2 MUTATED"         
clus
  NSUN2 MUTATED NSUN2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6676 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NSUN2 MUTATED        0      0      0      0      1      1      0      0
  NSUN2 WILD-TYPE     11      7      7      9      7      6     11      9
                 vv
clus              CLUS_9
  NSUN2 MUTATED        0
  NSUN2 WILD-TYPE      5
D1049V12, multiclass
[1] "Remove cluster labels:" "NSUN2 MUTATED"         
clus
  NSUN2 MUTATED NSUN2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6676 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" "NSUN2 WILD-TYPE" 

Clustering(1050) Variable = CCNH MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCNH MUTATED        2      0      0      0      0
  CCNH WILD-TYPE     30     18     46     27     23
D1050V1, multiclass
[1] "Remove cluster labels:" "CCNH MUTATED"          
clus
  CCNH MUTATED CCNH WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCNH MUTATED        2      0      0
  CCNH WILD-TYPE     41     67     36
D1050V2, multiclass
[1] "Remove cluster labels:" "CCNH MUTATED"          
clus
  CCNH MUTATED CCNH WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" "CCNH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCNH MUTATED        1      1      5
  CCNH WILD-TYPE     41    172    142
D1050V3, multiclass
        clus
vv       CCNH MUTATED CCNH WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCNH MUTATED        4      1      0
  CCNH WILD-TYPE     58     72     75
D1050V4, multiclass
        clus
vv       CCNH MUTATED CCNH WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCNH MUTATED        0      0      6
  CCNH WILD-TYPE     70    120     94
D1050V5, multiclass
        clus
vv       CCNH MUTATED CCNH WILD-TYPE
  CLUS_1            0             70
  CLUS_2            0            120
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCNH MUTATED        0      0      0      0      0      5      1      0      0
  CCNH WILD-TYPE     41     26     30     29     39     64     19     14     22
D1050V6, multiclass
        clus
vv       CCNH MUTATED CCNH WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCNH MUTATED        1      0      4      2
  CCNH WILD-TYPE     99     72     68    119
D1050V7, multiclass
        clus
vv       CCNH MUTATED CCNH WILD-TYPE
  CLUS_1            1             99
  CLUS_2            0             72
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCNH MUTATED        2      1      2      0      2
  CCNH WILD-TYPE     57     74     72    119     36
D1050V8, multiclass
        clus
vv       CCNH MUTATED CCNH WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCNH MUTATED        0      2      2      1      1
  CCNH WILD-TYPE     51     74     59     70     94
D1050V9, multiclass
        clus
vv       CCNH MUTATED CCNH WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCNH MUTATED        2      3      0      0      0      0      0      1      0
  CCNH WILD-TYPE     67     45     39     16     53     20     21     37     50
D1050V10, multiclass
        clus
vv       CCNH MUTATED CCNH WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCNH MUTATED        0      1      1      1      0      0
  CCNH WILD-TYPE     13     15     13     10     11      9
D1050V11, multiclass
        clus
vv       CCNH MUTATED CCNH WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCNH MUTATED        1      0      0      0      0      0      2      0      0
  CCNH WILD-TYPE     10      7      7      9      8      7      9      9      5
D1050V12, multiclass
        clus
vv       CCNH MUTATED CCNH WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1051) Variable = IVD MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IVD MUTATED        0      0      0      0      0
  IVD WILD-TYPE     32     18     46     27     23
D1051V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IVD MUTATED        0      0      0
  IVD WILD-TYPE     43     67     36
D1051V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IVD MUTATED        2      0      3
  IVD WILD-TYPE     40    173    144
D1051V3, multiclass
        clus
vv       IVD MUTATED IVD WILD-TYPE
  CLUS_1           2            40
  CLUS_2           0           173
  CLUS_3           3           144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IVD MUTATED        4      0      1
  IVD WILD-TYPE     58     73     74
D1051V4, multiclass
        clus
vv       IVD MUTATED IVD WILD-TYPE
  CLUS_1           4            58
  CLUS_2           0            73
  CLUS_3           1            74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IVD MUTATED        0      1      4
  IVD WILD-TYPE     70    119     96
D1051V5, multiclass
        clus
vv       IVD MUTATED IVD WILD-TYPE
  CLUS_1           0            70
  CLUS_2           1           119
  CLUS_3           4            96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IVD MUTATED        0      0      0      0      0      4      0      1      0
  IVD WILD-TYPE     41     26     30     29     39     65     20     13     22
D1051V6, multiclass
        clus
vv       IVD MUTATED IVD WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           0            39
  CLUS_6           4            65
  CLUS_7           0            20
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IVD MUTATED        1      1      3      0
  IVD WILD-TYPE     99     71     69    121
D1051V7, multiclass
        clus
vv       IVD MUTATED IVD WILD-TYPE
  CLUS_1           1            99
  CLUS_2           1            71
  CLUS_3           3            69
  CLUS_4           0           121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IVD MUTATED        0      1      4      0      0
  IVD WILD-TYPE     59     74     70    119     38
D1051V8, multiclass
        clus
vv       IVD MUTATED IVD WILD-TYPE
  CLUS_1           0            59
  CLUS_2           1            74
  CLUS_3           4            70
  CLUS_4           0           119
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IVD MUTATED        0      3      2      0      0
  IVD WILD-TYPE     51     73     59     71     95
D1051V9, multiclass
        clus
vv       IVD MUTATED IVD WILD-TYPE
  CLUS_1           0            51
  CLUS_2           3            73
  CLUS_3           2            59
  CLUS_4           0            71
  CLUS_5           0            95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IVD MUTATED        2      2      1      0      0      0      0      0      0
  IVD WILD-TYPE     67     46     38     16     53     20     21     38     50
D1051V10, multiclass
        clus
vv       IVD MUTATED IVD WILD-TYPE
  CLUS_1           2            67
  CLUS_2           2            46
  CLUS_3           1            38
  CLUS_4           0            16
  CLUS_5           0            53
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IVD MUTATED        0      0      0      0      1      0
  IVD WILD-TYPE     13     16     14     11     10      9
D1051V11, multiclass
[1] "Remove cluster labels:" "IVD MUTATED"           
clus
  IVD MUTATED IVD WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6782 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548    TCGA-AD-6889 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IVD MUTATED        0      0      0      0      0      1      0      0      0
  IVD WILD-TYPE     11      7      7      9      8      6     11      9      5
D1051V12, multiclass
[1] "Remove cluster labels:" "IVD MUTATED"           
clus
  IVD MUTATED IVD WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6782 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548    TCGA-AD-6889 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"IVD WILD-TYPE" "IVD WILD-TYPE" "IVD WILD-TYPE" 

Clustering(1052) Variable = PSMA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMA2 MUTATED        1      0      0      0      0
  PSMA2 WILD-TYPE     31     18     46     27     23
D1052V1, multiclass
[1] "Remove cluster labels:" "PSMA2 MUTATED"         
clus
  PSMA2 MUTATED PSMA2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AY-4071 
"PSMA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMA2 MUTATED        1      0      0
  PSMA2 WILD-TYPE     42     67     36
D1052V2, multiclass
[1] "Remove cluster labels:" "PSMA2 MUTATED"         
clus
  PSMA2 MUTATED PSMA2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AY-4071 
"PSMA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMA2 MUTATED        0      0      6
  PSMA2 WILD-TYPE     42    173    141
D1052V3, multiclass
        clus
vv       PSMA2 MUTATED PSMA2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMA2 MUTATED        0      0      5
  PSMA2 WILD-TYPE     62     73     70
D1052V4, multiclass
        clus
vv       PSMA2 MUTATED PSMA2 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMA2 MUTATED        2      0      2
  PSMA2 WILD-TYPE     68    120     98
D1052V5, multiclass
        clus
vv       PSMA2 MUTATED PSMA2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             0             120
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PSMA2 MUTATED        0      0      0      0      1      2      1      0
  PSMA2 WILD-TYPE     41     26     30     29     38     67     19     14
                 vv
clus              CLUS_9
  PSMA2 MUTATED        0
  PSMA2 WILD-TYPE     22
D1052V6, multiclass
        clus
vv       PSMA2 MUTATED PSMA2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PSMA2 MUTATED        0      3      2      1
  PSMA2 WILD-TYPE    100     69     70    120
D1052V7, multiclass
        clus
vv       PSMA2 MUTATED PSMA2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMA2 MUTATED        0      0      5      1      0
  PSMA2 WILD-TYPE     59     75     69    118     38
D1052V8, multiclass
        clus
vv       PSMA2 MUTATED PSMA2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMA2 MUTATED        0      3      1      0      1
  PSMA2 WILD-TYPE     51     73     60     71     94
D1052V9, multiclass
        clus
vv       PSMA2 MUTATED PSMA2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PSMA2 MUTATED        2      1      0      1      0      0      0      1
  PSMA2 WILD-TYPE     67     47     39     15     53     20     21     37
                 vv
clus              CLUS_9
  PSMA2 MUTATED        0
  PSMA2 WILD-TYPE     50
D1052V10, multiclass
        clus
vv       PSMA2 MUTATED PSMA2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PSMA2 MUTATED        0      0      0      0      1      0
  PSMA2 WILD-TYPE     13     16     14     11     10      9
D1052V11, multiclass
[1] "Remove cluster labels:" "PSMA2 MUTATED"         
clus
  PSMA2 MUTATED PSMA2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-G4-6628 
"PSMA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PSMA2 MUTATED        0      0      0      0      1      0      0      0
  PSMA2 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  PSMA2 MUTATED        0
  PSMA2 WILD-TYPE      5
D1052V12, multiclass
[1] "Remove cluster labels:" "PSMA2 MUTATED"         
clus
  PSMA2 MUTATED PSMA2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" "PSMA2 WILD-TYPE" 
     TCGA-G4-6628 
"PSMA2 WILD-TYPE" 

Clustering(1053) Variable = TUT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUT1 MUTATED        2      0      0      1      0
  TUT1 WILD-TYPE     30     18     46     26     23
D1053V1, multiclass
        clus
vv       TUT1 MUTATED TUT1 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TUT1 MUTATED        2      1      0
  TUT1 WILD-TYPE     41     66     36
D1053V2, multiclass
        clus
vv       TUT1 MUTATED TUT1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TUT1 MUTATED        0      1      8
  TUT1 WILD-TYPE     42    172    139
D1053V3, multiclass
        clus
vv       TUT1 MUTATED TUT1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TUT1 MUTATED        3      0      3
  TUT1 WILD-TYPE     59     73     72
D1053V4, multiclass
        clus
vv       TUT1 MUTATED TUT1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TUT1 MUTATED        0      0      8
  TUT1 WILD-TYPE     70    120     92
D1053V5, multiclass
        clus
vv       TUT1 MUTATED TUT1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            0            120
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TUT1 MUTATED        1      0      0      0      1      5      1      0      0
  TUT1 WILD-TYPE     40     26     30     29     38     64     19     14     22
D1053V6, multiclass
        clus
vv       TUT1 MUTATED TUT1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TUT1 MUTATED        0      2      4      3
  TUT1 WILD-TYPE    100     70     68    118
D1053V7, multiclass
        clus
vv       TUT1 MUTATED TUT1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            4             68
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUT1 MUTATED        1      2      3      1      2
  TUT1 WILD-TYPE     58     73     71    118     36
D1053V8, multiclass
        clus
vv       TUT1 MUTATED TUT1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUT1 MUTATED        1      5      0      0      3
  TUT1 WILD-TYPE     50     71     61     71     92
D1053V9, multiclass
        clus
vv       TUT1 MUTATED TUT1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TUT1 MUTATED        3      1      0      1      2      1      0      1      0
  TUT1 WILD-TYPE     66     47     39     15     51     19     21     37     50
D1053V10, multiclass
        clus
vv       TUT1 MUTATED TUT1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TUT1 MUTATED        0      0      0      0      1      1
  TUT1 WILD-TYPE     13     16     14     11     10      8
D1053V11, multiclass
[1] "Remove cluster labels:" "TUT1 MUTATED"          
clus
  TUT1 MUTATED TUT1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TUT1 MUTATED        1      0      0      0      0      1      0      0      0
  TUT1 WILD-TYPE     10      7      7      9      8      6     11      9      5
D1053V12, multiclass
[1] "Remove cluster labels:" "TUT1 MUTATED"          
clus
  TUT1 MUTATED TUT1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" "TUT1 WILD-TYPE" 

Clustering(1054) Variable = AFF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AFF1 MUTATED        1      0      1      1      0
  AFF1 WILD-TYPE     31     18     45     26     23
D1054V1, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AFF1 MUTATED        2      1      0
  AFF1 WILD-TYPE     41     66     36
D1054V2, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AFF1 MUTATED        1      4      7
  AFF1 WILD-TYPE     41    169    140
D1054V3, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AFF1 MUTATED        2      2      5
  AFF1 WILD-TYPE     60     71     70
D1054V4, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AFF1 MUTATED        0      3      7
  AFF1 WILD-TYPE     70    117     93
D1054V5, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AFF1 MUTATED        2      0      0      0      0      5      2      0      1
  AFF1 WILD-TYPE     39     26     30     29     39     64     18     14     21
D1054V6, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AFF1 MUTATED        3      2      4      3
  AFF1 WILD-TYPE     97     70     68    118
D1054V7, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            2             70
  CLUS_3            4             68
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AFF1 MUTATED        2      3      4      1      2
  AFF1 WILD-TYPE     57     72     70    118     36
D1054V8, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AFF1 MUTATED        2      4      2      1      2
  AFF1 WILD-TYPE     49     72     59     70     93
D1054V9, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AFF1 MUTATED        4      3      0      1      1      0      0      1      1
  AFF1 WILD-TYPE     65     45     39     15     52     20     21     37     49
D1054V10, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AFF1 MUTATED        1      0      1      0      2      0
  AFF1 WILD-TYPE     12     16     13     11      9      9
D1054V11, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AFF1 MUTATED        1      0      0      0      0      0      2      0      1
  AFF1 WILD-TYPE     10      7      7      9      8      7      9      9      4
D1054V12, multiclass
        clus
vv       AFF1 MUTATED AFF1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1055) Variable = KRTAP10-11 MUTATION ANALYSIS
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP10-11 MUTATED        0      0      0      1      0
  KRTAP10-11 WILD-TYPE     32     18     46     26     23
D1055V1, multiclass
[1] "Remove cluster labels:" "KRTAP10-11 MUTATED"    
clus
  KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE 
                   1                  145 
          TCGA-A6-2672           TCGA-A6-2674           TCGA-A6-2676 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-2677           TCGA-A6-2678           TCGA-A6-2683 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-3807           TCGA-A6-3808           TCGA-A6-3809 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-3810           TCGA-AA-3514           TCGA-AA-3516 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3517           TCGA-AA-3518           TCGA-AA-3519 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3520           TCGA-AA-3521           TCGA-AA-3522 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3524           TCGA-AA-3525           TCGA-AA-3526 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3527           TCGA-AA-3529           TCGA-AA-3530 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3531           TCGA-AA-3532           TCGA-AA-3534 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3538           TCGA-AA-3542           TCGA-AA-3543 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3544           TCGA-AA-3548           TCGA-AA-3549 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3552           TCGA-AA-3553           TCGA-AA-3554 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3555           TCGA-AA-3556           TCGA-AA-3558 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3560           TCGA-AA-3561           TCGA-AA-3562 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3664           TCGA-AA-3666           TCGA-AA-3667 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3672           TCGA-AA-3673           TCGA-AA-3678 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3679           TCGA-AA-3680           TCGA-AA-3681 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3684           TCGA-AA-3685           TCGA-AA-3688 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3692           TCGA-AA-3693           TCGA-AA-3696 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3710           TCGA-AA-3715           TCGA-AA-3811 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3812           TCGA-AA-3814           TCGA-AA-3815 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3818           TCGA-AA-3819           TCGA-AA-3821 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3831           TCGA-AA-3833           TCGA-AA-3837 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3842           TCGA-AA-3844           TCGA-AA-3845 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3846           TCGA-AA-3848           TCGA-AA-3850 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3851           TCGA-AA-3852           TCGA-AA-3854 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3855           TCGA-AA-3856           TCGA-AA-3858 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3860           TCGA-AA-3861           TCGA-AA-3864 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3866           TCGA-AA-3867           TCGA-AA-3869 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3870           TCGA-AA-3872           TCGA-AA-3875 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3877           TCGA-AA-3930           TCGA-AA-3939 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3941           TCGA-AA-3947           TCGA-AA-3949 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3950           TCGA-AA-3952           TCGA-AA-3955 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3956           TCGA-AA-3966           TCGA-AA-3968 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3971           TCGA-AA-3972           TCGA-AA-3973 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3975           TCGA-AA-3976           TCGA-AA-3977 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3979           TCGA-AA-3980           TCGA-AA-3982 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3984           TCGA-AA-3986           TCGA-AA-3989 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3994           TCGA-AA-A004           TCGA-AA-A00A 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A00D           TCGA-AA-A00E           TCGA-AA-A00F 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A00J           TCGA-AA-A00K           TCGA-AA-A00L 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A00N           TCGA-AA-A00O           TCGA-AA-A00Q 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A00R           TCGA-AA-A00U           TCGA-AA-A00W 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A00Z           TCGA-AA-A017           TCGA-AA-A01D 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A01F           TCGA-AA-A01G           TCGA-AA-A01I 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A01K           TCGA-AA-A01Q           TCGA-AA-A024 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A029           TCGA-AA-A02F           TCGA-AA-A02H 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A02J           TCGA-AA-A02W           TCGA-AY-4070 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AY-4071 
"KRTAP10-11 WILD-TYPE" 
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  KRTAP10-11 MUTATED        0      1      0
  KRTAP10-11 WILD-TYPE     43     66     36
D1055V2, multiclass
[1] "Remove cluster labels:" "KRTAP10-11 MUTATED"    
clus
  KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE 
                   1                  145 
          TCGA-A6-2672           TCGA-A6-2674           TCGA-A6-2676 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-2677           TCGA-A6-2678           TCGA-A6-2683 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-3807           TCGA-A6-3808           TCGA-A6-3809 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-3810           TCGA-AA-3514           TCGA-AA-3516 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3517           TCGA-AA-3518           TCGA-AA-3519 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3520           TCGA-AA-3521           TCGA-AA-3522 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3524           TCGA-AA-3525           TCGA-AA-3526 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3527           TCGA-AA-3529           TCGA-AA-3530 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3531           TCGA-AA-3532           TCGA-AA-3534 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3538           TCGA-AA-3542           TCGA-AA-3543 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3544           TCGA-AA-3548           TCGA-AA-3549 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3552           TCGA-AA-3553           TCGA-AA-3554 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3555           TCGA-AA-3556           TCGA-AA-3558 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3560           TCGA-AA-3561           TCGA-AA-3562 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3664           TCGA-AA-3666           TCGA-AA-3667 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3672           TCGA-AA-3673           TCGA-AA-3678 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3679           TCGA-AA-3680           TCGA-AA-3681 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3684           TCGA-AA-3685           TCGA-AA-3688 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3692           TCGA-AA-3693           TCGA-AA-3696 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3710           TCGA-AA-3715           TCGA-AA-3811 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3812           TCGA-AA-3814           TCGA-AA-3815 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3818           TCGA-AA-3819           TCGA-AA-3821 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3831           TCGA-AA-3833           TCGA-AA-3837 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3842           TCGA-AA-3844           TCGA-AA-3845 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3846           TCGA-AA-3848           TCGA-AA-3850 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3851           TCGA-AA-3852           TCGA-AA-3854 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3855           TCGA-AA-3856           TCGA-AA-3858 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3860           TCGA-AA-3861           TCGA-AA-3864 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3866           TCGA-AA-3867           TCGA-AA-3869 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3870           TCGA-AA-3872           TCGA-AA-3875 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3877           TCGA-AA-3930           TCGA-AA-3939 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3941           TCGA-AA-3947           TCGA-AA-3949 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3950           TCGA-AA-3952           TCGA-AA-3955 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3956           TCGA-AA-3966           TCGA-AA-3968 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3971           TCGA-AA-3972           TCGA-AA-3973 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3975           TCGA-AA-3976           TCGA-AA-3977 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3979           TCGA-AA-3980           TCGA-AA-3982 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3984           TCGA-AA-3986           TCGA-AA-3989 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-3994           TCGA-AA-A004           TCGA-AA-A00A 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A00D           TCGA-AA-A00E           TCGA-AA-A00F 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A00J           TCGA-AA-A00K           TCGA-AA-A00L 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A00N           TCGA-AA-A00O           TCGA-AA-A00Q 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A00R           TCGA-AA-A00U           TCGA-AA-A00W 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A00Z           TCGA-AA-A017           TCGA-AA-A01D 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A01F           TCGA-AA-A01G           TCGA-AA-A01I 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A01K           TCGA-AA-A01Q           TCGA-AA-A024 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A029           TCGA-AA-A02F           TCGA-AA-A02H 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AA-A02J           TCGA-AA-A02W           TCGA-AY-4070 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AY-4071 
"KRTAP10-11 WILD-TYPE" 
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  KRTAP10-11 MUTATED        0      2      3
  KRTAP10-11 WILD-TYPE     42    171    144
D1055V3, multiclass
        clus
vv       KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE
  CLUS_1                  0                   42
  CLUS_2                  2                  171
  CLUS_3                  3                  144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  KRTAP10-11 MUTATED        2      1      1
  KRTAP10-11 WILD-TYPE     60     72     74
D1055V4, multiclass
        clus
vv       KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE
  CLUS_1                  2                   60
  CLUS_2                  1                   72
  CLUS_3                  1                   74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  KRTAP10-11 MUTATED        0      1      4
  KRTAP10-11 WILD-TYPE     70    119     96
D1055V5, multiclass
        clus
vv       KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE
  CLUS_1                  0                   70
  CLUS_2                  1                  119
  CLUS_3                  4                   96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRTAP10-11 MUTATED        0      0      1      0      0      3      0      0
  KRTAP10-11 WILD-TYPE     41     26     29     29     39     66     20     14
                      vv
clus                   CLUS_9
  KRTAP10-11 MUTATED        1
  KRTAP10-11 WILD-TYPE     21
D1055V6, multiclass
        clus
vv       KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE
  CLUS_1                  0                   41
  CLUS_2                  0                   26
  CLUS_3                  1                   29
  CLUS_4                  0                   29
  CLUS_5                  0                   39
  CLUS_6                  3                   66
  CLUS_7                  0                   20
  CLUS_8                  0                   14
  CLUS_9                  1                   21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP10-11 MUTATED        2      1      1      1
  KRTAP10-11 WILD-TYPE     98     71     71    120
D1055V7, multiclass
        clus
vv       KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE
  CLUS_1                  2                   98
  CLUS_2                  1                   71
  CLUS_3                  1                   71
  CLUS_4                  1                  120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP10-11 MUTATED        0      2      2      1      0
  KRTAP10-11 WILD-TYPE     59     73     72    118     38
D1055V8, multiclass
        clus
vv       KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE
  CLUS_1                  0                   59
  CLUS_2                  2                   73
  CLUS_3                  2                   72
  CLUS_4                  1                  118
  CLUS_5                  0                   38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP10-11 MUTATED        1      2      0      1      1
  KRTAP10-11 WILD-TYPE     50     74     61     70     94
D1055V9, multiclass
        clus
vv       KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE
  CLUS_1                  1                   50
  CLUS_2                  2                   74
  CLUS_3                  0                   61
  CLUS_4                  1                   70
  CLUS_5                  1                   94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRTAP10-11 MUTATED        1      0      2      1      0      1      0      0
  KRTAP10-11 WILD-TYPE     68     48     37     15     53     19     21     38
                      vv
clus                   CLUS_9
  KRTAP10-11 MUTATED        0
  KRTAP10-11 WILD-TYPE     50
D1055V10, multiclass
        clus
vv       KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE
  CLUS_1                  1                   68
  CLUS_2                  0                   48
  CLUS_3                  2                   37
  CLUS_4                  1                   15
  CLUS_5                  0                   53
  CLUS_6                  1                   19
  CLUS_7                  0                   21
  CLUS_8                  0                   38
  CLUS_9                  0                   50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRTAP10-11 MUTATED        0      0      0      0      1      1
  KRTAP10-11 WILD-TYPE     13     16     14     11     10      8
D1055V11, multiclass
[1] "Remove cluster labels:" "KRTAP10-11 MUTATED"    
clus
  KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE 
                   2                   72 
          TCGA-A6-5657           TCGA-A6-6137           TCGA-A6-6138 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-6141           TCGA-A6-6142           TCGA-A6-6649 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-6651           TCGA-A6-6653           TCGA-A6-6654 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-6782           TCGA-AA-3489           TCGA-AA-3511 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AD-5900           TCGA-AD-6548           TCGA-AD-6889 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AD-6901           TCGA-AD-6963           TCGA-AD-6964 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AD-6965           TCGA-AY-6196           TCGA-AZ-4323 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AZ-4616           TCGA-AZ-5403           TCGA-AZ-6598 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AZ-6600           TCGA-AZ-6601           TCGA-AZ-6603 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AZ-6605           TCGA-AZ-6607           TCGA-CA-6718 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-CA-6719           TCGA-CK-5916           TCGA-CK-6748 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-CM-5860           TCGA-CM-6167           TCGA-CM-6674 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-CM-6676           TCGA-CM-6677           TCGA-CM-6678 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-CM-6679           TCGA-CM-6680           TCGA-D5-5537 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-D5-6533           TCGA-D5-6534           TCGA-D5-6536 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-D5-6922           TCGA-D5-6924           TCGA-DM-A0XD 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-DM-A1D0           TCGA-DM-A1D7           TCGA-DM-A1D8 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-DM-A1D9           TCGA-DM-A1DA           TCGA-DM-A1HA 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-DM-A282           TCGA-DM-A285           TCGA-DM-A28F 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-F4-6459           TCGA-F4-6460           TCGA-F4-6569 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-F4-6570           TCGA-F4-6704           TCGA-F4-6805 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-F4-6807           TCGA-F4-6808           TCGA-F4-6809 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-G4-6299           TCGA-G4-6303           TCGA-G4-6306 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-G4-6309           TCGA-G4-6625           TCGA-G4-6628 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRTAP10-11 MUTATED        0      0      0      0      0      1      0      1
  KRTAP10-11 WILD-TYPE     11      7      7      9      8      6     11      8
                      vv
clus                   CLUS_9
  KRTAP10-11 MUTATED        0
  KRTAP10-11 WILD-TYPE      5
D1055V12, multiclass
[1] "Remove cluster labels:" "KRTAP10-11 MUTATED"    
clus
  KRTAP10-11 MUTATED KRTAP10-11 WILD-TYPE 
                   2                   72 
          TCGA-A6-5657           TCGA-A6-6137           TCGA-A6-6138 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-6141           TCGA-A6-6142           TCGA-A6-6649 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-6651           TCGA-A6-6653           TCGA-A6-6654 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-A6-6782           TCGA-AA-3489           TCGA-AA-3511 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AD-5900           TCGA-AD-6548           TCGA-AD-6889 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AD-6901           TCGA-AD-6963           TCGA-AD-6964 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AD-6965           TCGA-AY-6196           TCGA-AZ-4323 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AZ-4616           TCGA-AZ-5403           TCGA-AZ-6598 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AZ-6600           TCGA-AZ-6601           TCGA-AZ-6603 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-AZ-6605           TCGA-AZ-6607           TCGA-CA-6718 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-CA-6719           TCGA-CK-5916           TCGA-CK-6748 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-CM-5860           TCGA-CM-6167           TCGA-CM-6674 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-CM-6676           TCGA-CM-6677           TCGA-CM-6678 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-CM-6679           TCGA-CM-6680           TCGA-D5-5537 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-D5-6533           TCGA-D5-6534           TCGA-D5-6536 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-D5-6922           TCGA-D5-6924           TCGA-DM-A0XD 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-DM-A1D0           TCGA-DM-A1D7           TCGA-DM-A1D8 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-DM-A1D9           TCGA-DM-A1DA           TCGA-DM-A1HA 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-DM-A282           TCGA-DM-A285           TCGA-DM-A28F 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-F4-6459           TCGA-F4-6460           TCGA-F4-6569 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-F4-6570           TCGA-F4-6704           TCGA-F4-6805 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-F4-6807           TCGA-F4-6808           TCGA-F4-6809 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-G4-6299           TCGA-G4-6303           TCGA-G4-6306 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 
          TCGA-G4-6309           TCGA-G4-6625           TCGA-G4-6628 
"KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" "KRTAP10-11 WILD-TYPE" 

Clustering(1056) Variable = CTCF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTCF MUTATED        5      0      1      1      0
  CTCF WILD-TYPE     27     18     45     26     23
D1056V1, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        4      2      1
  CTCF WILD-TYPE     39     65     35
D1056V2, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            4             39
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        4      2     11
  CTCF WILD-TYPE     38    171    136
D1056V3, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            4             38
  CLUS_2            2            171
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        6      1      3
  CTCF WILD-TYPE     56     72     72
D1056V4, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            6             56
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        1      9      4
  CTCF WILD-TYPE     69    111     96
D1056V5, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            1             69
  CLUS_2            9            111
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTCF MUTATED        1      1      1      4      3      2      1      1      0
  CTCF WILD-TYPE     40     25     29     25     36     67     19     13     22
D1056V6, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            4             25
  CLUS_5            3             36
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTCF MUTATED        1      7      2      7
  CTCF WILD-TYPE     99     65     70    114
D1056V7, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            1             99
  CLUS_2            7             65
  CLUS_3            2             70
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTCF MUTATED        1      1      8      3      4
  CTCF WILD-TYPE     58     74     66    116     34
D1056V8, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            8             66
  CLUS_4            3            116
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTCF MUTATED        1      8      1      0      7
  CTCF WILD-TYPE     50     68     60     71     88
D1056V9, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            1             50
  CLUS_2            8             68
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTCF MUTATED        4      1      0      2      5      2      0      2      1
  CTCF WILD-TYPE     65     47     39     14     48     18     21     36     49
D1056V10, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            4             65
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            5             48
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTCF MUTATED        0      1      0      0      1      0
  CTCF WILD-TYPE     13     15     14     11     10      9
D1056V11, multiclass
[1] "Remove cluster labels:" "CTCF MUTATED"          
clus
  CTCF MUTATED CTCF WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6625     TCGA-G4-6628 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTCF MUTATED        1      0      0      1      0      0      0      0      0
  CTCF WILD-TYPE     10      7      7      8      8      7     11      9      5
D1056V12, multiclass
[1] "Remove cluster labels:" "CTCF MUTATED"          
clus
  CTCF MUTATED CTCF WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6625     TCGA-G4-6628 
"CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" "CTCF WILD-TYPE" 

Clustering(1057) Variable = STYK1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STYK1 MUTATED        0      0      0      0      0
  STYK1 WILD-TYPE     32     18     46     27     23
D1057V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STYK1 MUTATED        0      0      0
  STYK1 WILD-TYPE     43     67     36
D1057V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STYK1 MUTATED        0      3      4
  STYK1 WILD-TYPE     42    170    143
D1057V3, multiclass
        clus
vv       STYK1 MUTATED STYK1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STYK1 MUTATED        1      3      2
  STYK1 WILD-TYPE     61     70     73
D1057V4, multiclass
        clus
vv       STYK1 MUTATED STYK1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STYK1 MUTATED        0      4      2
  STYK1 WILD-TYPE     70    116     98
D1057V5, multiclass
        clus
vv       STYK1 MUTATED STYK1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STYK1 MUTATED        0      0      2      1      0      3      0      0
  STYK1 WILD-TYPE     41     26     28     28     39     66     20     14
                 vv
clus              CLUS_9
  STYK1 MUTATED        0
  STYK1 WILD-TYPE     22
D1057V6, multiclass
        clus
vv       STYK1 MUTATED STYK1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STYK1 MUTATED        4      1      1      1
  STYK1 WILD-TYPE     96     71     71    120
D1057V7, multiclass
        clus
vv       STYK1 MUTATED STYK1 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STYK1 MUTATED        0      4      2      0      1
  STYK1 WILD-TYPE     59     71     72    119     37
D1057V8, multiclass
        clus
vv       STYK1 MUTATED STYK1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             4              71
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STYK1 MUTATED        1      3      1      1      1
  STYK1 WILD-TYPE     50     73     60     70     94
D1057V9, multiclass
        clus
vv       STYK1 MUTATED STYK1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STYK1 MUTATED        2      0      1      1      2      0      0      1
  STYK1 WILD-TYPE     67     48     38     15     51     20     21     37
                 vv
clus              CLUS_9
  STYK1 MUTATED        0
  STYK1 WILD-TYPE     50
D1057V10, multiclass
        clus
vv       STYK1 MUTATED STYK1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STYK1 MUTATED        0      0      1      0      0      0
  STYK1 WILD-TYPE     13     16     13     11     11      9
D1057V11, multiclass
[1] "Remove cluster labels:" "STYK1 MUTATED"         
clus
  STYK1 MUTATED STYK1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-G4-6628 
"STYK1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STYK1 MUTATED        0      0      0      0      1      0      0      0
  STYK1 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  STYK1 MUTATED        0
  STYK1 WILD-TYPE      5
D1057V12, multiclass
[1] "Remove cluster labels:" "STYK1 MUTATED"         
clus
  STYK1 MUTATED STYK1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" "STYK1 WILD-TYPE" 
     TCGA-G4-6628 
"STYK1 WILD-TYPE" 

Clustering(1058) Variable = BCAP29 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCAP29 MUTATED        1      0      0      0      0
  BCAP29 WILD-TYPE     31     18     46     27     23
D1058V1, multiclass
[1] "Remove cluster labels:" "BCAP29 MUTATED"        
clus
  BCAP29 MUTATED BCAP29 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AY-4071 
"BCAP29 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BCAP29 MUTATED        1      0      0
  BCAP29 WILD-TYPE     42     67     36
D1058V2, multiclass
[1] "Remove cluster labels:" "BCAP29 MUTATED"        
clus
  BCAP29 MUTATED BCAP29 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AY-4071 
"BCAP29 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BCAP29 MUTATED        0      1      6
  BCAP29 WILD-TYPE     42    172    141
D1058V3, multiclass
        clus
vv       BCAP29 MUTATED BCAP29 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BCAP29 MUTATED        2      0      4
  BCAP29 WILD-TYPE     60     73     71
D1058V4, multiclass
        clus
vv       BCAP29 MUTATED BCAP29 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BCAP29 MUTATED        2      1      1
  BCAP29 WILD-TYPE     68    119     99
D1058V5, multiclass
        clus
vv       BCAP29 MUTATED BCAP29 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1              119
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCAP29 MUTATED        2      0      0      1      1      0      0      0
  BCAP29 WILD-TYPE     39     26     30     28     38     69     20     14
                  vv
clus               CLUS_9
  BCAP29 MUTATED        0
  BCAP29 WILD-TYPE     22
D1058V6, multiclass
        clus
vv       BCAP29 MUTATED BCAP29 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              0               69
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCAP29 MUTATED        1      3      2      1
  BCAP29 WILD-TYPE     99     69     70    120
D1058V7, multiclass
        clus
vv       BCAP29 MUTATED BCAP29 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCAP29 MUTATED        1      1      4      0      1
  BCAP29 WILD-TYPE     58     74     70    119     37
D1058V8, multiclass
        clus
vv       BCAP29 MUTATED BCAP29 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCAP29 MUTATED        0      5      1      0      1
  BCAP29 WILD-TYPE     51     71     60     71     94
D1058V9, multiclass
        clus
vv       BCAP29 MUTATED BCAP29 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCAP29 MUTATED        2      2      0      0      1      1      0      1
  BCAP29 WILD-TYPE     67     46     39     16     52     19     21     37
                  vv
clus               CLUS_9
  BCAP29 MUTATED        0
  BCAP29 WILD-TYPE     50
D1058V10, multiclass
        clus
vv       BCAP29 MUTATED BCAP29 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BCAP29 MUTATED        0      1      0      0      0      0
  BCAP29 WILD-TYPE     13     15     14     11     11      9
D1058V11, multiclass
[1] "Remove cluster labels:" "BCAP29 MUTATED"        
clus
  BCAP29 MUTATED BCAP29 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-G4-6628 
"BCAP29 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCAP29 MUTATED        0      0      0      0      0      0      1      0
  BCAP29 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  BCAP29 MUTATED        0
  BCAP29 WILD-TYPE      5
D1058V12, multiclass
[1] "Remove cluster labels:" "BCAP29 MUTATED"        
clus
  BCAP29 MUTATED BCAP29 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" "BCAP29 WILD-TYPE" 
      TCGA-G4-6628 
"BCAP29 WILD-TYPE" 

Clustering(1059) Variable = SERPINB7 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SERPINB7 MUTATED        1      0      0      1      0
  SERPINB7 WILD-TYPE     31     18     46     26     23
D1059V1, multiclass
[1] "Remove cluster labels:" "SERPINB7 MUTATED"      
clus
  SERPINB7 MUTATED SERPINB7 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINB7 MUTATED        1      1      0
  SERPINB7 WILD-TYPE     42     66     36
D1059V2, multiclass
[1] "Remove cluster labels:" "SERPINB7 MUTATED"      
clus
  SERPINB7 MUTATED SERPINB7 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" "SERPINB7 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINB7 MUTATED        1      2      5
  SERPINB7 WILD-TYPE     41    171    142
D1059V3, multiclass
        clus
vv       SERPINB7 MUTATED SERPINB7 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                2                171
  CLUS_3                5                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINB7 MUTATED        4      0      2
  SERPINB7 WILD-TYPE     58     73     73
D1059V4, multiclass
        clus
vv       SERPINB7 MUTATED SERPINB7 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                0                 73
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINB7 MUTATED        0      6      2
  SERPINB7 WILD-TYPE     70    114     98
D1059V5, multiclass
        clus
vv       SERPINB7 MUTATED SERPINB7 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                6                114
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SERPINB7 MUTATED        0      1      1      2      0      2      0      1
  SERPINB7 WILD-TYPE     41     25     29     27     39     67     20     13
                    vv
clus                 CLUS_9
  SERPINB7 MUTATED        1
  SERPINB7 WILD-TYPE     21
D1059V6, multiclass
        clus
vv       SERPINB7 MUTATED SERPINB7 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                2                 27
  CLUS_5                0                 39
  CLUS_6                2                 67
  CLUS_7                0                 20
  CLUS_8                1                 13
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SERPINB7 MUTATED        1      3      2      2
  SERPINB7 WILD-TYPE     99     69     70    119
D1059V7, multiclass
        clus
vv       SERPINB7 MUTATED SERPINB7 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                3                 69
  CLUS_3                2                 70
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SERPINB7 MUTATED        2      1      3      1      1
  SERPINB7 WILD-TYPE     57     74     71    118     37
D1059V8, multiclass
        clus
vv       SERPINB7 MUTATED SERPINB7 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                1                 74
  CLUS_3                3                 71
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SERPINB7 MUTATED        0      3      2      0      3
  SERPINB7 WILD-TYPE     51     73     59     71     92
D1059V9, multiclass
        clus
vv       SERPINB7 MUTATED SERPINB7 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                3                 73
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SERPINB7 MUTATED        2      1      1      1      0      1      0      1
  SERPINB7 WILD-TYPE     67     47     38     15     53     19     21     37
                    vv
clus                 CLUS_9
  SERPINB7 MUTATED        1
  SERPINB7 WILD-TYPE     49
D1059V10, multiclass
        clus
vv       SERPINB7 MUTATED SERPINB7 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                1                 47
  CLUS_3                1                 38
  CLUS_4                1                 15
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SERPINB7 MUTATED        0      1      1      1      1      0
  SERPINB7 WILD-TYPE     13     15     13     10     10      9
D1059V11, multiclass
        clus
vv       SERPINB7 MUTATED SERPINB7 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                1                 10
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SERPINB7 MUTATED        0      1      0      1      0      0      2      0
  SERPINB7 WILD-TYPE     11      6      7      8      8      7      9      9
                    vv
clus                 CLUS_9
  SERPINB7 MUTATED        0
  SERPINB7 WILD-TYPE      5
D1059V12, multiclass
        clus
vv       SERPINB7 MUTATED SERPINB7 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  6
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1060) Variable = SPAST MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPAST MUTATED        3      0      0      1      0
  SPAST WILD-TYPE     29     18     46     26     23
D1060V1, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPAST MUTATED        4      0      0
  SPAST WILD-TYPE     39     67     36
D1060V2, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPAST MUTATED        0      1      8
  SPAST WILD-TYPE     42    172    139
D1060V3, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPAST MUTATED        4      1      0
  SPAST WILD-TYPE     58     72     75
D1060V4, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPAST MUTATED        0      4      4
  SPAST WILD-TYPE     70    116     96
D1060V5, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPAST MUTATED        0      0      1      0      3      3      0      1
  SPAST WILD-TYPE     41     26     29     29     36     66     20     13
                 vv
clus              CLUS_9
  SPAST MUTATED        0
  SPAST WILD-TYPE     22
D1060V6, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             3              36
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPAST MUTATED        1      2      2      4
  SPAST WILD-TYPE     99     70     70    117
D1060V7, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPAST MUTATED        1      1      3      0      4
  SPAST WILD-TYPE     58     74     71    119     34
D1060V8, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPAST MUTATED        0      3      1      0      5
  SPAST WILD-TYPE     51     73     60     71     90
D1060V9, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPAST MUTATED        0      3      0      1      0      0      0      4
  SPAST WILD-TYPE     69     45     39     15     53     20     21     34
                 vv
clus              CLUS_9
  SPAST MUTATED        1
  SPAST WILD-TYPE     49
D1060V10, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             0              69
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPAST MUTATED        1      0      0      0      3      0
  SPAST WILD-TYPE     12     16     14     11      8      9
D1060V11, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPAST MUTATED        0      0      1      1      0      0      2      0
  SPAST WILD-TYPE     11      7      6      8      8      7      9      9
                 vv
clus              CLUS_9
  SPAST MUTATED        0
  SPAST WILD-TYPE      5
D1060V12, multiclass
        clus
vv       SPAST MUTATED SPAST WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1061) Variable = NFKBIB MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFKBIB MUTATED        0      0      1      0      0
  NFKBIB WILD-TYPE     32     18     45     27     23
D1061V1, multiclass
[1] "Remove cluster labels:" "NFKBIB MUTATED"        
clus
  NFKBIB MUTATED NFKBIB WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AY-4071 
"NFKBIB WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFKBIB MUTATED        0      1      0
  NFKBIB WILD-TYPE     43     66     36
D1061V2, multiclass
[1] "Remove cluster labels:" "NFKBIB MUTATED"        
clus
  NFKBIB MUTATED NFKBIB WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" "NFKBIB WILD-TYPE" 
      TCGA-AY-4071 
"NFKBIB WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFKBIB MUTATED        0      4      1
  NFKBIB WILD-TYPE     42    169    146
D1061V3, multiclass
        clus
vv       NFKBIB MUTATED NFKBIB WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3              1              146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFKBIB MUTATED        1      2      1
  NFKBIB WILD-TYPE     61     71     74
D1061V4, multiclass
        clus
vv       NFKBIB MUTATED NFKBIB WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFKBIB MUTATED        0      1      3
  NFKBIB WILD-TYPE     70    119     97
D1061V5, multiclass
        clus
vv       NFKBIB MUTATED NFKBIB WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFKBIB MUTATED        1      0      0      1      0      2      0      0
  NFKBIB WILD-TYPE     40     26     30     28     39     67     20     14
                  vv
clus               CLUS_9
  NFKBIB MUTATED        0
  NFKBIB WILD-TYPE     22
D1061V6, multiclass
        clus
vv       NFKBIB MUTATED NFKBIB WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFKBIB MUTATED        1      1      2      1
  NFKBIB WILD-TYPE     99     71     70    120
D1061V7, multiclass
        clus
vv       NFKBIB MUTATED NFKBIB WILD-TYPE
  CLUS_1              1               99
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFKBIB MUTATED        2      1      1      1      0
  NFKBIB WILD-TYPE     57     74     73    118     38
D1061V8, multiclass
        clus
vv       NFKBIB MUTATED NFKBIB WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFKBIB MUTATED        0      1      2      1      1
  NFKBIB WILD-TYPE     51     75     59     70     94
D1061V9, multiclass
        clus
vv       NFKBIB MUTATED NFKBIB WILD-TYPE
  CLUS_1              0               51
  CLUS_2              1               75
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFKBIB MUTATED        2      1      1      1      0      0      0      0
  NFKBIB WILD-TYPE     67     47     38     15     53     20     21     38
                  vv
clus               CLUS_9
  NFKBIB MUTATED        0
  NFKBIB WILD-TYPE     50
D1061V10, multiclass
        clus
vv       NFKBIB MUTATED NFKBIB WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFKBIB MUTATED        0      0      1      1      0      1
  NFKBIB WILD-TYPE     13     16     13     10     11      8
D1061V11, multiclass
        clus
vv       NFKBIB MUTATED NFKBIB WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              0               11
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFKBIB MUTATED        1      0      1      0      0      0      0      1
  NFKBIB WILD-TYPE     10      7      6      9      8      7     11      8
                  vv
clus               CLUS_9
  NFKBIB MUTATED        0
  NFKBIB WILD-TYPE      5
D1061V12, multiclass
        clus
vv       NFKBIB MUTATED NFKBIB WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1062) Variable = ARID5A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID5A MUTATED        1      0      0      0      0
  ARID5A WILD-TYPE     31     18     46     27     23
D1062V1, multiclass
[1] "Remove cluster labels:" "ARID5A MUTATED"        
clus
  ARID5A MUTATED ARID5A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AY-4071 
"ARID5A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5A MUTATED        0      0      1
  ARID5A WILD-TYPE     43     67     35
D1062V2, multiclass
[1] "Remove cluster labels:" "ARID5A MUTATED"        
clus
  ARID5A MUTATED ARID5A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" "ARID5A WILD-TYPE" 
      TCGA-AY-4071 
"ARID5A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5A MUTATED        0      1      7
  ARID5A WILD-TYPE     42    172    140
D1062V3, multiclass
        clus
vv       ARID5A MUTATED ARID5A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5A MUTATED        3      1      3
  ARID5A WILD-TYPE     59     72     72
D1062V4, multiclass
        clus
vv       ARID5A MUTATED ARID5A WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5A MUTATED        2      2      3
  ARID5A WILD-TYPE     68    118     97
D1062V5, multiclass
        clus
vv       ARID5A MUTATED ARID5A WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID5A MUTATED        2      0      0      2      0      3      0      0
  ARID5A WILD-TYPE     39     26     30     27     39     66     20     14
                  vv
clus               CLUS_9
  ARID5A MUTATED        0
  ARID5A WILD-TYPE     22
D1062V6, multiclass
        clus
vv       ARID5A MUTATED ARID5A WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID5A MUTATED        1      3      3      1
  ARID5A WILD-TYPE     99     69     69    120
D1062V7, multiclass
        clus
vv       ARID5A MUTATED ARID5A WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID5A MUTATED        0      1      6      1      0
  ARID5A WILD-TYPE     59     74     68    118     38
D1062V8, multiclass
        clus
vv       ARID5A MUTATED ARID5A WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID5A MUTATED        0      6      0      1      1
  ARID5A WILD-TYPE     51     70     61     70     94
D1062V9, multiclass
        clus
vv       ARID5A MUTATED ARID5A WILD-TYPE
  CLUS_1              0               51
  CLUS_2              6               70
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID5A MUTATED        1      3      1      1      1      1      0      0
  ARID5A WILD-TYPE     68     45     38     15     52     19     21     38
                  vv
clus               CLUS_9
  ARID5A MUTATED        0
  ARID5A WILD-TYPE     50
D1062V10, multiclass
        clus
vv       ARID5A MUTATED ARID5A WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID5A MUTATED        0      1      1      0      1      0
  ARID5A WILD-TYPE     13     15     13     11     10      9
D1062V11, multiclass
        clus
vv       ARID5A MUTATED ARID5A WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID5A MUTATED        0      0      0      0      0      0      3      0
  ARID5A WILD-TYPE     11      7      7      9      8      7      8      9
                  vv
clus               CLUS_9
  ARID5A MUTATED        0
  ARID5A WILD-TYPE      5
D1062V12, multiclass
        clus
vv       ARID5A MUTATED ARID5A WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              3                8
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1063) Variable = CSNK2A2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSNK2A2 MUTATED        0      0      1      0      0
  CSNK2A2 WILD-TYPE     32     18     45     27     23
D1063V1, multiclass
[1] "Remove cluster labels:" "CSNK2A2 MUTATED"       
clus
  CSNK2A2 MUTATED CSNK2A2 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3696 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AY-4071 
"CSNK2A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CSNK2A2 MUTATED        0      0      1
  CSNK2A2 WILD-TYPE     43     67     35
D1063V2, multiclass
[1] "Remove cluster labels:" "CSNK2A2 MUTATED"       
clus
  CSNK2A2 MUTATED CSNK2A2 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3696 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AY-4071 
"CSNK2A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CSNK2A2 MUTATED        0      3      4
  CSNK2A2 WILD-TYPE     42    170    143
D1063V3, multiclass
        clus
vv       CSNK2A2 MUTATED CSNK2A2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CSNK2A2 MUTATED        1      1      4
  CSNK2A2 WILD-TYPE     61     72     71
D1063V4, multiclass
        clus
vv       CSNK2A2 MUTATED CSNK2A2 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CSNK2A2 MUTATED        1      2      3
  CSNK2A2 WILD-TYPE     69    118     97
D1063V5, multiclass
        clus
vv       CSNK2A2 MUTATED CSNK2A2 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSNK2A2 MUTATED        1      0      1      0      0      2      2      0
  CSNK2A2 WILD-TYPE     40     26     29     29     39     67     18     14
                   vv
clus                CLUS_9
  CSNK2A2 MUTATED        0
  CSNK2A2 WILD-TYPE     22
D1063V6, multiclass
        clus
vv       CSNK2A2 MUTATED CSNK2A2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSNK2A2 MUTATED        2      3      2      0
  CSNK2A2 WILD-TYPE     98     69     70    121
D1063V7, multiclass
        clus
vv       CSNK2A2 MUTATED CSNK2A2 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               3                69
  CLUS_3               2                70
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSNK2A2 MUTATED        1      1      4      1      0
  CSNK2A2 WILD-TYPE     58     74     70    118     38
D1063V8, multiclass
        clus
vv       CSNK2A2 MUTATED CSNK2A2 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSNK2A2 MUTATED        2      4      1      0      0
  CSNK2A2 WILD-TYPE     49     72     60     71     95
D1063V9, multiclass
        clus
vv       CSNK2A2 MUTATED CSNK2A2 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               4                72
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSNK2A2 MUTATED        1      2      0      2      1      0      1      0
  CSNK2A2 WILD-TYPE     68     46     39     14     52     20     20     38
                   vv
clus                CLUS_9
  CSNK2A2 MUTATED        0
  CSNK2A2 WILD-TYPE     50
D1063V10, multiclass
        clus
vv       CSNK2A2 MUTATED CSNK2A2 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CSNK2A2 MUTATED        0      0      0      0      1      0
  CSNK2A2 WILD-TYPE     13     16     14     11     10      9
D1063V11, multiclass
[1] "Remove cluster labels:" "CSNK2A2 MUTATED"       
clus
  CSNK2A2 MUTATED CSNK2A2 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-G4-6628 
"CSNK2A2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSNK2A2 MUTATED        0      0      0      0      1      0      0      0
  CSNK2A2 WILD-TYPE     11      7      7      9      7      7     11      9
                   vv
clus                CLUS_9
  CSNK2A2 MUTATED        0
  CSNK2A2 WILD-TYPE      5
D1063V12, multiclass
[1] "Remove cluster labels:" "CSNK2A2 MUTATED"       
clus
  CSNK2A2 MUTATED CSNK2A2 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" "CSNK2A2 WILD-TYPE" 
       TCGA-G4-6628 
"CSNK2A2 WILD-TYPE" 

Clustering(1064) Variable = AK3L1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AK3L1 MUTATED        0      0      0      0      0
  AK3L1 WILD-TYPE     32     18     46     27     23
D1064V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AK3L1 MUTATED        0      0      0
  AK3L1 WILD-TYPE     43     67     36
D1064V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AK3L1 MUTATED        0      0      3
  AK3L1 WILD-TYPE     42    173    144
D1064V3, multiclass
        clus
vv       AK3L1 MUTATED AK3L1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AK3L1 MUTATED        2      0      1
  AK3L1 WILD-TYPE     60     73     74
D1064V4, multiclass
        clus
vv       AK3L1 MUTATED AK3L1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AK3L1 MUTATED        0      0      3
  AK3L1 WILD-TYPE     70    120     97
D1064V5, multiclass
        clus
vv       AK3L1 MUTATED AK3L1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             0             120
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AK3L1 MUTATED        0      0      0      0      0      3      0      0
  AK3L1 WILD-TYPE     41     26     30     29     39     66     20     14
                 vv
clus              CLUS_9
  AK3L1 MUTATED        0
  AK3L1 WILD-TYPE     22
D1064V6, multiclass
        clus
vv       AK3L1 MUTATED AK3L1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AK3L1 MUTATED        0      1      2      0
  AK3L1 WILD-TYPE    100     71     70    121
D1064V7, multiclass
        clus
vv       AK3L1 MUTATED AK3L1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AK3L1 MUTATED        1      0      2      0      0
  AK3L1 WILD-TYPE     58     75     72    119     38
D1064V8, multiclass
        clus
vv       AK3L1 MUTATED AK3L1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AK3L1 MUTATED        0      2      1      0      0
  AK3L1 WILD-TYPE     51     74     60     71     95
D1064V9, multiclass
        clus
vv       AK3L1 MUTATED AK3L1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AK3L1 MUTATED        2      1      0      0      0      0      0      0
  AK3L1 WILD-TYPE     67     47     39     16     53     20     21     38
                 vv
clus              CLUS_9
  AK3L1 MUTATED        0
  AK3L1 WILD-TYPE     50
D1064V10, multiclass
        clus
vv       AK3L1 MUTATED AK3L1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AK3L1 MUTATED        0      0      0      0      1      0
  AK3L1 WILD-TYPE     13     16     14     11     10      9
D1064V11, multiclass
[1] "Remove cluster labels:" "AK3L1 MUTATED"         
clus
  AK3L1 MUTATED AK3L1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-G4-6628 
"AK3L1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AK3L1 MUTATED        0      0      0      0      0      1      0      0
  AK3L1 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  AK3L1 MUTATED        0
  AK3L1 WILD-TYPE      5
D1064V12, multiclass
[1] "Remove cluster labels:" "AK3L1 MUTATED"         
clus
  AK3L1 MUTATED AK3L1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" "AK3L1 WILD-TYPE" 
     TCGA-G4-6628 
"AK3L1 WILD-TYPE" 

Clustering(1065) Variable = IFITM3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFITM3 MUTATED        0      0      0      0      0
  IFITM3 WILD-TYPE     32     18     46     27     23
D1065V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFITM3 MUTATED        0      0      0
  IFITM3 WILD-TYPE     43     67     36
D1065V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFITM3 MUTATED        1      3      2
  IFITM3 WILD-TYPE     41    170    145
D1065V3, multiclass
        clus
vv       IFITM3 MUTATED IFITM3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFITM3 MUTATED        2      3      1
  IFITM3 WILD-TYPE     60     70     74
D1065V4, multiclass
        clus
vv       IFITM3 MUTATED IFITM3 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3               70
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFITM3 MUTATED        0      2      4
  IFITM3 WILD-TYPE     70    118     96
D1065V5, multiclass
        clus
vv       IFITM3 MUTATED IFITM3 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFITM3 MUTATED        0      0      0      0      0      2      2      0
  IFITM3 WILD-TYPE     41     26     30     29     39     67     18     14
                  vv
clus               CLUS_9
  IFITM3 MUTATED        2
  IFITM3 WILD-TYPE     20
D1065V6, multiclass
        clus
vv       IFITM3 MUTATED IFITM3 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFITM3 MUTATED        2      1      3      0
  IFITM3 WILD-TYPE     98     71     69    121
D1065V7, multiclass
        clus
vv       IFITM3 MUTATED IFITM3 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              3               69
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFITM3 MUTATED        3      2      1      0      0
  IFITM3 WILD-TYPE     56     73     73    119     38
D1065V8, multiclass
        clus
vv       IFITM3 MUTATED IFITM3 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              2               73
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFITM3 MUTATED        2      3      1      0      0
  IFITM3 WILD-TYPE     49     73     60     71     95
D1065V9, multiclass
        clus
vv       IFITM3 MUTATED IFITM3 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFITM3 MUTATED        2      2      1      0      1      0      0      0
  IFITM3 WILD-TYPE     67     46     38     16     52     20     21     38
                  vv
clus               CLUS_9
  IFITM3 MUTATED        0
  IFITM3 WILD-TYPE     50
D1065V10, multiclass
        clus
vv       IFITM3 MUTATED IFITM3 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IFITM3 MUTATED        0      0      0      0      0      0
  IFITM3 WILD-TYPE     13     16     14     11     11      9
D1065V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFITM3 MUTATED        0      0      0      0      0      0      0      0
  IFITM3 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  IFITM3 MUTATED        0
  IFITM3 WILD-TYPE      5
D1065V12, multiclass

Clustering(1066) Variable = ACTN1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTN1 MUTATED        0      0      0      2      0
  ACTN1 WILD-TYPE     32     18     46     25     23
D1066V1, multiclass
[1] "Remove cluster labels:" "ACTN1 MUTATED"         
clus
  ACTN1 MUTATED ACTN1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTN1 MUTATED        1      1      0
  ACTN1 WILD-TYPE     42     66     36
D1066V2, multiclass
[1] "Remove cluster labels:" "ACTN1 MUTATED"         
clus
  ACTN1 MUTATED ACTN1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" "ACTN1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTN1 MUTATED        0      2      7
  ACTN1 WILD-TYPE     42    171    140
D1066V3, multiclass
        clus
vv       ACTN1 MUTATED ACTN1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTN1 MUTATED        5      1      0
  ACTN1 WILD-TYPE     57     72     75
D1066V4, multiclass
        clus
vv       ACTN1 MUTATED ACTN1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTN1 MUTATED        1      4      3
  ACTN1 WILD-TYPE     69    116     97
D1066V5, multiclass
        clus
vv       ACTN1 MUTATED ACTN1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTN1 MUTATED        1      1      2      0      1      3      0      0
  ACTN1 WILD-TYPE     40     25     28     29     38     66     20     14
                 vv
clus              CLUS_9
  ACTN1 MUTATED        0
  ACTN1 WILD-TYPE     22
D1066V6, multiclass
        clus
vv       ACTN1 MUTATED ACTN1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACTN1 MUTATED        2      0      3      4
  ACTN1 WILD-TYPE     98     72     69    117
D1066V7, multiclass
        clus
vv       ACTN1 MUTATED ACTN1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             0              72
  CLUS_3             3              69
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTN1 MUTATED        1      2      2      2      2
  ACTN1 WILD-TYPE     58     73     72    117     36
D1066V8, multiclass
        clus
vv       ACTN1 MUTATED ACTN1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTN1 MUTATED        2      2      1      0      4
  ACTN1 WILD-TYPE     49     74     60     71     91
D1066V9, multiclass
        clus
vv       ACTN1 MUTATED ACTN1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTN1 MUTATED        2      1      1      0      0      2      0      2
  ACTN1 WILD-TYPE     67     47     38     16     53     18     21     36
                 vv
clus              CLUS_9
  ACTN1 MUTATED        1
  ACTN1 WILD-TYPE     49
D1066V10, multiclass
        clus
vv       ACTN1 MUTATED ACTN1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACTN1 MUTATED        1      1      0      0      1      0
  ACTN1 WILD-TYPE     12     15     14     11     10      9
D1066V11, multiclass
        clus
vv       ACTN1 MUTATED ACTN1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTN1 MUTATED        1      0      0      0      0      1      0      0
  ACTN1 WILD-TYPE     10      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  ACTN1 MUTATED        1
  ACTN1 WILD-TYPE      4
D1066V12, multiclass
        clus
vv       ACTN1 MUTATED ACTN1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1067) Variable = FAM193A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM193A MUTATED        1      0      0      0      0
  FAM193A WILD-TYPE     31     18     46     27     23
D1067V1, multiclass
[1] "Remove cluster labels:" "FAM193A MUTATED"       
clus
  FAM193A MUTATED FAM193A WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3949        TCGA-AA-3950 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AY-4071 
"FAM193A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM193A MUTATED        1      0      0
  FAM193A WILD-TYPE     42     67     36
D1067V2, multiclass
[1] "Remove cluster labels:" "FAM193A MUTATED"       
clus
  FAM193A MUTATED FAM193A WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3949        TCGA-AA-3950 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" "FAM193A WILD-TYPE" 
       TCGA-AY-4071 
"FAM193A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM193A MUTATED        1      2     14
  FAM193A WILD-TYPE     41    171    133
D1067V3, multiclass
        clus
vv       FAM193A MUTATED FAM193A WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3              14               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM193A MUTATED        4      1     11
  FAM193A WILD-TYPE     58     72     64
D1067V4, multiclass
        clus
vv       FAM193A MUTATED FAM193A WILD-TYPE
  CLUS_1               4                58
  CLUS_2               1                72
  CLUS_3              11                64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM193A MUTATED        1      3      7
  FAM193A WILD-TYPE     69    117     93
D1067V5, multiclass
        clus
vv       FAM193A MUTATED FAM193A WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM193A MUTATED        2      0      0      3      1      4      1      0
  FAM193A WILD-TYPE     39     26     30     26     38     65     19     14
                   vv
clus                CLUS_9
  FAM193A MUTATED        0
  FAM193A WILD-TYPE     22
D1067V6, multiclass
        clus
vv       FAM193A MUTATED FAM193A WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               3                26
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM193A MUTATED        1      8      7      1
  FAM193A WILD-TYPE     99     64     65    120
D1067V7, multiclass
        clus
vv       FAM193A MUTATED FAM193A WILD-TYPE
  CLUS_1               1                99
  CLUS_2               8                64
  CLUS_3               7                65
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM193A MUTATED        1      2     13      0      1
  FAM193A WILD-TYPE     58     73     61    119     37
D1067V8, multiclass
        clus
vv       FAM193A MUTATED FAM193A WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3              13                61
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM193A MUTATED        2     12      2      0      1
  FAM193A WILD-TYPE     49     64     59     71     94
D1067V9, multiclass
        clus
vv       FAM193A MUTATED FAM193A WILD-TYPE
  CLUS_1               2                49
  CLUS_2              12                64
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM193A MUTATED        1      7      0      4      2      2      0      1
  FAM193A WILD-TYPE     68     41     39     12     51     18     21     37
                   vv
clus                CLUS_9
  FAM193A MUTATED        0
  FAM193A WILD-TYPE     50
D1067V10, multiclass
        clus
vv       FAM193A MUTATED FAM193A WILD-TYPE
  CLUS_1               1                68
  CLUS_2               7                41
  CLUS_3               0                39
  CLUS_4               4                12
  CLUS_5               2                51
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM193A MUTATED        0      1      1      0      2      0
  FAM193A WILD-TYPE     13     15     13     11      9      9
D1067V11, multiclass
        clus
vv       FAM193A MUTATED FAM193A WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM193A MUTATED        0      0      0      1      1      0      2      0
  FAM193A WILD-TYPE     11      7      7      8      7      7      9      9
                   vv
clus                CLUS_9
  FAM193A MUTATED        0
  FAM193A WILD-TYPE      5
D1067V12, multiclass
        clus
vv       FAM193A MUTATED FAM193A WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1068) Variable = TAF6 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF6 MUTATED        2      0      0      1      0
  TAF6 WILD-TYPE     30     18     46     26     23
D1068V1, multiclass
        clus
vv       TAF6 MUTATED TAF6 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF6 MUTATED        3      0      0
  TAF6 WILD-TYPE     40     67     36
D1068V2, multiclass
        clus
vv       TAF6 MUTATED TAF6 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF6 MUTATED        1      3      5
  TAF6 WILD-TYPE     41    170    142
D1068V3, multiclass
        clus
vv       TAF6 MUTATED TAF6 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF6 MUTATED        1      3      2
  TAF6 WILD-TYPE     61     70     73
D1068V4, multiclass
        clus
vv       TAF6 MUTATED TAF6 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            3             70
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF6 MUTATED        1      2      4
  TAF6 WILD-TYPE     69    118     96
D1068V5, multiclass
        clus
vv       TAF6 MUTATED TAF6 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF6 MUTATED        1      0      0      0      0      4      0      2      0
  TAF6 WILD-TYPE     40     26     30     29     39     65     20     12     22
D1068V6, multiclass
        clus
vv       TAF6 MUTATED TAF6 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            2             12
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAF6 MUTATED        4      1      1      3
  TAF6 WILD-TYPE     96     71     71    118
D1068V7, multiclass
        clus
vv       TAF6 MUTATED TAF6 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF6 MUTATED        1      3      2      0      3
  TAF6 WILD-TYPE     58     72     72    119     35
D1068V8, multiclass
        clus
vv       TAF6 MUTATED TAF6 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF6 MUTATED        2      3      1      0      2
  TAF6 WILD-TYPE     49     73     60     71     93
D1068V9, multiclass
        clus
vv       TAF6 MUTATED TAF6 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF6 MUTATED        1      1      2      1      1      1      0      1      0
  TAF6 WILD-TYPE     68     47     37     15     52     19     21     37     50
D1068V10, multiclass
        clus
vv       TAF6 MUTATED TAF6 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            2             37
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAF6 MUTATED        0      1      0      1      0      0
  TAF6 WILD-TYPE     13     15     14     10     11      9
D1068V11, multiclass
[1] "Remove cluster labels:" "TAF6 MUTATED"          
clus
  TAF6 MUTATED TAF6 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6569 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF6 MUTATED        0      0      0      0      0      0      2      0      0
  TAF6 WILD-TYPE     11      7      7      9      8      7      9      9      5
D1068V12, multiclass
[1] "Remove cluster labels:" "TAF6 MUTATED"          
clus
  TAF6 MUTATED TAF6 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6569 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" "TAF6 WILD-TYPE" 

Clustering(1069) Variable = CYP4F11 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP4F11 MUTATED        0      0      0      1      0
  CYP4F11 WILD-TYPE     32     18     46     26     23
D1069V1, multiclass
[1] "Remove cluster labels:" "CYP4F11 MUTATED"       
clus
  CYP4F11 MUTATED CYP4F11 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AY-4071 
"CYP4F11 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP4F11 MUTATED        1      0      0
  CYP4F11 WILD-TYPE     42     67     36
D1069V2, multiclass
[1] "Remove cluster labels:" "CYP4F11 MUTATED"       
clus
  CYP4F11 MUTATED CYP4F11 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" "CYP4F11 WILD-TYPE" 
       TCGA-AY-4071 
"CYP4F11 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP4F11 MUTATED        0      0      6
  CYP4F11 WILD-TYPE     42    173    141
D1069V3, multiclass
        clus
vv       CYP4F11 MUTATED CYP4F11 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP4F11 MUTATED        2      0      3
  CYP4F11 WILD-TYPE     60     73     72
D1069V4, multiclass
        clus
vv       CYP4F11 MUTATED CYP4F11 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYP4F11 MUTATED        3      0      3
  CYP4F11 WILD-TYPE     67    120     97
D1069V5, multiclass
        clus
vv       CYP4F11 MUTATED CYP4F11 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               0               120
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP4F11 MUTATED        1      0      0      0      1      4      0      0
  CYP4F11 WILD-TYPE     40     26     30     29     38     65     20     14
                   vv
clus                CLUS_9
  CYP4F11 MUTATED        0
  CYP4F11 WILD-TYPE     22
D1069V6, multiclass
        clus
vv       CYP4F11 MUTATED CYP4F11 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYP4F11 MUTATED        0      2      3      1
  CYP4F11 WILD-TYPE    100     70     69    120
D1069V7, multiclass
        clus
vv       CYP4F11 MUTATED CYP4F11 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP4F11 MUTATED        0      0      5      0      1
  CYP4F11 WILD-TYPE     59     75     69    119     37
D1069V8, multiclass
        clus
vv       CYP4F11 MUTATED CYP4F11 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               5                69
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP4F11 MUTATED        0      5      0      0      0
  CYP4F11 WILD-TYPE     51     71     61     71     95
D1069V9, multiclass
        clus
vv       CYP4F11 MUTATED CYP4F11 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               5                71
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP4F11 MUTATED        2      2      0      1      0      0      0      0
  CYP4F11 WILD-TYPE     67     46     39     15     53     20     21     38
                   vv
clus                CLUS_9
  CYP4F11 MUTATED        0
  CYP4F11 WILD-TYPE     50
D1069V10, multiclass
        clus
vv       CYP4F11 MUTATED CYP4F11 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CYP4F11 MUTATED        0      2      0      0      1      0
  CYP4F11 WILD-TYPE     13     14     14     11     10      9
D1069V11, multiclass
        clus
vv       CYP4F11 MUTATED CYP4F11 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               2                14
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP4F11 MUTATED        1      0      0      0      0      0      2      0
  CYP4F11 WILD-TYPE     10      7      7      9      8      7      9      9
                   vv
clus                CLUS_9
  CYP4F11 MUTATED        0
  CYP4F11 WILD-TYPE      5
D1069V12, multiclass
        clus
vv       CYP4F11 MUTATED CYP4F11 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1070) Variable = MED13 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MED13 MUTATED        2      0      0      3      0
  MED13 WILD-TYPE     30     18     46     24     23
D1070V1, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED13 MUTATED        4      1      0
  MED13 WILD-TYPE     39     66     36
D1070V2, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED13 MUTATED        2      2     16
  MED13 WILD-TYPE     40    171    131
D1070V3, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED13 MUTATED        4      4      7
  MED13 WILD-TYPE     58     69     68
D1070V4, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             4              69
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED13 MUTATED        2      5     10
  MED13 WILD-TYPE     68    115     90
D1070V5, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MED13 MUTATED        1      1      2      2      3      7      1      0
  MED13 WILD-TYPE     40     25     28     27     36     62     19     14
                 vv
clus              CLUS_9
  MED13 MUTATED        0
  MED13 WILD-TYPE     22
D1070V6, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MED13 MUTATED        1      7      6      6
  MED13 WILD-TYPE     99     65     66    115
D1070V7, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             7              65
  CLUS_3             6              66
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MED13 MUTATED        2      2      9      3      4
  MED13 WILD-TYPE     57     73     65    116     34
D1070V8, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             9              65
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MED13 MUTATED        1      7      4      2      5
  MED13 WILD-TYPE     50     69     57     69     90
D1070V9, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             4              57
  CLUS_4             2              69
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MED13 MUTATED        3      4      0      5      0      2      1      3
  MED13 WILD-TYPE     66     44     39     11     53     18     20     35
                 vv
clus              CLUS_9
  MED13 MUTATED        1
  MED13 WILD-TYPE     49
D1070V10, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             5              11
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MED13 MUTATED        0      0      0      0      3      0
  MED13 WILD-TYPE     13     16     14     11      8      9
D1070V11, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MED13 MUTATED        0      0      0      1      1      1      0      0
  MED13 WILD-TYPE     11      7      7      8      7      6     11      9
                 vv
clus              CLUS_9
  MED13 MUTATED        0
  MED13 WILD-TYPE      5
D1070V12, multiclass
        clus
vv       MED13 MUTATED MED13 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1071) Variable = DACT1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DACT1 MUTATED        2      0      0      1      0
  DACT1 WILD-TYPE     30     18     46     26     23
D1071V1, multiclass
        clus
vv       DACT1 MUTATED DACT1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DACT1 MUTATED        2      0      1
  DACT1 WILD-TYPE     41     67     35
D1071V2, multiclass
        clus
vv       DACT1 MUTATED DACT1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DACT1 MUTATED        2      0     12
  DACT1 WILD-TYPE     40    173    135
D1071V3, multiclass
        clus
vv       DACT1 MUTATED DACT1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0             173
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DACT1 MUTATED        4      0      6
  DACT1 WILD-TYPE     58     73     69
D1071V4, multiclass
        clus
vv       DACT1 MUTATED DACT1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DACT1 MUTATED        4      2      7
  DACT1 WILD-TYPE     66    118     93
D1071V5, multiclass
        clus
vv       DACT1 MUTATED DACT1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             2             118
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DACT1 MUTATED        1      1      1      2      2      5      1      0
  DACT1 WILD-TYPE     40     25     29     27     37     64     19     14
                 vv
clus              CLUS_9
  DACT1 MUTATED        0
  DACT1 WILD-TYPE     22
D1071V6, multiclass
        clus
vv       DACT1 MUTATED DACT1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DACT1 MUTATED        0      6      5      4
  DACT1 WILD-TYPE    100     66     67    117
D1071V7, multiclass
        clus
vv       DACT1 MUTATED DACT1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             5              67
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DACT1 MUTATED        2      1      8      1      3
  DACT1 WILD-TYPE     57     74     66    118     35
D1071V8, multiclass
        clus
vv       DACT1 MUTATED DACT1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DACT1 MUTATED        0      8      2      1      3
  DACT1 WILD-TYPE     51     68     59     70     92
D1071V9, multiclass
        clus
vv       DACT1 MUTATED DACT1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             8              68
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DACT1 MUTATED        2      2      0      3      3      1      1      2
  DACT1 WILD-TYPE     67     46     39     13     50     19     20     36
                 vv
clus              CLUS_9
  DACT1 MUTATED        0
  DACT1 WILD-TYPE     50
D1071V10, multiclass
        clus
vv       DACT1 MUTATED DACT1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DACT1 MUTATED        0      0      0      0      2      0
  DACT1 WILD-TYPE     13     16     14     11      9      9
D1071V11, multiclass
[1] "Remove cluster labels:" "DACT1 MUTATED"         
clus
  DACT1 MUTATED DACT1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DACT1 MUTATED        0      0      0      1      0      1      0      0
  DACT1 WILD-TYPE     11      7      7      8      8      6     11      9
                 vv
clus              CLUS_9
  DACT1 MUTATED        0
  DACT1 WILD-TYPE      5
D1071V12, multiclass
[1] "Remove cluster labels:" "DACT1 MUTATED"         
clus
  DACT1 MUTATED DACT1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" "DACT1 WILD-TYPE" 

Clustering(1072) Variable = PTTG1IP MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTTG1IP MUTATED        0      0      0      0      0
  PTTG1IP WILD-TYPE     32     18     46     27     23
D1072V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PTTG1IP MUTATED        0      0      0
  PTTG1IP WILD-TYPE     43     67     36
D1072V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PTTG1IP MUTATED        1      1      5
  PTTG1IP WILD-TYPE     41    172    142
D1072V3, multiclass
        clus
vv       PTTG1IP MUTATED PTTG1IP WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PTTG1IP MUTATED        5      1      1
  PTTG1IP WILD-TYPE     57     72     74
D1072V4, multiclass
        clus
vv       PTTG1IP MUTATED PTTG1IP WILD-TYPE
  CLUS_1               5                57
  CLUS_2               1                72
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PTTG1IP MUTATED        0      3      4
  PTTG1IP WILD-TYPE     70    117     96
D1072V5, multiclass
        clus
vv       PTTG1IP MUTATED PTTG1IP WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTTG1IP MUTATED        0      1      0      0      1      3      1      0
  PTTG1IP WILD-TYPE     41     25     30     29     38     66     19     14
                   vv
clus                CLUS_9
  PTTG1IP MUTATED        1
  PTTG1IP WILD-TYPE     21
D1072V6, multiclass
        clus
vv       PTTG1IP MUTATED PTTG1IP WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               3                66
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTTG1IP MUTATED        1      4      1      1
  PTTG1IP WILD-TYPE     99     68     71    120
D1072V7, multiclass
        clus
vv       PTTG1IP MUTATED PTTG1IP WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTTG1IP MUTATED        0      1      5      1      0
  PTTG1IP WILD-TYPE     59     74     69    118     38
D1072V8, multiclass
        clus
vv       PTTG1IP MUTATED PTTG1IP WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               5                69
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTTG1IP MUTATED        1      5      0      0      1
  PTTG1IP WILD-TYPE     50     71     61     71     94
D1072V9, multiclass
        clus
vv       PTTG1IP MUTATED PTTG1IP WILD-TYPE
  CLUS_1               1                50
  CLUS_2               5                71
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTTG1IP MUTATED        3      0      0      1      0      2      0      0
  PTTG1IP WILD-TYPE     66     48     39     15     53     18     21     38
                   vv
clus                CLUS_9
  PTTG1IP MUTATED        1
  PTTG1IP WILD-TYPE     49
D1072V10, multiclass
        clus
vv       PTTG1IP MUTATED PTTG1IP WILD-TYPE
  CLUS_1               3                66
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTTG1IP MUTATED        0      0      1      0      0      0
  PTTG1IP WILD-TYPE     13     16     13     11     11      9
D1072V11, multiclass
[1] "Remove cluster labels:" "PTTG1IP MUTATED"       
clus
  PTTG1IP MUTATED PTTG1IP WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-G4-6625 
"PTTG1IP WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTTG1IP MUTATED        0      0      0      0      0      0      1      0
  PTTG1IP WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  PTTG1IP MUTATED        0
  PTTG1IP WILD-TYPE      5
D1072V12, multiclass
[1] "Remove cluster labels:" "PTTG1IP MUTATED"       
clus
  PTTG1IP MUTATED PTTG1IP WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" "PTTG1IP WILD-TYPE" 
       TCGA-G4-6625 
"PTTG1IP WILD-TYPE" 

Clustering(1073) Variable = ATP12A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP12A MUTATED        4      0      1      3      1
  ATP12A WILD-TYPE     28     18     45     24     22
D1073V1, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              3               24
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP12A MUTATED        6      2      1
  ATP12A WILD-TYPE     37     65     35
D1073V2, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              6               37
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP12A MUTATED        4      5     17
  ATP12A WILD-TYPE     38    168    130
D1073V3, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              4               38
  CLUS_2              5              168
  CLUS_3             17              130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP12A MUTATED        6      5      5
  ATP12A WILD-TYPE     56     68     70
D1073V4, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              6               56
  CLUS_2              5               68
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP12A MUTATED        3      7     10
  ATP12A WILD-TYPE     67    113     90
D1073V5, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              3               67
  CLUS_2              7              113
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP12A MUTATED        3      0      2      2      4      7      1      1
  ATP12A WILD-TYPE     38     26     28     27     35     62     19     13
                  vv
clus               CLUS_9
  ATP12A MUTATED        0
  ATP12A WILD-TYPE     22
D1073V6, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              4               35
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP12A MUTATED        6      7      4      9
  ATP12A WILD-TYPE     94     65     68    112
D1073V7, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              6               94
  CLUS_2              7               65
  CLUS_3              4               68
  CLUS_4              9              112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP12A MUTATED        0      6     10      4      6
  ATP12A WILD-TYPE     59     69     64    115     32
D1073V8, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              0               59
  CLUS_2              6               69
  CLUS_3             10               64
  CLUS_4              4              115
  CLUS_5              6               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP12A MUTATED        3     10      1      2      9
  ATP12A WILD-TYPE     48     66     60     69     86
D1073V9, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              3               48
  CLUS_2             10               66
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              9               86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP12A MUTATED        7      1      3      4      1      1      1      6
  ATP12A WILD-TYPE     62     47     36     12     52     19     20     32
                  vv
clus               CLUS_9
  ATP12A MUTATED        1
  ATP12A WILD-TYPE     49
D1073V10, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              7               62
  CLUS_2              1               47
  CLUS_3              3               36
  CLUS_4              4               12
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              6               32
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP12A MUTATED        1      0      2      0      1      1
  ATP12A WILD-TYPE     12     16     12     11     10      8
D1073V11, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP12A MUTATED        0      0      0      1      1      2      1      0
  ATP12A WILD-TYPE     11      7      7      8      7      5     10      9
                  vv
clus               CLUS_9
  ATP12A MUTATED        0
  ATP12A WILD-TYPE      5
D1073V12, multiclass
        clus
vv       ATP12A MUTATED ATP12A WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              2                5
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1074) Variable = DHX32 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHX32 MUTATED        2      0      0      0      0
  DHX32 WILD-TYPE     30     18     46     27     23
D1074V1, multiclass
[1] "Remove cluster labels:" "DHX32 MUTATED"         
clus
  DHX32 MUTATED DHX32 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX32 MUTATED        2      0      0
  DHX32 WILD-TYPE     41     67     36
D1074V2, multiclass
[1] "Remove cluster labels:" "DHX32 MUTATED"         
clus
  DHX32 MUTATED DHX32 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" "DHX32 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX32 MUTATED        1      4      5
  DHX32 WILD-TYPE     41    169    142
D1074V3, multiclass
        clus
vv       DHX32 MUTATED DHX32 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX32 MUTATED        2      2      4
  DHX32 WILD-TYPE     60     71     71
D1074V4, multiclass
        clus
vv       DHX32 MUTATED DHX32 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX32 MUTATED        2      3      4
  DHX32 WILD-TYPE     68    117     96
D1074V5, multiclass
        clus
vv       DHX32 MUTATED DHX32 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHX32 MUTATED        4      0      1      1      1      1      0      0
  DHX32 WILD-TYPE     37     26     29     28     38     68     20     14
                 vv
clus              CLUS_9
  DHX32 MUTATED        1
  DHX32 WILD-TYPE     21
D1074V6, multiclass
        clus
vv       DHX32 MUTATED DHX32 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DHX32 MUTATED        0      4      4      2
  DHX32 WILD-TYPE    100     68     68    119
D1074V7, multiclass
        clus
vv       DHX32 MUTATED DHX32 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHX32 MUTATED        2      3      3      0      2
  DHX32 WILD-TYPE     57     72     71    119     36
D1074V8, multiclass
        clus
vv       DHX32 MUTATED DHX32 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHX32 MUTATED        2      2      1      2      3
  DHX32 WILD-TYPE     49     74     60     69     92
D1074V9, multiclass
        clus
vv       DHX32 MUTATED DHX32 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHX32 MUTATED        2      3      0      0      1      1      0      2
  DHX32 WILD-TYPE     67     45     39     16     52     19     21     36
                 vv
clus              CLUS_9
  DHX32 MUTATED        1
  DHX32 WILD-TYPE     49
D1074V10, multiclass
        clus
vv       DHX32 MUTATED DHX32 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DHX32 MUTATED        0      2      1      0      0      0
  DHX32 WILD-TYPE     13     14     13     11     11      9
D1074V11, multiclass
        clus
vv       DHX32 MUTATED DHX32 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHX32 MUTATED        1      1      0      0      0      0      1      0
  DHX32 WILD-TYPE     10      6      7      9      8      7     10      9
                 vv
clus              CLUS_9
  DHX32 MUTATED        0
  DHX32 WILD-TYPE      5
D1074V12, multiclass
        clus
vv       DHX32 MUTATED DHX32 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1075) Variable = SLITRK2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLITRK2 MUTATED        4      0      0      3      0
  SLITRK2 WILD-TYPE     28     18     46     24     23
D1075V1, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               3                24
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLITRK2 MUTATED        5      2      0
  SLITRK2 WILD-TYPE     38     65     36
D1075V2, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               5                38
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLITRK2 MUTATED        2      5     14
  SLITRK2 WILD-TYPE     40    168    133
D1075V3, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               5               168
  CLUS_3              14               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLITRK2 MUTATED        7      5      2
  SLITRK2 WILD-TYPE     55     68     73
D1075V4, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               7                55
  CLUS_2               5                68
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLITRK2 MUTATED        3      7      8
  SLITRK2 WILD-TYPE     67    113     92
D1075V5, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               7               113
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLITRK2 MUTATED        1      1      3      2      4      6      0      0
  SLITRK2 WILD-TYPE     40     25     27     27     35     63     20     14
                   vv
clus                CLUS_9
  SLITRK2 MUTATED        1
  SLITRK2 WILD-TYPE     21
D1075V6, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               3                27
  CLUS_4               2                27
  CLUS_5               4                35
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLITRK2 MUTATED        5      2      6      8
  SLITRK2 WILD-TYPE     95     70     66    113
D1075V7, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               5                95
  CLUS_2               2                70
  CLUS_3               6                66
  CLUS_4               8               113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLITRK2 MUTATED        2      5      6      4      4
  SLITRK2 WILD-TYPE     57     70     68    115     34
D1075V8, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               5                70
  CLUS_3               6                68
  CLUS_4               4               115
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLITRK2 MUTATED        4      4      3      1      9
  SLITRK2 WILD-TYPE     47     72     58     70     86
D1075V9, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               4                47
  CLUS_2               4                72
  CLUS_3               3                58
  CLUS_4               1                70
  CLUS_5               9                86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLITRK2 MUTATED        2      5      1      1      3      2      1      5
  SLITRK2 WILD-TYPE     67     43     38     15     50     18     20     33
                   vv
clus                CLUS_9
  SLITRK2 MUTATED        1
  SLITRK2 WILD-TYPE     49
D1075V10, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               5                43
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               3                50
  CLUS_6               2                18
  CLUS_7               1                20
  CLUS_8               5                33
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLITRK2 MUTATED        1      0      0      0      2      0
  SLITRK2 WILD-TYPE     12     16     14     11      9      9
D1075V11, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLITRK2 MUTATED        0      0      0      0      0      0      2      0
  SLITRK2 WILD-TYPE     11      7      7      9      8      7      9      9
                   vv
clus                CLUS_9
  SLITRK2 MUTATED        1
  SLITRK2 WILD-TYPE      4
D1075V12, multiclass
        clus
vv       SLITRK2 MUTATED SLITRK2 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1076) Variable = TMC8 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMC8 MUTATED        1      0      0      0      0
  TMC8 WILD-TYPE     31     18     46     27     23
D1076V1, multiclass
[1] "Remove cluster labels:" "TMC8 MUTATED"          
clus
  TMC8 MUTATED TMC8 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AY-4071 
"TMC8 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TMC8 MUTATED        1      0      0
  TMC8 WILD-TYPE     42     67     36
D1076V2, multiclass
[1] "Remove cluster labels:" "TMC8 MUTATED"          
clus
  TMC8 MUTATED TMC8 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AY-4071 
"TMC8 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TMC8 MUTATED        0      0      7
  TMC8 WILD-TYPE     42    173    140
D1076V3, multiclass
        clus
vv       TMC8 MUTATED TMC8 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TMC8 MUTATED        3      0      3
  TMC8 WILD-TYPE     59     73     72
D1076V4, multiclass
        clus
vv       TMC8 MUTATED TMC8 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TMC8 MUTATED        2      1      2
  TMC8 WILD-TYPE     68    119     98
D1076V5, multiclass
        clus
vv       TMC8 MUTATED TMC8 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            1            119
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TMC8 MUTATED        1      1      0      0      1      1      1      0      0
  TMC8 WILD-TYPE     40     25     30     29     38     68     19     14     22
D1076V6, multiclass
        clus
vv       TMC8 MUTATED TMC8 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMC8 MUTATED        0      2      3      2
  TMC8 WILD-TYPE    100     70     69    119
D1076V7, multiclass
        clus
vv       TMC8 MUTATED TMC8 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            3             69
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMC8 MUTATED        0      0      5      1      1
  TMC8 WILD-TYPE     59     75     69    118     37
D1076V8, multiclass
        clus
vv       TMC8 MUTATED TMC8 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMC8 MUTATED        0      4      0      0      3
  TMC8 WILD-TYPE     51     72     61     71     92
D1076V9, multiclass
        clus
vv       TMC8 MUTATED TMC8 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TMC8 MUTATED        0      3      0      1      0      0      0      2      1
  TMC8 WILD-TYPE     69     45     39     15     53     20     21     36     49
D1076V10, multiclass
        clus
vv       TMC8 MUTATED TMC8 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMC8 MUTATED        0      1      0      0      0      0
  TMC8 WILD-TYPE     13     15     14     11     11      9
D1076V11, multiclass
[1] "Remove cluster labels:" "TMC8 MUTATED"          
clus
  TMC8 MUTATED TMC8 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-G4-6628 
"TMC8 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TMC8 MUTATED        0      0      0      0      0      0      1      0      0
  TMC8 WILD-TYPE     11      7      7      9      8      7     10      9      5
D1076V12, multiclass
[1] "Remove cluster labels:" "TMC8 MUTATED"          
clus
  TMC8 MUTATED TMC8 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" "TMC8 WILD-TYPE" 
    TCGA-G4-6628 
"TMC8 WILD-TYPE" 

Clustering(1077) Variable = EMR3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EMR3 MUTATED        2      1      0      2      0
  EMR3 WILD-TYPE     30     17     46     25     23
D1077V1, multiclass
        clus
vv       EMR3 MUTATED EMR3 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMR3 MUTATED        4      1      0
  EMR3 WILD-TYPE     39     66     36
D1077V2, multiclass
        clus
vv       EMR3 MUTATED EMR3 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMR3 MUTATED        0      4     12
  EMR3 WILD-TYPE     42    169    135
D1077V3, multiclass
        clus
vv       EMR3 MUTATED EMR3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            4            169
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMR3 MUTATED        3      3      5
  EMR3 WILD-TYPE     59     70     70
D1077V4, multiclass
        clus
vv       EMR3 MUTATED EMR3 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            3             70
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMR3 MUTATED        3      6      4
  EMR3 WILD-TYPE     67    114     96
D1077V5, multiclass
        clus
vv       EMR3 MUTATED EMR3 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            6            114
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EMR3 MUTATED        2      1      1      1      1      5      1      1      0
  EMR3 WILD-TYPE     39     25     29     28     38     64     19     13     22
D1077V6, multiclass
        clus
vv       EMR3 MUTATED EMR3 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EMR3 MUTATED        2      6      3      5
  EMR3 WILD-TYPE     98     66     69    116
D1077V7, multiclass
        clus
vv       EMR3 MUTATED EMR3 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            6             66
  CLUS_3            3             69
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EMR3 MUTATED        0      3      6      4      3
  EMR3 WILD-TYPE     59     72     68    115     35
D1077V8, multiclass
        clus
vv       EMR3 MUTATED EMR3 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            3             72
  CLUS_3            6             68
  CLUS_4            4            115
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EMR3 MUTATED        2      6      1      0      6
  EMR3 WILD-TYPE     49     70     60     71     89
D1077V9, multiclass
        clus
vv       EMR3 MUTATED EMR3 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EMR3 MUTATED        4      1      0      2      0      3      2      2      1
  EMR3 WILD-TYPE     65     47     39     14     53     17     19     36     49
D1077V10, multiclass
        clus
vv       EMR3 MUTATED EMR3 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            3             17
  CLUS_7            2             19
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EMR3 MUTATED        0      1      0      0      0      0
  EMR3 WILD-TYPE     13     15     14     11     11      9
D1077V11, multiclass
[1] "Remove cluster labels:" "EMR3 MUTATED"          
clus
  EMR3 MUTATED EMR3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-G4-6628 
"EMR3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EMR3 MUTATED        1      0      0      0      0      0      0      0      0
  EMR3 WILD-TYPE     10      7      7      9      8      7     11      9      5
D1077V12, multiclass
[1] "Remove cluster labels:" "EMR3 MUTATED"          
clus
  EMR3 MUTATED EMR3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" "EMR3 WILD-TYPE" 
    TCGA-G4-6628 
"EMR3 WILD-TYPE" 

Clustering(1078) Variable = VPS33A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS33A MUTATED        4      0      0      0      0
  VPS33A WILD-TYPE     28     18     46     27     23
D1078V1, multiclass
        clus
vv       VPS33A MUTATED VPS33A WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VPS33A MUTATED        4      0      0
  VPS33A WILD-TYPE     39     67     36
D1078V2, multiclass
        clus
vv       VPS33A MUTATED VPS33A WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VPS33A MUTATED        0      0      8
  VPS33A WILD-TYPE     42    173    139
D1078V3, multiclass
        clus
vv       VPS33A MUTATED VPS33A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VPS33A MUTATED        0      0      4
  VPS33A WILD-TYPE     62     73     71
D1078V4, multiclass
        clus
vv       VPS33A MUTATED VPS33A WILD-TYPE
  CLUS_1              0               62
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VPS33A MUTATED        1      2      4
  VPS33A WILD-TYPE     69    118     96
D1078V5, multiclass
        clus
vv       VPS33A MUTATED VPS33A WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS33A MUTATED        1      0      0      1      1      3      1      0
  VPS33A WILD-TYPE     40     26     30     28     38     66     19     14
                  vv
clus               CLUS_9
  VPS33A MUTATED        0
  VPS33A WILD-TYPE     22
D1078V6, multiclass
        clus
vv       VPS33A MUTATED VPS33A WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VPS33A MUTATED        0      3      2      3
  VPS33A WILD-TYPE    100     69     70    118
D1078V7, multiclass
        clus
vv       VPS33A MUTATED VPS33A WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS33A MUTATED        0      0      4      0      4
  VPS33A WILD-TYPE     59     75     70    119     34
D1078V8, multiclass
        clus
vv       VPS33A MUTATED VPS33A WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS33A MUTATED        0      3      2      0      3
  VPS33A WILD-TYPE     51     73     59     71     92
D1078V9, multiclass
        clus
vv       VPS33A MUTATED VPS33A WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS33A MUTATED        0      2      0      2      1      0      1      2
  VPS33A WILD-TYPE     69     46     39     14     52     20     20     36
                  vv
clus               CLUS_9
  VPS33A MUTATED        0
  VPS33A WILD-TYPE     50
D1078V10, multiclass
        clus
vv       VPS33A MUTATED VPS33A WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VPS33A MUTATED        0      1      0      0      0      0
  VPS33A WILD-TYPE     13     15     14     11     11      9
D1078V11, multiclass
[1] "Remove cluster labels:" "VPS33A MUTATED"        
clus
  VPS33A MUTATED VPS33A WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-G4-6628 
"VPS33A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS33A MUTATED        0      0      0      0      0      0      1      0
  VPS33A WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  VPS33A MUTATED        0
  VPS33A WILD-TYPE      5
D1078V12, multiclass
[1] "Remove cluster labels:" "VPS33A MUTATED"        
clus
  VPS33A MUTATED VPS33A WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" "VPS33A WILD-TYPE" 
      TCGA-G4-6628 
"VPS33A WILD-TYPE" 

Clustering(1079) Variable = BRE MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRE MUTATED        2      0      0      0      0
  BRE WILD-TYPE     30     18     46     27     23
D1079V1, multiclass
[1] "Remove cluster labels:" "BRE MUTATED"           
clus
  BRE MUTATED BRE WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2677    TCGA-A6-2678    TCGA-A6-2683 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810    TCGA-AA-3514 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519    TCGA-AA-3520 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525    TCGA-AA-3526 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531    TCGA-AA-3532 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543    TCGA-AA-3544 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553    TCGA-AA-3554 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560    TCGA-AA-3561 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667    TCGA-AA-3672 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680    TCGA-AA-3681 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692    TCGA-AA-3693 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811    TCGA-AA-3812 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3814    TCGA-AA-3818    TCGA-AA-3819    TCGA-AA-3821    TCGA-AA-3831 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842    TCGA-AA-3844    TCGA-AA-3845 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851    TCGA-AA-3852 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858    TCGA-AA-3860 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867    TCGA-AA-3869 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877    TCGA-AA-3930 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949    TCGA-AA-3950 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966    TCGA-AA-3968 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975    TCGA-AA-3976 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982    TCGA-AA-3984 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004    TCGA-AA-A00A 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J    TCGA-AA-A00K 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q    TCGA-AA-A00R 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BRE MUTATED        2      0      0
  BRE WILD-TYPE     41     67     36
D1079V2, multiclass
[1] "Remove cluster labels:" "BRE MUTATED"           
clus
  BRE MUTATED BRE WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2677    TCGA-A6-2678    TCGA-A6-2683 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810    TCGA-AA-3514 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519    TCGA-AA-3520 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525    TCGA-AA-3526 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531    TCGA-AA-3532 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543    TCGA-AA-3544 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553    TCGA-AA-3554 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560    TCGA-AA-3561 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667    TCGA-AA-3672 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680    TCGA-AA-3681 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692    TCGA-AA-3693 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811    TCGA-AA-3812 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3814    TCGA-AA-3818    TCGA-AA-3819    TCGA-AA-3821    TCGA-AA-3831 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842    TCGA-AA-3844    TCGA-AA-3845 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851    TCGA-AA-3852 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858    TCGA-AA-3860 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867    TCGA-AA-3869 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877    TCGA-AA-3930 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949    TCGA-AA-3950 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966    TCGA-AA-3968 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975    TCGA-AA-3976 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982    TCGA-AA-3984 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004    TCGA-AA-A00A 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J    TCGA-AA-A00K 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q    TCGA-AA-A00R 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BRE MUTATED        2      2      5
  BRE WILD-TYPE     40    171    142
D1079V3, multiclass
        clus
vv       BRE MUTATED BRE WILD-TYPE
  CLUS_1           2            40
  CLUS_2           2           171
  CLUS_3           5           142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BRE MUTATED        1      0      7
  BRE WILD-TYPE     61     73     68
D1079V4, multiclass
        clus
vv       BRE MUTATED BRE WILD-TYPE
  CLUS_1           1            61
  CLUS_2           0            73
  CLUS_3           7            68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BRE MUTATED        1      6      3
  BRE WILD-TYPE     69    114     97
D1079V5, multiclass
        clus
vv       BRE MUTATED BRE WILD-TYPE
  CLUS_1           1            69
  CLUS_2           6           114
  CLUS_3           3            97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRE MUTATED        1      1      0      4      1      1      2      0      0
  BRE WILD-TYPE     40     25     30     25     38     68     18     14     22
D1079V6, multiclass
        clus
vv       BRE MUTATED BRE WILD-TYPE
  CLUS_1           1            40
  CLUS_2           1            25
  CLUS_3           0            30
  CLUS_4           4            25
  CLUS_5           1            38
  CLUS_6           1            68
  CLUS_7           2            18
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRE MUTATED        0      6      1      3
  BRE WILD-TYPE    100     66     71    118
D1079V7, multiclass
        clus
vv       BRE MUTATED BRE WILD-TYPE
  CLUS_1           0           100
  CLUS_2           6            66
  CLUS_3           1            71
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRE MUTATED        0      2      4      2      2
  BRE WILD-TYPE     59     73     70    117     36
D1079V8, multiclass
        clus
vv       BRE MUTATED BRE WILD-TYPE
  CLUS_1           0            59
  CLUS_2           2            73
  CLUS_3           4            70
  CLUS_4           2           117
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRE MUTATED        3      2      0      1      4
  BRE WILD-TYPE     48     74     61     70     91
D1079V9, multiclass
        clus
vv       BRE MUTATED BRE WILD-TYPE
  CLUS_1           3            48
  CLUS_2           2            74
  CLUS_3           0            61
  CLUS_4           1            70
  CLUS_5           4            91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRE MUTATED        2      0      0      1      1      2      0      4      0
  BRE WILD-TYPE     67     48     39     15     52     18     21     34     50
D1079V10, multiclass
        clus
vv       BRE MUTATED BRE WILD-TYPE
  CLUS_1           2            67
  CLUS_2           0            48
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           1            52
  CLUS_6           2            18
  CLUS_7           0            21
  CLUS_8           4            34
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRE MUTATED        0      0      1      0      1      0
  BRE WILD-TYPE     13     16     13     11     10      9
D1079V11, multiclass
[1] "Remove cluster labels:" "BRE MUTATED"           
clus
  BRE MUTATED BRE WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6600 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6678    TCGA-CM-6679    TCGA-CM-6680 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536    TCGA-D5-6922 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0    TCGA-DM-A1D7 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA    TCGA-DM-A282 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460    TCGA-F4-6569 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"BRE WILD-TYPE" "BRE WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRE MUTATED        1      0      0      1      0      0      0      0      0
  BRE WILD-TYPE     10      7      7      8      8      7     11      9      5
D1079V12, multiclass
[1] "Remove cluster labels:" "BRE MUTATED"           
clus
  BRE MUTATED BRE WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6600 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6678    TCGA-CM-6679    TCGA-CM-6680 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536    TCGA-D5-6922 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0    TCGA-DM-A1D7 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA    TCGA-DM-A282 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460    TCGA-F4-6569 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" "BRE WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"BRE WILD-TYPE" "BRE WILD-TYPE" 

Clustering(1080) Variable = NKTR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NKTR MUTATED        2      0      1      1      0
  NKTR WILD-TYPE     30     18     45     26     23
D1080V1, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NKTR MUTATED        3      1      0
  NKTR WILD-TYPE     40     66     36
D1080V2, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NKTR MUTATED        3      2      7
  NKTR WILD-TYPE     39    171    140
D1080V3, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            3             39
  CLUS_2            2            171
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NKTR MUTATED        2      3      4
  NKTR WILD-TYPE     60     70     71
D1080V4, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            2             60
  CLUS_2            3             70
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NKTR MUTATED        2      7      3
  NKTR WILD-TYPE     68    113     97
D1080V5, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            2             68
  CLUS_2            7            113
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NKTR MUTATED        0      3      1      1      2      3      2      0      0
  NKTR WILD-TYPE     41     23     29     28     37     66     18     14     22
D1080V6, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            0             41
  CLUS_2            3             23
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NKTR MUTATED        5      3      1      4
  NKTR WILD-TYPE     95     69     71    117
D1080V7, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            5             95
  CLUS_2            3             69
  CLUS_3            1             71
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NKTR MUTATED        0      4      4      2      3
  NKTR WILD-TYPE     59     71     70    117     35
D1080V8, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            0             59
  CLUS_2            4             71
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NKTR MUTATED        1      3      0      3      4
  NKTR WILD-TYPE     50     73     61     68     91
D1080V9, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            3             68
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NKTR MUTATED        3      1      0      2      1      0      0      3      1
  NKTR WILD-TYPE     66     47     39     14     52     20     21     35     49
D1080V10, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            3             66
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NKTR MUTATED        2      0      0      0      2      0
  NKTR WILD-TYPE     11     16     14     11      9      9
D1080V11, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            2             11
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NKTR MUTATED        0      0      0      2      0      0      1      1      0
  NKTR WILD-TYPE     11      7      7      7      8      7     10      8      5
D1080V12, multiclass
        clus
vv       NKTR MUTATED NKTR WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1081) Variable = ICA1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ICA1 MUTATED        2      0      0      0      0
  ICA1 WILD-TYPE     30     18     46     27     23
D1081V1, multiclass
[1] "Remove cluster labels:" "ICA1 MUTATED"          
clus
  ICA1 MUTATED ICA1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3952 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ICA1 MUTATED        2      0      0
  ICA1 WILD-TYPE     41     67     36
D1081V2, multiclass
[1] "Remove cluster labels:" "ICA1 MUTATED"          
clus
  ICA1 MUTATED ICA1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3952 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ICA1 MUTATED        0      2      4
  ICA1 WILD-TYPE     42    171    143
D1081V3, multiclass
        clus
vv       ICA1 MUTATED ICA1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ICA1 MUTATED        1      1      2
  ICA1 WILD-TYPE     61     72     73
D1081V4, multiclass
        clus
vv       ICA1 MUTATED ICA1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ICA1 MUTATED        0      1      3
  ICA1 WILD-TYPE     70    119     97
D1081V5, multiclass
        clus
vv       ICA1 MUTATED ICA1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ICA1 MUTATED        2      0      0      0      0      1      0      0      1
  ICA1 WILD-TYPE     39     26     30     29     39     68     20     14     21
D1081V6, multiclass
        clus
vv       ICA1 MUTATED ICA1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ICA1 MUTATED        1      0      3      2
  ICA1 WILD-TYPE     99     72     69    119
D1081V7, multiclass
        clus
vv       ICA1 MUTATED ICA1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            0             72
  CLUS_3            3             69
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ICA1 MUTATED        3      0      1      0      2
  ICA1 WILD-TYPE     56     75     73    119     36
D1081V8, multiclass
        clus
vv       ICA1 MUTATED ICA1 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            0             75
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ICA1 MUTATED        2      0      2      0      2
  ICA1 WILD-TYPE     49     76     59     71     93
D1081V9, multiclass
        clus
vv       ICA1 MUTATED ICA1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            0             76
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ICA1 MUTATED        1      2      1      0      0      0      1      1      0
  ICA1 WILD-TYPE     68     46     38     16     53     20     20     37     50
D1081V10, multiclass
        clus
vv       ICA1 MUTATED ICA1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ICA1 MUTATED        0      0      0      0      0      1
  ICA1 WILD-TYPE     13     16     14     11     11      8
D1081V11, multiclass
[1] "Remove cluster labels:" "ICA1 MUTATED"          
clus
  ICA1 MUTATED ICA1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-G4-6628 
"ICA1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ICA1 MUTATED        1      0      0      0      0      0      0      0      0
  ICA1 WILD-TYPE     10      7      7      9      8      7     11      9      5
D1081V12, multiclass
[1] "Remove cluster labels:" "ICA1 MUTATED"          
clus
  ICA1 MUTATED ICA1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" "ICA1 WILD-TYPE" 
    TCGA-G4-6628 
"ICA1 WILD-TYPE" 

Clustering(1082) Variable = ZFYVE16 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFYVE16 MUTATED        3      0      1      2      0
  ZFYVE16 WILD-TYPE     29     18     45     25     23
D1082V1, multiclass
        clus
vv       ZFYVE16 MUTATED ZFYVE16 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFYVE16 MUTATED        3      1      2
  ZFYVE16 WILD-TYPE     40     66     34
D1082V2, multiclass
        clus
vv       ZFYVE16 MUTATED ZFYVE16 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               2                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFYVE16 MUTATED        1      1     15
  ZFYVE16 WILD-TYPE     41    172    132
D1082V3, multiclass
        clus
vv       ZFYVE16 MUTATED ZFYVE16 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3              15               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFYVE16 MUTATED        3      1      7
  ZFYVE16 WILD-TYPE     59     72     68
D1082V4, multiclass
        clus
vv       ZFYVE16 MUTATED ZFYVE16 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               7                68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFYVE16 MUTATED        1      5      7
  ZFYVE16 WILD-TYPE     69    115     93
D1082V5, multiclass
        clus
vv       ZFYVE16 MUTATED ZFYVE16 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               115
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFYVE16 MUTATED        2      0      2      3      0      4      1      0
  ZFYVE16 WILD-TYPE     39     26     28     26     39     65     19     14
                   vv
clus                CLUS_9
  ZFYVE16 MUTATED        1
  ZFYVE16 WILD-TYPE     21
D1082V6, multiclass
        clus
vv       ZFYVE16 MUTATED ZFYVE16 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               3                26
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFYVE16 MUTATED        0      6      5      6
  ZFYVE16 WILD-TYPE    100     66     67    115
D1082V7, multiclass
        clus
vv       ZFYVE16 MUTATED ZFYVE16 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               6                66
  CLUS_3               5                67
  CLUS_4               6               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFYVE16 MUTATED        2      1      8      3      3
  ZFYVE16 WILD-TYPE     57     74     66    116     35
D1082V8, multiclass
        clus
vv       ZFYVE16 MUTATED ZFYVE16 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               1                74
  CLUS_3               8                66
  CLUS_4               3               116
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFYVE16 MUTATED        0      6      4      1      4
  ZFYVE16 WILD-TYPE     51     70     57     70     91
D1082V9, multiclass
        clus
vv       ZFYVE16 MUTATED ZFYVE16 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               6                70
  CLUS_3               4                57
  CLUS_4               1                70
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFYVE16 MUTATED        1      6      0      3      1      1      0      1
  ZFYVE16 WILD-TYPE     68     42     39     13     52     19     21     37
                   vv
clus                CLUS_9
  ZFYVE16 MUTATED        2
  ZFYVE16 WILD-TYPE     48
D1082V10, multiclass
        clus
vv       ZFYVE16 MUTATED ZFYVE16 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               6                42
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZFYVE16 MUTATED        0      1      0      0      0      0
  ZFYVE16 WILD-TYPE     13     15     14     11     11      9
D1082V11, multiclass
[1] "Remove cluster labels:" "ZFYVE16 MUTATED"       
clus
  ZFYVE16 MUTATED ZFYVE16 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-G4-6628 
"ZFYVE16 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFYVE16 MUTATED        0      0      0      0      0      0      1      0
  ZFYVE16 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  ZFYVE16 MUTATED        0
  ZFYVE16 WILD-TYPE      5
D1082V12, multiclass
[1] "Remove cluster labels:" "ZFYVE16 MUTATED"       
clus
  ZFYVE16 MUTATED ZFYVE16 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" "ZFYVE16 WILD-TYPE" 
       TCGA-G4-6628 
"ZFYVE16 WILD-TYPE" 

Clustering(1083) Variable = RDBP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RDBP MUTATED        1      0      0      0      0
  RDBP WILD-TYPE     31     18     46     27     23
D1083V1, multiclass
[1] "Remove cluster labels:" "RDBP MUTATED"          
clus
  RDBP MUTATED RDBP WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AY-4071 
"RDBP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RDBP MUTATED        1      0      0
  RDBP WILD-TYPE     42     67     36
D1083V2, multiclass
[1] "Remove cluster labels:" "RDBP MUTATED"          
clus
  RDBP MUTATED RDBP WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AY-4071 
"RDBP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RDBP MUTATED        0      0      6
  RDBP WILD-TYPE     42    173    141
D1083V3, multiclass
        clus
vv       RDBP MUTATED RDBP WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RDBP MUTATED        1      0      5
  RDBP WILD-TYPE     61     73     70
D1083V4, multiclass
        clus
vv       RDBP MUTATED RDBP WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RDBP MUTATED        0      2      2
  RDBP WILD-TYPE     70    118     98
D1083V5, multiclass
        clus
vv       RDBP MUTATED RDBP WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RDBP MUTATED        0      0      0      0      1      1      2      0      0
  RDBP WILD-TYPE     41     26     30     29     38     68     18     14     22
D1083V6, multiclass
        clus
vv       RDBP MUTATED RDBP WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RDBP MUTATED        0      4      1      1
  RDBP WILD-TYPE    100     68     71    120
D1083V7, multiclass
        clus
vv       RDBP MUTATED RDBP WILD-TYPE
  CLUS_1            0            100
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RDBP MUTATED        0      0      5      0      1
  RDBP WILD-TYPE     59     75     69    119     37
D1083V8, multiclass
        clus
vv       RDBP MUTATED RDBP WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            5             69
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RDBP MUTATED        0      5      0      0      1
  RDBP WILD-TYPE     51     71     61     71     94
D1083V9, multiclass
        clus
vv       RDBP MUTATED RDBP WILD-TYPE
  CLUS_1            0             51
  CLUS_2            5             71
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RDBP MUTATED        0      1      0      3      1      0      0      1      0
  RDBP WILD-TYPE     69     47     39     13     52     20     21     37     50
D1083V10, multiclass
        clus
vv       RDBP MUTATED RDBP WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RDBP MUTATED        0      0      0      0      1      0
  RDBP WILD-TYPE     13     16     14     11     10      9
D1083V11, multiclass
[1] "Remove cluster labels:" "RDBP MUTATED"          
clus
  RDBP MUTATED RDBP WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-G4-6628 
"RDBP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RDBP MUTATED        0      0      0      1      0      0      0      0      0
  RDBP WILD-TYPE     11      7      7      8      8      7     11      9      5
D1083V12, multiclass
[1] "Remove cluster labels:" "RDBP MUTATED"          
clus
  RDBP MUTATED RDBP WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" "RDBP WILD-TYPE" 
    TCGA-G4-6628 
"RDBP WILD-TYPE" 

Clustering(1084) Variable = LMOD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LMOD1 MUTATED        2      0      0      0      0
  LMOD1 WILD-TYPE     30     18     46     27     23
D1084V1, multiclass
[1] "Remove cluster labels:" "LMOD1 MUTATED"         
clus
  LMOD1 MUTATED LMOD1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMOD1 MUTATED        2      0      0
  LMOD1 WILD-TYPE     41     67     36
D1084V2, multiclass
[1] "Remove cluster labels:" "LMOD1 MUTATED"         
clus
  LMOD1 MUTATED LMOD1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" "LMOD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMOD1 MUTATED        0      4      8
  LMOD1 WILD-TYPE     42    169    139
D1084V3, multiclass
        clus
vv       LMOD1 MUTATED LMOD1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMOD1 MUTATED        3      3      4
  LMOD1 WILD-TYPE     59     70     71
D1084V4, multiclass
        clus
vv       LMOD1 MUTATED LMOD1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMOD1 MUTATED        2      3      7
  LMOD1 WILD-TYPE     68    117     93
D1084V5, multiclass
        clus
vv       LMOD1 MUTATED LMOD1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LMOD1 MUTATED        3      1      0      1      2      3      1      0
  LMOD1 WILD-TYPE     38     25     30     28     37     66     19     14
                 vv
clus              CLUS_9
  LMOD1 MUTATED        1
  LMOD1 WILD-TYPE     21
D1084V6, multiclass
        clus
vv       LMOD1 MUTATED LMOD1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LMOD1 MUTATED        2      4      3      3
  LMOD1 WILD-TYPE     98     68     69    118
D1084V7, multiclass
        clus
vv       LMOD1 MUTATED LMOD1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LMOD1 MUTATED        3      3      3      2      1
  LMOD1 WILD-TYPE     56     72     71    117     37
D1084V8, multiclass
        clus
vv       LMOD1 MUTATED LMOD1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LMOD1 MUTATED        3      2      2      0      5
  LMOD1 WILD-TYPE     48     74     59     71     90
D1084V9, multiclass
        clus
vv       LMOD1 MUTATED LMOD1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LMOD1 MUTATED        1      3      1      1      1      0      1      2
  LMOD1 WILD-TYPE     68     45     38     15     52     20     20     36
                 vv
clus              CLUS_9
  LMOD1 MUTATED        2
  LMOD1 WILD-TYPE     48
D1084V10, multiclass
        clus
vv       LMOD1 MUTATED LMOD1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LMOD1 MUTATED        0      0      0      0      0      0
  LMOD1 WILD-TYPE     13     16     14     11     11      9
D1084V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LMOD1 MUTATED        0      0      0      0      0      0      0      0
  LMOD1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  LMOD1 MUTATED        0
  LMOD1 WILD-TYPE      5
D1084V12, multiclass

Clustering(1085) Variable = AP1G1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP1G1 MUTATED        2      0      0      1      0
  AP1G1 WILD-TYPE     30     18     46     26     23
D1085V1, multiclass
        clus
vv       AP1G1 MUTATED AP1G1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1G1 MUTATED        2      0      1
  AP1G1 WILD-TYPE     41     67     35
D1085V2, multiclass
        clus
vv       AP1G1 MUTATED AP1G1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1G1 MUTATED        0      4      7
  AP1G1 WILD-TYPE     42    169    140
D1085V3, multiclass
        clus
vv       AP1G1 MUTATED AP1G1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1G1 MUTATED        4      1      3
  AP1G1 WILD-TYPE     58     72     72
D1085V4, multiclass
        clus
vv       AP1G1 MUTATED AP1G1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP1G1 MUTATED        0      3      5
  AP1G1 WILD-TYPE     70    117     95
D1085V5, multiclass
        clus
vv       AP1G1 MUTATED AP1G1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP1G1 MUTATED        1      0      0      2      1      3      0      1
  AP1G1 WILD-TYPE     40     26     30     27     38     66     20     13
                 vv
clus              CLUS_9
  AP1G1 MUTATED        0
  AP1G1 WILD-TYPE     22
D1085V6, multiclass
        clus
vv       AP1G1 MUTATED AP1G1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AP1G1 MUTATED        4      3      1      3
  AP1G1 WILD-TYPE     96     69     71    118
D1085V7, multiclass
        clus
vv       AP1G1 MUTATED AP1G1 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP1G1 MUTATED        2      4      2      1      2
  AP1G1 WILD-TYPE     57     71     72    118     36
D1085V8, multiclass
        clus
vv       AP1G1 MUTATED AP1G1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP1G1 MUTATED        1      4      2      1      2
  AP1G1 WILD-TYPE     50     72     59     70     93
D1085V9, multiclass
        clus
vv       AP1G1 MUTATED AP1G1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP1G1 MUTATED        2      1      3      1      1      0      0      1
  AP1G1 WILD-TYPE     67     47     36     15     52     20     21     37
                 vv
clus              CLUS_9
  AP1G1 MUTATED        1
  AP1G1 WILD-TYPE     49
D1085V10, multiclass
        clus
vv       AP1G1 MUTATED AP1G1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             3              36
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AP1G1 MUTATED        0      0      0      1      0      0
  AP1G1 WILD-TYPE     13     16     14     10     11      9
D1085V11, multiclass
[1] "Remove cluster labels:" "AP1G1 MUTATED"         
clus
  AP1G1 MUTATED AP1G1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-G4-6628 
"AP1G1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP1G1 MUTATED        0      0      0      0      0      0      1      0
  AP1G1 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  AP1G1 MUTATED        0
  AP1G1 WILD-TYPE      5
D1085V12, multiclass
[1] "Remove cluster labels:" "AP1G1 MUTATED"         
clus
  AP1G1 MUTATED AP1G1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" "AP1G1 WILD-TYPE" 
     TCGA-G4-6628 
"AP1G1 WILD-TYPE" 

Clustering(1086) Variable = TRPV2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRPV2 MUTATED        5      0      0      0      0
  TRPV2 WILD-TYPE     27     18     46     27     23
D1086V1, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPV2 MUTATED        5      0      0
  TRPV2 WILD-TYPE     38     67     36
D1086V2, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPV2 MUTATED        1      0     10
  TRPV2 WILD-TYPE     41    173    137
D1086V3, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPV2 MUTATED        3      0      3
  TRPV2 WILD-TYPE     59     73     72
D1086V4, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPV2 MUTATED        0      3      7
  TRPV2 WILD-TYPE     70    117     93
D1086V5, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRPV2 MUTATED        0      0      0      1      2      6      1      0
  TRPV2 WILD-TYPE     41     26     30     28     37     63     19     14
                 vv
clus              CLUS_9
  TRPV2 MUTATED        0
  TRPV2 WILD-TYPE     22
D1086V6, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRPV2 MUTATED        0      4      3      4
  TRPV2 WILD-TYPE    100     68     69    117
D1086V7, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRPV2 MUTATED        0      1      5      1      4
  TRPV2 WILD-TYPE     59     74     69    118     34
D1086V8, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRPV2 MUTATED        0      6      0      0      5
  TRPV2 WILD-TYPE     51     70     61     71     90
D1086V9, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRPV2 MUTATED        1      2      0      2      2      0      2      2
  TRPV2 WILD-TYPE     68     46     39     14     51     20     19     36
                 vv
clus              CLUS_9
  TRPV2 MUTATED        0
  TRPV2 WILD-TYPE     50
D1086V10, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             2              19
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRPV2 MUTATED        0      0      1      0      2      0
  TRPV2 WILD-TYPE     13     16     13     11      9      9
D1086V11, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRPV2 MUTATED        0      0      0      1      0      0      2      0
  TRPV2 WILD-TYPE     11      7      7      8      8      7      9      9
                 vv
clus              CLUS_9
  TRPV2 MUTATED        0
  TRPV2 WILD-TYPE      5
D1086V12, multiclass
        clus
vv       TRPV2 MUTATED TRPV2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1087) Variable = ABLIM3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABLIM3 MUTATED        5      0      0      1      0
  ABLIM3 WILD-TYPE     27     18     46     26     23
D1087V1, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ABLIM3 MUTATED        5      0      1
  ABLIM3 WILD-TYPE     38     67     35
D1087V2, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ABLIM3 MUTATED        1      4     11
  ABLIM3 WILD-TYPE     41    169    136
D1087V3, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ABLIM3 MUTATED        2      4      4
  ABLIM3 WILD-TYPE     60     69     71
D1087V4, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              4               69
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ABLIM3 MUTATED        1      4      6
  ABLIM3 WILD-TYPE     69    116     94
D1087V5, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABLIM3 MUTATED        2      0      0      2      3      4      0      0
  ABLIM3 WILD-TYPE     39     26     30     27     36     65     20     14
                  vv
clus               CLUS_9
  ABLIM3 MUTATED        0
  ABLIM3 WILD-TYPE     22
D1087V6, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              3               36
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABLIM3 MUTATED        4      2      5      5
  ABLIM3 WILD-TYPE     96     70     67    116
D1087V7, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              2               70
  CLUS_3              5               67
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABLIM3 MUTATED        2      4      5      1      4
  ABLIM3 WILD-TYPE     57     71     69    118     34
D1087V8, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABLIM3 MUTATED        1      4      4      3      4
  ABLIM3 WILD-TYPE     50     72     57     68     91
D1087V9, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              4               57
  CLUS_4              3               68
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABLIM3 MUTATED        3      5      0      1      2      0      1      4
  ABLIM3 WILD-TYPE     66     43     39     15     51     20     20     34
                  vv
clus               CLUS_9
  ABLIM3 MUTATED        0
  ABLIM3 WILD-TYPE     50
D1087V10, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              5               43
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              4               34
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABLIM3 MUTATED        1      0      0      1      2      0
  ABLIM3 WILD-TYPE     12     16     14     10      9      9
D1087V11, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABLIM3 MUTATED        0      0      1      2      0      0      1      0
  ABLIM3 WILD-TYPE     11      7      6      7      8      7     10      9
                  vv
clus               CLUS_9
  ABLIM3 MUTATED        0
  ABLIM3 WILD-TYPE      5
D1087V12, multiclass
        clus
vv       ABLIM3 MUTATED ABLIM3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1088) Variable = STX7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STX7 MUTATED        2      0      0      1      0
  STX7 WILD-TYPE     30     18     46     26     23
D1088V1, multiclass
        clus
vv       STX7 MUTATED STX7 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  STX7 MUTATED        2      0      1
  STX7 WILD-TYPE     41     67     35
D1088V2, multiclass
        clus
vv       STX7 MUTATED STX7 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  STX7 MUTATED        0      0      3
  STX7 WILD-TYPE     42    173    144
D1088V3, multiclass
        clus
vv       STX7 MUTATED STX7 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  STX7 MUTATED        1      0      0
  STX7 WILD-TYPE     61     73     75
D1088V4, multiclass
[1] "Remove cluster labels:" "STX7 MUTATED"          
clus
  STX7 MUTATED STX7 WILD-TYPE 
             1            209 
    TCGA-A6-2671     TCGA-A6-2677     TCGA-A6-3809     TCGA-A6-3810 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-A6-4105     TCGA-A6-5656     TCGA-A6-5657     TCGA-A6-5659 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662     TCGA-A6-5664 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137     TCGA-A6-6138 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648     TCGA-A6-6649 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653     TCGA-A6-6654 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502     TCGA-AA-3510 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AA-3655     TCGA-AA-3660     TCGA-AA-3662 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AA-3663     TCGA-AA-3697     TCGA-AA-3712     TCGA-AA-3713 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6888     TCGA-AD-6889 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AD-6890     TCGA-AD-6895     TCGA-AD-6899     TCGA-AD-6901 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AU-3779 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AU-6004     TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AY-6386     TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AZ-4681     TCGA-AZ-4682     TCGA-AZ-5403     TCGA-AZ-5407 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6599     TCGA-AZ-6600     TCGA-AZ-6601 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6606     TCGA-AZ-6607 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-AZ-6608     TCGA-CA-5254     TCGA-CA-5255     TCGA-CA-5796 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CA-5797     TCGA-CA-6715     TCGA-CA-6716     TCGA-CA-6718 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CA-6719     TCGA-CK-4947     TCGA-CK-4948     TCGA-CK-4950 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CK-4952     TCGA-CK-5912     TCGA-CK-5913     TCGA-CK-5914 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CK-5915     TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CM-4746     TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CM-5344     TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CM-5861     TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CM-5868     TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CM-6164     TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CM-6168     TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CM-6172     TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-D5-5541     TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-D5-6538     TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-D5-6898     TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-D5-6924     TCGA-D5-6926     TCGA-D5-6927     TCGA-D5-6928 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-D5-6929     TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-D5-7000     TCGA-DM-A0X9     TCGA-DM-A0XD     TCGA-DM-A0XF 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-DM-A1HA     TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A285 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-DM-A28C     TCGA-DM-A28E     TCGA-DM-A28F     TCGA-DM-A28G 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-DM-A28H     TCGA-DM-A28K     TCGA-F4-6459     TCGA-F4-6460 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-F4-6809     TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-G4-6293     TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-G4-6315     TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-G4-6586     TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626 
"STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" "STX7 WILD-TYPE" 
    TCGA-G4-6628 
"STX7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  STX7 MUTATED        0      0      3
  STX7 WILD-TYPE     70    120     97
D1088V5, multiclass
        clus
vv       STX7 MUTATED STX7 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            0            120
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  STX7 MUTATED        1      0      0      0      0      1      1      0      0
  STX7 WILD-TYPE     40     26     30     29     39     68     19     14     22
D1088V6, multiclass
        clus
vv       STX7 MUTATED STX7 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STX7 MUTATED        0      0      1      3
  STX7 WILD-TYPE    100     72     71    118
D1088V7, multiclass
        clus
vv       STX7 MUTATED STX7 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            0             72
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STX7 MUTATED        1      0      0      1      2
  STX7 WILD-TYPE     58     75     74    118     36
D1088V8, multiclass
        clus
vv       STX7 MUTATED STX7 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            0             74
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STX7 MUTATED        0      0      1      1      1
  STX7 WILD-TYPE     51     76     60     70     94
D1088V9, multiclass
        clus
vv       STX7 MUTATED STX7 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            0             76
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  STX7 MUTATED        0      1      0      0      1      0      0      1      0
  STX7 WILD-TYPE     69     47     39     16     52     20     21     37     50
D1088V10, multiclass
        clus
vv       STX7 MUTATED STX7 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STX7 MUTATED        0      0      0      0      0      0
  STX7 WILD-TYPE     13     16     14     11     11      9
D1088V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  STX7 MUTATED        0      0      0      0      0      0      0      0      0
  STX7 WILD-TYPE     11      7      7      9      8      7     11      9      5
D1088V12, multiclass

Clustering(1089) Variable = LEPRE1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEPRE1 MUTATED        0      0      0      0      0
  LEPRE1 WILD-TYPE     32     18     46     27     23
D1089V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LEPRE1 MUTATED        0      0      0
  LEPRE1 WILD-TYPE     43     67     36
D1089V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LEPRE1 MUTATED        2      1      6
  LEPRE1 WILD-TYPE     40    172    141
D1089V3, multiclass
        clus
vv       LEPRE1 MUTATED LEPRE1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1              172
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LEPRE1 MUTATED        3      0      6
  LEPRE1 WILD-TYPE     59     73     69
D1089V4, multiclass
        clus
vv       LEPRE1 MUTATED LEPRE1 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LEPRE1 MUTATED        3      3      3
  LEPRE1 WILD-TYPE     67    117     97
D1089V5, multiclass
        clus
vv       LEPRE1 MUTATED LEPRE1 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              3              117
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LEPRE1 MUTATED        0      0      0      2      1      3      2      0
  LEPRE1 WILD-TYPE     41     26     30     27     38     66     18     14
                  vv
clus               CLUS_9
  LEPRE1 MUTATED        1
  LEPRE1 WILD-TYPE     21
D1089V6, multiclass
        clus
vv       LEPRE1 MUTATED LEPRE1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LEPRE1 MUTATED        0      6      3      0
  LEPRE1 WILD-TYPE    100     66     69    121
D1089V7, multiclass
        clus
vv       LEPRE1 MUTATED LEPRE1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              6               66
  CLUS_3              3               69
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEPRE1 MUTATED        1      0      8      0      0
  LEPRE1 WILD-TYPE     58     75     66    119     38
D1089V8, multiclass
        clus
vv       LEPRE1 MUTATED LEPRE1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              8               66
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEPRE1 MUTATED        0      8      1      0      0
  LEPRE1 WILD-TYPE     51     68     60     71     95
D1089V9, multiclass
        clus
vv       LEPRE1 MUTATED LEPRE1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              8               68
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LEPRE1 MUTATED        3      2      0      3      1      0      0      0
  LEPRE1 WILD-TYPE     66     46     39     13     52     20     21     38
                  vv
clus               CLUS_9
  LEPRE1 MUTATED        0
  LEPRE1 WILD-TYPE     50
D1089V10, multiclass
        clus
vv       LEPRE1 MUTATED LEPRE1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LEPRE1 MUTATED        0      1      0      0      3      0
  LEPRE1 WILD-TYPE     13     15     14     11      8      9
D1089V11, multiclass
        clus
vv       LEPRE1 MUTATED LEPRE1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LEPRE1 MUTATED        0      1      0      1      1      1      0      0
  LEPRE1 WILD-TYPE     11      6      7      8      7      6     11      9
                  vv
clus               CLUS_9
  LEPRE1 MUTATED        0
  LEPRE1 WILD-TYPE      5
D1089V12, multiclass
        clus
vv       LEPRE1 MUTATED LEPRE1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1090) Variable = KIAA0240 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0240 MUTATED        3      0      0      1      0
  KIAA0240 WILD-TYPE     29     18     46     26     23
D1090V1, multiclass
        clus
vv       KIAA0240 MUTATED KIAA0240 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0240 MUTATED        4      0      0
  KIAA0240 WILD-TYPE     39     67     36
D1090V2, multiclass
        clus
vv       KIAA0240 MUTATED KIAA0240 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                0                 67
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0240 MUTATED        0      0      9
  KIAA0240 WILD-TYPE     42    173    138
D1090V3, multiclass
        clus
vv       KIAA0240 MUTATED KIAA0240 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                9                138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0240 MUTATED        3      0      2
  KIAA0240 WILD-TYPE     59     73     73
D1090V4, multiclass
        clus
vv       KIAA0240 MUTATED KIAA0240 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                0                 73
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0240 MUTATED        1      1      4
  KIAA0240 WILD-TYPE     69    119     96
D1090V5, multiclass
        clus
vv       KIAA0240 MUTATED KIAA0240 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                1                119
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0240 MUTATED        0      1      0      0      1      4      0      0
  KIAA0240 WILD-TYPE     41     25     30     29     38     65     20     14
                    vv
clus                 CLUS_9
  KIAA0240 MUTATED        0
  KIAA0240 WILD-TYPE     22
D1090V6, multiclass
        clus
vv       KIAA0240 MUTATED KIAA0240 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                4                 65
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0240 MUTATED        0      2      2      5
  KIAA0240 WILD-TYPE    100     70     70    116
D1090V7, multiclass
        clus
vv       KIAA0240 MUTATED KIAA0240 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                2                 70
  CLUS_3                2                 70
  CLUS_4                5                116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0240 MUTATED        0      0      4      1      4
  KIAA0240 WILD-TYPE     59     75     70    118     34
D1090V8, multiclass
        clus
vv       KIAA0240 MUTATED KIAA0240 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                4                 70
  CLUS_4                1                118
  CLUS_5                4                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0240 MUTATED        0      3      1      0      4
  KIAA0240 WILD-TYPE     51     73     60     71     91
D1090V9, multiclass
        clus
vv       KIAA0240 MUTATED KIAA0240 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                3                 73
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0240 MUTATED        2      1      0      1      0      1      1      1
  KIAA0240 WILD-TYPE     67     47     39     15     53     19     20     37
                    vv
clus                 CLUS_9
  KIAA0240 MUTATED        1
  KIAA0240 WILD-TYPE     49
D1090V10, multiclass
        clus
vv       KIAA0240 MUTATED KIAA0240 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                1                 20
  CLUS_8                1                 37
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA0240 MUTATED        0      0      1      0      0      0
  KIAA0240 WILD-TYPE     13     16     13     11     11      9
D1090V11, multiclass
[1] "Remove cluster labels:" "KIAA0240 MUTATED"      
clus
  KIAA0240 MUTATED KIAA0240 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6676         TCGA-CM-6677 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-D5-5537         TCGA-D5-6533         TCGA-D5-6534 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-D5-6536         TCGA-D5-6922         TCGA-D5-6924 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-DM-A0XD         TCGA-DM-A0XF         TCGA-DM-A1D0 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-DM-A1D7         TCGA-DM-A1D8         TCGA-DM-A1D9 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-DM-A1DA         TCGA-DM-A1HA         TCGA-DM-A282 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-DM-A285         TCGA-DM-A28F         TCGA-F4-6459 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6570 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-F4-6704         TCGA-F4-6805         TCGA-F4-6807 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-F4-6808         TCGA-F4-6809         TCGA-G4-6299 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-G4-6303         TCGA-G4-6306         TCGA-G4-6309 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-G4-6625 
"KIAA0240 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0240 MUTATED        0      0      0      0      0      0      1      0
  KIAA0240 WILD-TYPE     11      7      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  KIAA0240 MUTATED        0
  KIAA0240 WILD-TYPE      5
D1090V12, multiclass
[1] "Remove cluster labels:" "KIAA0240 MUTATED"      
clus
  KIAA0240 MUTATED KIAA0240 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6676         TCGA-CM-6677 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-D5-5537         TCGA-D5-6533         TCGA-D5-6534 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-D5-6536         TCGA-D5-6922         TCGA-D5-6924 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-DM-A0XD         TCGA-DM-A0XF         TCGA-DM-A1D0 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-DM-A1D7         TCGA-DM-A1D8         TCGA-DM-A1D9 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-DM-A1DA         TCGA-DM-A1HA         TCGA-DM-A282 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-DM-A285         TCGA-DM-A28F         TCGA-F4-6459 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6570 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-F4-6704         TCGA-F4-6805         TCGA-F4-6807 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-F4-6808         TCGA-F4-6809         TCGA-G4-6299 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-G4-6303         TCGA-G4-6306         TCGA-G4-6309 
"KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" "KIAA0240 WILD-TYPE" 
        TCGA-G4-6625 
"KIAA0240 WILD-TYPE" 

Clustering(1091) Variable = HLA-B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HLA-B MUTATED        1      0      0      0      0
  HLA-B WILD-TYPE     31     18     46     27     23
D1091V1, multiclass
[1] "Remove cluster labels:" "HLA-B MUTATED"         
clus
  HLA-B MUTATED HLA-B WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AY-4071 
"HLA-B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-B MUTATED        1      0      0
  HLA-B WILD-TYPE     42     67     36
D1091V2, multiclass
[1] "Remove cluster labels:" "HLA-B MUTATED"         
clus
  HLA-B MUTATED HLA-B WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AY-4071 
"HLA-B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-B MUTATED        0      0     11
  HLA-B WILD-TYPE     42    173    136
D1091V3, multiclass
        clus
vv       HLA-B MUTATED HLA-B WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-B MUTATED        3      0      7
  HLA-B WILD-TYPE     59     73     68
D1091V4, multiclass
        clus
vv       HLA-B MUTATED HLA-B WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-B MUTATED        1      5      4
  HLA-B WILD-TYPE     69    115     96
D1091V5, multiclass
        clus
vv       HLA-B MUTATED HLA-B WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HLA-B MUTATED        1      1      0      3      0      3      1      0
  HLA-B WILD-TYPE     40     25     30     26     39     66     19     14
                 vv
clus              CLUS_9
  HLA-B MUTATED        1
  HLA-B WILD-TYPE     21
D1091V6, multiclass
        clus
vv       HLA-B MUTATED HLA-B WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HLA-B MUTATED        0      8      2      1
  HLA-B WILD-TYPE    100     64     70    120
D1091V7, multiclass
        clus
vv       HLA-B MUTATED HLA-B WILD-TYPE
  CLUS_1             0             100
  CLUS_2             8              64
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HLA-B MUTATED        0      0     10      0      1
  HLA-B WILD-TYPE     59     75     64    119     37
D1091V8, multiclass
        clus
vv       HLA-B MUTATED HLA-B WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3            10              64
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HLA-B MUTATED        0      9      1      0      1
  HLA-B WILD-TYPE     51     67     60     71     94
D1091V9, multiclass
        clus
vv       HLA-B MUTATED HLA-B WILD-TYPE
  CLUS_1             0              51
  CLUS_2             9              67
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HLA-B MUTATED        4      2      0      2      1      1      0      1
  HLA-B WILD-TYPE     65     46     39     14     52     19     21     37
                 vv
clus              CLUS_9
  HLA-B MUTATED        0
  HLA-B WILD-TYPE     50
D1091V10, multiclass
        clus
vv       HLA-B MUTATED HLA-B WILD-TYPE
  CLUS_1             4              65
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HLA-B MUTATED        0      1      0      0      0      0
  HLA-B WILD-TYPE     13     15     14     11     11      9
D1091V11, multiclass
[1] "Remove cluster labels:" "HLA-B MUTATED"         
clus
  HLA-B MUTATED HLA-B WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-G4-6628 
"HLA-B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HLA-B MUTATED        0      0      0      0      0      0      1      0
  HLA-B WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  HLA-B MUTATED        0
  HLA-B WILD-TYPE      5
D1091V12, multiclass
[1] "Remove cluster labels:" "HLA-B MUTATED"         
clus
  HLA-B MUTATED HLA-B WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" "HLA-B WILD-TYPE" 
     TCGA-G4-6628 
"HLA-B WILD-TYPE" 

Clustering(1092) Variable = NEK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEK1 MUTATED        3      0      0      1      0
  NEK1 WILD-TYPE     29     18     46     26     23
D1092V1, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEK1 MUTATED        2      1      1
  NEK1 WILD-TYPE     41     66     35
D1092V2, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEK1 MUTATED        1      1     10
  NEK1 WILD-TYPE     41    172    137
D1092V3, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEK1 MUTATED        3      1      4
  NEK1 WILD-TYPE     59     72     71
D1092V4, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEK1 MUTATED        1      4      5
  NEK1 WILD-TYPE     69    116     95
D1092V5, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEK1 MUTATED        2      0      1      2      0      5      0      0      0
  NEK1 WILD-TYPE     39     26     29     27     39     64     20     14     22
D1092V6, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEK1 MUTATED        1      4      3      4
  NEK1 WILD-TYPE     99     68     69    117
D1092V7, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            4             68
  CLUS_3            3             69
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEK1 MUTATED        1      1      6      2      2
  NEK1 WILD-TYPE     58     74     68    117     36
D1092V8, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            6             68
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEK1 MUTATED        0      6      1      2      3
  NEK1 WILD-TYPE     51     70     60     69     92
D1092V9, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEK1 MUTATED        2      3      0      1      3      1      0      2      0
  NEK1 WILD-TYPE     67     45     39     15     50     19     21     36     50
D1092V10, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NEK1 MUTATED        1      1      0      0      1      0
  NEK1 WILD-TYPE     12     15     14     11     10      9
D1092V11, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEK1 MUTATED        0      0      0      2      0      0      1      0      0
  NEK1 WILD-TYPE     11      7      7      7      8      7     10      9      5
D1092V12, multiclass
        clus
vv       NEK1 MUTATED NEK1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1093) Variable = RNASEL MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNASEL MUTATED        1      0      1      1      0
  RNASEL WILD-TYPE     31     18     45     26     23
D1093V1, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNASEL MUTATED        2      0      1
  RNASEL WILD-TYPE     41     67     35
D1093V2, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNASEL MUTATED        1      3      8
  RNASEL WILD-TYPE     41    170    139
D1093V3, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNASEL MUTATED        4      2      4
  RNASEL WILD-TYPE     58     71     71
D1093V4, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              4               58
  CLUS_2              2               71
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNASEL MUTATED        1      2      8
  RNASEL WILD-TYPE     69    118     92
D1093V5, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNASEL MUTATED        4      0      0      0      2      5      0      0
  RNASEL WILD-TYPE     37     26     30     29     37     64     20     14
                  vv
clus               CLUS_9
  RNASEL MUTATED        0
  RNASEL WILD-TYPE     22
D1093V6, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              4               37
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNASEL MUTATED        2      2      6      2
  RNASEL WILD-TYPE     98     70     66    119
D1093V7, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              6               66
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNASEL MUTATED        2      2      5      1      2
  RNASEL WILD-TYPE     57     73     69    118     36
D1093V8, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNASEL MUTATED        1      4      3      0      3
  RNASEL WILD-TYPE     50     72     58     71     92
D1093V9, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNASEL MUTATED        1      6      0      0      1      1      0      1
  RNASEL WILD-TYPE     68     42     39     16     52     19     21     37
                  vv
clus               CLUS_9
  RNASEL MUTATED        1
  RNASEL WILD-TYPE     49
D1093V10, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              1               68
  CLUS_2              6               42
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNASEL MUTATED        1      2      0      1      2      0
  RNASEL WILD-TYPE     12     14     14     10      9      9
D1093V11, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNASEL MUTATED        1      0      1      0      0      0      3      0
  RNASEL WILD-TYPE     10      7      6      9      8      7      8      9
                  vv
clus               CLUS_9
  RNASEL MUTATED        1
  RNASEL WILD-TYPE      4
D1093V12, multiclass
        clus
vv       RNASEL MUTATED RNASEL WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              3                8
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1094) Variable = ALCAM MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALCAM MUTATED        1      0      0      1      0
  ALCAM WILD-TYPE     31     18     46     26     23
D1094V1, multiclass
[1] "Remove cluster labels:" "ALCAM MUTATED"         
clus
  ALCAM MUTATED ALCAM WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866      TCGA-AA-3867 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALCAM MUTATED        2      0      0
  ALCAM WILD-TYPE     41     67     36
D1094V2, multiclass
[1] "Remove cluster labels:" "ALCAM MUTATED"         
clus
  ALCAM MUTATED ALCAM WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866      TCGA-AA-3867 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" "ALCAM WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALCAM MUTATED        1      5      5
  ALCAM WILD-TYPE     41    168    142
D1094V3, multiclass
        clus
vv       ALCAM MUTATED ALCAM WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALCAM MUTATED        2      3      4
  ALCAM WILD-TYPE     60     70     71
D1094V4, multiclass
        clus
vv       ALCAM MUTATED ALCAM WILD-TYPE
  CLUS_1             2              60
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALCAM MUTATED        0      7      4
  ALCAM WILD-TYPE     70    113     96
D1094V5, multiclass
        clus
vv       ALCAM MUTATED ALCAM WILD-TYPE
  CLUS_1             0              70
  CLUS_2             7             113
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALCAM MUTATED        2      1      0      3      1      2      1      0
  ALCAM WILD-TYPE     39     25     30     26     38     67     19     14
                 vv
clus              CLUS_9
  ALCAM MUTATED        1
  ALCAM WILD-TYPE     21
D1094V6, multiclass
        clus
vv       ALCAM MUTATED ALCAM WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALCAM MUTATED        2      2      5      2
  ALCAM WILD-TYPE     98     70     67    119
D1094V7, multiclass
        clus
vv       ALCAM MUTATED ALCAM WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             5              67
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALCAM MUTATED        4      1      4      1      1
  ALCAM WILD-TYPE     55     74     70    118     37
D1094V8, multiclass
        clus
vv       ALCAM MUTATED ALCAM WILD-TYPE
  CLUS_1             4              55
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALCAM MUTATED        3      4      2      0      2
  ALCAM WILD-TYPE     48     72     59     71     93
D1094V9, multiclass
        clus
vv       ALCAM MUTATED ALCAM WILD-TYPE
  CLUS_1             3              48
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALCAM MUTATED        1      4      1      1      2      0      1      1
  ALCAM WILD-TYPE     68     44     38     15     51     20     20     37
                 vv
clus              CLUS_9
  ALCAM MUTATED        0
  ALCAM WILD-TYPE     50
D1094V10, multiclass
        clus
vv       ALCAM MUTATED ALCAM WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ALCAM MUTATED        0      0      0      1      3      0
  ALCAM WILD-TYPE     13     16     14     10      8      9
D1094V11, multiclass
        clus
vv       ALCAM MUTATED ALCAM WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALCAM MUTATED        0      0      1      2      0      0      1      0
  ALCAM WILD-TYPE     11      7      6      7      8      7     10      9
                 vv
clus              CLUS_9
  ALCAM MUTATED        0
  ALCAM WILD-TYPE      5
D1094V12, multiclass
        clus
vv       ALCAM MUTATED ALCAM WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1095) Variable = SLC30A8 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC30A8 MUTATED        4      0      1      0      0
  SLC30A8 WILD-TYPE     28     18     45     27     23
D1095V1, multiclass
        clus
vv       SLC30A8 MUTATED SLC30A8 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC30A8 MUTATED        4      1      0
  SLC30A8 WILD-TYPE     39     66     36
D1095V2, multiclass
        clus
vv       SLC30A8 MUTATED SLC30A8 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC30A8 MUTATED        0      4      9
  SLC30A8 WILD-TYPE     42    169    138
D1095V3, multiclass
        clus
vv       SLC30A8 MUTATED SLC30A8 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               4               169
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC30A8 MUTATED        3      2      3
  SLC30A8 WILD-TYPE     59     71     72
D1095V4, multiclass
        clus
vv       SLC30A8 MUTATED SLC30A8 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               2                71
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC30A8 MUTATED        3      3      5
  SLC30A8 WILD-TYPE     67    117     95
D1095V5, multiclass
        clus
vv       SLC30A8 MUTATED SLC30A8 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               3               117
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC30A8 MUTATED        2      0      1      1      2      3      1      1
  SLC30A8 WILD-TYPE     39     26     29     28     37     66     19     13
                   vv
clus                CLUS_9
  SLC30A8 MUTATED        0
  SLC30A8 WILD-TYPE     22
D1095V6, multiclass
        clus
vv       SLC30A8 MUTATED SLC30A8 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               3                66
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC30A8 MUTATED        3      4      1      6
  SLC30A8 WILD-TYPE     97     68     71    115
D1095V7, multiclass
        clus
vv       SLC30A8 MUTATED SLC30A8 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               4                68
  CLUS_3               1                71
  CLUS_4               6               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC30A8 MUTATED        2      2      4      1      5
  SLC30A8 WILD-TYPE     57     73     70    118     33
D1095V8, multiclass
        clus
vv       SLC30A8 MUTATED SLC30A8 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               5                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC30A8 MUTATED        0      5      3      0      6
  SLC30A8 WILD-TYPE     51     71     58     71     89
D1095V9, multiclass
        clus
vv       SLC30A8 MUTATED SLC30A8 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               5                71
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC30A8 MUTATED        3      2      2      1      1      0      1      3
  SLC30A8 WILD-TYPE     66     46     37     15     52     20     20     35
                   vv
clus                CLUS_9
  SLC30A8 MUTATED        1
  SLC30A8 WILD-TYPE     49
D1095V10, multiclass
        clus
vv       SLC30A8 MUTATED SLC30A8 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               2                46
  CLUS_3               2                37
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC30A8 MUTATED        0      0      0      2      0      0
  SLC30A8 WILD-TYPE     13     16     14      9     11      9
D1095V11, multiclass
[1] "Remove cluster labels:" "SLC30A8 MUTATED"       
clus
  SLC30A8 MUTATED SLC30A8 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6569 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC30A8 MUTATED        0      0      0      0      0      0      2      0
  SLC30A8 WILD-TYPE     11      7      7      9      8      7      9      9
                   vv
clus                CLUS_9
  SLC30A8 MUTATED        0
  SLC30A8 WILD-TYPE      5
D1095V12, multiclass
[1] "Remove cluster labels:" "SLC30A8 MUTATED"       
clus
  SLC30A8 MUTATED SLC30A8 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6569 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" "SLC30A8 WILD-TYPE" 

Clustering(1096) Variable = CREG2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CREG2 MUTATED        1      0      0      0      1
  CREG2 WILD-TYPE     31     18     46     27     22
D1096V1, multiclass
[1] "Remove cluster labels:" "CREG2 MUTATED"         
clus
  CREG2 MUTATED CREG2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3556 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667      TCGA-AA-3672 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CREG2 MUTATED        1      0      1
  CREG2 WILD-TYPE     42     67     35
D1096V2, multiclass
[1] "Remove cluster labels:" "CREG2 MUTATED"         
clus
  CREG2 MUTATED CREG2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3556 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667      TCGA-AA-3672 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CREG2 MUTATED        1      3      1
  CREG2 WILD-TYPE     41    170    146
D1096V3, multiclass
        clus
vv       CREG2 MUTATED CREG2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             1             146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CREG2 MUTATED        0      3      0
  CREG2 WILD-TYPE     62     70     75
D1096V4, multiclass
        clus
vv       CREG2 MUTATED CREG2 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             3              70
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CREG2 MUTATED        1      0      2
  CREG2 WILD-TYPE     69    120     98
D1096V5, multiclass
        clus
vv       CREG2 MUTATED CREG2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             0             120
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CREG2 MUTATED        0      0      0      0      0      1      2      0
  CREG2 WILD-TYPE     41     26     30     29     39     68     18     14
                 vv
clus              CLUS_9
  CREG2 MUTATED        0
  CREG2 WILD-TYPE     22
D1096V6, multiclass
        clus
vv       CREG2 MUTATED CREG2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CREG2 MUTATED        3      0      0      2
  CREG2 WILD-TYPE     97     72     72    119
D1096V7, multiclass
        clus
vv       CREG2 MUTATED CREG2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             0              72
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CREG2 MUTATED        1      2      0      1      1
  CREG2 WILD-TYPE     58     73     74    118     37
D1096V8, multiclass
        clus
vv       CREG2 MUTATED CREG2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             0              74
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CREG2 MUTATED        2      0      0      1      2
  CREG2 WILD-TYPE     49     76     61     70     93
D1096V9, multiclass
        clus
vv       CREG2 MUTATED CREG2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             0              76
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CREG2 MUTATED        3      0      0      0      0      0      0      1
  CREG2 WILD-TYPE     66     48     39     16     53     20     21     37
                 vv
clus              CLUS_9
  CREG2 MUTATED        1
  CREG2 WILD-TYPE     49
D1096V10, multiclass
        clus
vv       CREG2 MUTATED CREG2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CREG2 MUTATED        1      0      0      0      0      0
  CREG2 WILD-TYPE     12     16     14     11     11      9
D1096V11, multiclass
[1] "Remove cluster labels:" "CREG2 MUTATED"         
clus
  CREG2 MUTATED CREG2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-G4-6628 
"CREG2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CREG2 MUTATED        0      0      0      1      0      0      0      0
  CREG2 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  CREG2 MUTATED        0
  CREG2 WILD-TYPE      5
D1096V12, multiclass
[1] "Remove cluster labels:" "CREG2 MUTATED"         
clus
  CREG2 MUTATED CREG2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625 
"CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" "CREG2 WILD-TYPE" 
     TCGA-G4-6628 
"CREG2 WILD-TYPE" 

Clustering(1097) Variable = MSH4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSH4 MUTATED        1      0      0      2      0
  MSH4 WILD-TYPE     31     18     46     25     23
D1097V1, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH4 MUTATED        0      2      1
  MSH4 WILD-TYPE     43     65     35
D1097V2, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            0             43
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH4 MUTATED        2      4      6
  MSH4 WILD-TYPE     40    169    141
D1097V3, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            4            169
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH4 MUTATED        5      2      2
  MSH4 WILD-TYPE     57     71     73
D1097V4, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            2             71
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH4 MUTATED        2      3      4
  MSH4 WILD-TYPE     68    117     96
D1097V5, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MSH4 MUTATED        2      1      2      1      1      2      0      0      0
  MSH4 WILD-TYPE     39     25     28     28     38     67     20     14     22
D1097V6, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSH4 MUTATED        1      3      3      5
  MSH4 WILD-TYPE     99     69     69    116
D1097V7, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            3             69
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSH4 MUTATED        3      2      2      5      0
  MSH4 WILD-TYPE     56     73     72    114     38
D1097V8, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3            2             72
  CLUS_4            5            114
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSH4 MUTATED        0      3      3      1      5
  MSH4 WILD-TYPE     51     73     58     70     90
D1097V9, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MSH4 MUTATED        1      2      0      1      4      1      0      0      3
  MSH4 WILD-TYPE     68     46     39     15     49     19     21     38     47
D1097V10, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MSH4 MUTATED        0      0      0      1      1      0
  MSH4 WILD-TYPE     13     16     14     10     10      9
D1097V11, multiclass
[1] "Remove cluster labels:" "MSH4 MUTATED"          
clus
  MSH4 MUTATED MSH4 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MSH4 MUTATED        0      0      1      1      0      0      0      0      0
  MSH4 WILD-TYPE     11      7      6      8      8      7     11      9      5
D1097V12, multiclass
[1] "Remove cluster labels:" "MSH4 MUTATED"          
clus
  MSH4 MUTATED MSH4 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" "MSH4 WILD-TYPE" 

Clustering(1098) Variable = PANK3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PANK3 MUTATED        2      0      0      1      0
  PANK3 WILD-TYPE     30     18     46     26     23
D1098V1, multiclass
        clus
vv       PANK3 MUTATED PANK3 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PANK3 MUTATED        2      1      0
  PANK3 WILD-TYPE     41     66     36
D1098V2, multiclass
        clus
vv       PANK3 MUTATED PANK3 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PANK3 MUTATED        1      2      2
  PANK3 WILD-TYPE     41    171    145
D1098V3, multiclass
        clus
vv       PANK3 MUTATED PANK3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PANK3 MUTATED        2      0      1
  PANK3 WILD-TYPE     60     73     74
D1098V4, multiclass
        clus
vv       PANK3 MUTATED PANK3 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PANK3 MUTATED        0      3      3
  PANK3 WILD-TYPE     70    117     97
D1098V5, multiclass
        clus
vv       PANK3 MUTATED PANK3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PANK3 MUTATED        0      0      1      1      1      1      2      0
  PANK3 WILD-TYPE     41     26     29     28     38     68     18     14
                 vv
clus              CLUS_9
  PANK3 MUTATED        0
  PANK3 WILD-TYPE     22
D1098V6, multiclass
        clus
vv       PANK3 MUTATED PANK3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PANK3 MUTATED        1      1      1      3
  PANK3 WILD-TYPE     99     71     71    118
D1098V7, multiclass
        clus
vv       PANK3 MUTATED PANK3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PANK3 MUTATED        2      0      1      1      2
  PANK3 WILD-TYPE     57     75     73    118     36
D1098V8, multiclass
        clus
vv       PANK3 MUTATED PANK3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PANK3 MUTATED        0      2      1      0      3
  PANK3 WILD-TYPE     51     74     60     71     92
D1098V9, multiclass
        clus
vv       PANK3 MUTATED PANK3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PANK3 MUTATED        1      1      0      1      0      1      0      2
  PANK3 WILD-TYPE     68     47     39     15     53     19     21     36
                 vv
clus              CLUS_9
  PANK3 MUTATED        0
  PANK3 WILD-TYPE     50
D1098V10, multiclass
        clus
vv       PANK3 MUTATED PANK3 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PANK3 MUTATED        1      0      0      0      0      0
  PANK3 WILD-TYPE     12     16     14     11     11      9
D1098V11, multiclass
[1] "Remove cluster labels:" "PANK3 MUTATED"         
clus
  PANK3 MUTATED PANK3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1HA      TCGA-DM-A282 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-G4-6628 
"PANK3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PANK3 MUTATED        0      0      0      1      0      0      0      0
  PANK3 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  PANK3 MUTATED        0
  PANK3 WILD-TYPE      5
D1098V12, multiclass
[1] "Remove cluster labels:" "PANK3 MUTATED"         
clus
  PANK3 MUTATED PANK3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1HA      TCGA-DM-A282 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" "PANK3 WILD-TYPE" 
     TCGA-G4-6628 
"PANK3 WILD-TYPE" 

Clustering(1099) Variable = DNMT1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNMT1 MUTATED        7      0      1      2      1
  DNMT1 WILD-TYPE     25     18     45     25     22
D1099V1, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             7              25
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNMT1 MUTATED        8      2      1
  DNMT1 WILD-TYPE     35     65     35
D1099V2, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             8              35
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNMT1 MUTATED        0      3     15
  DNMT1 WILD-TYPE     42    170    132
D1099V3, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNMT1 MUTATED        2      0      4
  DNMT1 WILD-TYPE     60     73     71
D1099V4, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNMT1 MUTATED        3      3      7
  DNMT1 WILD-TYPE     67    117     93
D1099V5, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNMT1 MUTATED        1      0      1      1      3      6      0      0
  DNMT1 WILD-TYPE     40     26     29     28     36     63     20     14
                 vv
clus              CLUS_9
  DNMT1 MUTATED        1
  DNMT1 WILD-TYPE     21
D1099V6, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNMT1 MUTATED        0      6      1     11
  DNMT1 WILD-TYPE    100     66     71    110
D1099V7, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             1              71
  CLUS_4            11             110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNMT1 MUTATED        0      2      5      4      7
  DNMT1 WILD-TYPE     59     73     69    115     31
D1099V8, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             4             115
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNMT1 MUTATED        0      4      0      2     10
  DNMT1 WILD-TYPE     51     72     61     69     85
D1099V9, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5            10              85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNMT1 MUTATED        1      2      0      2      1      1      3      5
  DNMT1 WILD-TYPE     68     46     39     14     52     19     18     33
                 vv
clus              CLUS_9
  DNMT1 MUTATED        1
  DNMT1 WILD-TYPE     49
D1099V10, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             3              18
  CLUS_8             5              33
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNMT1 MUTATED        0      0      0      0      1      0
  DNMT1 WILD-TYPE     13     16     14     11     10      9
D1099V11, multiclass
[1] "Remove cluster labels:" "DNMT1 MUTATED"         
clus
  DNMT1 MUTATED DNMT1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-G4-6628 
"DNMT1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNMT1 MUTATED        0      0      0      0      0      0      1      0
  DNMT1 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  DNMT1 MUTATED        0
  DNMT1 WILD-TYPE      5
D1099V12, multiclass
[1] "Remove cluster labels:" "DNMT1 MUTATED"         
clus
  DNMT1 MUTATED DNMT1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-G4-6628 
"DNMT1 WILD-TYPE" 

Clustering(1100) Variable = UCHL5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UCHL5 MUTATED        0      0      0      0      0
  UCHL5 WILD-TYPE     32     18     46     27     23
D1100V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UCHL5 MUTATED        0      0      0
  UCHL5 WILD-TYPE     43     67     36
D1100V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UCHL5 MUTATED        0      2      2
  UCHL5 WILD-TYPE     42    171    145
D1100V3, multiclass
        clus
vv       UCHL5 MUTATED UCHL5 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UCHL5 MUTATED        1      1      2
  UCHL5 WILD-TYPE     61     72     73
D1100V4, multiclass
        clus
vv       UCHL5 MUTATED UCHL5 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UCHL5 MUTATED        0      3      0
  UCHL5 WILD-TYPE     70    117    100
D1100V5, multiclass
        clus
vv       UCHL5 MUTATED UCHL5 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             0             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UCHL5 MUTATED        0      2      0      1      0      0      0      0
  UCHL5 WILD-TYPE     41     24     30     28     39     69     20     14
                 vv
clus              CLUS_9
  UCHL5 MUTATED        0
  UCHL5 WILD-TYPE     22
D1100V6, multiclass
        clus
vv       UCHL5 MUTATED UCHL5 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             0              69
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UCHL5 MUTATED        1      2      0      1
  UCHL5 WILD-TYPE     99     70     72    120
D1100V7, multiclass
        clus
vv       UCHL5 MUTATED UCHL5 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UCHL5 MUTATED        0      1      1      2      0
  UCHL5 WILD-TYPE     59     74     73    117     38
D1100V8, multiclass
        clus
vv       UCHL5 MUTATED UCHL5 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             1              73
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UCHL5 MUTATED        2      0      0      0      2
  UCHL5 WILD-TYPE     49     76     61     71     93
D1100V9, multiclass
        clus
vv       UCHL5 MUTATED UCHL5 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             0              76
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UCHL5 MUTATED        0      0      0      0      0      2      0      1
  UCHL5 WILD-TYPE     69     48     39     16     53     18     21     37
                 vv
clus              CLUS_9
  UCHL5 MUTATED        1
  UCHL5 WILD-TYPE     49
D1100V10, multiclass
        clus
vv       UCHL5 MUTATED UCHL5 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UCHL5 MUTATED        0      0      0      0      0      0
  UCHL5 WILD-TYPE     13     16     14     11     11      9
D1100V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UCHL5 MUTATED        0      0      0      0      0      0      0      0
  UCHL5 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  UCHL5 MUTATED        0
  UCHL5 WILD-TYPE      5
D1100V12, multiclass

Clustering(1101) Variable = HERC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HERC1 MUTATED        6      2      0      2      0
  HERC1 WILD-TYPE     26     16     46     25     23
D1101V1, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             2              16
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC1 MUTATED        7      2      1
  HERC1 WILD-TYPE     36     65     35
D1101V2, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC1 MUTATED        2      7     21
  HERC1 WILD-TYPE     40    166    126
D1101V3, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             7             166
  CLUS_3            21             126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC1 MUTATED        3      5     13
  HERC1 WILD-TYPE     59     68     62
D1101V4, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             5              68
  CLUS_3            13              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC1 MUTATED        3     10     11
  HERC1 WILD-TYPE     67    110     89
D1101V5, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2            10             110
  CLUS_3            11              89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HERC1 MUTATED        2      1      1      5      3      9      2      1
  HERC1 WILD-TYPE     39     25     29     24     36     60     18     13
                 vv
clus              CLUS_9
  HERC1 MUTATED        0
  HERC1 WILD-TYPE     22
D1101V6, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             5              24
  CLUS_5             3              36
  CLUS_6             9              60
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HERC1 MUTATED       10      7      5      9
  HERC1 WILD-TYPE     90     65     67    112
D1101V7, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1            10              90
  CLUS_2             7              65
  CLUS_3             5              67
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HERC1 MUTATED        1     11      9      4      6
  HERC1 WILD-TYPE     58     64     65    115     32
D1101V8, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2            11              64
  CLUS_3             9              65
  CLUS_4             4             115
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HERC1 MUTATED        4      9      3      5      9
  HERC1 WILD-TYPE     47     67     58     66     86
D1101V9, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             9              67
  CLUS_3             3              58
  CLUS_4             5              66
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HERC1 MUTATED        4      3      2      4      7      2      1      5
  HERC1 WILD-TYPE     65     45     37     12     46     18     20     33
                 vv
clus              CLUS_9
  HERC1 MUTATED        2
  HERC1 WILD-TYPE     48
D1101V10, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             2              37
  CLUS_4             4              12
  CLUS_5             7              46
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             5              33
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HERC1 MUTATED        1      1      0      0      3      0
  HERC1 WILD-TYPE     12     15     14     11      8      9
D1101V11, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HERC1 MUTATED        0      0      0      3      1      0      1      0
  HERC1 WILD-TYPE     11      7      7      6      7      7     10      9
                 vv
clus              CLUS_9
  HERC1 MUTATED        0
  HERC1 WILD-TYPE      5
D1101V12, multiclass
        clus
vv       HERC1 MUTATED HERC1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1102) Variable = PROM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PROM1 MUTATED        0      0      0      2      0
  PROM1 WILD-TYPE     32     18     46     25     23
D1102V1, multiclass
[1] "Remove cluster labels:" "PROM1 MUTATED"         
clus
  PROM1 MUTATED PROM1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PROM1 MUTATED        1      1      0
  PROM1 WILD-TYPE     42     66     36
D1102V2, multiclass
[1] "Remove cluster labels:" "PROM1 MUTATED"         
clus
  PROM1 MUTATED PROM1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PROM1 MUTATED        0      4      8
  PROM1 WILD-TYPE     42    169    139
D1102V3, multiclass
        clus
vv       PROM1 MUTATED PROM1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PROM1 MUTATED        3      3      4
  PROM1 WILD-TYPE     59     70     71
D1102V4, multiclass
        clus
vv       PROM1 MUTATED PROM1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PROM1 MUTATED        0      5      5
  PROM1 WILD-TYPE     70    115     95
D1102V5, multiclass
        clus
vv       PROM1 MUTATED PROM1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PROM1 MUTATED        0      0      2      1      1      5      0      1
  PROM1 WILD-TYPE     41     26     28     28     38     64     20     13
                 vv
clus              CLUS_9
  PROM1 MUTATED        0
  PROM1 WILD-TYPE     22
D1102V6, multiclass
        clus
vv       PROM1 MUTATED PROM1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PROM1 MUTATED        4      4      2      2
  PROM1 WILD-TYPE     96     68     70    119
D1102V7, multiclass
        clus
vv       PROM1 MUTATED PROM1 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PROM1 MUTATED        1      4      5      1      1
  PROM1 WILD-TYPE     58     71     69    118     37
D1102V8, multiclass
        clus
vv       PROM1 MUTATED PROM1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PROM1 MUTATED        2      4      3      1      2
  PROM1 WILD-TYPE     49     72     58     70     93
D1102V9, multiclass
        clus
vv       PROM1 MUTATED PROM1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PROM1 MUTATED        3      1      0      3      2      2      0      1
  PROM1 WILD-TYPE     66     47     39     13     51     18     21     37
                 vv
clus              CLUS_9
  PROM1 MUTATED        0
  PROM1 WILD-TYPE     50
D1102V10, multiclass
        clus
vv       PROM1 MUTATED PROM1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PROM1 MUTATED        0      0      1      0      1      0
  PROM1 WILD-TYPE     13     16     13     11     10      9
D1102V11, multiclass
[1] "Remove cluster labels:" "PROM1 MUTATED"         
clus
  PROM1 MUTATED PROM1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PROM1 MUTATED        0      0      0      1      1      0      0      0
  PROM1 WILD-TYPE     11      7      7      8      7      7     11      9
                 vv
clus              CLUS_9
  PROM1 MUTATED        0
  PROM1 WILD-TYPE      5
D1102V12, multiclass
[1] "Remove cluster labels:" "PROM1 MUTATED"         
clus
  PROM1 MUTATED PROM1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" "PROM1 WILD-TYPE" 

Clustering(1103) Variable = TMCO6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMCO6 MUTATED        2      0      0      1      0
  TMCO6 WILD-TYPE     30     18     46     26     23
D1103V1, multiclass
        clus
vv       TMCO6 MUTATED TMCO6 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMCO6 MUTATED        2      1      0
  TMCO6 WILD-TYPE     41     66     36
D1103V2, multiclass
        clus
vv       TMCO6 MUTATED TMCO6 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMCO6 MUTATED        1      1      5
  TMCO6 WILD-TYPE     41    172    142
D1103V3, multiclass
        clus
vv       TMCO6 MUTATED TMCO6 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMCO6 MUTATED        0      1      3
  TMCO6 WILD-TYPE     62     72     72
D1103V4, multiclass
        clus
vv       TMCO6 MUTATED TMCO6 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMCO6 MUTATED        0      3      2
  TMCO6 WILD-TYPE     70    117     98
D1103V5, multiclass
        clus
vv       TMCO6 MUTATED TMCO6 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMCO6 MUTATED        0      1      1      1      1      1      0      0
  TMCO6 WILD-TYPE     41     25     29     28     38     68     20     14
                 vv
clus              CLUS_9
  TMCO6 MUTATED        0
  TMCO6 WILD-TYPE     22
D1103V6, multiclass
        clus
vv       TMCO6 MUTATED TMCO6 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMCO6 MUTATED        1      2      1      3
  TMCO6 WILD-TYPE     99     70     71    118
D1103V7, multiclass
        clus
vv       TMCO6 MUTATED TMCO6 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMCO6 MUTATED        0      1      2      2      2
  TMCO6 WILD-TYPE     59     74     72    117     36
D1103V8, multiclass
        clus
vv       TMCO6 MUTATED TMCO6 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMCO6 MUTATED        0      2      1      1      3
  TMCO6 WILD-TYPE     51     74     60     70     92
D1103V9, multiclass
        clus
vv       TMCO6 MUTATED TMCO6 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMCO6 MUTATED        0      1      0      1      1      1      0      3
  TMCO6 WILD-TYPE     69     47     39     15     52     19     21     35
                 vv
clus              CLUS_9
  TMCO6 MUTATED        0
  TMCO6 WILD-TYPE     50
D1103V10, multiclass
        clus
vv       TMCO6 MUTATED TMCO6 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMCO6 MUTATED        0      0      0      0      1      0
  TMCO6 WILD-TYPE     13     16     14     11     10      9
D1103V11, multiclass
[1] "Remove cluster labels:" "TMCO6 MUTATED"         
clus
  TMCO6 MUTATED TMCO6 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-G4-6628 
"TMCO6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMCO6 MUTATED        0      0      0      1      0      0      0      0
  TMCO6 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  TMCO6 MUTATED        0
  TMCO6 WILD-TYPE      5
D1103V12, multiclass
[1] "Remove cluster labels:" "TMCO6 MUTATED"         
clus
  TMCO6 MUTATED TMCO6 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" "TMCO6 WILD-TYPE" 
     TCGA-G4-6628 
"TMCO6 WILD-TYPE" 

Clustering(1104) Variable = RAB38 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB38 MUTATED        1      0      0      0      0
  RAB38 WILD-TYPE     31     18     46     27     23
D1104V1, multiclass
[1] "Remove cluster labels:" "RAB38 MUTATED"         
clus
  RAB38 MUTATED RAB38 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2677      TCGA-A6-2678 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3809 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AY-4071 
"RAB38 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB38 MUTATED        1      0      0
  RAB38 WILD-TYPE     42     67     36
D1104V2, multiclass
[1] "Remove cluster labels:" "RAB38 MUTATED"         
clus
  RAB38 MUTATED RAB38 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2677      TCGA-A6-2678 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3809 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AY-4071 
"RAB38 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB38 MUTATED        1      1      3
  RAB38 WILD-TYPE     41    172    144
D1104V3, multiclass
        clus
vv       RAB38 MUTATED RAB38 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB38 MUTATED        0      2      2
  RAB38 WILD-TYPE     62     71     73
D1104V4, multiclass
        clus
vv       RAB38 MUTATED RAB38 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAB38 MUTATED        0      3      1
  RAB38 WILD-TYPE     70    117     99
D1104V5, multiclass
        clus
vv       RAB38 MUTATED RAB38 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB38 MUTATED        0      0      0      3      0      1      0      0
  RAB38 WILD-TYPE     41     26     30     26     39     68     20     14
                 vv
clus              CLUS_9
  RAB38 MUTATED        0
  RAB38 WILD-TYPE     22
D1104V6, multiclass
        clus
vv       RAB38 MUTATED RAB38 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAB38 MUTATED        2      2      0      1
  RAB38 WILD-TYPE     98     70     72    120
D1104V7, multiclass
        clus
vv       RAB38 MUTATED RAB38 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB38 MUTATED        1      1      2      0      1
  RAB38 WILD-TYPE     58     74     72    119     37
D1104V8, multiclass
        clus
vv       RAB38 MUTATED RAB38 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB38 MUTATED        2      2      0      0      1
  RAB38 WILD-TYPE     49     74     61     71     94
D1104V9, multiclass
        clus
vv       RAB38 MUTATED RAB38 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB38 MUTATED        2      0      0      1      1      0      0      1
  RAB38 WILD-TYPE     67     48     39     15     52     20     21     37
                 vv
clus              CLUS_9
  RAB38 MUTATED        0
  RAB38 WILD-TYPE     50
D1104V10, multiclass
        clus
vv       RAB38 MUTATED RAB38 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAB38 MUTATED        0      0      0      0      1      0
  RAB38 WILD-TYPE     13     16     14     11     10      9
D1104V11, multiclass
[1] "Remove cluster labels:" "RAB38 MUTATED"         
clus
  RAB38 MUTATED RAB38 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-G4-6628 
"RAB38 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAB38 MUTATED        0      0      0      1      0      0      0      0
  RAB38 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  RAB38 MUTATED        0
  RAB38 WILD-TYPE      5
D1104V12, multiclass
[1] "Remove cluster labels:" "RAB38 MUTATED"         
clus
  RAB38 MUTATED RAB38 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" "RAB38 WILD-TYPE" 
     TCGA-G4-6628 
"RAB38 WILD-TYPE" 

Clustering(1105) Variable = LRMP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRMP MUTATED        1      0      0      1      0
  LRMP WILD-TYPE     31     18     46     26     23
D1105V1, multiclass
[1] "Remove cluster labels:" "LRMP MUTATED"          
clus
  LRMP MUTATED LRMP WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3930     TCGA-AA-3939 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LRMP MUTATED        2      0      0
  LRMP WILD-TYPE     41     67     36
D1105V2, multiclass
[1] "Remove cluster labels:" "LRMP MUTATED"          
clus
  LRMP MUTATED LRMP WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3930     TCGA-AA-3939 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LRMP MUTATED        0      2      3
  LRMP WILD-TYPE     42    171    144
D1105V3, multiclass
        clus
vv       LRMP MUTATED LRMP WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LRMP MUTATED        2      1      0
  LRMP WILD-TYPE     60     72     75
D1105V4, multiclass
        clus
vv       LRMP MUTATED LRMP WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LRMP MUTATED        0      1      3
  LRMP WILD-TYPE     70    119     97
D1105V5, multiclass
        clus
vv       LRMP MUTATED LRMP WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LRMP MUTATED        1      0      0      1      0      1      0      0      1
  LRMP WILD-TYPE     40     26     30     28     39     68     20     14     21
D1105V6, multiclass
        clus
vv       LRMP MUTATED LRMP WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRMP MUTATED        2      0      1      2
  LRMP WILD-TYPE     98     72     71    119
D1105V7, multiclass
        clus
vv       LRMP MUTATED LRMP WILD-TYPE
  CLUS_1            2             98
  CLUS_2            0             72
  CLUS_3            1             71
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRMP MUTATED        1      2      0      0      2
  LRMP WILD-TYPE     58     73     74    119     36
D1105V8, multiclass
        clus
vv       LRMP MUTATED LRMP WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            0             74
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRMP MUTATED        0      0      1      2      1
  LRMP WILD-TYPE     51     76     60     69     94
D1105V9, multiclass
        clus
vv       LRMP MUTATED LRMP WILD-TYPE
  CLUS_1            0             51
  CLUS_2            0             76
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LRMP MUTATED        1      1      1      0      0      0      1      0      0
  LRMP WILD-TYPE     68     47     38     16     53     20     20     38     50
D1105V10, multiclass
        clus
vv       LRMP MUTATED LRMP WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LRMP MUTATED        0      0      0      0      0      2
  LRMP WILD-TYPE     13     16     14     11     11      7
D1105V11, multiclass
[1] "Remove cluster labels:" "LRMP MUTATED"          
clus
  LRMP MUTATED LRMP WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A1D0     TCGA-DM-A1D8     TCGA-DM-A1D9 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LRMP MUTATED        0      0      0      0      0      0      0      2      0
  LRMP WILD-TYPE     11      7      7      9      8      7     11      7      5
D1105V12, multiclass
[1] "Remove cluster labels:" "LRMP MUTATED"          
clus
  LRMP MUTATED LRMP WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A1D0     TCGA-DM-A1D8     TCGA-DM-A1D9 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" "LRMP WILD-TYPE" 

Clustering(1106) Variable = NHLRC2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NHLRC2 MUTATED        1      0      0      0      0
  NHLRC2 WILD-TYPE     31     18     46     27     23
D1106V1, multiclass
[1] "Remove cluster labels:" "NHLRC2 MUTATED"        
clus
  NHLRC2 MUTATED NHLRC2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AY-4071 
"NHLRC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NHLRC2 MUTATED        0      0      1
  NHLRC2 WILD-TYPE     43     67     35
D1106V2, multiclass
[1] "Remove cluster labels:" "NHLRC2 MUTATED"        
clus
  NHLRC2 MUTATED NHLRC2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" "NHLRC2 WILD-TYPE" 
      TCGA-AY-4071 
"NHLRC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NHLRC2 MUTATED        0      3      6
  NHLRC2 WILD-TYPE     42    170    141
D1106V3, multiclass
        clus
vv       NHLRC2 MUTATED NHLRC2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NHLRC2 MUTATED        3      1      3
  NHLRC2 WILD-TYPE     59     72     72
D1106V4, multiclass
        clus
vv       NHLRC2 MUTATED NHLRC2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NHLRC2 MUTATED        0      7      1
  NHLRC2 WILD-TYPE     70    113     99
D1106V5, multiclass
        clus
vv       NHLRC2 MUTATED NHLRC2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              7              113
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NHLRC2 MUTATED        0      3      3      0      0      0      1      1
  NHLRC2 WILD-TYPE     41     23     27     29     39     69     19     13
                  vv
clus               CLUS_9
  NHLRC2 MUTATED        0
  NHLRC2 WILD-TYPE     22
D1106V6, multiclass
        clus
vv       NHLRC2 MUTATED NHLRC2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              3               23
  CLUS_3              3               27
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              0               69
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NHLRC2 MUTATED        1      4      1      3
  NHLRC2 WILD-TYPE     99     68     71    118
D1106V7, multiclass
        clus
vv       NHLRC2 MUTATED NHLRC2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NHLRC2 MUTATED        1      2      2      3      1
  NHLRC2 WILD-TYPE     58     73     72    116     37
D1106V8, multiclass
        clus
vv       NHLRC2 MUTATED NHLRC2 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              3              116
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NHLRC2 MUTATED        2      3      0      1      3
  NHLRC2 WILD-TYPE     49     73     61     70     92
D1106V9, multiclass
        clus
vv       NHLRC2 MUTATED NHLRC2 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NHLRC2 MUTATED        0      1      0      2      2      1      0      2
  NHLRC2 WILD-TYPE     69     47     39     14     51     19     21     36
                  vv
clus               CLUS_9
  NHLRC2 MUTATED        1
  NHLRC2 WILD-TYPE     49
D1106V10, multiclass
        clus
vv       NHLRC2 MUTATED NHLRC2 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NHLRC2 MUTATED        1      0      0      1      2      0
  NHLRC2 WILD-TYPE     12     16     14     10      9      9
D1106V11, multiclass
        clus
vv       NHLRC2 MUTATED NHLRC2 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NHLRC2 MUTATED        0      0      0      2      0      0      1      0
  NHLRC2 WILD-TYPE     11      7      7      7      8      7     10      9
                  vv
clus               CLUS_9
  NHLRC2 MUTATED        1
  NHLRC2 WILD-TYPE      4
D1106V12, multiclass
        clus
vv       NHLRC2 MUTATED NHLRC2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1107) Variable = DCBLD1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCBLD1 MUTATED        1      0      0      0      0
  DCBLD1 WILD-TYPE     31     18     46     27     23
D1107V1, multiclass
[1] "Remove cluster labels:" "DCBLD1 MUTATED"        
clus
  DCBLD1 MUTATED DCBLD1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AY-4071 
"DCBLD1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DCBLD1 MUTATED        1      0      0
  DCBLD1 WILD-TYPE     42     67     36
D1107V2, multiclass
[1] "Remove cluster labels:" "DCBLD1 MUTATED"        
clus
  DCBLD1 MUTATED DCBLD1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AY-4071 
"DCBLD1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DCBLD1 MUTATED        0      2      3
  DCBLD1 WILD-TYPE     42    171    144
D1107V3, multiclass
        clus
vv       DCBLD1 MUTATED DCBLD1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DCBLD1 MUTATED        1      2      1
  DCBLD1 WILD-TYPE     61     71     74
D1107V4, multiclass
        clus
vv       DCBLD1 MUTATED DCBLD1 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DCBLD1 MUTATED        0      2      2
  DCBLD1 WILD-TYPE     70    118     98
D1107V5, multiclass
        clus
vv       DCBLD1 MUTATED DCBLD1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCBLD1 MUTATED        1      1      0      0      1      1      0      0
  DCBLD1 WILD-TYPE     40     25     30     29     38     68     20     14
                  vv
clus               CLUS_9
  DCBLD1 MUTATED        0
  DCBLD1 WILD-TYPE     22
D1107V6, multiclass
        clus
vv       DCBLD1 MUTATED DCBLD1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DCBLD1 MUTATED        2      0      2      1
  DCBLD1 WILD-TYPE     98     72     70    120
D1107V7, multiclass
        clus
vv       DCBLD1 MUTATED DCBLD1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              0               72
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCBLD1 MUTATED        1      2      1      0      1
  DCBLD1 WILD-TYPE     58     73     73    119     37
D1107V8, multiclass
        clus
vv       DCBLD1 MUTATED DCBLD1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCBLD1 MUTATED        1      2      1      0      1
  DCBLD1 WILD-TYPE     50     74     60     71     94
D1107V9, multiclass
        clus
vv       DCBLD1 MUTATED DCBLD1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCBLD1 MUTATED        2      1      1      0      0      0      0      1
  DCBLD1 WILD-TYPE     67     47     38     16     53     20     21     37
                  vv
clus               CLUS_9
  DCBLD1 MUTATED        0
  DCBLD1 WILD-TYPE     50
D1107V10, multiclass
        clus
vv       DCBLD1 MUTATED DCBLD1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DCBLD1 MUTATED        0      0      0      1      1      0
  DCBLD1 WILD-TYPE     13     16     14     10     10      9
D1107V11, multiclass
[1] "Remove cluster labels:" "DCBLD1 MUTATED"        
clus
  DCBLD1 MUTATED DCBLD1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCBLD1 MUTATED        0      0      1      0      0      1      0      0
  DCBLD1 WILD-TYPE     11      7      6      9      8      6     11      9
                  vv
clus               CLUS_9
  DCBLD1 MUTATED        0
  DCBLD1 WILD-TYPE      5
D1107V12, multiclass
[1] "Remove cluster labels:" "DCBLD1 MUTATED"        
clus
  DCBLD1 MUTATED DCBLD1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" "DCBLD1 WILD-TYPE" 

Clustering(1108) Variable = JAK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JAK1 MUTATED        2      0      0      0      0
  JAK1 WILD-TYPE     30     18     46     27     23
D1108V1, multiclass
[1] "Remove cluster labels:" "JAK1 MUTATED"          
clus
  JAK1 MUTATED JAK1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK1 MUTATED        2      0      0
  JAK1 WILD-TYPE     41     67     36
D1108V2, multiclass
[1] "Remove cluster labels:" "JAK1 MUTATED"          
clus
  JAK1 MUTATED JAK1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" "JAK1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK1 MUTATED        0      1     17
  JAK1 WILD-TYPE     42    172    130
D1108V3, multiclass
        clus
vv       JAK1 MUTATED JAK1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3           17            130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK1 MUTATED        9      0      6
  JAK1 WILD-TYPE     53     73     69
D1108V4, multiclass
        clus
vv       JAK1 MUTATED JAK1 WILD-TYPE
  CLUS_1            9             53
  CLUS_2            0             73
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  JAK1 MUTATED        2      2      9
  JAK1 WILD-TYPE     68    118     91
D1108V5, multiclass
        clus
vv       JAK1 MUTATED JAK1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            2            118
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  JAK1 MUTATED        1      1      0      1      1      8      1      0      0
  JAK1 WILD-TYPE     40     25     30     28     38     61     19     14     22
D1108V6, multiclass
        clus
vv       JAK1 MUTATED JAK1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            8             61
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  JAK1 MUTATED        1      6      9      2
  JAK1 WILD-TYPE     99     66     63    119
D1108V7, multiclass
        clus
vv       JAK1 MUTATED JAK1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            6             66
  CLUS_3            9             63
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JAK1 MUTATED        2      1     13      0      2
  JAK1 WILD-TYPE     57     74     61    119     36
D1108V8, multiclass
        clus
vv       JAK1 MUTATED JAK1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3           13             61
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JAK1 MUTATED        0     10      5      0      3
  JAK1 WILD-TYPE     51     66     56     71     92
D1108V9, multiclass
        clus
vv       JAK1 MUTATED JAK1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2           10             66
  CLUS_3            5             56
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  JAK1 MUTATED        5      4      0      3      3      0      1      2      0
  JAK1 WILD-TYPE     64     44     39     13     50     20     20     36     50
D1108V10, multiclass
        clus
vv       JAK1 MUTATED JAK1 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  JAK1 MUTATED        0      2      2      0      1      0
  JAK1 WILD-TYPE     13     14     12     11     10      9
D1108V11, multiclass
        clus
vv       JAK1 MUTATED JAK1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  JAK1 MUTATED        1      1      0      0      1      1      1      0      0
  JAK1 WILD-TYPE     10      6      7      9      7      6     10      9      5
D1108V12, multiclass
        clus
vv       JAK1 MUTATED JAK1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1109) Variable = PAK4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK4 MUTATED        0      0      0      0      0
  PAK4 WILD-TYPE     32     18     46     27     23
D1109V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK4 MUTATED        0      0      0
  PAK4 WILD-TYPE     43     67     36
D1109V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK4 MUTATED        0      1      5
  PAK4 WILD-TYPE     42    172    142
D1109V3, multiclass
        clus
vv       PAK4 MUTATED PAK4 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK4 MUTATED        3      1      2
  PAK4 WILD-TYPE     59     72     73
D1109V4, multiclass
        clus
vv       PAK4 MUTATED PAK4 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK4 MUTATED        1      1      4
  PAK4 WILD-TYPE     69    119     96
D1109V5, multiclass
        clus
vv       PAK4 MUTATED PAK4 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK4 MUTATED        0      0      1      0      0      5      0      0      0
  PAK4 WILD-TYPE     41     26     29     29     39     64     20     14     22
D1109V6, multiclass
        clus
vv       PAK4 MUTATED PAK4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAK4 MUTATED        0      4      2      0
  PAK4 WILD-TYPE    100     68     70    121
D1109V7, multiclass
        clus
vv       PAK4 MUTATED PAK4 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            4             68
  CLUS_3            2             70
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK4 MUTATED        0      1      5      0      0
  PAK4 WILD-TYPE     59     74     69    119     38
D1109V8, multiclass
        clus
vv       PAK4 MUTATED PAK4 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK4 MUTATED        1      5      0      0      0
  PAK4 WILD-TYPE     50     71     61     71     95
D1109V9, multiclass
        clus
vv       PAK4 MUTATED PAK4 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK4 MUTATED        2      0      0      3      0      1      0      0      0
  PAK4 WILD-TYPE     67     48     39     13     53     19     21     38     50
D1109V10, multiclass
        clus
vv       PAK4 MUTATED PAK4 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAK4 MUTATED        0      1      1      0      0      0
  PAK4 WILD-TYPE     13     15     13     11     11      9
D1109V11, multiclass
[1] "Remove cluster labels:" "PAK4 MUTATED"          
clus
  PAK4 MUTATED PAK4 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK4 MUTATED        1      0      0      0      0      0      1      0      0
  PAK4 WILD-TYPE     10      7      7      9      8      7     10      9      5
D1109V12, multiclass
[1] "Remove cluster labels:" "PAK4 MUTATED"          
clus
  PAK4 MUTATED PAK4 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" "PAK4 WILD-TYPE" 

Clustering(1110) Variable = SNX2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNX2 MUTATED        1      0      1      1      1
  SNX2 WILD-TYPE     31     18     45     26     22
D1110V1, multiclass
        clus
vv       SNX2 MUTATED SNX2 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNX2 MUTATED        1      2      1
  SNX2 WILD-TYPE     42     65     35
D1110V2, multiclass
        clus
vv       SNX2 MUTATED SNX2 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNX2 MUTATED        1      2      8
  SNX2 WILD-TYPE     41    171    139
D1110V3, multiclass
        clus
vv       SNX2 MUTATED SNX2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNX2 MUTATED        5      0      2
  SNX2 WILD-TYPE     57     73     73
D1110V4, multiclass
        clus
vv       SNX2 MUTATED SNX2 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNX2 MUTATED        0      6      5
  SNX2 WILD-TYPE     70    114     95
D1110V5, multiclass
        clus
vv       SNX2 MUTATED SNX2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            114
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SNX2 MUTATED        1      1      1      1      2      3      2      0      0
  SNX2 WILD-TYPE     40     25     29     28     37     66     18     14     22
D1110V6, multiclass
        clus
vv       SNX2 MUTATED SNX2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SNX2 MUTATED        1      2      4      4
  SNX2 WILD-TYPE     99     70     68    117
D1110V7, multiclass
        clus
vv       SNX2 MUTATED SNX2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            4             68
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNX2 MUTATED        1      0      5      4      1
  SNX2 WILD-TYPE     58     75     69    115     37
D1110V8, multiclass
        clus
vv       SNX2 MUTATED SNX2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            5             69
  CLUS_4            4            115
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNX2 MUTATED        0      5      1      2      3
  SNX2 WILD-TYPE     51     71     60     69     92
D1110V9, multiclass
        clus
vv       SNX2 MUTATED SNX2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            5             71
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SNX2 MUTATED        2      2      0      2      1      2      0      0      2
  SNX2 WILD-TYPE     67     46     39     14     52     18     21     38     48
D1110V10, multiclass
        clus
vv       SNX2 MUTATED SNX2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SNX2 MUTATED        0      0      1      0      1      0
  SNX2 WILD-TYPE     13     16     13     11     10      9
D1110V11, multiclass
[1] "Remove cluster labels:" "SNX2 MUTATED"          
clus
  SNX2 MUTATED SNX2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SNX2 MUTATED        0      0      0      0      0      1      1      0      0
  SNX2 WILD-TYPE     11      7      7      9      8      6     10      9      5
D1110V12, multiclass
[1] "Remove cluster labels:" "SNX2 MUTATED"          
clus
  SNX2 MUTATED SNX2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" "SNX2 WILD-TYPE" 

Clustering(1111) Variable = LIMCH1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIMCH1 MUTATED        4      1      1      0      0
  LIMCH1 WILD-TYPE     28     17     45     27     23
D1111V1, multiclass
        clus
vv       LIMCH1 MUTATED LIMCH1 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              1               17
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LIMCH1 MUTATED        5      1      0
  LIMCH1 WILD-TYPE     38     66     36
D1111V2, multiclass
        clus
vv       LIMCH1 MUTATED LIMCH1 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LIMCH1 MUTATED        0      1     10
  LIMCH1 WILD-TYPE     42    172    137
D1111V3, multiclass
        clus
vv       LIMCH1 MUTATED LIMCH1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LIMCH1 MUTATED        4      0      3
  LIMCH1 WILD-TYPE     58     73     72
D1111V4, multiclass
        clus
vv       LIMCH1 MUTATED LIMCH1 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LIMCH1 MUTATED        2      1     10
  LIMCH1 WILD-TYPE     68    119     90
D1111V5, multiclass
        clus
vv       LIMCH1 MUTATED LIMCH1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1              119
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LIMCH1 MUTATED        2      1      0      0      0      7      3      0
  LIMCH1 WILD-TYPE     39     25     30     29     39     62     17     14
                  vv
clus               CLUS_9
  LIMCH1 MUTATED        0
  LIMCH1 WILD-TYPE     22
D1111V6, multiclass
        clus
vv       LIMCH1 MUTATED LIMCH1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              7               62
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LIMCH1 MUTATED        1      5      2      5
  LIMCH1 WILD-TYPE     99     67     70    116
D1111V7, multiclass
        clus
vv       LIMCH1 MUTATED LIMCH1 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              5               67
  CLUS_3              2               70
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIMCH1 MUTATED        1      2      3      4      3
  LIMCH1 WILD-TYPE     58     73     71    115     35
D1111V8, multiclass
        clus
vv       LIMCH1 MUTATED LIMCH1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              4              115
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIMCH1 MUTATED        0      3      3      0      5
  LIMCH1 WILD-TYPE     51     73     58     71     90
D1111V9, multiclass
        clus
vv       LIMCH1 MUTATED LIMCH1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LIMCH1 MUTATED        0      2      1      2      1      0      2      1
  LIMCH1 WILD-TYPE     69     46     38     14     52     20     19     37
                  vv
clus               CLUS_9
  LIMCH1 MUTATED        2
  LIMCH1 WILD-TYPE     48
D1111V10, multiclass
        clus
vv       LIMCH1 MUTATED LIMCH1 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              2               19
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LIMCH1 MUTATED        0      0      0      0      0      0
  LIMCH1 WILD-TYPE     13     16     14     11     11      9
D1111V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LIMCH1 MUTATED        0      0      0      0      0      0      0      0
  LIMCH1 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  LIMCH1 MUTATED        0
  LIMCH1 WILD-TYPE      5
D1111V12, multiclass

Clustering(1112) Variable = CD34 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD34 MUTATED        1      0      0      0      0
  CD34 WILD-TYPE     31     18     46     27     23
D1112V1, multiclass
[1] "Remove cluster labels:" "CD34 MUTATED"          
clus
  CD34 MUTATED CD34 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AY-4071 
"CD34 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD34 MUTATED        1      0      0
  CD34 WILD-TYPE     42     67     36
D1112V2, multiclass
[1] "Remove cluster labels:" "CD34 MUTATED"          
clus
  CD34 MUTATED CD34 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AY-4071 
"CD34 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD34 MUTATED        1      2      3
  CD34 WILD-TYPE     41    171    144
D1112V3, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD34 MUTATED        3      0      2
  CD34 WILD-TYPE     59     73     73
D1112V4, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD34 MUTATED        0      1      3
  CD34 WILD-TYPE     70    119     97
D1112V5, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD34 MUTATED        1      0      0      1      1      1      0      0      0
  CD34 WILD-TYPE     40     26     30     28     38     68     20     14     22
D1112V6, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD34 MUTATED        1      2      2      1
  CD34 WILD-TYPE     99     70     70    120
D1112V7, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD34 MUTATED        2      2      1      0      1
  CD34 WILD-TYPE     57     73     73    119     37
D1112V8, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD34 MUTATED        2      0      2      0      2
  CD34 WILD-TYPE     49     76     59     71     93
D1112V9, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            0             76
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD34 MUTATED        1      1      0      0      1      1      0      1      1
  CD34 WILD-TYPE     68     47     39     16     52     19     21     37     49
D1112V10, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CD34 MUTATED        0      1      0      0      0      0
  CD34 WILD-TYPE     13     15     14     11     11      9
D1112V11, multiclass
[1] "Remove cluster labels:" "CD34 MUTATED"          
clus
  CD34 MUTATED CD34 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3511 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-G4-6628 
"CD34 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD34 MUTATED        1      0      0      0      0      0      0      0      0
  CD34 WILD-TYPE     10      7      7      9      8      7     11      9      5
D1112V12, multiclass
[1] "Remove cluster labels:" "CD34 MUTATED"          
clus
  CD34 MUTATED CD34 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3511 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-G4-6628 
"CD34 WILD-TYPE" 

Clustering(1113) Variable = KIAA0564 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0564 MUTATED        4      0      0      2      0
  KIAA0564 WILD-TYPE     28     18     46     25     23
D1113V1, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0564 MUTATED        4      1      1
  KIAA0564 WILD-TYPE     39     66     35
D1113V2, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0564 MUTATED        0      3     19
  KIAA0564 WILD-TYPE     42    170    128
D1113V3, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3               19                128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0564 MUTATED        5      2      9
  KIAA0564 WILD-TYPE     57     71     66
D1113V4, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                5                 57
  CLUS_2                2                 71
  CLUS_3                9                 66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0564 MUTATED        2      6     12
  KIAA0564 WILD-TYPE     68    114     88
D1113V5, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                6                114
  CLUS_3               12                 88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0564 MUTATED        1      1      1      1      1     11      2      0
  KIAA0564 WILD-TYPE     40     25     29     28     38     58     18     14
                    vv
clus                 CLUS_9
  KIAA0564 MUTATED        2
  KIAA0564 WILD-TYPE     20
D1113V6, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                1                 38
  CLUS_6               11                 58
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                2                 20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0564 MUTATED        2     10      5      5
  KIAA0564 WILD-TYPE     98     62     67    116
D1113V7, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2               10                 62
  CLUS_3                5                 67
  CLUS_4                5                116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0564 MUTATED        2      3     11      2      4
  KIAA0564 WILD-TYPE     57     72     63    117     34
D1113V8, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                3                 72
  CLUS_3               11                 63
  CLUS_4                2                117
  CLUS_5                4                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0564 MUTATED        2     10      2      1      6
  KIAA0564 WILD-TYPE     49     66     59     70     89
D1113V9, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2               10                 66
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                6                 89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0564 MUTATED        3      2      0      5      4      2      0      4
  KIAA0564 WILD-TYPE     66     46     39     11     49     18     21     34
                    vv
clus                 CLUS_9
  KIAA0564 MUTATED        1
  KIAA0564 WILD-TYPE     49
D1113V10, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                5                 11
  CLUS_5                4                 49
  CLUS_6                2                 18
  CLUS_7                0                 21
  CLUS_8                4                 34
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA0564 MUTATED        0      0      1      0      5      1
  KIAA0564 WILD-TYPE     13     16     13     11      6      8
D1113V11, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                0                 16
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                5                  6
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0564 MUTATED        1      0      0      3      0      1      2      0
  KIAA0564 WILD-TYPE     10      7      7      6      8      6      9      9
                    vv
clus                 CLUS_9
  KIAA0564 MUTATED        0
  KIAA0564 WILD-TYPE      5
D1113V12, multiclass
        clus
vv       KIAA0564 MUTATED KIAA0564 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                3                  6
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1114) Variable = CEACAM6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEACAM6 MUTATED        0      0      0      0      0
  CEACAM6 WILD-TYPE     32     18     46     27     23
D1114V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CEACAM6 MUTATED        0      0      0
  CEACAM6 WILD-TYPE     43     67     36
D1114V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CEACAM6 MUTATED        1      0      3
  CEACAM6 WILD-TYPE     41    173    144
D1114V3, multiclass
        clus
vv       CEACAM6 MUTATED CEACAM6 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               0               173
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CEACAM6 MUTATED        1      0      3
  CEACAM6 WILD-TYPE     61     73     72
D1114V4, multiclass
        clus
vv       CEACAM6 MUTATED CEACAM6 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CEACAM6 MUTATED        1      1      1
  CEACAM6 WILD-TYPE     69    119     99
D1114V5, multiclass
        clus
vv       CEACAM6 MUTATED CEACAM6 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEACAM6 MUTATED        1      0      0      0      0      0      2      0
  CEACAM6 WILD-TYPE     40     26     30     29     39     69     18     14
                   vv
clus                CLUS_9
  CEACAM6 MUTATED        0
  CEACAM6 WILD-TYPE     22
D1114V6, multiclass
        clus
vv       CEACAM6 MUTATED CEACAM6 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               0                69
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CEACAM6 MUTATED        1      2      1      0
  CEACAM6 WILD-TYPE     99     70     71    121
D1114V7, multiclass
        clus
vv       CEACAM6 MUTATED CEACAM6 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               2                70
  CLUS_3               1                71
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEACAM6 MUTATED        0      2      2      0      0
  CEACAM6 WILD-TYPE     59     73     72    119     38
D1114V8, multiclass
        clus
vv       CEACAM6 MUTATED CEACAM6 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEACAM6 MUTATED        1      3      0      0      0
  CEACAM6 WILD-TYPE     50     73     61     71     95
D1114V9, multiclass
        clus
vv       CEACAM6 MUTATED CEACAM6 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEACAM6 MUTATED        1      0      0      1      1      1      0      0
  CEACAM6 WILD-TYPE     68     48     39     15     52     19     21     38
                   vv
clus                CLUS_9
  CEACAM6 MUTATED        0
  CEACAM6 WILD-TYPE     50
D1114V10, multiclass
        clus
vv       CEACAM6 MUTATED CEACAM6 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CEACAM6 MUTATED        0      1      0      0      1      0
  CEACAM6 WILD-TYPE     13     15     14     11     10      9
D1114V11, multiclass
[1] "Remove cluster labels:" "CEACAM6 MUTATED"       
clus
  CEACAM6 MUTATED CEACAM6 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEACAM6 MUTATED        1      0      0      0      1      0      0      0
  CEACAM6 WILD-TYPE     10      7      7      9      7      7     11      9
                   vv
clus                CLUS_9
  CEACAM6 MUTATED        0
  CEACAM6 WILD-TYPE      5
D1114V12, multiclass
[1] "Remove cluster labels:" "CEACAM6 MUTATED"       
clus
  CEACAM6 MUTATED CEACAM6 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" "CEACAM6 WILD-TYPE" 

Clustering(1115) Variable = CASP4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP4 MUTATED        0      0      1      0      0
  CASP4 WILD-TYPE     32     18     45     27     23
D1115V1, multiclass
[1] "Remove cluster labels:" "CASP4 MUTATED"         
clus
  CASP4 MUTATED CASP4 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3973 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AY-4071 
"CASP4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP4 MUTATED        0      1      0
  CASP4 WILD-TYPE     43     66     36
D1115V2, multiclass
[1] "Remove cluster labels:" "CASP4 MUTATED"         
clus
  CASP4 MUTATED CASP4 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3973 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AY-4071 
"CASP4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP4 MUTATED        0      3      5
  CASP4 WILD-TYPE     42    170    142
D1115V3, multiclass
        clus
vv       CASP4 MUTATED CASP4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP4 MUTATED        2      1      4
  CASP4 WILD-TYPE     60     72     71
D1115V4, multiclass
        clus
vv       CASP4 MUTATED CASP4 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP4 MUTATED        1      4      2
  CASP4 WILD-TYPE     69    116     98
D1115V5, multiclass
        clus
vv       CASP4 MUTATED CASP4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP4 MUTATED        1      0      1      1      1      1      1      0
  CASP4 WILD-TYPE     40     26     29     28     38     68     19     14
                 vv
clus              CLUS_9
  CASP4 MUTATED        1
  CASP4 WILD-TYPE     21
D1115V6, multiclass
        clus
vv       CASP4 MUTATED CASP4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP4 MUTATED        1      3      3      1
  CASP4 WILD-TYPE     99     69     69    120
D1115V7, multiclass
        clus
vv       CASP4 MUTATED CASP4 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP4 MUTATED        2      2      3      1      0
  CASP4 WILD-TYPE     57     73     71    118     38
D1115V8, multiclass
        clus
vv       CASP4 MUTATED CASP4 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP4 MUTATED        1      4      2      1      0
  CASP4 WILD-TYPE     50     72     59     70     95
D1115V9, multiclass
        clus
vv       CASP4 MUTATED CASP4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP4 MUTATED        2      2      0      1      2      0      0      0
  CASP4 WILD-TYPE     67     46     39     15     51     20     21     38
                 vv
clus              CLUS_9
  CASP4 MUTATED        1
  CASP4 WILD-TYPE     49
D1115V10, multiclass
        clus
vv       CASP4 MUTATED CASP4 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CASP4 MUTATED        1      0      0      0      0      0
  CASP4 WILD-TYPE     12     16     14     11     11      9
D1115V11, multiclass
[1] "Remove cluster labels:" "CASP4 MUTATED"         
clus
  CASP4 MUTATED CASP4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-G4-6628 
"CASP4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP4 MUTATED        0      0      1      0      0      0      0      0
  CASP4 WILD-TYPE     11      7      6      9      8      7     11      9
                 vv
clus              CLUS_9
  CASP4 MUTATED        0
  CASP4 WILD-TYPE      5
D1115V12, multiclass
[1] "Remove cluster labels:" "CASP4 MUTATED"         
clus
  CASP4 MUTATED CASP4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" "CASP4 WILD-TYPE" 
     TCGA-G4-6628 
"CASP4 WILD-TYPE" 

Clustering(1116) Variable = AKAP11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP11 MUTATED        5      0      0      2      0
  AKAP11 WILD-TYPE     27     18     46     25     23
D1116V1, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKAP11 MUTATED        4      2      1
  AKAP11 WILD-TYPE     39     65     35
D1116V2, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKAP11 MUTATED        3      5     13
  AKAP11 WILD-TYPE     39    168    134
D1116V3, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              5              168
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKAP11 MUTATED        7      2      7
  AKAP11 WILD-TYPE     55     71     68
D1116V4, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              2               71
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKAP11 MUTATED        2      5      9
  AKAP11 WILD-TYPE     68    115     91
D1116V5, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP11 MUTATED        2      0      2      1      2      7      1      0
  AKAP11 WILD-TYPE     39     26     28     28     37     62     19     14
                  vv
clus               CLUS_9
  AKAP11 MUTATED        1
  AKAP11 WILD-TYPE     21
D1116V6, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AKAP11 MUTATED        4      5      7      6
  AKAP11 WILD-TYPE     96     67     65    115
D1116V7, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              5               67
  CLUS_3              7               65
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP11 MUTATED        5      3      7      3      4
  AKAP11 WILD-TYPE     54     72     67    116     34
D1116V8, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              5               54
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              3              116
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP11 MUTATED        3      7      5      1      4
  AKAP11 WILD-TYPE     48     69     56     70     91
D1116V9, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              7               69
  CLUS_3              5               56
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP11 MUTATED        3      4      1      3      5      2      0      2
  AKAP11 WILD-TYPE     66     44     38     13     48     18     21     36
                  vv
clus               CLUS_9
  AKAP11 MUTATED        0
  AKAP11 WILD-TYPE     50
D1116V10, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              5               48
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AKAP11 MUTATED        1      0      0      0      2      1
  AKAP11 WILD-TYPE     12     16     14     11      9      8
D1116V11, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP11 MUTATED        1      0      0      1      0      0      2      0
  AKAP11 WILD-TYPE     10      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  AKAP11 MUTATED        0
  AKAP11 WILD-TYPE      5
D1116V12, multiclass
        clus
vv       AKAP11 MUTATED AKAP11 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1117) Variable = OSMR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSMR MUTATED        0      0      1      3      0
  OSMR WILD-TYPE     32     18     45     24     23
D1117V1, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            0             32
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OSMR MUTATED        2      2      0
  OSMR WILD-TYPE     41     65     36
D1117V2, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            2             41
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OSMR MUTATED        3      4     13
  OSMR WILD-TYPE     39    169    134
D1117V3, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            3             39
  CLUS_2            4            169
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OSMR MUTATED        6      1      9
  OSMR WILD-TYPE     56     72     66
D1117V4, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            6             56
  CLUS_2            1             72
  CLUS_3            9             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OSMR MUTATED        2      8      9
  OSMR WILD-TYPE     68    112     91
D1117V5, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            2             68
  CLUS_2            8            112
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OSMR MUTATED        4      1      0      2      3      6      3      0      0
  OSMR WILD-TYPE     37     25     30     27     36     63     17     14     22
D1117V6, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            4             37
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            3             36
  CLUS_6            6             63
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OSMR MUTATED        2      7      6      5
  OSMR WILD-TYPE     98     65     66    116
D1117V7, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            2             98
  CLUS_2            7             65
  CLUS_3            6             66
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSMR MUTATED        3      2     10      3      2
  OSMR WILD-TYPE     56     73     64    116     36
D1117V8, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3           10             64
  CLUS_4            3            116
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSMR MUTATED        2      8      4      1      4
  OSMR WILD-TYPE     49     68     57     70     91
D1117V9, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            2             49
  CLUS_2            8             68
  CLUS_3            4             57
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OSMR MUTATED        2      5      1      2      3      0      1      3      2
  OSMR WILD-TYPE     67     43     38     14     50     20     20     35     48
D1117V10, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OSMR MUTATED        0      1      0      2      2      0
  OSMR WILD-TYPE     13     15     14      9      9      9
D1117V11, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            2              9
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OSMR MUTATED        0      0      1      0      0      2      2      0      0
  OSMR WILD-TYPE     11      7      6      9      8      5      9      9      5
D1117V12, multiclass
        clus
vv       OSMR MUTATED OSMR WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            2              5
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1118) Variable = HDAC5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC5 MUTATED        0      0      0      0      0
  HDAC5 WILD-TYPE     32     18     46     27     23
D1118V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC5 MUTATED        0      0      0
  HDAC5 WILD-TYPE     43     67     36
D1118V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC5 MUTATED        1      3      7
  HDAC5 WILD-TYPE     41    170    140
D1118V3, multiclass
        clus
vv       HDAC5 MUTATED HDAC5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC5 MUTATED        5      1      4
  HDAC5 WILD-TYPE     57     72     71
D1118V4, multiclass
        clus
vv       HDAC5 MUTATED HDAC5 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC5 MUTATED        1      3      6
  HDAC5 WILD-TYPE     69    117     94
D1118V5, multiclass
        clus
vv       HDAC5 MUTATED HDAC5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC5 MUTATED        1      0      1      2      1      5      0      0
  HDAC5 WILD-TYPE     40     26     29     27     38     64     20     14
                 vv
clus              CLUS_9
  HDAC5 MUTATED        0
  HDAC5 WILD-TYPE     22
D1118V6, multiclass
        clus
vv       HDAC5 MUTATED HDAC5 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HDAC5 MUTATED        2      3      5      1
  HDAC5 WILD-TYPE     98     69     67    120
D1118V7, multiclass
        clus
vv       HDAC5 MUTATED HDAC5 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             5              67
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC5 MUTATED        2      1      7      0      1
  HDAC5 WILD-TYPE     57     74     67    119     37
D1118V8, multiclass
        clus
vv       HDAC5 MUTATED HDAC5 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             7              67
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC5 MUTATED        1      5      3      0      2
  HDAC5 WILD-TYPE     50     71     58     71     93
D1118V9, multiclass
        clus
vv       HDAC5 MUTATED HDAC5 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC5 MUTATED        2      5      1      1      0      0      0      2
  HDAC5 WILD-TYPE     67     43     38     15     53     20     21     36
                 vv
clus              CLUS_9
  HDAC5 MUTATED        0
  HDAC5 WILD-TYPE     50
D1118V10, multiclass
        clus
vv       HDAC5 MUTATED HDAC5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HDAC5 MUTATED        0      1      0      0      3      1
  HDAC5 WILD-TYPE     13     15     14     11      8      8
D1118V11, multiclass
        clus
vv       HDAC5 MUTATED HDAC5 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC5 MUTATED        2      0      0      1      0      0      2      0
  HDAC5 WILD-TYPE      9      7      7      8      8      7      9      9
                 vv
clus              CLUS_9
  HDAC5 MUTATED        0
  HDAC5 WILD-TYPE      5
D1118V12, multiclass
        clus
vv       HDAC5 MUTATED HDAC5 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1119) Variable = NCR3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCR3 MUTATED        0      0      0      1      0
  NCR3 WILD-TYPE     32     18     46     26     23
D1119V1, multiclass
[1] "Remove cluster labels:" "NCR3 MUTATED"          
clus
  NCR3 MUTATED NCR3 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AY-4071 
"NCR3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NCR3 MUTATED        1      0      0
  NCR3 WILD-TYPE     42     67     36
D1119V2, multiclass
[1] "Remove cluster labels:" "NCR3 MUTATED"          
clus
  NCR3 MUTATED NCR3 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AY-4071 
"NCR3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NCR3 MUTATED        1      0      4
  NCR3 WILD-TYPE     41    173    143
D1119V3, multiclass
        clus
vv       NCR3 MUTATED NCR3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NCR3 MUTATED        0      0      4
  NCR3 WILD-TYPE     62     73     71
D1119V4, multiclass
        clus
vv       NCR3 MUTATED NCR3 WILD-TYPE
  CLUS_1            0             62
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NCR3 MUTATED        0      4      0
  NCR3 WILD-TYPE     70    116    100
D1119V5, multiclass
        clus
vv       NCR3 MUTATED NCR3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            0            100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NCR3 MUTATED        0      0      0      3      1      0      0      0      0
  NCR3 WILD-TYPE     41     26     30     26     38     69     20     14     22
D1119V6, multiclass
        clus
vv       NCR3 MUTATED NCR3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            3             26
  CLUS_5            1             38
  CLUS_6            0             69
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NCR3 MUTATED        0      4      0      1
  NCR3 WILD-TYPE    100     68     72    120
D1119V7, multiclass
        clus
vv       NCR3 MUTATED NCR3 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            4             68
  CLUS_3            0             72
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCR3 MUTATED        0      0      4      0      1
  NCR3 WILD-TYPE     59     75     70    119     37
D1119V8, multiclass
        clus
vv       NCR3 MUTATED NCR3 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCR3 MUTATED        0      4      0      0      1
  NCR3 WILD-TYPE     51     72     61     71     94
D1119V9, multiclass
        clus
vv       NCR3 MUTATED NCR3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NCR3 MUTATED        0      0      0      3      1      0      0      1      0
  NCR3 WILD-TYPE     69     48     39     13     52     20     21     37     50
D1119V10, multiclass
        clus
vv       NCR3 MUTATED NCR3 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NCR3 MUTATED        0      0      0      0      1      0
  NCR3 WILD-TYPE     13     16     14     11     10      9
D1119V11, multiclass
[1] "Remove cluster labels:" "NCR3 MUTATED"          
clus
  NCR3 MUTATED NCR3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-G4-6628 
"NCR3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NCR3 MUTATED        0      0      0      1      0      0      0      0      0
  NCR3 WILD-TYPE     11      7      7      8      8      7     11      9      5
D1119V12, multiclass
[1] "Remove cluster labels:" "NCR3 MUTATED"          
clus
  NCR3 MUTATED NCR3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" "NCR3 WILD-TYPE" 
    TCGA-G4-6628 
"NCR3 WILD-TYPE" 

Clustering(1120) Variable = ORC4L MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ORC4L MUTATED        1      0      0      2      0
  ORC4L WILD-TYPE     31     18     46     25     23
D1120V1, multiclass
        clus
vv       ORC4L MUTATED ORC4L WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ORC4L MUTATED        2      1      0
  ORC4L WILD-TYPE     41     66     36
D1120V2, multiclass
        clus
vv       ORC4L MUTATED ORC4L WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ORC4L MUTATED        0      1      5
  ORC4L WILD-TYPE     42    172    142
D1120V3, multiclass
        clus
vv       ORC4L MUTATED ORC4L WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ORC4L MUTATED        1      0      2
  ORC4L WILD-TYPE     61     73     73
D1120V4, multiclass
        clus
vv       ORC4L MUTATED ORC4L WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ORC4L MUTATED        1      2      3
  ORC4L WILD-TYPE     69    118     97
D1120V5, multiclass
        clus
vv       ORC4L MUTATED ORC4L WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ORC4L MUTATED        1      0      1      1      0      3      0      0
  ORC4L WILD-TYPE     40     26     29     28     39     66     20     14
                 vv
clus              CLUS_9
  ORC4L MUTATED        0
  ORC4L WILD-TYPE     22
D1120V6, multiclass
        clus
vv       ORC4L MUTATED ORC4L WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ORC4L MUTATED        0      2      1      3
  ORC4L WILD-TYPE    100     70     71    118
D1120V7, multiclass
        clus
vv       ORC4L MUTATED ORC4L WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ORC4L MUTATED        0      0      3      1      2
  ORC4L WILD-TYPE     59     75     71    118     36
D1120V8, multiclass
        clus
vv       ORC4L MUTATED ORC4L WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ORC4L MUTATED        1      2      0      0      2
  ORC4L WILD-TYPE     50     74     61     71     93
D1120V9, multiclass
        clus
vv       ORC4L MUTATED ORC4L WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ORC4L MUTATED        2      0      0      0      0      2      0      1
  ORC4L WILD-TYPE     67     48     39     16     53     18     21     37
                 vv
clus              CLUS_9
  ORC4L MUTATED        0
  ORC4L WILD-TYPE     50
D1120V10, multiclass
        clus
vv       ORC4L MUTATED ORC4L WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ORC4L MUTATED        0      0      1      0      0      0
  ORC4L WILD-TYPE     13     16     13     11     11      9
D1120V11, multiclass
[1] "Remove cluster labels:" "ORC4L MUTATED"         
clus
  ORC4L MUTATED ORC4L WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-G4-6625 
"ORC4L WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ORC4L MUTATED        0      0      0      0      0      0      1      0
  ORC4L WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  ORC4L MUTATED        0
  ORC4L WILD-TYPE      5
D1120V12, multiclass
[1] "Remove cluster labels:" "ORC4L MUTATED"         
clus
  ORC4L MUTATED ORC4L WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309 
"ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" "ORC4L WILD-TYPE" 
     TCGA-G4-6625 
"ORC4L WILD-TYPE" 

Clustering(1121) Variable = SECISBP2 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SECISBP2 MUTATED        0      0      0      1      0
  SECISBP2 WILD-TYPE     32     18     46     26     23
D1121V1, multiclass
[1] "Remove cluster labels:" "SECISBP2 MUTATED"      
clus
  SECISBP2 MUTATED SECISBP2 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2683         TCGA-A6-3807 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-A6-3808         TCGA-A6-3809         TCGA-A6-3810 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3514         TCGA-AA-3516         TCGA-AA-3517 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3518         TCGA-AA-3519         TCGA-AA-3520 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AY-4071 
"SECISBP2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SECISBP2 MUTATED        0      1      0
  SECISBP2 WILD-TYPE     43     66     36
D1121V2, multiclass
[1] "Remove cluster labels:" "SECISBP2 MUTATED"      
clus
  SECISBP2 MUTATED SECISBP2 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2683         TCGA-A6-3807 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-A6-3808         TCGA-A6-3809         TCGA-A6-3810 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3514         TCGA-AA-3516         TCGA-AA-3517 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3518         TCGA-AA-3519         TCGA-AA-3520 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AY-4071 
"SECISBP2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SECISBP2 MUTATED        0      3      4
  SECISBP2 WILD-TYPE     42    170    143
D1121V3, multiclass
        clus
vv       SECISBP2 MUTATED SECISBP2 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3                4                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SECISBP2 MUTATED        2      1      2
  SECISBP2 WILD-TYPE     60     72     73
D1121V4, multiclass
        clus
vv       SECISBP2 MUTATED SECISBP2 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                1                 72
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SECISBP2 MUTATED        1      1      4
  SECISBP2 WILD-TYPE     69    119     96
D1121V5, multiclass
        clus
vv       SECISBP2 MUTATED SECISBP2 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                1                119
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SECISBP2 MUTATED        1      0      2      0      0      3      0      0
  SECISBP2 WILD-TYPE     40     26     28     29     39     66     20     14
                    vv
clus                 CLUS_9
  SECISBP2 MUTATED        0
  SECISBP2 WILD-TYPE     22
D1121V6, multiclass
        clus
vv       SECISBP2 MUTATED SECISBP2 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                2                 28
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                3                 66
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SECISBP2 MUTATED        2      1      2      2
  SECISBP2 WILD-TYPE     98     71     70    119
D1121V7, multiclass
        clus
vv       SECISBP2 MUTATED SECISBP2 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                1                 71
  CLUS_3                2                 70
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SECISBP2 MUTATED        2      2      1      1      1
  SECISBP2 WILD-TYPE     57     73     73    118     37
D1121V8, multiclass
        clus
vv       SECISBP2 MUTATED SECISBP2 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                2                 73
  CLUS_3                1                 73
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SECISBP2 MUTATED        0      3      2      0      2
  SECISBP2 WILD-TYPE     51     73     59     71     93
D1121V9, multiclass
        clus
vv       SECISBP2 MUTATED SECISBP2 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                3                 73
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SECISBP2 MUTATED        2      1      0      1      2      0      0      1
  SECISBP2 WILD-TYPE     67     47     39     15     51     20     21     37
                    vv
clus                 CLUS_9
  SECISBP2 MUTATED        0
  SECISBP2 WILD-TYPE     50
D1121V10, multiclass
        clus
vv       SECISBP2 MUTATED SECISBP2 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                2                 51
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SECISBP2 MUTATED        0      0      1      0      0      0
  SECISBP2 WILD-TYPE     13     16     13     11     11      9
D1121V11, multiclass
[1] "Remove cluster labels:" "SECISBP2 MUTATED"      
clus
  SECISBP2 MUTATED SECISBP2 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6607         TCGA-CA-6718 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-G4-6628 
"SECISBP2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SECISBP2 MUTATED        1      0      0      0      0      0      0      0
  SECISBP2 WILD-TYPE     10      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  SECISBP2 MUTATED        0
  SECISBP2 WILD-TYPE      5
D1121V12, multiclass
[1] "Remove cluster labels:" "SECISBP2 MUTATED"      
clus
  SECISBP2 MUTATED SECISBP2 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6607         TCGA-CA-6718 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" "SECISBP2 WILD-TYPE" 
        TCGA-G4-6628 
"SECISBP2 WILD-TYPE" 

Clustering(1122) Variable = OR51T1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51T1 MUTATED        2      0      0      0      0
  OR51T1 WILD-TYPE     30     18     46     27     23
D1122V1, multiclass
[1] "Remove cluster labels:" "OR51T1 MUTATED"        
clus
  OR51T1 MUTATED OR51T1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51T1 MUTATED        1      0      1
  OR51T1 WILD-TYPE     42     67     35
D1122V2, multiclass
[1] "Remove cluster labels:" "OR51T1 MUTATED"        
clus
  OR51T1 MUTATED OR51T1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" "OR51T1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51T1 MUTATED        2      2      6
  OR51T1 WILD-TYPE     40    171    141
D1122V3, multiclass
        clus
vv       OR51T1 MUTATED OR51T1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              2              171
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51T1 MUTATED        3      3      3
  OR51T1 WILD-TYPE     59     70     72
D1122V4, multiclass
        clus
vv       OR51T1 MUTATED OR51T1 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              3               70
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51T1 MUTATED        1      3      6
  OR51T1 WILD-TYPE     69    117     94
D1122V5, multiclass
        clus
vv       OR51T1 MUTATED OR51T1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51T1 MUTATED        0      1      0      1      1      5      1      0
  OR51T1 WILD-TYPE     41     25     30     28     38     64     19     14
                  vv
clus               CLUS_9
  OR51T1 MUTATED        1
  OR51T1 WILD-TYPE     21
D1122V6, multiclass
        clus
vv       OR51T1 MUTATED OR51T1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR51T1 MUTATED        3      3      3      2
  OR51T1 WILD-TYPE     97     69     69    119
D1122V7, multiclass
        clus
vv       OR51T1 MUTATED OR51T1 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51T1 MUTATED        0      5      4      1      1
  OR51T1 WILD-TYPE     59     70     70    118     37
D1122V8, multiclass
        clus
vv       OR51T1 MUTATED OR51T1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              5               70
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51T1 MUTATED        2      4      1      2      2
  OR51T1 WILD-TYPE     49     72     60     69     93
D1122V9, multiclass
        clus
vv       OR51T1 MUTATED OR51T1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51T1 MUTATED        2      2      0      2      3      0      0      1
  OR51T1 WILD-TYPE     67     46     39     14     50     20     21     37
                  vv
clus               CLUS_9
  OR51T1 MUTATED        1
  OR51T1 WILD-TYPE     49
D1122V10, multiclass
        clus
vv       OR51T1 MUTATED OR51T1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR51T1 MUTATED        0      1      1      0      1      0
  OR51T1 WILD-TYPE     13     15     13     11     10      9
D1122V11, multiclass
        clus
vv       OR51T1 MUTATED OR51T1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51T1 MUTATED        1      0      0      1      0      1      0      0
  OR51T1 WILD-TYPE     10      7      7      8      8      6     11      9
                  vv
clus               CLUS_9
  OR51T1 MUTATED        0
  OR51T1 WILD-TYPE      5
D1122V12, multiclass
        clus
vv       OR51T1 MUTATED OR51T1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1123) Variable = SNAPC2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNAPC2 MUTATED        2      0      0      0      0
  SNAPC2 WILD-TYPE     30     18     46     27     23
D1123V1, multiclass
[1] "Remove cluster labels:" "SNAPC2 MUTATED"        
clus
  SNAPC2 MUTATED SNAPC2 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3517 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SNAPC2 MUTATED        2      0      0
  SNAPC2 WILD-TYPE     41     67     36
D1123V2, multiclass
[1] "Remove cluster labels:" "SNAPC2 MUTATED"        
clus
  SNAPC2 MUTATED SNAPC2 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3517 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SNAPC2 MUTATED        0      0      6
  SNAPC2 WILD-TYPE     42    173    141
D1123V3, multiclass
        clus
vv       SNAPC2 MUTATED SNAPC2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SNAPC2 MUTATED        0      0      4
  SNAPC2 WILD-TYPE     62     73     71
D1123V4, multiclass
        clus
vv       SNAPC2 MUTATED SNAPC2 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SNAPC2 MUTATED        1      1      1
  SNAPC2 WILD-TYPE     69    119     99
D1123V5, multiclass
        clus
vv       SNAPC2 MUTATED SNAPC2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNAPC2 MUTATED        0      1      0      0      1      1      0      0
  SNAPC2 WILD-TYPE     41     25     30     29     38     68     20     14
                  vv
clus               CLUS_9
  SNAPC2 MUTATED        0
  SNAPC2 WILD-TYPE     22
D1123V6, multiclass
        clus
vv       SNAPC2 MUTATED SNAPC2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SNAPC2 MUTATED        0      4      0      2
  SNAPC2 WILD-TYPE    100     68     72    119
D1123V7, multiclass
        clus
vv       SNAPC2 MUTATED SNAPC2 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              0               72
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNAPC2 MUTATED        0      0      4      0      2
  SNAPC2 WILD-TYPE     59     75     70    119     36
D1123V8, multiclass
        clus
vv       SNAPC2 MUTATED SNAPC2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNAPC2 MUTATED        0      4      0      0      2
  SNAPC2 WILD-TYPE     51     72     61     71     93
D1123V9, multiclass
        clus
vv       SNAPC2 MUTATED SNAPC2 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNAPC2 MUTATED        1      0      0      3      0      0      0      2
  SNAPC2 WILD-TYPE     68     48     39     13     53     20     21     36
                  vv
clus               CLUS_9
  SNAPC2 MUTATED        0
  SNAPC2 WILD-TYPE     50
D1123V10, multiclass
        clus
vv       SNAPC2 MUTATED SNAPC2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SNAPC2 MUTATED        0      0      0      0      1      0
  SNAPC2 WILD-TYPE     13     16     14     11     10      9
D1123V11, multiclass
[1] "Remove cluster labels:" "SNAPC2 MUTATED"        
clus
  SNAPC2 MUTATED SNAPC2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-G4-6628 
"SNAPC2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNAPC2 MUTATED        0      0      0      1      0      0      0      0
  SNAPC2 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  SNAPC2 MUTATED        0
  SNAPC2 WILD-TYPE      5
D1123V12, multiclass
[1] "Remove cluster labels:" "SNAPC2 MUTATED"        
clus
  SNAPC2 MUTATED SNAPC2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" "SNAPC2 WILD-TYPE" 
      TCGA-G4-6628 
"SNAPC2 WILD-TYPE" 

Clustering(1124) Variable = ABHD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABHD2 MUTATED        2      0      0      1      0
  ABHD2 WILD-TYPE     30     18     46     26     23
D1124V1, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABHD2 MUTATED        3      0      0
  ABHD2 WILD-TYPE     40     67     36
D1124V2, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABHD2 MUTATED        1      2      7
  ABHD2 WILD-TYPE     41    171    140
D1124V3, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABHD2 MUTATED        3      2      2
  ABHD2 WILD-TYPE     59     71     73
D1124V4, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABHD2 MUTATED        1      4      2
  ABHD2 WILD-TYPE     69    116     98
D1124V5, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABHD2 MUTATED        1      2      0      1      1      2      0      0
  ABHD2 WILD-TYPE     40     24     30     28     38     67     20     14
                 vv
clus              CLUS_9
  ABHD2 MUTATED        0
  ABHD2 WILD-TYPE     22
D1124V6, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABHD2 MUTATED        3      2      2      3
  ABHD2 WILD-TYPE     97     70     70    118
D1124V7, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABHD2 MUTATED        1      2      3      1      3
  ABHD2 WILD-TYPE     58     73     71    118     35
D1124V8, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABHD2 MUTATED        2      3      1      0      3
  ABHD2 WILD-TYPE     49     73     60     71     92
D1124V9, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABHD2 MUTATED        1      1      0      1      2      1      0      3
  ABHD2 WILD-TYPE     68     47     39     15     51     19     21     35
                 vv
clus              CLUS_9
  ABHD2 MUTATED        0
  ABHD2 WILD-TYPE     50
D1124V10, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABHD2 MUTATED        0      0      2      0      1      0
  ABHD2 WILD-TYPE     13     16     12     11     10      9
D1124V11, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABHD2 MUTATED        0      0      0      1      1      0      1      0
  ABHD2 WILD-TYPE     11      7      7      8      7      7     10      9
                 vv
clus              CLUS_9
  ABHD2 MUTATED        0
  ABHD2 WILD-TYPE      5
D1124V12, multiclass
        clus
vv       ABHD2 MUTATED ABHD2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1125) Variable = RNF38 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF38 MUTATED        0      0      0      1      1
  RNF38 WILD-TYPE     32     18     46     26     22
D1125V1, multiclass
[1] "Remove cluster labels:" "RNF38 MUTATED"         
clus
  RNF38 MUTATED RNF38 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF38 MUTATED        0      1      1
  RNF38 WILD-TYPE     43     66     35
D1125V2, multiclass
[1] "Remove cluster labels:" "RNF38 MUTATED"         
clus
  RNF38 MUTATED RNF38 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF38 MUTATED        0      1      4
  RNF38 WILD-TYPE     42    172    143
D1125V3, multiclass
        clus
vv       RNF38 MUTATED RNF38 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF38 MUTATED        1      0      2
  RNF38 WILD-TYPE     61     73     73
D1125V4, multiclass
        clus
vv       RNF38 MUTATED RNF38 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF38 MUTATED        1      2      1
  RNF38 WILD-TYPE     69    118     99
D1125V5, multiclass
        clus
vv       RNF38 MUTATED RNF38 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF38 MUTATED        0      0      1      1      0      1      1      0
  RNF38 WILD-TYPE     41     26     29     28     39     68     19     14
                 vv
clus              CLUS_9
  RNF38 MUTATED        0
  RNF38 WILD-TYPE     22
D1125V6, multiclass
        clus
vv       RNF38 MUTATED RNF38 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF38 MUTATED        0      1      2      2
  RNF38 WILD-TYPE    100     71     70    119
D1125V7, multiclass
        clus
vv       RNF38 MUTATED RNF38 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF38 MUTATED        0      0      3      2      0
  RNF38 WILD-TYPE     59     75     71    117     38
D1125V8, multiclass
        clus
vv       RNF38 MUTATED RNF38 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF38 MUTATED        0      3      0      1      1
  RNF38 WILD-TYPE     51     73     61     70     94
D1125V9, multiclass
        clus
vv       RNF38 MUTATED RNF38 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF38 MUTATED        2      0      0      1      0      1      0      0
  RNF38 WILD-TYPE     67     48     39     15     53     19     21     38
                 vv
clus              CLUS_9
  RNF38 MUTATED        1
  RNF38 WILD-TYPE     49
D1125V10, multiclass
        clus
vv       RNF38 MUTATED RNF38 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF38 MUTATED        0      0      0      0      2      0
  RNF38 WILD-TYPE     13     16     14     11      9      9
D1125V11, multiclass
[1] "Remove cluster labels:" "RNF38 MUTATED"         
clus
  RNF38 MUTATED RNF38 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF38 MUTATED        0      0      0      0      1      1      0      0
  RNF38 WILD-TYPE     11      7      7      9      7      6     11      9
                 vv
clus              CLUS_9
  RNF38 MUTATED        0
  RNF38 WILD-TYPE      5
D1125V12, multiclass
[1] "Remove cluster labels:" "RNF38 MUTATED"         
clus
  RNF38 MUTATED RNF38 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" "RNF38 WILD-TYPE" 

Clustering(1126) Variable = FGD4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGD4 MUTATED        1      0      0      0      0
  FGD4 WILD-TYPE     31     18     46     27     23
D1126V1, multiclass
[1] "Remove cluster labels:" "FGD4 MUTATED"          
clus
  FGD4 MUTATED FGD4 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AY-4071 
"FGD4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD4 MUTATED        0      0      1
  FGD4 WILD-TYPE     43     67     35
D1126V2, multiclass
[1] "Remove cluster labels:" "FGD4 MUTATED"          
clus
  FGD4 MUTATED FGD4 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AY-4071 
"FGD4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD4 MUTATED        0      2      3
  FGD4 WILD-TYPE     42    171    144
D1126V3, multiclass
        clus
vv       FGD4 MUTATED FGD4 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD4 MUTATED        1      2      1
  FGD4 WILD-TYPE     61     71     74
D1126V4, multiclass
        clus
vv       FGD4 MUTATED FGD4 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD4 MUTATED        0      1      3
  FGD4 WILD-TYPE     70    119     97
D1126V5, multiclass
        clus
vv       FGD4 MUTATED FGD4 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FGD4 MUTATED        0      1      0      0      0      3      0      0      0
  FGD4 WILD-TYPE     41     25     30     29     39     66     20     14     22
D1126V6, multiclass
        clus
vv       FGD4 MUTATED FGD4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FGD4 MUTATED        2      1      1      1
  FGD4 WILD-TYPE     98     71     71    120
D1126V7, multiclass
        clus
vv       FGD4 MUTATED FGD4 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGD4 MUTATED        0      2      1      2      0
  FGD4 WILD-TYPE     59     73     73    117     38
D1126V8, multiclass
        clus
vv       FGD4 MUTATED FGD4 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            1             73
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGD4 MUTATED        0      1      1      2      1
  FGD4 WILD-TYPE     51     75     60     69     94
D1126V9, multiclass
        clus
vv       FGD4 MUTATED FGD4 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FGD4 MUTATED        1      1      1      0      1      0      0      1      0
  FGD4 WILD-TYPE     68     47     38     16     52     20     21     37     50
D1126V10, multiclass
        clus
vv       FGD4 MUTATED FGD4 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FGD4 MUTATED        2      0      0      0      0      0
  FGD4 WILD-TYPE     11     16     14     11     11      9
D1126V11, multiclass
[1] "Remove cluster labels:" "FGD4 MUTATED"          
clus
  FGD4 MUTATED FGD4 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6534 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FGD4 MUTATED        0      0      0      1      0      0      0      1      0
  FGD4 WILD-TYPE     11      7      7      8      8      7     11      8      5
D1126V12, multiclass
[1] "Remove cluster labels:" "FGD4 MUTATED"          
clus
  FGD4 MUTATED FGD4 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6534 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" "FGD4 WILD-TYPE" 

Clustering(1127) Variable = IRS4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRS4 MUTATED        6      0      1      2      0
  IRS4 WILD-TYPE     26     18     45     25     23
D1127V1, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRS4 MUTATED        7      2      0
  IRS4 WILD-TYPE     36     65     36
D1127V2, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            7             36
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRS4 MUTATED        3      4     20
  IRS4 WILD-TYPE     39    169    127
D1127V3, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            4            169
  CLUS_3           20            127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRS4 MUTATED        5      2     10
  IRS4 WILD-TYPE     57     71     65
D1127V4, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            2             71
  CLUS_3           10             65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRS4 MUTATED        3     12      9
  IRS4 WILD-TYPE     67    108     91
D1127V5, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            3             67
  CLUS_2           12            108
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IRS4 MUTATED        0      2      2      6      4      7      2      0      1
  IRS4 WILD-TYPE     41     24     28     23     35     62     18     14     21
D1127V6, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            2             24
  CLUS_3            2             28
  CLUS_4            6             23
  CLUS_5            4             35
  CLUS_6            7             62
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IRS4 MUTATED        4     11      2     10
  IRS4 WILD-TYPE     96     61     70    111
D1127V7, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            4             96
  CLUS_2           11             61
  CLUS_3            2             70
  CLUS_4           10            111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRS4 MUTATED        2      3     11      3      8
  IRS4 WILD-TYPE     57     72     63    116     30
D1127V8, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3           11             63
  CLUS_4            3            116
  CLUS_5            8             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRS4 MUTATED        2     12      1      2      7
  IRS4 WILD-TYPE     49     64     60     69     88
D1127V9, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            2             49
  CLUS_2           12             64
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IRS4 MUTATED        4      3      1      6      3      0      0      4      3
  IRS4 WILD-TYPE     65     45     38     10     50     20     21     34     47
D1127V10, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            6             10
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            4             34
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IRS4 MUTATED        1      1      0      0      3      0
  IRS4 WILD-TYPE     12     15     14     11      8      9
D1127V11, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IRS4 MUTATED        0      1      0      2      0      0      1      0      1
  IRS4 WILD-TYPE     11      6      7      7      8      7     10      9      4
D1127V12, multiclass
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1128) Variable = GABRA6 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRA6 MUTATED        1      0      0      3      0
  GABRA6 WILD-TYPE     31     18     46     24     23
D1128V1, multiclass
        clus
vv       GABRA6 MUTATED GABRA6 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              3               24
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GABRA6 MUTATED        2      2      0
  GABRA6 WILD-TYPE     41     65     36
D1128V2, multiclass
        clus
vv       GABRA6 MUTATED GABRA6 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GABRA6 MUTATED        0      6     13
  GABRA6 WILD-TYPE     42    167    134
D1128V3, multiclass
        clus
vv       GABRA6 MUTATED GABRA6 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              6              167
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GABRA6 MUTATED        6      3      6
  GABRA6 WILD-TYPE     56     70     69
D1128V4, multiclass
        clus
vv       GABRA6 MUTATED GABRA6 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              3               70
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GABRA6 MUTATED        1      8      8
  GABRA6 WILD-TYPE     69    112     92
D1128V5, multiclass
        clus
vv       GABRA6 MUTATED GABRA6 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              8              112
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABRA6 MUTATED        1      1      2      1      2      6      1      1
  GABRA6 WILD-TYPE     40     25     28     28     37     63     19     13
                  vv
clus               CLUS_9
  GABRA6 MUTATED        2
  GABRA6 WILD-TYPE     20
D1128V6, multiclass
        clus
vv       GABRA6 MUTATED GABRA6 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GABRA6 MUTATED        3      7      4      5
  GABRA6 WILD-TYPE     97     65     68    116
D1128V7, multiclass
        clus
vv       GABRA6 MUTATED GABRA6 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              7               65
  CLUS_3              4               68
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRA6 MUTATED        3      2      9      2      3
  GABRA6 WILD-TYPE     56     73     65    117     35
D1128V8, multiclass
        clus
vv       GABRA6 MUTATED GABRA6 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              2               73
  CLUS_3              9               65
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRA6 MUTATED        3      6      5      0      5
  GABRA6 WILD-TYPE     48     70     56     71     90
D1128V9, multiclass
        clus
vv       GABRA6 MUTATED GABRA6 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              6               70
  CLUS_3              5               56
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABRA6 MUTATED        2      4      0      2      3      4      0      3
  GABRA6 WILD-TYPE     67     44     39     14     50     16     21     35
                  vv
clus               CLUS_9
  GABRA6 MUTATED        1
  GABRA6 WILD-TYPE     49
D1128V10, multiclass
        clus
vv       GABRA6 MUTATED GABRA6 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              4               16
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GABRA6 MUTATED        0      0      0      0      0      1
  GABRA6 WILD-TYPE     13     16     14     11     11      8
D1128V11, multiclass
[1] "Remove cluster labels:" "GABRA6 MUTATED"        
clus
  GABRA6 MUTATED GABRA6 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-G4-6628 
"GABRA6 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABRA6 MUTATED        0      0      0      0      0      1      0      0
  GABRA6 WILD-TYPE     11      7      7      9      8      6     11      9
                  vv
clus               CLUS_9
  GABRA6 MUTATED        0
  GABRA6 WILD-TYPE      5
D1128V12, multiclass
[1] "Remove cluster labels:" "GABRA6 MUTATED"        
clus
  GABRA6 MUTATED GABRA6 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" "GABRA6 WILD-TYPE" 
      TCGA-G4-6628 
"GABRA6 WILD-TYPE" 

Clustering(1129) Variable = HECTD2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HECTD2 MUTATED        3      0      0      2      0
  HECTD2 WILD-TYPE     29     18     46     25     23
D1129V1, multiclass
        clus
vv       HECTD2 MUTATED HECTD2 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HECTD2 MUTATED        3      1      1
  HECTD2 WILD-TYPE     40     66     35
D1129V2, multiclass
        clus
vv       HECTD2 MUTATED HECTD2 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HECTD2 MUTATED        0      1      9
  HECTD2 WILD-TYPE     42    172    138
D1129V3, multiclass
        clus
vv       HECTD2 MUTATED HECTD2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HECTD2 MUTATED        3      0      2
  HECTD2 WILD-TYPE     59     73     73
D1129V4, multiclass
        clus
vv       HECTD2 MUTATED HECTD2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HECTD2 MUTATED        1      3      5
  HECTD2 WILD-TYPE     69    117     95
D1129V5, multiclass
        clus
vv       HECTD2 MUTATED HECTD2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HECTD2 MUTATED        1      1      2      1      0      4      0      0
  HECTD2 WILD-TYPE     40     25     28     28     39     65     20     14
                  vv
clus               CLUS_9
  HECTD2 MUTATED        0
  HECTD2 WILD-TYPE     22
D1129V6, multiclass
        clus
vv       HECTD2 MUTATED HECTD2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HECTD2 MUTATED        0      2      3      5
  HECTD2 WILD-TYPE    100     70     69    116
D1129V7, multiclass
        clus
vv       HECTD2 MUTATED HECTD2 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HECTD2 MUTATED        1      0      4      2      3
  HECTD2 WILD-TYPE     58     75     70    117     35
D1129V8, multiclass
        clus
vv       HECTD2 MUTATED HECTD2 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HECTD2 MUTATED        1      3      1      1      2
  HECTD2 WILD-TYPE     50     73     60     70     93
D1129V9, multiclass
        clus
vv       HECTD2 MUTATED HECTD2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HECTD2 MUTATED        1      3      0      0      1      2      0      1
  HECTD2 WILD-TYPE     68     45     39     16     52     18     21     37
                  vv
clus               CLUS_9
  HECTD2 MUTATED        0
  HECTD2 WILD-TYPE     50
D1129V10, multiclass
        clus
vv       HECTD2 MUTATED HECTD2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HECTD2 MUTATED        0      0      0      0      1      0
  HECTD2 WILD-TYPE     13     16     14     11     10      9
D1129V11, multiclass
[1] "Remove cluster labels:" "HECTD2 MUTATED"        
clus
  HECTD2 MUTATED HECTD2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-G4-6628 
"HECTD2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HECTD2 MUTATED        0      0      0      0      0      0      1      0
  HECTD2 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  HECTD2 MUTATED        0
  HECTD2 WILD-TYPE      5
D1129V12, multiclass
[1] "Remove cluster labels:" "HECTD2 MUTATED"        
clus
  HECTD2 MUTATED HECTD2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-G4-6628 
"HECTD2 WILD-TYPE" 

Clustering(1130) Variable = ARHGAP11A MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP11A MUTATED        2      0      0      0      0
  ARHGAP11A WILD-TYPE     30     18     46     27     23
D1130V1, multiclass
[1] "Remove cluster labels:" "ARHGAP11A MUTATED"     
clus
  ARHGAP11A MUTATED ARHGAP11A WILD-TYPE 
                  2                 144 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3979 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3980          TCGA-AA-3982          TCGA-AA-3986 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3989          TCGA-AA-3994          TCGA-AA-A004 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A00A          TCGA-AA-A00D          TCGA-AA-A00E 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A00F          TCGA-AA-A00J          TCGA-AA-A00K 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A00L          TCGA-AA-A00N          TCGA-AA-A00O 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A00Q          TCGA-AA-A00R          TCGA-AA-A00U 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A00W          TCGA-AA-A00Z          TCGA-AA-A010 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A017          TCGA-AA-A01D          TCGA-AA-A01F 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A01G          TCGA-AA-A01I          TCGA-AA-A01K 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A01Q          TCGA-AA-A024          TCGA-AA-A029 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A02F          TCGA-AA-A02H          TCGA-AA-A02J 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AY-4070          TCGA-AY-4071 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  ARHGAP11A MUTATED        1      0      1
  ARHGAP11A WILD-TYPE     42     67     35
D1130V2, multiclass
[1] "Remove cluster labels:" "ARHGAP11A MUTATED"     
clus
  ARHGAP11A MUTATED ARHGAP11A WILD-TYPE 
                  2                 144 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3979 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3980          TCGA-AA-3982          TCGA-AA-3986 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-3989          TCGA-AA-3994          TCGA-AA-A004 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A00A          TCGA-AA-A00D          TCGA-AA-A00E 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A00F          TCGA-AA-A00J          TCGA-AA-A00K 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A00L          TCGA-AA-A00N          TCGA-AA-A00O 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A00Q          TCGA-AA-A00R          TCGA-AA-A00U 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A00W          TCGA-AA-A00Z          TCGA-AA-A010 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A017          TCGA-AA-A01D          TCGA-AA-A01F 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A01G          TCGA-AA-A01I          TCGA-AA-A01K 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A01Q          TCGA-AA-A024          TCGA-AA-A029 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A02F          TCGA-AA-A02H          TCGA-AA-A02J 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AY-4070          TCGA-AY-4071 
"ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" "ARHGAP11A WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  ARHGAP11A MUTATED        2      3      9
  ARHGAP11A WILD-TYPE     40    170    138
D1130V3, multiclass
        clus
vv       ARHGAP11A MUTATED ARHGAP11A WILD-TYPE
  CLUS_1                 2                  40
  CLUS_2                 3                 170
  CLUS_3                 9                 138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  ARHGAP11A MUTATED        6      2      3
  ARHGAP11A WILD-TYPE     56     71     72
D1130V4, multiclass
        clus
vv       ARHGAP11A MUTATED ARHGAP11A WILD-TYPE
  CLUS_1                 6                  56
  CLUS_2                 2                  71
  CLUS_3                 3                  72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  ARHGAP11A MUTATED        1      4      5
  ARHGAP11A WILD-TYPE     69    116     95
D1130V5, multiclass
        clus
vv       ARHGAP11A MUTATED ARHGAP11A WILD-TYPE
  CLUS_1                 1                  69
  CLUS_2                 4                 116
  CLUS_3                 5                  95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP11A MUTATED        2      1      0      1      1      4      0      0
  ARHGAP11A WILD-TYPE     39     25     30     28     38     65     20     14
                     vv
clus                  CLUS_9
  ARHGAP11A MUTATED        1
  ARHGAP11A WILD-TYPE     21
D1130V6, multiclass
        clus
vv       ARHGAP11A MUTATED ARHGAP11A WILD-TYPE
  CLUS_1                 2                  39
  CLUS_2                 1                  25
  CLUS_3                 0                  30
  CLUS_4                 1                  28
  CLUS_5                 1                  38
  CLUS_6                 4                  65
  CLUS_7                 0                  20
  CLUS_8                 0                  14
  CLUS_9                 1                  21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGAP11A MUTATED        3      2      7      2
  ARHGAP11A WILD-TYPE     97     70     65    119
D1130V7, multiclass
        clus
vv       ARHGAP11A MUTATED ARHGAP11A WILD-TYPE
  CLUS_1                 3                  97
  CLUS_2                 2                  70
  CLUS_3                 7                  65
  CLUS_4                 2                 119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP11A MUTATED        4      3      5      1      1
  ARHGAP11A WILD-TYPE     55     72     69    118     37
D1130V8, multiclass
        clus
vv       ARHGAP11A MUTATED ARHGAP11A WILD-TYPE
  CLUS_1                 4                  55
  CLUS_2                 3                  72
  CLUS_3                 5                  69
  CLUS_4                 1                 118
  CLUS_5                 1                  37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP11A MUTATED        3      5      4      1      1
  ARHGAP11A WILD-TYPE     48     71     57     70     94
D1130V9, multiclass
        clus
vv       ARHGAP11A MUTATED ARHGAP11A WILD-TYPE
  CLUS_1                 3                  48
  CLUS_2                 5                  71
  CLUS_3                 4                  57
  CLUS_4                 1                  70
  CLUS_5                 1                  94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP11A MUTATED        1      3      2      1      6      0      0      1
  ARHGAP11A WILD-TYPE     68     45     37     15     47     20     21     37
                     vv
clus                  CLUS_9
  ARHGAP11A MUTATED        0
  ARHGAP11A WILD-TYPE     50
D1130V10, multiclass
        clus
vv       ARHGAP11A MUTATED ARHGAP11A WILD-TYPE
  CLUS_1                 1                  68
  CLUS_2                 3                  45
  CLUS_3                 2                  37
  CLUS_4                 1                  15
  CLUS_5                 6                  47
  CLUS_6                 0                  20
  CLUS_7                 0                  21
  CLUS_8                 1                  37
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARHGAP11A MUTATED        0      0      1      0      3      0
  ARHGAP11A WILD-TYPE     13     16     13     11      8      9
D1130V11, multiclass
        clus
vv       ARHGAP11A MUTATED ARHGAP11A WILD-TYPE
  CLUS_1                 0                  13
  CLUS_2                 0                  16
  CLUS_3                 1                  13
  CLUS_4                 0                  11
  CLUS_5                 3                   8
  CLUS_6                 0                   9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP11A MUTATED        0      0      0      1      1      1      1      0
  ARHGAP11A WILD-TYPE     11      7      7      8      7      6     10      9
                     vv
clus                  CLUS_9
  ARHGAP11A MUTATED        0
  ARHGAP11A WILD-TYPE      5
D1130V12, multiclass
        clus
vv       ARHGAP11A MUTATED ARHGAP11A WILD-TYPE
  CLUS_1                 0                  11
  CLUS_2                 0                   7
  CLUS_3                 0                   7
  CLUS_4                 1                   8
  CLUS_5                 1                   7
  CLUS_6                 1                   6
  CLUS_7                 1                  10
  CLUS_8                 0                   9
  CLUS_9                 0                   5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1131) Variable = OR4A16 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4A16 MUTATED        2      0      1      0      0
  OR4A16 WILD-TYPE     30     18     45     27     23
D1131V1, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4A16 MUTATED        1      1      1
  OR4A16 WILD-TYPE     42     66     35
D1131V2, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4A16 MUTATED        3      5      6
  OR4A16 WILD-TYPE     39    168    141
D1131V3, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              5              168
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4A16 MUTATED        6      2      3
  OR4A16 WILD-TYPE     56     71     72
D1131V4, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR4A16 MUTATED        1      6      6
  OR4A16 WILD-TYPE     69    114     94
D1131V5, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              6              114
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4A16 MUTATED        3      1      2      1      1      3      0      1
  OR4A16 WILD-TYPE     38     25     28     28     38     66     20     13
                  vv
clus               CLUS_9
  OR4A16 MUTATED        1
  OR4A16 WILD-TYPE     21
D1131V6, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR4A16 MUTATED        4      2      5      3
  OR4A16 WILD-TYPE     96     70     67    118
D1131V7, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              2               70
  CLUS_3              5               67
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4A16 MUTATED        4      4      2      3      1
  OR4A16 WILD-TYPE     55     71     72    116     37
D1131V8, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              4               71
  CLUS_3              2               72
  CLUS_4              3              116
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4A16 MUTATED        3      2      3      4      2
  OR4A16 WILD-TYPE     48     74     58     67     93
D1131V9, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              2               74
  CLUS_3              3               58
  CLUS_4              4               67
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4A16 MUTATED        3      4      2      1      1      1      0      1
  OR4A16 WILD-TYPE     66     44     37     15     52     19     21     37
                  vv
clus               CLUS_9
  OR4A16 MUTATED        1
  OR4A16 WILD-TYPE     49
D1131V10, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               44
  CLUS_3              2               37
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR4A16 MUTATED        0      1      1      0      0      1
  OR4A16 WILD-TYPE     13     15     13     11     11      8
D1131V11, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4A16 MUTATED        2      1      0      0      0      0      0      0
  OR4A16 WILD-TYPE      9      6      7      9      8      7     11      9
                  vv
clus               CLUS_9
  OR4A16 MUTATED        0
  OR4A16 WILD-TYPE      5
D1131V12, multiclass
        clus
vv       OR4A16 MUTATED OR4A16 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1132) Variable = TSHZ1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSHZ1 MUTATED        2      0      0      2      0
  TSHZ1 WILD-TYPE     30     18     46     25     23
D1132V1, multiclass
        clus
vv       TSHZ1 MUTATED TSHZ1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TSHZ1 MUTATED        3      1      0
  TSHZ1 WILD-TYPE     40     66     36
D1132V2, multiclass
        clus
vv       TSHZ1 MUTATED TSHZ1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TSHZ1 MUTATED        1      1     10
  TSHZ1 WILD-TYPE     41    172    137
D1132V3, multiclass
        clus
vv       TSHZ1 MUTATED TSHZ1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TSHZ1 MUTATED        3      1      4
  TSHZ1 WILD-TYPE     59     72     71
D1132V4, multiclass
        clus
vv       TSHZ1 MUTATED TSHZ1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TSHZ1 MUTATED        0      4      6
  TSHZ1 WILD-TYPE     70    116     94
D1132V5, multiclass
        clus
vv       TSHZ1 MUTATED TSHZ1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TSHZ1 MUTATED        0      0      1      1      1      5      2      0
  TSHZ1 WILD-TYPE     41     26     29     28     38     64     18     14
                 vv
clus              CLUS_9
  TSHZ1 MUTATED        0
  TSHZ1 WILD-TYPE     22
D1132V6, multiclass
        clus
vv       TSHZ1 MUTATED TSHZ1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TSHZ1 MUTATED        1      5      2      4
  TSHZ1 WILD-TYPE     99     67     70    117
D1132V7, multiclass
        clus
vv       TSHZ1 MUTATED TSHZ1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSHZ1 MUTATED        0      3      5      1      3
  TSHZ1 WILD-TYPE     59     72     69    118     35
D1132V8, multiclass
        clus
vv       TSHZ1 MUTATED TSHZ1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSHZ1 MUTATED        0      6      1      1      3
  TSHZ1 WILD-TYPE     51     70     60     70     92
D1132V9, multiclass
        clus
vv       TSHZ1 MUTATED TSHZ1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TSHZ1 MUTATED        2      1      0      2      2      1      1      1
  TSHZ1 WILD-TYPE     67     47     39     14     51     19     20     37
                 vv
clus              CLUS_9
  TSHZ1 MUTATED        1
  TSHZ1 WILD-TYPE     49
D1132V10, multiclass
        clus
vv       TSHZ1 MUTATED TSHZ1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TSHZ1 MUTATED        0      0      1      0      1      0
  TSHZ1 WILD-TYPE     13     16     13     11     10      9
D1132V11, multiclass
[1] "Remove cluster labels:" "TSHZ1 MUTATED"         
clus
  TSHZ1 MUTATED TSHZ1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TSHZ1 MUTATED        0      0      0      1      0      0      1      0
  TSHZ1 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  TSHZ1 MUTATED        0
  TSHZ1 WILD-TYPE      5
D1132V12, multiclass
[1] "Remove cluster labels:" "TSHZ1 MUTATED"         
clus
  TSHZ1 MUTATED TSHZ1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" "TSHZ1 WILD-TYPE" 

Clustering(1133) Variable = URGCP MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  URGCP MUTATED        1      1      0      0      0
  URGCP WILD-TYPE     31     17     46     27     23
D1133V1, multiclass
[1] "Remove cluster labels:" "URGCP MUTATED"         
clus
  URGCP MUTATED URGCP WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01F 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  URGCP MUTATED        2      0      0
  URGCP WILD-TYPE     41     67     36
D1133V2, multiclass
[1] "Remove cluster labels:" "URGCP MUTATED"         
clus
  URGCP MUTATED URGCP WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01F 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" "URGCP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  URGCP MUTATED        1      3     11
  URGCP WILD-TYPE     41    170    136
D1133V3, multiclass
        clus
vv       URGCP MUTATED URGCP WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  URGCP MUTATED        8      2      3
  URGCP WILD-TYPE     54     71     72
D1133V4, multiclass
        clus
vv       URGCP MUTATED URGCP WILD-TYPE
  CLUS_1             8              54
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  URGCP MUTATED        3      6      4
  URGCP WILD-TYPE     67    114     96
D1133V5, multiclass
        clus
vv       URGCP MUTATED URGCP WILD-TYPE
  CLUS_1             3              67
  CLUS_2             6             114
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  URGCP MUTATED        3      1      0      1      2      3      0      3
  URGCP WILD-TYPE     38     25     30     28     37     66     20     11
                 vv
clus              CLUS_9
  URGCP MUTATED        0
  URGCP WILD-TYPE     22
D1133V6, multiclass
        clus
vv       URGCP MUTATED URGCP WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             3              11
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  URGCP MUTATED        2      5      6      2
  URGCP WILD-TYPE     98     67     66    119
D1133V7, multiclass
        clus
vv       URGCP MUTATED URGCP WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             6              66
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  URGCP MUTATED        4      4      5      1      1
  URGCP WILD-TYPE     55     71     69    118     37
D1133V8, multiclass
        clus
vv       URGCP MUTATED URGCP WILD-TYPE
  CLUS_1             4              55
  CLUS_2             4              71
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  URGCP MUTATED        1      6      5      0      3
  URGCP WILD-TYPE     50     70     56     71     92
D1133V9, multiclass
        clus
vv       URGCP MUTATED URGCP WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             5              56
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  URGCP MUTATED        3      5      1      1      1      1      0      2
  URGCP WILD-TYPE     66     43     38     15     52     19     21     36
                 vv
clus              CLUS_9
  URGCP MUTATED        1
  URGCP WILD-TYPE     49
D1133V10, multiclass
        clus
vv       URGCP MUTATED URGCP WILD-TYPE
  CLUS_1             3              66
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  URGCP MUTATED        0      1      2      0      2      0
  URGCP WILD-TYPE     13     15     12     11      9      9
D1133V11, multiclass
        clus
vv       URGCP MUTATED URGCP WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  URGCP MUTATED        0      1      0      1      2      0      1      0
  URGCP WILD-TYPE     11      6      7      8      6      7     10      9
                 vv
clus              CLUS_9
  URGCP MUTATED        0
  URGCP WILD-TYPE      5
D1133V12, multiclass
        clus
vv       URGCP MUTATED URGCP WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1134) Variable = FRMD6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRMD6 MUTATED        0      0      0      1      0
  FRMD6 WILD-TYPE     32     18     46     26     23
D1134V1, multiclass
[1] "Remove cluster labels:" "FRMD6 MUTATED"         
clus
  FRMD6 MUTATED FRMD6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AY-4071 
"FRMD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRMD6 MUTATED        0      1      0
  FRMD6 WILD-TYPE     43     66     36
D1134V2, multiclass
[1] "Remove cluster labels:" "FRMD6 MUTATED"         
clus
  FRMD6 MUTATED FRMD6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AY-4071 
"FRMD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRMD6 MUTATED        2      1      7
  FRMD6 WILD-TYPE     40    172    140
D1134V3, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRMD6 MUTATED        1      1      7
  FRMD6 WILD-TYPE     61     72     68
D1134V4, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRMD6 MUTATED        3      5      1
  FRMD6 WILD-TYPE     67    115     99
D1134V5, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             5             115
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FRMD6 MUTATED        1      0      1      3      1      1      0      2
  FRMD6 WILD-TYPE     40     26     29     26     38     68     20     12
                 vv
clus              CLUS_9
  FRMD6 MUTATED        0
  FRMD6 WILD-TYPE     22
D1134V6, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FRMD6 MUTATED        1      6      2      1
  FRMD6 WILD-TYPE     99     66     70    120
D1134V7, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRMD6 MUTATED        2      1      6      1      0
  FRMD6 WILD-TYPE     57     74     68    118     38
D1134V8, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRMD6 MUTATED        0      7      2      0      1
  FRMD6 WILD-TYPE     51     69     59     71     94
D1134V9, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FRMD6 MUTATED        3      2      0      3      1      1      0      0
  FRMD6 WILD-TYPE     66     46     39     13     52     19     21     38
                 vv
clus              CLUS_9
  FRMD6 MUTATED        0
  FRMD6 WILD-TYPE     50
D1134V10, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FRMD6 MUTATED        0      1      0      0      1      0
  FRMD6 WILD-TYPE     13     15     14     11     10      9
D1134V11, multiclass
[1] "Remove cluster labels:" "FRMD6 MUTATED"         
clus
  FRMD6 MUTATED FRMD6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FRMD6 MUTATED        0      0      0      1      0      0      1      0
  FRMD6 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  FRMD6 MUTATED        0
  FRMD6 WILD-TYPE      5
D1134V12, multiclass
[1] "Remove cluster labels:" "FRMD6 MUTATED"         
clus
  FRMD6 MUTATED FRMD6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" "FRMD6 WILD-TYPE" 

Clustering(1135) Variable = CPS1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CPS1 MUTATED        6      1      1      2      0
  CPS1 WILD-TYPE     26     17     45     25     23
D1135V1, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            1             17
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPS1 MUTATED        5      3      2
  CPS1 WILD-TYPE     38     64     34
D1135V2, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            3             64
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPS1 MUTATED        2      8     19
  CPS1 WILD-TYPE     40    165    128
D1135V3, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            8            165
  CLUS_3           19            128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPS1 MUTATED        7      6      7
  CPS1 WILD-TYPE     55     67     68
D1135V4, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            6             67
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPS1 MUTATED        1     11     15
  CPS1 WILD-TYPE     69    109     85
D1135V5, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2           11            109
  CLUS_3           15             85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CPS1 MUTATED        3      2      1      3      3     10      1      1      3
  CPS1 WILD-TYPE     38     24     29     26     36     59     19     13     19
D1135V6, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            3             36
  CLUS_6           10             59
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CPS1 MUTATED        4     10      7      9
  CPS1 WILD-TYPE     96     62     65    112
D1135V7, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            4             96
  CLUS_2           10             62
  CLUS_3            7             65
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CPS1 MUTATED        3      6     10      7      4
  CPS1 WILD-TYPE     56     69     64    112     34
D1135V8, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            6             69
  CLUS_3           10             64
  CLUS_4            7            112
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CPS1 MUTATED        4      9      2      6      8
  CPS1 WILD-TYPE     47     67     59     65     87
D1135V9, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            4             47
  CLUS_2            9             67
  CLUS_3            2             59
  CLUS_4            6             65
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CPS1 MUTATED        5      5      2      2      5      3      1      4      2
  CPS1 WILD-TYPE     64     43     37     14     48     17     20     34     48
D1135V10, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            5             43
  CLUS_3            2             37
  CLUS_4            2             14
  CLUS_5            5             48
  CLUS_6            3             17
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CPS1 MUTATED        0      0      2      0      2      1
  CPS1 WILD-TYPE     13     16     12     11      9      8
D1135V11, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CPS1 MUTATED        0      0      0      1      1      0      2      1      0
  CPS1 WILD-TYPE     11      7      7      8      7      7      9      8      5
D1135V12, multiclass
        clus
vv       CPS1 MUTATED CPS1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1136) Variable = TUBB4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUBB4 MUTATED        0      0      0      1      1
  TUBB4 WILD-TYPE     32     18     46     26     22
D1136V1, multiclass
[1] "Remove cluster labels:" "TUBB4 MUTATED"         
clus
  TUBB4 MUTATED TUBB4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3685 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866      TCGA-AA-3867 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBB4 MUTATED        2      0      0
  TUBB4 WILD-TYPE     41     67     36
D1136V2, multiclass
[1] "Remove cluster labels:" "TUBB4 MUTATED"         
clus
  TUBB4 MUTATED TUBB4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3685 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866      TCGA-AA-3867 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" "TUBB4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBB4 MUTATED        0      0      5
  TUBB4 WILD-TYPE     42    173    142
D1136V3, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBB4 MUTATED        1      0      2
  TUBB4 WILD-TYPE     61     73     73
D1136V4, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBB4 MUTATED        0      3      1
  TUBB4 WILD-TYPE     70    117     99
D1136V5, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TUBB4 MUTATED        0      0      0      2      1      1      0      0
  TUBB4 WILD-TYPE     41     26     30     27     38     68     20     14
                 vv
clus              CLUS_9
  TUBB4 MUTATED        0
  TUBB4 WILD-TYPE     22
D1136V6, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TUBB4 MUTATED        0      2      1      2
  TUBB4 WILD-TYPE    100     70     71    119
D1136V7, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUBB4 MUTATED        0      0      3      1      1
  TUBB4 WILD-TYPE     59     75     71    118     37
D1136V8, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUBB4 MUTATED        0      2      1      0      2
  TUBB4 WILD-TYPE     51     74     60     71     93
D1136V9, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TUBB4 MUTATED        1      1      0      1      0      0      1      1
  TUBB4 WILD-TYPE     68     47     39     15     53     20     20     37
                 vv
clus              CLUS_9
  TUBB4 MUTATED        0
  TUBB4 WILD-TYPE     50
D1136V10, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TUBB4 MUTATED        0      0      0      0      0      0
  TUBB4 WILD-TYPE     13     16     14     11     11      9
D1136V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TUBB4 MUTATED        0      0      0      0      0      0      0      0
  TUBB4 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  TUBB4 MUTATED        0
  TUBB4 WILD-TYPE      5
D1136V12, multiclass

Clustering(1137) Variable = USF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USF1 MUTATED        1      0      0      1      0
  USF1 WILD-TYPE     31     18     46     26     23
D1137V1, multiclass
[1] "Remove cluster labels:" "USF1 MUTATED"          
clus
  USF1 MUTATED USF1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USF1 MUTATED        1      1      0
  USF1 WILD-TYPE     42     66     36
D1137V2, multiclass
[1] "Remove cluster labels:" "USF1 MUTATED"          
clus
  USF1 MUTATED USF1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USF1 MUTATED        1      0      4
  USF1 WILD-TYPE     41    173    143
D1137V3, multiclass
        clus
vv       USF1 MUTATED USF1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USF1 MUTATED        0      0      3
  USF1 WILD-TYPE     62     73     72
D1137V4, multiclass
        clus
vv       USF1 MUTATED USF1 WILD-TYPE
  CLUS_1            0             62
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USF1 MUTATED        1      3      1
  USF1 WILD-TYPE     69    117     99
D1137V5, multiclass
        clus
vv       USF1 MUTATED USF1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  USF1 MUTATED        1      0      1      1      1      0      0      1      0
  USF1 WILD-TYPE     40     26     29     28     38     69     20     13     22
D1137V6, multiclass
        clus
vv       USF1 MUTATED USF1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            0             69
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USF1 MUTATED        0      2      1      2
  USF1 WILD-TYPE    100     70     71    119
D1137V7, multiclass
        clus
vv       USF1 MUTATED USF1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USF1 MUTATED        0      0      3      1      1
  USF1 WILD-TYPE     59     75     71    118     37
D1137V8, multiclass
        clus
vv       USF1 MUTATED USF1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USF1 MUTATED        1      2      0      0      2
  USF1 WILD-TYPE     50     74     61     71     93
D1137V9, multiclass
        clus
vv       USF1 MUTATED USF1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  USF1 MUTATED        0      1      0      1      0      2      0      1      0
  USF1 WILD-TYPE     69     47     39     15     53     18     21     37     50
D1137V10, multiclass
        clus
vv       USF1 MUTATED USF1 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USF1 MUTATED        0      1      0      0      1      0
  USF1 WILD-TYPE     13     15     14     11     10      9
D1137V11, multiclass
[1] "Remove cluster labels:" "USF1 MUTATED"          
clus
  USF1 MUTATED USF1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  USF1 MUTATED        0      0      0      1      0      0      1      0      0
  USF1 WILD-TYPE     11      7      7      8      8      7     10      9      5
D1137V12, multiclass
[1] "Remove cluster labels:" "USF1 MUTATED"          
clus
  USF1 MUTATED USF1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" "USF1 WILD-TYPE" 

Clustering(1138) Variable = TM7SF4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TM7SF4 MUTATED        1      0      0      1      0
  TM7SF4 WILD-TYPE     31     18     46     26     23
D1138V1, multiclass
[1] "Remove cluster labels:" "TM7SF4 MUTATED"        
clus
  TM7SF4 MUTATED TM7SF4 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TM7SF4 MUTATED        1      1      0
  TM7SF4 WILD-TYPE     42     66     36
D1138V2, multiclass
[1] "Remove cluster labels:" "TM7SF4 MUTATED"        
clus
  TM7SF4 MUTATED TM7SF4 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TM7SF4 MUTATED        0      1      6
  TM7SF4 WILD-TYPE     42    172    141
D1138V3, multiclass
        clus
vv       TM7SF4 MUTATED TM7SF4 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TM7SF4 MUTATED        1      2      3
  TM7SF4 WILD-TYPE     61     71     72
D1138V4, multiclass
        clus
vv       TM7SF4 MUTATED TM7SF4 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TM7SF4 MUTATED        1      4      2
  TM7SF4 WILD-TYPE     69    116     98
D1138V5, multiclass
        clus
vv       TM7SF4 MUTATED TM7SF4 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TM7SF4 MUTATED        1      1      1      0      1      3      0      0
  TM7SF4 WILD-TYPE     40     25     29     29     38     66     20     14
                  vv
clus               CLUS_9
  TM7SF4 MUTATED        0
  TM7SF4 WILD-TYPE     22
D1138V6, multiclass
        clus
vv       TM7SF4 MUTATED TM7SF4 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TM7SF4 MUTATED        2      1      2      2
  TM7SF4 WILD-TYPE     98     71     70    119
D1138V7, multiclass
        clus
vv       TM7SF4 MUTATED TM7SF4 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TM7SF4 MUTATED        0      2      2      2      1
  TM7SF4 WILD-TYPE     59     73     72    117     37
D1138V8, multiclass
        clus
vv       TM7SF4 MUTATED TM7SF4 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TM7SF4 MUTATED        0      3      1      0      3
  TM7SF4 WILD-TYPE     51     73     60     71     92
D1138V9, multiclass
        clus
vv       TM7SF4 MUTATED TM7SF4 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TM7SF4 MUTATED        2      2      0      0      0      1      0      2
  TM7SF4 WILD-TYPE     67     46     39     16     53     19     21     36
                  vv
clus               CLUS_9
  TM7SF4 MUTATED        0
  TM7SF4 WILD-TYPE     50
D1138V10, multiclass
        clus
vv       TM7SF4 MUTATED TM7SF4 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TM7SF4 MUTATED        0      1      0      0      0      0
  TM7SF4 WILD-TYPE     13     15     14     11     11      9
D1138V11, multiclass
[1] "Remove cluster labels:" "TM7SF4 MUTATED"        
clus
  TM7SF4 MUTATED TM7SF4 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-G4-6628 
"TM7SF4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TM7SF4 MUTATED        0      0      0      0      0      0      1      0
  TM7SF4 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  TM7SF4 MUTATED        0
  TM7SF4 WILD-TYPE      5
D1138V12, multiclass
[1] "Remove cluster labels:" "TM7SF4 MUTATED"        
clus
  TM7SF4 MUTATED TM7SF4 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" "TM7SF4 WILD-TYPE" 
      TCGA-G4-6628 
"TM7SF4 WILD-TYPE" 

Clustering(1139) Variable = PPP1R12A MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP1R12A MUTATED        1      0      0      1      0
  PPP1R12A WILD-TYPE     31     18     46     26     23
D1139V1, multiclass
[1] "Remove cluster labels:" "PPP1R12A MUTATED"      
clus
  PPP1R12A MUTATED PPP1R12A WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3846 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3866         TCGA-AA-3867 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3869         TCGA-AA-3870         TCGA-AA-3872 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3875         TCGA-AA-3877         TCGA-AA-3930 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3939         TCGA-AA-3941         TCGA-AA-3947 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3949         TCGA-AA-3950         TCGA-AA-3952 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3955         TCGA-AA-3956         TCGA-AA-3966 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3968         TCGA-AA-3971         TCGA-AA-3972 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3973         TCGA-AA-3975         TCGA-AA-3976 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3977         TCGA-AA-3979         TCGA-AA-3980 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3984         TCGA-AA-3986 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPP1R12A MUTATED        2      0      0
  PPP1R12A WILD-TYPE     41     67     36
D1139V2, multiclass
[1] "Remove cluster labels:" "PPP1R12A MUTATED"      
clus
  PPP1R12A MUTATED PPP1R12A WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3846 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3866         TCGA-AA-3867 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3869         TCGA-AA-3870         TCGA-AA-3872 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3875         TCGA-AA-3877         TCGA-AA-3930 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3939         TCGA-AA-3941         TCGA-AA-3947 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3949         TCGA-AA-3950         TCGA-AA-3952 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3955         TCGA-AA-3956         TCGA-AA-3966 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3968         TCGA-AA-3971         TCGA-AA-3972 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3973         TCGA-AA-3975         TCGA-AA-3976 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3977         TCGA-AA-3979         TCGA-AA-3980 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3984         TCGA-AA-3986 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" "PPP1R12A WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPP1R12A MUTATED        1      5      7
  PPP1R12A WILD-TYPE     41    168    140
D1139V3, multiclass
        clus
vv       PPP1R12A MUTATED PPP1R12A WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                5                168
  CLUS_3                7                140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPP1R12A MUTATED        3      4      4
  PPP1R12A WILD-TYPE     59     69     71
D1139V4, multiclass
        clus
vv       PPP1R12A MUTATED PPP1R12A WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                4                 69
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  PPP1R12A MUTATED        2      4      6
  PPP1R12A WILD-TYPE     68    116     94
D1139V5, multiclass
        clus
vv       PPP1R12A MUTATED PPP1R12A WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                4                116
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP1R12A MUTATED        2      0      1      1      2      5      0      0
  PPP1R12A WILD-TYPE     39     26     29     28     37     64     20     14
                    vv
clus                 CLUS_9
  PPP1R12A MUTATED        1
  PPP1R12A WILD-TYPE     21
D1139V6, multiclass
        clus
vv       PPP1R12A MUTATED PPP1R12A WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                2                 37
  CLUS_6                5                 64
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP1R12A MUTATED        4      4      2      3
  PPP1R12A WILD-TYPE     96     68     70    118
D1139V7, multiclass
        clus
vv       PPP1R12A MUTATED PPP1R12A WILD-TYPE
  CLUS_1                4                 96
  CLUS_2                4                 68
  CLUS_3                2                 70
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP1R12A MUTATED        1      2      7      1      2
  PPP1R12A WILD-TYPE     58     73     67    118     36
D1139V8, multiclass
        clus
vv       PPP1R12A MUTATED PPP1R12A WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                2                 73
  CLUS_3                7                 67
  CLUS_4                1                118
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP1R12A MUTATED        4      5      0      1      3
  PPP1R12A WILD-TYPE     47     71     61     70     92
D1139V9, multiclass
        clus
vv       PPP1R12A MUTATED PPP1R12A WILD-TYPE
  CLUS_1                4                 47
  CLUS_2                5                 71
  CLUS_3                0                 61
  CLUS_4                1                 70
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP1R12A MUTATED        4      1      1      1      2      2      1      1
  PPP1R12A WILD-TYPE     65     47     38     15     51     18     20     37
                    vv
clus                 CLUS_9
  PPP1R12A MUTATED        0
  PPP1R12A WILD-TYPE     50
D1139V10, multiclass
        clus
vv       PPP1R12A MUTATED PPP1R12A WILD-TYPE
  CLUS_1                4                 65
  CLUS_2                1                 47
  CLUS_3                1                 38
  CLUS_4                1                 15
  CLUS_5                2                 51
  CLUS_6                2                 18
  CLUS_7                1                 20
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPP1R12A MUTATED        1      0      0      0      3      0
  PPP1R12A WILD-TYPE     12     16     14     11      8      9
D1139V11, multiclass
        clus
vv       PPP1R12A MUTATED PPP1R12A WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                0                 16
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                3                  8
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP1R12A MUTATED        0      0      0      1      0      1      1      0
  PPP1R12A WILD-TYPE     11      7      7      8      8      6     10      9
                    vv
clus                 CLUS_9
  PPP1R12A MUTATED        1
  PPP1R12A WILD-TYPE      4
D1139V12, multiclass
        clus
vv       PPP1R12A MUTATED PPP1R12A WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                1                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1140) Variable = APOBEC4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APOBEC4 MUTATED        2      0      0      1      0
  APOBEC4 WILD-TYPE     30     18     46     26     23
D1140V1, multiclass
        clus
vv       APOBEC4 MUTATED APOBEC4 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  APOBEC4 MUTATED        2      1      0
  APOBEC4 WILD-TYPE     41     66     36
D1140V2, multiclass
        clus
vv       APOBEC4 MUTATED APOBEC4 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  APOBEC4 MUTATED        0      0      6
  APOBEC4 WILD-TYPE     42    173    141
D1140V3, multiclass
        clus
vv       APOBEC4 MUTATED APOBEC4 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  APOBEC4 MUTATED        3      0      1
  APOBEC4 WILD-TYPE     59     73     74
D1140V4, multiclass
        clus
vv       APOBEC4 MUTATED APOBEC4 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  APOBEC4 MUTATED        0      4      3
  APOBEC4 WILD-TYPE     70    116     97
D1140V5, multiclass
        clus
vv       APOBEC4 MUTATED APOBEC4 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               4               116
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APOBEC4 MUTATED        1      0      1      1      0      1      1      1
  APOBEC4 WILD-TYPE     40     26     29     28     39     68     19     13
                   vv
clus                CLUS_9
  APOBEC4 MUTATED        1
  APOBEC4 WILD-TYPE     21
D1140V6, multiclass
        clus
vv       APOBEC4 MUTATED APOBEC4 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APOBEC4 MUTATED        0      2      2      3
  APOBEC4 WILD-TYPE    100     70     70    118
D1140V7, multiclass
        clus
vv       APOBEC4 MUTATED APOBEC4 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APOBEC4 MUTATED        1      0      3      1      2
  APOBEC4 WILD-TYPE     58     75     71    118     36
D1140V8, multiclass
        clus
vv       APOBEC4 MUTATED APOBEC4 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               3                71
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APOBEC4 MUTATED        0      3      1      0      3
  APOBEC4 WILD-TYPE     51     73     60     71     92
D1140V9, multiclass
        clus
vv       APOBEC4 MUTATED APOBEC4 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APOBEC4 MUTATED        1      2      0      1      0      1      0      2
  APOBEC4 WILD-TYPE     68     46     39     15     53     19     21     36
                   vv
clus                CLUS_9
  APOBEC4 MUTATED        0
  APOBEC4 WILD-TYPE     50
D1140V10, multiclass
        clus
vv       APOBEC4 MUTATED APOBEC4 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  APOBEC4 MUTATED        0      0      0      0      2      0
  APOBEC4 WILD-TYPE     13     16     14     11      9      9
D1140V11, multiclass
[1] "Remove cluster labels:" "APOBEC4 MUTATED"       
clus
  APOBEC4 MUTATED APOBEC4 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625        TCGA-G4-6628 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APOBEC4 MUTATED        0      0      0      1      0      0      1      0
  APOBEC4 WILD-TYPE     11      7      7      8      8      7     10      9
                   vv
clus                CLUS_9
  APOBEC4 MUTATED        0
  APOBEC4 WILD-TYPE      5
D1140V12, multiclass
[1] "Remove cluster labels:" "APOBEC4 MUTATED"       
clus
  APOBEC4 MUTATED APOBEC4 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625        TCGA-G4-6628 
"APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" "APOBEC4 WILD-TYPE" 

Clustering(1141) Variable = SPOPL MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPOPL MUTATED        1      0      1      0      0
  SPOPL WILD-TYPE     31     18     45     27     23
D1141V1, multiclass
[1] "Remove cluster labels:" "SPOPL MUTATED"         
clus
  SPOPL MUTATED SPOPL WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3667 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPOPL MUTATED        1      1      0
  SPOPL WILD-TYPE     42     66     36
D1141V2, multiclass
[1] "Remove cluster labels:" "SPOPL MUTATED"         
clus
  SPOPL MUTATED SPOPL WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3667 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679      TCGA-AA-3680 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685      TCGA-AA-3688 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696      TCGA-AA-3710 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPOPL MUTATED        2      4      4
  SPOPL WILD-TYPE     40    169    143
D1141V3, multiclass
        clus
vv       SPOPL MUTATED SPOPL WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4             169
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPOPL MUTATED        3      3      2
  SPOPL WILD-TYPE     59     70     73
D1141V4, multiclass
        clus
vv       SPOPL MUTATED SPOPL WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPOPL MUTATED        0      4      5
  SPOPL WILD-TYPE     70    116     95
D1141V5, multiclass
        clus
vv       SPOPL MUTATED SPOPL WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPOPL MUTATED        1      0      1      2      0      4      0      1
  SPOPL WILD-TYPE     40     26     29     27     39     65     20     13
                 vv
clus              CLUS_9
  SPOPL MUTATED        0
  SPOPL WILD-TYPE     22
D1141V6, multiclass
        clus
vv       SPOPL MUTATED SPOPL WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPOPL MUTATED        4      2      2      2
  SPOPL WILD-TYPE     96     70     70    119
D1141V7, multiclass
        clus
vv       SPOPL MUTATED SPOPL WILD-TYPE
  CLUS_1             4              96
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPOPL MUTATED        1      5      2      2      0
  SPOPL WILD-TYPE     58     70     72    117     38
D1141V8, multiclass
        clus
vv       SPOPL MUTATED SPOPL WILD-TYPE
  CLUS_1             1              58
  CLUS_2             5              70
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPOPL MUTATED        1      2      3      1      3
  SPOPL WILD-TYPE     50     74     58     70     92
D1141V9, multiclass
        clus
vv       SPOPL MUTATED SPOPL WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPOPL MUTATED        4      2      1      0      0      0      1      1
  SPOPL WILD-TYPE     65     46     38     16     53     20     20     37
                 vv
clus              CLUS_9
  SPOPL MUTATED        1
  SPOPL WILD-TYPE     49
D1141V10, multiclass
        clus
vv       SPOPL MUTATED SPOPL WILD-TYPE
  CLUS_1             4              65
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPOPL MUTATED        1      0      0      0      0      1
  SPOPL WILD-TYPE     12     16     14     11     11      8
D1141V11, multiclass
[1] "Remove cluster labels:" "SPOPL MUTATED"         
clus
  SPOPL MUTATED SPOPL WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6805      TCGA-F4-6807 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPOPL MUTATED        0      0      1      0      0      1      0      0
  SPOPL WILD-TYPE     11      7      6      9      8      6     11      9
                 vv
clus              CLUS_9
  SPOPL MUTATED        0
  SPOPL WILD-TYPE      5
D1141V12, multiclass
[1] "Remove cluster labels:" "SPOPL MUTATED"         
clus
  SPOPL MUTATED SPOPL WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6805      TCGA-F4-6807 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" "SPOPL WILD-TYPE" 

Clustering(1142) Variable = GPR98 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR98 MUTATED        8      0      1      5      1
  GPR98 WILD-TYPE     24     18     45     22     22
D1142V1, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1             8              24
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             5              22
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR98 MUTATED       10      2      3
  GPR98 WILD-TYPE     33     65     33
D1142V2, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1            10              33
  CLUS_2             2              65
  CLUS_3             3              33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR98 MUTATED        3     16     42
  GPR98 WILD-TYPE     39    157    105
D1142V3, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1             3              39
  CLUS_2            16             157
  CLUS_3            42             105
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR98 MUTATED       16     10     20
  GPR98 WILD-TYPE     46     63     55
D1142V4, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1            16              46
  CLUS_2            10              63
  CLUS_3            20              55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR98 MUTATED        6     17     27
  GPR98 WILD-TYPE     64    103     73
D1142V5, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1             6              64
  CLUS_2            17             103
  CLUS_3            27              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR98 MUTATED        2      3      3      5      8     22      4      2
  GPR98 WILD-TYPE     39     23     27     24     31     47     16     12
                 vv
clus              CLUS_9
  GPR98 MUTATED        1
  GPR98 WILD-TYPE     21
D1142V6, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             3              23
  CLUS_3             3              27
  CLUS_4             5              24
  CLUS_5             8              31
  CLUS_6            22              47
  CLUS_7             4              16
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR98 MUTATED       11     20     15     15
  GPR98 WILD-TYPE     89     52     57    106
D1142V7, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1            11              89
  CLUS_2            20              52
  CLUS_3            15              57
  CLUS_4            15             106
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR98 MUTATED        9     10     25      7     10
  GPR98 WILD-TYPE     50     65     49    112     28
D1142V8, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1             9              50
  CLUS_2            10              65
  CLUS_3            25              49
  CLUS_4             7             112
  CLUS_5            10              28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR98 MUTATED        5     26     10      6     13
  GPR98 WILD-TYPE     46     50     51     65     82
D1142V9, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1             5              46
  CLUS_2            26              50
  CLUS_3            10              51
  CLUS_4             6              65
  CLUS_5            13              82
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR98 MUTATED       12     12      4      9      7      2      3      8
  GPR98 WILD-TYPE     57     36     35      7     46     18     18     30
                 vv
clus              CLUS_9
  GPR98 MUTATED        3
  GPR98 WILD-TYPE     47
D1142V10, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1            12              57
  CLUS_2            12              36
  CLUS_3             4              35
  CLUS_4             9               7
  CLUS_5             7              46
  CLUS_6             2              18
  CLUS_7             3              18
  CLUS_8             8              30
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR98 MUTATED        1      4      2      1      5      0
  GPR98 WILD-TYPE     12     12     12     10      6      9
D1142V11, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             4              12
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             5               6
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR98 MUTATED        2      2      0      4      2      1      2      0
  GPR98 WILD-TYPE      9      5      7      5      6      6      9      9
                 vv
clus              CLUS_9
  GPR98 MUTATED        0
  GPR98 WILD-TYPE      5
D1142V12, multiclass
        clus
vv       GPR98 MUTATED GPR98 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             2               5
  CLUS_3             0               7
  CLUS_4             4               5
  CLUS_5             2               6
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1143) Variable = TMEM41B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM41B MUTATED        1      0      0      0      0
  TMEM41B WILD-TYPE     31     18     46     27     23
D1143V1, multiclass
[1] "Remove cluster labels:" "TMEM41B MUTATED"       
clus
  TMEM41B MUTATED TMEM41B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AY-4071 
"TMEM41B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM41B MUTATED        1      0      0
  TMEM41B WILD-TYPE     42     67     36
D1143V2, multiclass
[1] "Remove cluster labels:" "TMEM41B MUTATED"       
clus
  TMEM41B MUTATED TMEM41B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" "TMEM41B WILD-TYPE" 
       TCGA-AY-4071 
"TMEM41B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM41B MUTATED        0      1      3
  TMEM41B WILD-TYPE     42    172    144
D1143V3, multiclass
        clus
vv       TMEM41B MUTATED TMEM41B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM41B MUTATED        2      0      1
  TMEM41B WILD-TYPE     60     73     74
D1143V4, multiclass
        clus
vv       TMEM41B MUTATED TMEM41B WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM41B MUTATED        0      1      2
  TMEM41B WILD-TYPE     70    119     98
D1143V5, multiclass
        clus
vv       TMEM41B MUTATED TMEM41B WILD-TYPE
  CLUS_1               0                70
  CLUS_2               1               119
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM41B MUTATED        0      0      0      0      0      0      2      0
  TMEM41B WILD-TYPE     41     26     30     29     39     69     18     14
                   vv
clus                CLUS_9
  TMEM41B MUTATED        1
  TMEM41B WILD-TYPE     21
D1143V6, multiclass
        clus
vv       TMEM41B MUTATED TMEM41B WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               0                69
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM41B MUTATED        1      1      1      1
  TMEM41B WILD-TYPE     99     71     71    120
D1143V7, multiclass
        clus
vv       TMEM41B MUTATED TMEM41B WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM41B MUTATED        1      0      2      0      1
  TMEM41B WILD-TYPE     58     75     72    119     37
D1143V8, multiclass
        clus
vv       TMEM41B MUTATED TMEM41B WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM41B MUTATED        0      3      0      0      1
  TMEM41B WILD-TYPE     51     73     61     71     94
D1143V9, multiclass
        clus
vv       TMEM41B MUTATED TMEM41B WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM41B MUTATED        0      1      0      0      2      0      0      1
  TMEM41B WILD-TYPE     69     47     39     16     51     20     21     37
                   vv
clus                CLUS_9
  TMEM41B MUTATED        0
  TMEM41B WILD-TYPE     50
D1143V10, multiclass
        clus
vv       TMEM41B MUTATED TMEM41B WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM41B MUTATED        0      0      0      0      0      0
  TMEM41B WILD-TYPE     13     16     14     11     11      9
D1143V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM41B MUTATED        0      0      0      0      0      0      0      0
  TMEM41B WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  TMEM41B MUTATED        0
  TMEM41B WILD-TYPE      5
D1143V12, multiclass

Clustering(1144) Variable = RGS3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RGS3 MUTATED        4      0      0      1      0
  RGS3 WILD-TYPE     28     18     46     26     23
D1144V1, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RGS3 MUTATED        5      0      0
  RGS3 WILD-TYPE     38     67     36
D1144V2, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RGS3 MUTATED        0      2     13
  RGS3 WILD-TYPE     42    171    134
D1144V3, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RGS3 MUTATED        4      2      4
  RGS3 WILD-TYPE     58     71     71
D1144V4, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            2             71
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RGS3 MUTATED        2      5      7
  RGS3 WILD-TYPE     68    115     93
D1144V5, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RGS3 MUTATED        0      1      0      3      4      5      0      1      0
  RGS3 WILD-TYPE     41     25     30     26     35     64     20     13     22
D1144V6, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            3             26
  CLUS_5            4             35
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RGS3 MUTATED        2      5      2      6
  RGS3 WILD-TYPE     98     67     70    115
D1144V7, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RGS3 MUTATED        0      2      7      1      5
  RGS3 WILD-TYPE     59     73     67    118     33
D1144V8, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            7             67
  CLUS_4            1            118
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RGS3 MUTATED        0      6      1      3      4
  RGS3 WILD-TYPE     51     70     60     68     91
D1144V9, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            3             68
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RGS3 MUTATED        6      2      0      1      1      0      0      3      1
  RGS3 WILD-TYPE     63     46     39     15     52     20     21     35     49
D1144V10, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RGS3 MUTATED        0      0      2      0      1      1
  RGS3 WILD-TYPE     13     16     12     11     10      8
D1144V11, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RGS3 MUTATED        0      0      0      0      1      1      1      1      0
  RGS3 WILD-TYPE     11      7      7      9      7      6     10      8      5
D1144V12, multiclass
        clus
vv       RGS3 MUTATED RGS3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1145) Variable = FAM119A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM119A MUTATED        1      0      0      1      0
  FAM119A WILD-TYPE     31     18     46     26     23
D1145V1, multiclass
[1] "Remove cluster labels:" "FAM119A MUTATED"       
clus
  FAM119A MUTATED FAM119A WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM119A MUTATED        2      0      0
  FAM119A WILD-TYPE     41     67     36
D1145V2, multiclass
[1] "Remove cluster labels:" "FAM119A MUTATED"       
clus
  FAM119A MUTATED FAM119A WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM119A MUTATED        0      1      4
  FAM119A WILD-TYPE     42    172    143
D1145V3, multiclass
        clus
vv       FAM119A MUTATED FAM119A WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM119A MUTATED        0      1      2
  FAM119A WILD-TYPE     62     72     73
D1145V4, multiclass
        clus
vv       FAM119A MUTATED FAM119A WILD-TYPE
  CLUS_1               0                62
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM119A MUTATED        0      1      1
  FAM119A WILD-TYPE     70    119     99
D1145V5, multiclass
[1] "Remove cluster labels:" "FAM119A MUTATED"       
clus
  FAM119A MUTATED FAM119A WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3525        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3560        TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965        TCGA-AU-6004 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4682 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606        TCGA-AZ-6607 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255        TCGA-CA-5796 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716        TCGA-CA-6717 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5914        TCGA-CK-5916 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748        TCGA-CK-6751 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746        TCGA-CM-4747 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344        TCGA-CM-5348 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5538        TCGA-D5-5539 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529        TCGA-D5-6532 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535        TCGA-D5-6536 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539        TCGA-D5-6540 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920        TCGA-D5-6922 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926        TCGA-D5-6927 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D4 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA        TCGA-DM-A1HB 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM119A MUTATED        0      0      0      0      0      1      1      0
  FAM119A WILD-TYPE     41     26     30     29     39     68     19     14
                   vv
clus                CLUS_9
  FAM119A MUTATED        0
  FAM119A WILD-TYPE     22
D1145V6, multiclass
[1] "Remove cluster labels:" "FAM119A MUTATED"       
clus
  FAM119A MUTATED FAM119A WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3525        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3560        TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965        TCGA-AU-6004 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4682 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606        TCGA-AZ-6607 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255        TCGA-CA-5796 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716        TCGA-CA-6717 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5914        TCGA-CK-5916 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748        TCGA-CK-6751 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746        TCGA-CM-4747 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344        TCGA-CM-5348 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5538        TCGA-D5-5539 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529        TCGA-D5-6532 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535        TCGA-D5-6536 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539        TCGA-D5-6540 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920        TCGA-D5-6922 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926        TCGA-D5-6927 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D4 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA        TCGA-DM-A1HB 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" "FAM119A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM119A MUTATED        1      1      1      2
  FAM119A WILD-TYPE     99     71     71    119
D1145V7, multiclass
        clus
vv       FAM119A MUTATED FAM119A WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               1                71
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM119A MUTATED        0      1      2      0      2
  FAM119A WILD-TYPE     59     74     72    119     36
D1145V8, multiclass
        clus
vv       FAM119A MUTATED FAM119A WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM119A MUTATED        2      0      1      0      1
  FAM119A WILD-TYPE     49     76     60     71     94
D1145V9, multiclass
        clus
vv       FAM119A MUTATED FAM119A WILD-TYPE
  CLUS_1               2                49
  CLUS_2               0                76
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM119A MUTATED        1      1      0      0      1      0      0      1
  FAM119A WILD-TYPE     68     47     39     16     52     20     21     37
                   vv
clus                CLUS_9
  FAM119A MUTATED        0
  FAM119A WILD-TYPE     50
D1145V10, multiclass
        clus
vv       FAM119A MUTATED FAM119A WILD-TYPE
  CLUS_1               1                68
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM119A MUTATED        0      0      0      0      0      0
  FAM119A WILD-TYPE     13     16     14     11     11      9
D1145V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM119A MUTATED        0      0      0      0      0      0      0      0
  FAM119A WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  FAM119A MUTATED        0
  FAM119A WILD-TYPE      5
D1145V12, multiclass

Clustering(1146) Variable = TRIM45 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM45 MUTATED        4      0      0      1      0
  TRIM45 WILD-TYPE     28     18     46     26     23
D1146V1, multiclass
        clus
vv       TRIM45 MUTATED TRIM45 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM45 MUTATED        5      0      0
  TRIM45 WILD-TYPE     38     67     36
D1146V2, multiclass
        clus
vv       TRIM45 MUTATED TRIM45 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM45 MUTATED        1      1     12
  TRIM45 WILD-TYPE     41    172    135
D1146V3, multiclass
        clus
vv       TRIM45 MUTATED TRIM45 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM45 MUTATED        3      0      6
  TRIM45 WILD-TYPE     59     73     69
D1146V4, multiclass
        clus
vv       TRIM45 MUTATED TRIM45 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM45 MUTATED        2      4      5
  TRIM45 WILD-TYPE     68    116     95
D1146V5, multiclass
        clus
vv       TRIM45 MUTATED TRIM45 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM45 MUTATED        2      0      0      1      3      3      2      0
  TRIM45 WILD-TYPE     39     26     30     28     36     66     18     14
                  vv
clus               CLUS_9
  TRIM45 MUTATED        0
  TRIM45 WILD-TYPE     22
D1146V6, multiclass
        clus
vv       TRIM45 MUTATED TRIM45 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              3               66
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM45 MUTATED        0      5      4      5
  TRIM45 WILD-TYPE    100     67     68    116
D1146V7, multiclass
        clus
vv       TRIM45 MUTATED TRIM45 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              5               67
  CLUS_3              4               68
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM45 MUTATED        2      1      6      0      5
  TRIM45 WILD-TYPE     57     74     68    119     33
D1146V8, multiclass
        clus
vv       TRIM45 MUTATED TRIM45 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              6               68
  CLUS_4              0              119
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM45 MUTATED        0      7      2      1      4
  TRIM45 WILD-TYPE     51     69     59     70     91
D1146V9, multiclass
        clus
vv       TRIM45 MUTATED TRIM45 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              7               69
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM45 MUTATED        0      4      0      3      2      2      0      3
  TRIM45 WILD-TYPE     69     44     39     13     51     18     21     35
                  vv
clus               CLUS_9
  TRIM45 MUTATED        0
  TRIM45 WILD-TYPE     50
D1146V10, multiclass
        clus
vv       TRIM45 MUTATED TRIM45 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM45 MUTATED        0      0      0      0      1      0
  TRIM45 WILD-TYPE     13     16     14     11     10      9
D1146V11, multiclass
[1] "Remove cluster labels:" "TRIM45 MUTATED"        
clus
  TRIM45 MUTATED TRIM45 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-G4-6628 
"TRIM45 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM45 MUTATED        0      0      0      0      1      0      0      0
  TRIM45 WILD-TYPE     11      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  TRIM45 MUTATED        0
  TRIM45 WILD-TYPE      5
D1146V12, multiclass
[1] "Remove cluster labels:" "TRIM45 MUTATED"        
clus
  TRIM45 MUTATED TRIM45 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" "TRIM45 WILD-TYPE" 
      TCGA-G4-6628 
"TRIM45 WILD-TYPE" 

Clustering(1147) Variable = MAGEA4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEA4 MUTATED        0      0      0      0      0
  MAGEA4 WILD-TYPE     32     18     46     27     23
D1147V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEA4 MUTATED        0      0      0
  MAGEA4 WILD-TYPE     43     67     36
D1147V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEA4 MUTATED        2      2      2
  MAGEA4 WILD-TYPE     40    171    145
D1147V3, multiclass
        clus
vv       MAGEA4 MUTATED MAGEA4 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              2              171
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEA4 MUTATED        1      2      2
  MAGEA4 WILD-TYPE     61     71     73
D1147V4, multiclass
        clus
vv       MAGEA4 MUTATED MAGEA4 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGEA4 MUTATED        2      2      2
  MAGEA4 WILD-TYPE     68    118     98
D1147V5, multiclass
        clus
vv       MAGEA4 MUTATED MAGEA4 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEA4 MUTATED        1      0      0      1      1      2      0      0
  MAGEA4 WILD-TYPE     40     26     30     28     38     67     20     14
                  vv
clus               CLUS_9
  MAGEA4 MUTATED        1
  MAGEA4 WILD-TYPE     21
D1147V6, multiclass
        clus
vv       MAGEA4 MUTATED MAGEA4 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAGEA4 MUTATED        1      2      2      0
  MAGEA4 WILD-TYPE     99     70     70    121
D1147V7, multiclass
        clus
vv       MAGEA4 MUTATED MAGEA4 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEA4 MUTATED        1      1      3      0      0
  MAGEA4 WILD-TYPE     58     74     71    119     38
D1147V8, multiclass
        clus
vv       MAGEA4 MUTATED MAGEA4 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGEA4 MUTATED        1      3      1      1      0
  MAGEA4 WILD-TYPE     50     73     60     70     95
D1147V9, multiclass
        clus
vv       MAGEA4 MUTATED MAGEA4 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEA4 MUTATED        0      2      1      2      1      0      0      0
  MAGEA4 WILD-TYPE     69     46     38     14     52     20     21     38
                  vv
clus               CLUS_9
  MAGEA4 MUTATED        0
  MAGEA4 WILD-TYPE     50
D1147V10, multiclass
        clus
vv       MAGEA4 MUTATED MAGEA4 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAGEA4 MUTATED        0      0      0      1      2      0
  MAGEA4 WILD-TYPE     13     16     14     10      9      9
D1147V11, multiclass
        clus
vv       MAGEA4 MUTATED MAGEA4 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGEA4 MUTATED        0      0      1      1      0      0      1      0
  MAGEA4 WILD-TYPE     11      7      6      8      8      7     10      9
                  vv
clus               CLUS_9
  MAGEA4 MUTATED        0
  MAGEA4 WILD-TYPE      5
D1147V12, multiclass
        clus
vv       MAGEA4 MUTATED MAGEA4 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1148) Variable = MANF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MANF MUTATED        1      0      0      0      0
  MANF WILD-TYPE     31     18     46     27     23
D1148V1, multiclass
[1] "Remove cluster labels:" "MANF MUTATED"          
clus
  MANF MUTATED MANF WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AY-4071 
"MANF WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MANF MUTATED        1      0      0
  MANF WILD-TYPE     42     67     36
D1148V2, multiclass
[1] "Remove cluster labels:" "MANF MUTATED"          
clus
  MANF MUTATED MANF WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AY-4071 
"MANF WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MANF MUTATED        0      0      4
  MANF WILD-TYPE     42    173    143
D1148V3, multiclass
        clus
vv       MANF MUTATED MANF WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MANF MUTATED        2      0      2
  MANF WILD-TYPE     60     73     73
D1148V4, multiclass
        clus
vv       MANF MUTATED MANF WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MANF MUTATED        0      2      1
  MANF WILD-TYPE     70    118     99
D1148V5, multiclass
        clus
vv       MANF MUTATED MANF WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MANF MUTATED        0      0      0      0      1      1      1      0      0
  MANF WILD-TYPE     41     26     30     29     38     68     19     14     22
D1148V6, multiclass
        clus
vv       MANF MUTATED MANF WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MANF MUTATED        0      1      2      1
  MANF WILD-TYPE    100     71     70    120
D1148V7, multiclass
        clus
vv       MANF MUTATED MANF WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MANF MUTATED        0      0      3      0      1
  MANF WILD-TYPE     59     75     71    119     37
D1148V8, multiclass
        clus
vv       MANF MUTATED MANF WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MANF MUTATED        0      2      1      0      1
  MANF WILD-TYPE     51     74     60     71     94
D1148V9, multiclass
        clus
vv       MANF MUTATED MANF WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MANF MUTATED        0      1      0      0      2      0      0      1      0
  MANF WILD-TYPE     69     47     39     16     51     20     21     37     50
D1148V10, multiclass
        clus
vv       MANF MUTATED MANF WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MANF MUTATED        0      0      1      0      0      0
  MANF WILD-TYPE     13     16     13     11     11      9
D1148V11, multiclass
[1] "Remove cluster labels:" "MANF MUTATED"          
clus
  MANF MUTATED MANF WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-G4-6628 
"MANF WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MANF MUTATED        0      0      0      0      1      0      0      0      0
  MANF WILD-TYPE     11      7      7      9      7      7     11      9      5
D1148V12, multiclass
[1] "Remove cluster labels:" "MANF MUTATED"          
clus
  MANF MUTATED MANF WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" "MANF WILD-TYPE" 
    TCGA-G4-6628 
"MANF WILD-TYPE" 

Clustering(1149) Variable = TBC1D10C MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBC1D10C MUTATED        2      0      0      0      0
  TBC1D10C WILD-TYPE     30     18     46     27     23
D1149V1, multiclass
[1] "Remove cluster labels:" "TBC1D10C MUTATED"      
clus
  TBC1D10C MUTATED TBC1D10C WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3831 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3950         TCGA-AA-3952 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3955         TCGA-AA-3956         TCGA-AA-3966 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3968         TCGA-AA-3971         TCGA-AA-3972 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3973         TCGA-AA-3975         TCGA-AA-3976 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3977         TCGA-AA-3979         TCGA-AA-3980 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3984         TCGA-AA-3986 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TBC1D10C MUTATED        2      0      0
  TBC1D10C WILD-TYPE     41     67     36
D1149V2, multiclass
[1] "Remove cluster labels:" "TBC1D10C MUTATED"      
clus
  TBC1D10C MUTATED TBC1D10C WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3831 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3950         TCGA-AA-3952 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3955         TCGA-AA-3956         TCGA-AA-3966 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3968         TCGA-AA-3971         TCGA-AA-3972 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3973         TCGA-AA-3975         TCGA-AA-3976 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3977         TCGA-AA-3979         TCGA-AA-3980 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3984         TCGA-AA-3986 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TBC1D10C MUTATED        2      1      5
  TBC1D10C WILD-TYPE     40    172    142
D1149V3, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                1                172
  CLUS_3                5                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TBC1D10C MUTATED        1      0      5
  TBC1D10C WILD-TYPE     61     73     70
D1149V4, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                0                 73
  CLUS_3                5                 70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TBC1D10C MUTATED        1      1      3
  TBC1D10C WILD-TYPE     69    119     97
D1149V5, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                1                119
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TBC1D10C MUTATED        0      0      0      2      0      1      2      0
  TBC1D10C WILD-TYPE     41     26     30     27     39     68     18     14
                    vv
clus                 CLUS_9
  TBC1D10C MUTATED        0
  TBC1D10C WILD-TYPE     22
D1149V6, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                2                 27
  CLUS_5                0                 39
  CLUS_6                1                 68
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TBC1D10C MUTATED        1      3      2      2
  TBC1D10C WILD-TYPE     99     69     70    119
D1149V7, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                3                 69
  CLUS_3                2                 70
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBC1D10C MUTATED        0      1      5      0      2
  TBC1D10C WILD-TYPE     59     74     69    119     36
D1149V8, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                5                 69
  CLUS_4                0                119
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBC1D10C MUTATED        1      4      0      2      1
  TBC1D10C WILD-TYPE     50     72     61     69     94
D1149V9, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                4                 72
  CLUS_3                0                 61
  CLUS_4                2                 69
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TBC1D10C MUTATED        3      0      0      2      1      0      1      1
  TBC1D10C WILD-TYPE     66     48     39     14     52     20     20     37
                    vv
clus                 CLUS_9
  TBC1D10C MUTATED        0
  TBC1D10C WILD-TYPE     50
D1149V10, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                0                 48
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                1                 20
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TBC1D10C MUTATED        1      0      1      0      1      0
  TBC1D10C WILD-TYPE     12     16     13     11     10      9
D1149V11, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                0                 16
  CLUS_3                1                 13
  CLUS_4                0                 11
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TBC1D10C MUTATED        0      0      0      0      2      0      0      0
  TBC1D10C WILD-TYPE     11      7      7      9      6      7     11      9
                    vv
clus                 CLUS_9
  TBC1D10C MUTATED        1
  TBC1D10C WILD-TYPE      4
D1149V12, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                2                  6
  CLUS_6                0                  7
  CLUS_7                0                 11
  CLUS_8                0                  9
  CLUS_9                1                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1150) Variable = DPF3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPF3 MUTATED        0      0      0      1      0
  DPF3 WILD-TYPE     32     18     46     26     23
D1150V1, multiclass
[1] "Remove cluster labels:" "DPF3 MUTATED"          
clus
  DPF3 MUTATED DPF3 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AY-4071 
"DPF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DPF3 MUTATED        0      1      0
  DPF3 WILD-TYPE     43     66     36
D1150V2, multiclass
[1] "Remove cluster labels:" "DPF3 MUTATED"          
clus
  DPF3 MUTATED DPF3 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AY-4071 
"DPF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DPF3 MUTATED        0      0      5
  DPF3 WILD-TYPE     42    173    142
D1150V3, multiclass
        clus
vv       DPF3 MUTATED DPF3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DPF3 MUTATED        1      0      3
  DPF3 WILD-TYPE     61     73     72
D1150V4, multiclass
        clus
vv       DPF3 MUTATED DPF3 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DPF3 MUTATED        2      1      1
  DPF3 WILD-TYPE     68    119     99
D1150V5, multiclass
        clus
vv       DPF3 MUTATED DPF3 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            1            119
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DPF3 MUTATED        1      0      1      0      1      1      0      0      0
  DPF3 WILD-TYPE     40     26     29     29     38     68     20     14     22
D1150V6, multiclass
        clus
vv       DPF3 MUTATED DPF3 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DPF3 MUTATED        0      2      2      1
  DPF3 WILD-TYPE    100     70     70    120
D1150V7, multiclass
        clus
vv       DPF3 MUTATED DPF3 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPF3 MUTATED        0      0      4      1      0
  DPF3 WILD-TYPE     59     75     70    118     38
D1150V8, multiclass
        clus
vv       DPF3 MUTATED DPF3 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPF3 MUTATED        0      3      0      0      2
  DPF3 WILD-TYPE     51     73     61     71     93
D1150V9, multiclass
        clus
vv       DPF3 MUTATED DPF3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DPF3 MUTATED        0      2      0      1      0      1      0      1      0
  DPF3 WILD-TYPE     69     46     39     15     53     19     21     37     50
D1150V10, multiclass
        clus
vv       DPF3 MUTATED DPF3 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DPF3 MUTATED        0      1      1      0      0      0
  DPF3 WILD-TYPE     13     15     13     11     11      9
D1150V11, multiclass
[1] "Remove cluster labels:" "DPF3 MUTATED"          
clus
  DPF3 MUTATED DPF3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6676 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DPF3 MUTATED        0      0      0      0      0      1      1      0      0
  DPF3 WILD-TYPE     11      7      7      9      8      6     10      9      5
D1150V12, multiclass
[1] "Remove cluster labels:" "DPF3 MUTATED"          
clus
  DPF3 MUTATED DPF3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6676 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" "DPF3 WILD-TYPE" 

Clustering(1151) Variable = DBF4B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DBF4B MUTATED        2      0      0      1      0
  DBF4B WILD-TYPE     30     18     46     26     23
D1151V1, multiclass
        clus
vv       DBF4B MUTATED DBF4B WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DBF4B MUTATED        1      1      1
  DBF4B WILD-TYPE     42     66     35
D1151V2, multiclass
        clus
vv       DBF4B MUTATED DBF4B WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DBF4B MUTATED        0      1      6
  DBF4B WILD-TYPE     42    172    141
D1151V3, multiclass
        clus
vv       DBF4B MUTATED DBF4B WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DBF4B MUTATED        2      1      1
  DBF4B WILD-TYPE     60     72     74
D1151V4, multiclass
        clus
vv       DBF4B MUTATED DBF4B WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DBF4B MUTATED        1      2      3
  DBF4B WILD-TYPE     69    118     97
D1151V5, multiclass
        clus
vv       DBF4B MUTATED DBF4B WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DBF4B MUTATED        2      0      1      0      1      2      0      0
  DBF4B WILD-TYPE     39     26     29     29     38     67     20     14
                 vv
clus              CLUS_9
  DBF4B MUTATED        0
  DBF4B WILD-TYPE     22
D1151V6, multiclass
        clus
vv       DBF4B MUTATED DBF4B WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DBF4B MUTATED        1      1      2      3
  DBF4B WILD-TYPE     99     71     70    118
D1151V7, multiclass
        clus
vv       DBF4B MUTATED DBF4B WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DBF4B MUTATED        1      1      2      2      1
  DBF4B WILD-TYPE     58     74     72    117     37
D1151V8, multiclass
        clus
vv       DBF4B MUTATED DBF4B WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DBF4B MUTATED        1      1      2      1      2
  DBF4B WILD-TYPE     50     75     59     70     93
D1151V9, multiclass
        clus
vv       DBF4B MUTATED DBF4B WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DBF4B MUTATED        1      2      0      1      1      1      0      1
  DBF4B WILD-TYPE     68     46     39     15     52     19     21     37
                 vv
clus              CLUS_9
  DBF4B MUTATED        0
  DBF4B WILD-TYPE     50
D1151V10, multiclass
        clus
vv       DBF4B MUTATED DBF4B WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DBF4B MUTATED        0      0      0      0      0      0
  DBF4B WILD-TYPE     13     16     14     11     11      9
D1151V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DBF4B MUTATED        0      0      0      0      0      0      0      0
  DBF4B WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  DBF4B MUTATED        0
  DBF4B WILD-TYPE      5
D1151V12, multiclass

Clustering(1152) Variable = AKAP7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP7 MUTATED        0      0      0      1      0
  AKAP7 WILD-TYPE     32     18     46     26     23
D1152V1, multiclass
[1] "Remove cluster labels:" "AKAP7 MUTATED"         
clus
  AKAP7 MUTATED AKAP7 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AY-4071 
"AKAP7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP7 MUTATED        0      1      0
  AKAP7 WILD-TYPE     43     66     36
D1152V2, multiclass
[1] "Remove cluster labels:" "AKAP7 MUTATED"         
clus
  AKAP7 MUTATED AKAP7 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AY-4071 
"AKAP7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP7 MUTATED        0      2      3
  AKAP7 WILD-TYPE     42    171    144
D1152V3, multiclass
        clus
vv       AKAP7 MUTATED AKAP7 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP7 MUTATED        1      1      2
  AKAP7 WILD-TYPE     61     72     73
D1152V4, multiclass
        clus
vv       AKAP7 MUTATED AKAP7 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AKAP7 MUTATED        2      2      0
  AKAP7 WILD-TYPE     68    118    100
D1152V5, multiclass
        clus
vv       AKAP7 MUTATED AKAP7 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             118
  CLUS_3             0             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP7 MUTATED        2      0      1      1      0      0      0      0
  AKAP7 WILD-TYPE     39     26     29     28     39     69     20     14
                 vv
clus              CLUS_9
  AKAP7 MUTATED        0
  AKAP7 WILD-TYPE     22
D1152V6, multiclass
        clus
vv       AKAP7 MUTATED AKAP7 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             0              69
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AKAP7 MUTATED        1      1      1      2
  AKAP7 WILD-TYPE     99     71     71    119
D1152V7, multiclass
        clus
vv       AKAP7 MUTATED AKAP7 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP7 MUTATED        0      1      2      2      0
  AKAP7 WILD-TYPE     59     74     72    117     38
D1152V8, multiclass
        clus
vv       AKAP7 MUTATED AKAP7 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP7 MUTATED        1      3      0      0      1
  AKAP7 WILD-TYPE     50     73     61     71     94
D1152V9, multiclass
        clus
vv       AKAP7 MUTATED AKAP7 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP7 MUTATED        1      1      0      0      1      1      1      0
  AKAP7 WILD-TYPE     68     47     39     16     52     19     20     38
                 vv
clus              CLUS_9
  AKAP7 MUTATED        0
  AKAP7 WILD-TYPE     50
D1152V10, multiclass
        clus
vv       AKAP7 MUTATED AKAP7 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AKAP7 MUTATED        0      1      0      0      0      0
  AKAP7 WILD-TYPE     13     15     14     11     11      9
D1152V11, multiclass
[1] "Remove cluster labels:" "AKAP7 MUTATED"         
clus
  AKAP7 MUTATED AKAP7 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-G4-6628 
"AKAP7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP7 MUTATED        0      0      0      0      0      0      1      0
  AKAP7 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  AKAP7 MUTATED        0
  AKAP7 WILD-TYPE      5
D1152V12, multiclass
[1] "Remove cluster labels:" "AKAP7 MUTATED"         
clus
  AKAP7 MUTATED AKAP7 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" "AKAP7 WILD-TYPE" 
     TCGA-G4-6628 
"AKAP7 WILD-TYPE" 

Clustering(1153) Variable = RNF215 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF215 MUTATED        0      0      0      0      0
  RNF215 WILD-TYPE     32     18     46     27     23
D1153V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF215 MUTATED        0      0      0
  RNF215 WILD-TYPE     43     67     36
D1153V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF215 MUTATED        0      1      2
  RNF215 WILD-TYPE     42    172    145
D1153V3, multiclass
        clus
vv       RNF215 MUTATED RNF215 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF215 MUTATED        1      0      2
  RNF215 WILD-TYPE     61     73     73
D1153V4, multiclass
        clus
vv       RNF215 MUTATED RNF215 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF215 MUTATED        1      0      2
  RNF215 WILD-TYPE     69    120     98
D1153V5, multiclass
        clus
vv       RNF215 MUTATED RNF215 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              0              120
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF215 MUTATED        0      1      0      0      0      2      0      0
  RNF215 WILD-TYPE     41     25     30     29     39     67     20     14
                  vv
clus               CLUS_9
  RNF215 MUTATED        0
  RNF215 WILD-TYPE     22
D1153V6, multiclass
        clus
vv       RNF215 MUTATED RNF215 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF215 MUTATED        1      2      0      0
  RNF215 WILD-TYPE     99     70     72    121
D1153V7, multiclass
        clus
vv       RNF215 MUTATED RNF215 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              0               72
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF215 MUTATED        1      0      2      0      0
  RNF215 WILD-TYPE     58     75     72    119     38
D1153V8, multiclass
        clus
vv       RNF215 MUTATED RNF215 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF215 MUTATED        0      2      1      0      0
  RNF215 WILD-TYPE     51     74     60     71     95
D1153V9, multiclass
        clus
vv       RNF215 MUTATED RNF215 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF215 MUTATED        3      0      0      0      0      0      0      0
  RNF215 WILD-TYPE     66     48     39     16     53     20     21     38
                  vv
clus               CLUS_9
  RNF215 MUTATED        0
  RNF215 WILD-TYPE     50
D1153V10, multiclass
        clus
vv       RNF215 MUTATED RNF215 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF215 MUTATED        0      0      0      0      0      0
  RNF215 WILD-TYPE     13     16     14     11     11      9
D1153V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF215 MUTATED        0      0      0      0      0      0      0      0
  RNF215 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  RNF215 MUTATED        0
  RNF215 WILD-TYPE      5
D1153V12, multiclass

Clustering(1154) Variable = KIRREL2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIRREL2 MUTATED        1      0      0      2      1
  KIRREL2 WILD-TYPE     31     18     46     25     22
D1154V1, multiclass
        clus
vv       KIRREL2 MUTATED KIRREL2 WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               1                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  KIRREL2 MUTATED        2      1      1
  KIRREL2 WILD-TYPE     41     66     35
D1154V2, multiclass
        clus
vv       KIRREL2 MUTATED KIRREL2 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  KIRREL2 MUTATED        0      0     12
  KIRREL2 WILD-TYPE     42    173    135
D1154V3, multiclass
        clus
vv       KIRREL2 MUTATED KIRREL2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3              12               135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  KIRREL2 MUTATED        2      0      6
  KIRREL2 WILD-TYPE     60     73     69
D1154V4, multiclass
        clus
vv       KIRREL2 MUTATED KIRREL2 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  KIRREL2 MUTATED        1      5      5
  KIRREL2 WILD-TYPE     69    115     95
D1154V5, multiclass
        clus
vv       KIRREL2 MUTATED KIRREL2 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               115
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIRREL2 MUTATED        1      0      1      1      3      4      1      0
  KIRREL2 WILD-TYPE     40     26     29     28     36     65     19     14
                   vv
clus                CLUS_9
  KIRREL2 MUTATED        0
  KIRREL2 WILD-TYPE     22
D1154V6, multiclass
        clus
vv       KIRREL2 MUTATED KIRREL2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               3                36
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIRREL2 MUTATED        0      6      2      4
  KIRREL2 WILD-TYPE    100     66     70    117
D1154V7, multiclass
        clus
vv       KIRREL2 MUTATED KIRREL2 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               6                66
  CLUS_3               2                70
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIRREL2 MUTATED        0      0      8      2      2
  KIRREL2 WILD-TYPE     59     75     66    117     36
D1154V8, multiclass
        clus
vv       KIRREL2 MUTATED KIRREL2 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               8                66
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIRREL2 MUTATED        0      8      0      1      3
  KIRREL2 WILD-TYPE     51     68     61     70     92
D1154V9, multiclass
        clus
vv       KIRREL2 MUTATED KIRREL2 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               8                68
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIRREL2 MUTATED        2      1      1      5      0      1      0      2
  KIRREL2 WILD-TYPE     67     47     38     11     53     19     21     36
                   vv
clus                CLUS_9
  KIRREL2 MUTATED        0
  KIRREL2 WILD-TYPE     50
D1154V10, multiclass
        clus
vv       KIRREL2 MUTATED KIRREL2 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               5                11
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIRREL2 MUTATED        0      1      0      0      1      0
  KIRREL2 WILD-TYPE     13     15     14     11     10      9
D1154V11, multiclass
[1] "Remove cluster labels:" "KIRREL2 MUTATED"       
clus
  KIRREL2 MUTATED KIRREL2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901        TCGA-AD-6963 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196        TCGA-AZ-4323 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598        TCGA-AZ-6600 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIRREL2 MUTATED        0      0      0      0      0      1      1      0
  KIRREL2 WILD-TYPE     11      7      7      9      8      6     10      9
                   vv
clus                CLUS_9
  KIRREL2 MUTATED        0
  KIRREL2 WILD-TYPE      5
D1154V12, multiclass
[1] "Remove cluster labels:" "KIRREL2 MUTATED"       
clus
  KIRREL2 MUTATED KIRREL2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901        TCGA-AD-6963 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196        TCGA-AZ-4323 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598        TCGA-AZ-6600 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" "KIRREL2 WILD-TYPE" 

Clustering(1155) Variable = METTL5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  METTL5 MUTATED        1      0      0      0      0
  METTL5 WILD-TYPE     31     18     46     27     23
D1155V1, multiclass
[1] "Remove cluster labels:" "METTL5 MUTATED"        
clus
  METTL5 MUTATED METTL5 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AY-4071 
"METTL5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  METTL5 MUTATED        1      0      0
  METTL5 WILD-TYPE     42     67     36
D1155V2, multiclass
[1] "Remove cluster labels:" "METTL5 MUTATED"        
clus
  METTL5 MUTATED METTL5 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AY-4071 
"METTL5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  METTL5 MUTATED        0      2      3
  METTL5 WILD-TYPE     42    171    144
D1155V3, multiclass
        clus
vv       METTL5 MUTATED METTL5 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  METTL5 MUTATED        0      1      3
  METTL5 WILD-TYPE     62     72     72
D1155V4, multiclass
        clus
vv       METTL5 MUTATED METTL5 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  METTL5 MUTATED        0      2      3
  METTL5 WILD-TYPE     70    118     97
D1155V5, multiclass
        clus
vv       METTL5 MUTATED METTL5 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  METTL5 MUTATED        1      2      0      0      1      1      0      0
  METTL5 WILD-TYPE     40     24     30     29     38     68     20     14
                  vv
clus               CLUS_9
  METTL5 MUTATED        0
  METTL5 WILD-TYPE     22
D1155V6, multiclass
        clus
vv       METTL5 MUTATED METTL5 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  METTL5 MUTATED        1      2      1      1
  METTL5 WILD-TYPE     99     70     71    120
D1155V7, multiclass
        clus
vv       METTL5 MUTATED METTL5 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  METTL5 MUTATED        1      1      2      0      1
  METTL5 WILD-TYPE     58     74     72    119     37
D1155V8, multiclass
        clus
vv       METTL5 MUTATED METTL5 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  METTL5 MUTATED        1      3      0      0      1
  METTL5 WILD-TYPE     50     73     61     71     94
D1155V9, multiclass
        clus
vv       METTL5 MUTATED METTL5 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  METTL5 MUTATED        1      0      0      2      0      1      0      1
  METTL5 WILD-TYPE     68     48     39     14     53     19     21     37
                  vv
clus               CLUS_9
  METTL5 MUTATED        0
  METTL5 WILD-TYPE     50
D1155V10, multiclass
        clus
vv       METTL5 MUTATED METTL5 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  METTL5 MUTATED        0      0      0      0      1      1
  METTL5 WILD-TYPE     13     16     14     11     10      8
D1155V11, multiclass
[1] "Remove cluster labels:" "METTL5 MUTATED"        
clus
  METTL5 MUTATED METTL5 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  METTL5 MUTATED        1      0      0      1      0      0      0      0
  METTL5 WILD-TYPE     10      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  METTL5 MUTATED        0
  METTL5 WILD-TYPE      5
D1155V12, multiclass
[1] "Remove cluster labels:" "METTL5 MUTATED"        
clus
  METTL5 MUTATED METTL5 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" "METTL5 WILD-TYPE" 

Clustering(1156) Variable = CCR8 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCR8 MUTATED        2      0      0      1      0
  CCR8 WILD-TYPE     30     18     46     26     23
D1156V1, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCR8 MUTATED        3      0      0
  CCR8 WILD-TYPE     40     67     36
D1156V2, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCR8 MUTATED        1      3      3
  CCR8 WILD-TYPE     41    170    144
D1156V3, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCR8 MUTATED        1      2      1
  CCR8 WILD-TYPE     61     71     74
D1156V4, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCR8 MUTATED        0      4      2
  CCR8 WILD-TYPE     70    116     98
D1156V5, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCR8 MUTATED        1      0      1      1      0      1      0      0      2
  CCR8 WILD-TYPE     40     26     29     28     39     68     20     14     20
D1156V6, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCR8 MUTATED        2      0      2      3
  CCR8 WILD-TYPE     98     72     70    118
D1156V7, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            0             72
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCR8 MUTATED        2      1      1      0      3
  CCR8 WILD-TYPE     57     74     73    119     35
D1156V8, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCR8 MUTATED        1      0      2      1      2
  CCR8 WILD-TYPE     50     76     59     70     93
D1156V9, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            0             76
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCR8 MUTATED        1      2      1      0      0      0      0      2      0
  CCR8 WILD-TYPE     68     46     38     16     53     20     21     36     50
D1156V10, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCR8 MUTATED        1      1      0      1      0      0
  CCR8 WILD-TYPE     12     15     14     10     11      9
D1156V11, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCR8 MUTATED        0      0      1      0      0      1      0      1      0
  CCR8 WILD-TYPE     11      7      6      9      8      6     11      8      5
D1156V12, multiclass
        clus
vv       CCR8 MUTATED CCR8 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1157) Variable = OR5AK2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5AK2 MUTATED        2      0      0      1      0
  OR5AK2 WILD-TYPE     30     18     46     26     23
D1157V1, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR5AK2 MUTATED        2      1      0
  OR5AK2 WILD-TYPE     41     66     36
D1157V2, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR5AK2 MUTATED        1      3      5
  OR5AK2 WILD-TYPE     41    170    142
D1157V3, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR5AK2 MUTATED        2      3      1
  OR5AK2 WILD-TYPE     60     70     74
D1157V4, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3               70
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR5AK2 MUTATED        0      4      4
  OR5AK2 WILD-TYPE     70    116     96
D1157V5, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5AK2 MUTATED        0      0      1      1      2      3      0      0
  OR5AK2 WILD-TYPE     41     26     29     28     37     66     20     14
                  vv
clus               CLUS_9
  OR5AK2 MUTATED        1
  OR5AK2 WILD-TYPE     21
D1157V6, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR5AK2 MUTATED        2      1      3      3
  OR5AK2 WILD-TYPE     98     71     69    118
D1157V7, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5AK2 MUTATED        0      3      3      1      2
  OR5AK2 WILD-TYPE     59     72     71    118     36
D1157V8, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5AK2 MUTATED        2      3      0      1      3
  OR5AK2 WILD-TYPE     49     73     61     70     92
D1157V9, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5AK2 MUTATED        2      1      0      0      1      3      0      2
  OR5AK2 WILD-TYPE     67     47     39     16     52     17     21     36
                  vv
clus               CLUS_9
  OR5AK2 MUTATED        0
  OR5AK2 WILD-TYPE     50
D1157V10, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              3               17
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR5AK2 MUTATED        1      0      1      0      1      1
  OR5AK2 WILD-TYPE     12     16     13     11     10      8
D1157V11, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5AK2 MUTATED        0      0      0      0      1      0      1      1
  OR5AK2 WILD-TYPE     11      7      7      9      7      7     10      8
                  vv
clus               CLUS_9
  OR5AK2 MUTATED        1
  OR5AK2 WILD-TYPE      4
D1157V12, multiclass
        clus
vv       OR5AK2 MUTATED OR5AK2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1158) Variable = NTRK2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTRK2 MUTATED        0      1      0      2      0
  NTRK2 WILD-TYPE     32     17     46     25     23
D1158V1, multiclass
        clus
vv       NTRK2 MUTATED NTRK2 WILD-TYPE
  CLUS_1             0              32
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTRK2 MUTATED        1      2      0
  NTRK2 WILD-TYPE     42     65     36
D1158V2, multiclass
        clus
vv       NTRK2 MUTATED NTRK2 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTRK2 MUTATED        3      8     11
  NTRK2 WILD-TYPE     39    165    136
D1158V3, multiclass
        clus
vv       NTRK2 MUTATED NTRK2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             8             165
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTRK2 MUTATED        8      7      5
  NTRK2 WILD-TYPE     54     66     70
D1158V4, multiclass
        clus
vv       NTRK2 MUTATED NTRK2 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             7              66
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTRK2 MUTATED        4      9      9
  NTRK2 WILD-TYPE     66    111     91
D1158V5, multiclass
        clus
vv       NTRK2 MUTATED NTRK2 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             9             111
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTRK2 MUTATED        2      1      1      5      3      5      1      1
  NTRK2 WILD-TYPE     39     25     29     24     36     64     19     13
                 vv
clus              CLUS_9
  NTRK2 MUTATED        3
  NTRK2 WILD-TYPE     19
D1158V6, multiclass
        clus
vv       NTRK2 MUTATED NTRK2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             5              24
  CLUS_5             3              36
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NTRK2 MUTATED        7      4      9      3
  NTRK2 WILD-TYPE     93     68     63    118
D1158V7, multiclass
        clus
vv       NTRK2 MUTATED NTRK2 WILD-TYPE
  CLUS_1             7              93
  CLUS_2             4              68
  CLUS_3             9              63
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTRK2 MUTATED        7      5      7      3      1
  NTRK2 WILD-TYPE     52     70     67    116     37
D1158V8, multiclass
        clus
vv       NTRK2 MUTATED NTRK2 WILD-TYPE
  CLUS_1             7              52
  CLUS_2             5              70
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTRK2 MUTATED        2      7      8      1      4
  NTRK2 WILD-TYPE     49     69     53     70     91
D1158V9, multiclass
        clus
vv       NTRK2 MUTATED NTRK2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             8              53
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTRK2 MUTATED        3      7      1      2      4      2      1      1
  NTRK2 WILD-TYPE     66     41     38     14     49     18     20     37
                 vv
clus              CLUS_9
  NTRK2 MUTATED        1
  NTRK2 WILD-TYPE     49
D1158V10, multiclass
        clus
vv       NTRK2 MUTATED NTRK2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             7              41
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             4              49
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NTRK2 MUTATED        0      0      0      1      1      0
  NTRK2 WILD-TYPE     13     16     14     10     10      9
D1158V11, multiclass
[1] "Remove cluster labels:" "NTRK2 MUTATED"         
clus
  NTRK2 MUTATED NTRK2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTRK2 MUTATED        0      0      1      1      0      0      0      0
  NTRK2 WILD-TYPE     11      7      6      8      8      7     11      9
                 vv
clus              CLUS_9
  NTRK2 MUTATED        0
  NTRK2 WILD-TYPE      5
D1158V12, multiclass
[1] "Remove cluster labels:" "NTRK2 MUTATED"         
clus
  NTRK2 MUTATED NTRK2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" "NTRK2 WILD-TYPE" 

Clustering(1159) Variable = SMARCB1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMARCB1 MUTATED        0      0      2      1      0
  SMARCB1 WILD-TYPE     32     18     44     26     23
D1159V1, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                32
  CLUS_2               0                18
  CLUS_3               2                44
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCB1 MUTATED        0      2      1
  SMARCB1 WILD-TYPE     43     65     35
D1159V2, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                43
  CLUS_2               2                65
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCB1 MUTATED        2      8     13
  SMARCB1 WILD-TYPE     40    165    134
D1159V3, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               8               165
  CLUS_3              13               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCB1 MUTATED        4      8      8
  SMARCB1 WILD-TYPE     58     65     67
D1159V4, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               8                65
  CLUS_3               8                67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCB1 MUTATED        2      8      9
  SMARCB1 WILD-TYPE     68    112     91
D1159V5, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               8               112
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMARCB1 MUTATED        1      1      1      1      2      9      2      1
  SMARCB1 WILD-TYPE     40     25     29     28     37     60     18     13
                   vv
clus                CLUS_9
  SMARCB1 MUTATED        1
  SMARCB1 WILD-TYPE     21
D1159V6, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               9                60
  CLUS_7               2                18
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCB1 MUTATED        8     10      3      2
  SMARCB1 WILD-TYPE     92     62     69    119
D1159V7, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               8                92
  CLUS_2              10                62
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMARCB1 MUTATED        2      9      8      4      0
  SMARCB1 WILD-TYPE     57     66     66    115     38
D1159V8, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               9                66
  CLUS_3               8                66
  CLUS_4               4               115
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMARCB1 MUTATED        6      8      2      2      4
  SMARCB1 WILD-TYPE     45     68     59     69     91
D1159V9, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               6                45
  CLUS_2               8                68
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMARCB1 MUTATED        7      4      1      3      2      3      0      1
  SMARCB1 WILD-TYPE     62     44     38     13     51     17     21     37
                   vv
clus                CLUS_9
  SMARCB1 MUTATED        1
  SMARCB1 WILD-TYPE     49
D1159V10, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               7                62
  CLUS_2               4                44
  CLUS_3               1                38
  CLUS_4               3                13
  CLUS_5               2                51
  CLUS_6               3                17
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMARCB1 MUTATED        0      0      1      1      0      1
  SMARCB1 WILD-TYPE     13     16     13     10     11      8
D1159V11, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               0                11
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMARCB1 MUTATED        0      0      1      0      0      1      0      1
  SMARCB1 WILD-TYPE     11      7      6      9      8      6     11      8
                   vv
clus                CLUS_9
  SMARCB1 MUTATED        0
  SMARCB1 WILD-TYPE      5
D1159V12, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1160) Variable = ERCC6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC6 MUTATED        4      0      1      2      0
  ERCC6 WILD-TYPE     28     18     45     25     23
D1160V1, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        5      2      0
  ERCC6 WILD-TYPE     38     65     36
D1160V2, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        0      7     21
  ERCC6 WILD-TYPE     42    166    126
D1160V3, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             7             166
  CLUS_3            21             126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        7      4      9
  ERCC6 WILD-TYPE     55     69     66
D1160V4, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             4              69
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        3     10      9
  ERCC6 WILD-TYPE     67    110     91
D1160V5, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             3              67
  CLUS_2            10             110
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC6 MUTATED        3      1      2      4      1      7      1      1
  ERCC6 WILD-TYPE     38     25     28     25     38     62     19     13
                 vv
clus              CLUS_9
  ERCC6 MUTATED        2
  ERCC6 WILD-TYPE     20
D1160V6, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             4              25
  CLUS_5             1              38
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERCC6 MUTATED        5      9      5      9
  ERCC6 WILD-TYPE     95     63     67    112
D1160V7, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             9              63
  CLUS_3             5              67
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC6 MUTATED        2      6     11      3      6
  ERCC6 WILD-TYPE     57     69     63    116     32
D1160V8, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             6              69
  CLUS_3            11              63
  CLUS_4             3             116
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC6 MUTATED        2      9      6      1      9
  ERCC6 WILD-TYPE     49     67     55     70     86
D1160V9, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             9              67
  CLUS_3             6              55
  CLUS_4             1              70
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC6 MUTATED        7      3      0      3      5      1      0      6
  ERCC6 WILD-TYPE     62     45     39     13     48     19     21     32
                 vv
clus              CLUS_9
  ERCC6 MUTATED        2
  ERCC6 WILD-TYPE     48
D1160V10, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             7              62
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             5              48
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             6              32
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERCC6 MUTATED        0      0      2      1      1      0
  ERCC6 WILD-TYPE     13     16     12     10     10      9
D1160V11, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC6 MUTATED        0      0      1      1      2      0      0      0
  ERCC6 WILD-TYPE     11      7      6      8      6      7     11      9
                 vv
clus              CLUS_9
  ERCC6 MUTATED        0
  ERCC6 WILD-TYPE      5
D1160V12, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1161) Variable = RARG MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RARG MUTATED        4      0      2      0      0
  RARG WILD-TYPE     28     18     44     27     23
D1161V1, multiclass
        clus
vv       RARG MUTATED RARG WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            2             44
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RARG MUTATED        3      1      2
  RARG WILD-TYPE     40     66     34
D1161V2, multiclass
        clus
vv       RARG MUTATED RARG WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RARG MUTATED        2      2      6
  RARG WILD-TYPE     40    171    141
D1161V3, multiclass
        clus
vv       RARG MUTATED RARG WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2            171
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RARG MUTATED        0      1      3
  RARG WILD-TYPE     62     72     72
D1161V4, multiclass
        clus
vv       RARG MUTATED RARG WILD-TYPE
  CLUS_1            0             62
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RARG MUTATED        4      2      1
  RARG WILD-TYPE     66    118     99
D1161V5, multiclass
        clus
vv       RARG MUTATED RARG WILD-TYPE
  CLUS_1            4             66
  CLUS_2            2            118
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RARG MUTATED        1      0      1      1      2      1      0      1      0
  RARG WILD-TYPE     40     26     29     28     37     68     20     13     22
D1161V6, multiclass
        clus
vv       RARG MUTATED RARG WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RARG MUTATED        2      3      0      5
  RARG WILD-TYPE     98     69     72    116
D1161V7, multiclass
        clus
vv       RARG MUTATED RARG WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            0             72
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RARG MUTATED        0      2      2      3      3
  RARG WILD-TYPE     59     73     72    116     35
D1161V8, multiclass
        clus
vv       RARG MUTATED RARG WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            2             72
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RARG MUTATED        0      4      0      3      3
  RARG WILD-TYPE     51     72     61     68     92
D1161V9, multiclass
        clus
vv       RARG MUTATED RARG WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            3             68
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RARG MUTATED        2      0      1      1      2      1      0      2      1
  RARG WILD-TYPE     67     48     38     15     51     19     21     36     49
D1161V10, multiclass
        clus
vv       RARG MUTATED RARG WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RARG MUTATED        0      0      0      0      1      0
  RARG WILD-TYPE     13     16     14     11     10      9
D1161V11, multiclass
[1] "Remove cluster labels:" "RARG MUTATED"          
clus
  RARG MUTATED RARG WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-G4-6628 
"RARG WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RARG MUTATED        0      0      0      1      0      0      0      0      0
  RARG WILD-TYPE     11      7      7      8      8      7     11      9      5
D1161V12, multiclass
[1] "Remove cluster labels:" "RARG MUTATED"          
clus
  RARG MUTATED RARG WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" "RARG WILD-TYPE" 
    TCGA-G4-6628 
"RARG WILD-TYPE" 

Clustering(1162) Variable = HEPH MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HEPH MUTATED        0      0      0      1      0
  HEPH WILD-TYPE     32     18     46     26     23
D1162V1, multiclass
[1] "Remove cluster labels:" "HEPH MUTATED"          
clus
  HEPH MUTATED HEPH WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AY-4071 
"HEPH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HEPH MUTATED        1      0      0
  HEPH WILD-TYPE     42     67     36
D1162V2, multiclass
[1] "Remove cluster labels:" "HEPH MUTATED"          
clus
  HEPH MUTATED HEPH WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AY-4071 
"HEPH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HEPH MUTATED        1      3     11
  HEPH WILD-TYPE     41    170    136
D1162V3, multiclass
        clus
vv       HEPH MUTATED HEPH WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HEPH MUTATED        4      2      8
  HEPH WILD-TYPE     58     71     67
D1162V4, multiclass
        clus
vv       HEPH MUTATED HEPH WILD-TYPE
  CLUS_1            4             58
  CLUS_2            2             71
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HEPH MUTATED        3      3      7
  HEPH WILD-TYPE     67    117     93
D1162V5, multiclass
        clus
vv       HEPH MUTATED HEPH WILD-TYPE
  CLUS_1            3             67
  CLUS_2            3            117
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HEPH MUTATED        1      0      0      1      1      6      2      0      2
  HEPH WILD-TYPE     40     26     30     28     38     63     18     14     20
D1162V6, multiclass
        clus
vv       HEPH MUTATED HEPH WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            6             63
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HEPH MUTATED        3      8      3      1
  HEPH WILD-TYPE     97     64     69    120
D1162V7, multiclass
        clus
vv       HEPH MUTATED HEPH WILD-TYPE
  CLUS_1            3             97
  CLUS_2            8             64
  CLUS_3            3             69
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HEPH MUTATED        3      5      6      0      1
  HEPH WILD-TYPE     56     70     68    119     37
D1162V8, multiclass
        clus
vv       HEPH MUTATED HEPH WILD-TYPE
  CLUS_1            3             56
  CLUS_2            5             70
  CLUS_3            6             68
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HEPH MUTATED        3      8      1      1      1
  HEPH WILD-TYPE     48     68     60     70     94
D1162V9, multiclass
        clus
vv       HEPH MUTATED HEPH WILD-TYPE
  CLUS_1            3             48
  CLUS_2            8             68
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HEPH MUTATED        4      3      0      3      3      0      0      0      1
  HEPH WILD-TYPE     65     45     39     13     50     20     21     38     49
D1162V10, multiclass
        clus
vv       HEPH MUTATED HEPH WILD-TYPE
  CLUS_1            4             65
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HEPH MUTATED        1      1      0      0      0      0
  HEPH WILD-TYPE     12     15     14     11     11      9
D1162V11, multiclass
[1] "Remove cluster labels:" "HEPH MUTATED"          
clus
  HEPH MUTATED HEPH WILD-TYPE 
             2             72 
    TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D9 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HEPH MUTATED        0      1      0      0      0      0      0      1      0
  HEPH WILD-TYPE     11      6      7      9      8      7     11      8      5
D1162V12, multiclass
[1] "Remove cluster labels:" "HEPH MUTATED"          
clus
  HEPH MUTATED HEPH WILD-TYPE 
             2             72 
    TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D9 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" "HEPH WILD-TYPE" 

Clustering(1163) Variable = RASGRF2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASGRF2 MUTATED        3      0      0      2      0
  RASGRF2 WILD-TYPE     29     18     46     25     23
D1163V1, multiclass
        clus
vv       RASGRF2 MUTATED RASGRF2 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RASGRF2 MUTATED        4      1      0
  RASGRF2 WILD-TYPE     39     66     36
D1163V2, multiclass
        clus
vv       RASGRF2 MUTATED RASGRF2 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RASGRF2 MUTATED        0      4     13
  RASGRF2 WILD-TYPE     42    169    134
D1163V3, multiclass
        clus
vv       RASGRF2 MUTATED RASGRF2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               4               169
  CLUS_3              13               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RASGRF2 MUTATED        7      2      3
  RASGRF2 WILD-TYPE     55     71     72
D1163V4, multiclass
        clus
vv       RASGRF2 MUTATED RASGRF2 WILD-TYPE
  CLUS_1               7                55
  CLUS_2               2                71
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RASGRF2 MUTATED        0      5     10
  RASGRF2 WILD-TYPE     70    115     90
D1163V5, multiclass
        clus
vv       RASGRF2 MUTATED RASGRF2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               5               115
  CLUS_3              10                90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RASGRF2 MUTATED        1      1      2      1      0      8      1      1
  RASGRF2 WILD-TYPE     40     25     28     28     39     61     19     13
                   vv
clus                CLUS_9
  RASGRF2 MUTATED        0
  RASGRF2 WILD-TYPE     22
D1163V6, multiclass
        clus
vv       RASGRF2 MUTATED RASGRF2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               8                61
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RASGRF2 MUTATED        2      5      4      6
  RASGRF2 WILD-TYPE     98     67     68    115
D1163V7, multiclass
        clus
vv       RASGRF2 MUTATED RASGRF2 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               5                67
  CLUS_3               4                68
  CLUS_4               6               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASGRF2 MUTATED        3      3      5      2      4
  RASGRF2 WILD-TYPE     56     72     69    117     34
D1163V8, multiclass
        clus
vv       RASGRF2 MUTATED RASGRF2 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               3                72
  CLUS_3               5                69
  CLUS_4               2               117
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASGRF2 MUTATED        0      7      2      1      6
  RASGRF2 WILD-TYPE     51     69     59     70     89
D1163V9, multiclass
        clus
vv       RASGRF2 MUTATED RASGRF2 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               7                69
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RASGRF2 MUTATED        3      5      0      2      0      1      1      2
  RASGRF2 WILD-TYPE     66     43     39     14     53     19     20     36
                   vv
clus                CLUS_9
  RASGRF2 MUTATED        2
  RASGRF2 WILD-TYPE     48
D1163V10, multiclass
        clus
vv       RASGRF2 MUTATED RASGRF2 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               5                43
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               2                36
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RASGRF2 MUTATED        0      0      0      0      2      0
  RASGRF2 WILD-TYPE     13     16     14     11      9      9
D1163V11, multiclass
[1] "Remove cluster labels:" "RASGRF2 MUTATED"       
clus
  RASGRF2 MUTATED RASGRF2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RASGRF2 MUTATED        0      0      0      0      0      0      2      0
  RASGRF2 WILD-TYPE     11      7      7      9      8      7      9      9
                   vv
clus                CLUS_9
  RASGRF2 MUTATED        0
  RASGRF2 WILD-TYPE      5
D1163V12, multiclass
[1] "Remove cluster labels:" "RASGRF2 MUTATED"       
clus
  RASGRF2 MUTATED RASGRF2 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" "RASGRF2 WILD-TYPE" 

Clustering(1164) Variable = LCN9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LCN9 MUTATED        1      0      0      0      0
  LCN9 WILD-TYPE     31     18     46     27     23
D1164V1, multiclass
[1] "Remove cluster labels:" "LCN9 MUTATED"          
clus
  LCN9 MUTATED LCN9 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AY-4071 
"LCN9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LCN9 MUTATED        0      0      1
  LCN9 WILD-TYPE     43     67     35
D1164V2, multiclass
[1] "Remove cluster labels:" "LCN9 MUTATED"          
clus
  LCN9 MUTATED LCN9 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AY-4071 
"LCN9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LCN9 MUTATED        0      1      3
  LCN9 WILD-TYPE     42    172    144
D1164V3, multiclass
        clus
vv       LCN9 MUTATED LCN9 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LCN9 MUTATED        1      1      1
  LCN9 WILD-TYPE     61     72     74
D1164V4, multiclass
        clus
vv       LCN9 MUTATED LCN9 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LCN9 MUTATED        0      1      1
  LCN9 WILD-TYPE     70    119     99
D1164V5, multiclass
[1] "Remove cluster labels:" "LCN9 MUTATED"          
clus
  LCN9 MUTATED LCN9 WILD-TYPE 
             2            288 
    TCGA-A6-2671     TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-A6-5656     TCGA-A6-5657 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-5659     TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-5664     TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3489     TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3510     TCGA-AA-3511     TCGA-AA-3514     TCGA-AA-3517 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521     TCGA-AA-3522 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3525     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3548     TCGA-AA-3552 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555     TCGA-AA-3558 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3655 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3697 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3712     TCGA-AA-3713     TCGA-AA-3715 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3950 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982     TCGA-AA-3986 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00E 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I     TCGA-AA-A01K 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R     TCGA-AA-A01S 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A01T     TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A022 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02K     TCGA-AA-A02O     TCGA-AA-A02W 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A02Y     TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AD-5900 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6899     TCGA-AD-6965 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AU-6004     TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AY-6386     TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AZ-4682     TCGA-AZ-5407     TCGA-AZ-6598     TCGA-AZ-6599 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AZ-6606     TCGA-AZ-6607     TCGA-CA-5254     TCGA-CA-5255 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CA-5796     TCGA-CA-5797     TCGA-CA-6715     TCGA-CA-6716 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CA-6717     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5914 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747     TCGA-CK-6748 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744     TCGA-CM-4746 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341     TCGA-CM-5344 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860     TCGA-CM-5861 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864     TCGA-CM-5868 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163     TCGA-CM-6164 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167     TCGA-CM-6168 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171     TCGA-CM-6172 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5538 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541     TCGA-D5-6529 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6535     TCGA-D5-6536 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6537     TCGA-D5-6538     TCGA-D5-6539     TCGA-D5-6540 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6541     TCGA-D5-6898     TCGA-D5-6920     TCGA-D5-6922 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6923     TCGA-D5-6924     TCGA-D5-6926     TCGA-D5-6927 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6928     TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D4 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA     TCGA-DM-A1HB 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A28C     TCGA-DM-A28E     TCGA-DM-A28F 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A28G     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LCN9 MUTATED        1      0      1      0      0      0      0      0      0
  LCN9 WILD-TYPE     40     26     29     29     39     69     20     14     22
D1164V6, multiclass
[1] "Remove cluster labels:" "LCN9 MUTATED"          
clus
  LCN9 MUTATED LCN9 WILD-TYPE 
             2            288 
    TCGA-A6-2671     TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-A6-5656     TCGA-A6-5657 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-5659     TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-5664     TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3489     TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3510     TCGA-AA-3511     TCGA-AA-3514     TCGA-AA-3517 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521     TCGA-AA-3522 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3525     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3548     TCGA-AA-3552 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555     TCGA-AA-3558 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3655 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3697 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3712     TCGA-AA-3713     TCGA-AA-3715 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3950 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982     TCGA-AA-3986 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00E 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I     TCGA-AA-A01K 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R     TCGA-AA-A01S 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A01T     TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A022 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02K     TCGA-AA-A02O     TCGA-AA-A02W 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-A02Y     TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AD-5900 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6899     TCGA-AD-6965 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AU-6004     TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AY-6386     TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AZ-4682     TCGA-AZ-5407     TCGA-AZ-6598     TCGA-AZ-6599 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AZ-6606     TCGA-AZ-6607     TCGA-CA-5254     TCGA-CA-5255 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CA-5796     TCGA-CA-5797     TCGA-CA-6715     TCGA-CA-6716 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CA-6717     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5914 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747     TCGA-CK-6748 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744     TCGA-CM-4746 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341     TCGA-CM-5344 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860     TCGA-CM-5861 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864     TCGA-CM-5868 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163     TCGA-CM-6164 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167     TCGA-CM-6168 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171     TCGA-CM-6172 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5538 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541     TCGA-D5-6529 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6535     TCGA-D5-6536 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6537     TCGA-D5-6538     TCGA-D5-6539     TCGA-D5-6540 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6541     TCGA-D5-6898     TCGA-D5-6920     TCGA-D5-6922 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6923     TCGA-D5-6924     TCGA-D5-6926     TCGA-D5-6927 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6928     TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D4 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA     TCGA-DM-A1HB 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A28C     TCGA-DM-A28E     TCGA-DM-A28F 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A28G     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LCN9 MUTATED        1      1      1      1
  LCN9 WILD-TYPE     99     71     71    120
D1164V7, multiclass
        clus
vv       LCN9 MUTATED LCN9 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LCN9 MUTATED        1      1      1      1      0
  LCN9 WILD-TYPE     58     74     73    118     38
D1164V8, multiclass
        clus
vv       LCN9 MUTATED LCN9 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            1             73
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LCN9 MUTATED        0      1      1      2      0
  LCN9 WILD-TYPE     51     75     60     69     95
D1164V9, multiclass
        clus
vv       LCN9 MUTATED LCN9 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LCN9 MUTATED        2      1      0      0      1      0      0      0      0
  LCN9 WILD-TYPE     67     47     39     16     52     20     21     38     50
D1164V10, multiclass
        clus
vv       LCN9 MUTATED LCN9 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LCN9 MUTATED        0      1      0      0      0      0
  LCN9 WILD-TYPE     13     15     14     11     11      9
D1164V11, multiclass
[1] "Remove cluster labels:" "LCN9 MUTATED"          
clus
  LCN9 MUTATED LCN9 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6628 
"LCN9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LCN9 MUTATED        0      0      0      0      0      1      0      0      0
  LCN9 WILD-TYPE     11      7      7      9      8      6     11      9      5
D1164V12, multiclass
[1] "Remove cluster labels:" "LCN9 MUTATED"          
clus
  LCN9 MUTATED LCN9 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" "LCN9 WILD-TYPE" 
    TCGA-G4-6628 
"LCN9 WILD-TYPE" 

Clustering(1165) Variable = DST MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DST MUTATED        7      2      1      3      0
  DST WILD-TYPE     25     16     45     24     23
D1165V1, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1           7            25
  CLUS_2           2            16
  CLUS_3           1            45
  CLUS_4           3            24
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DST MUTATED        8      3      2
  DST WILD-TYPE     35     64     34
D1165V2, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1           8            35
  CLUS_2           3            64
  CLUS_3           2            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DST MUTATED        2     20     43
  DST WILD-TYPE     40    153    104
D1165V3, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1           2            40
  CLUS_2          20           153
  CLUS_3          43           104
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DST MUTATED       19     13     20
  DST WILD-TYPE     43     60     55
D1165V4, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          19            43
  CLUS_2          13            60
  CLUS_3          20            55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DST MUTATED       11     19     25
  DST WILD-TYPE     59    101     75
D1165V5, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          11            59
  CLUS_2          19           101
  CLUS_3          25            75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DST MUTATED       11      3      3      6      4     18      5      3      2
  DST WILD-TYPE     30     23     27     23     35     51     15     11     20
D1165V6, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          11            30
  CLUS_2           3            23
  CLUS_3           3            27
  CLUS_4           6            23
  CLUS_5           4            35
  CLUS_6          18            51
  CLUS_7           5            15
  CLUS_8           3            11
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DST MUTATED       11     19     21     15
  DST WILD-TYPE     89     53     51    106
D1165V7, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          11            89
  CLUS_2          19            53
  CLUS_3          21            51
  CLUS_4          15           106
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DST MUTATED        7     13     28      9      9
  DST WILD-TYPE     52     62     46    110     29
D1165V8, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1           7            52
  CLUS_2          13            62
  CLUS_3          28            46
  CLUS_4           9           110
  CLUS_5           9            29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DST MUTATED       13     20     12      7     13
  DST WILD-TYPE     38     56     49     64     82
D1165V9, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          13            38
  CLUS_2          20            56
  CLUS_3          12            49
  CLUS_4           7            64
  CLUS_5          13            82
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DST MUTATED       10     14      5      6     10      4      3      8      5
  DST WILD-TYPE     59     34     34     10     43     16     18     30     45
D1165V10, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          10            59
  CLUS_2          14            34
  CLUS_3           5            34
  CLUS_4           6            10
  CLUS_5          10            43
  CLUS_6           4            16
  CLUS_7           3            18
  CLUS_8           8            30
  CLUS_9           5            45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DST MUTATED        2      3      2      3      6      1
  DST WILD-TYPE     11     13     12      8      5      8
D1165V11, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1           2            11
  CLUS_2           3            13
  CLUS_3           2            12
  CLUS_4           3             8
  CLUS_5           6             5
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DST MUTATED        2      1      1      4      1      1      6      0      1
  DST WILD-TYPE      9      6      6      5      7      6      5      9      4
D1165V12, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1           2             9
  CLUS_2           1             6
  CLUS_3           1             6
  CLUS_4           4             5
  CLUS_5           1             7
  CLUS_6           1             6
  CLUS_7           6             5
  CLUS_8           0             9
  CLUS_9           1             4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1166) Variable = FBXO38 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO38 MUTATED        2      0      1      1      0
  FBXO38 WILD-TYPE     30     18     45     26     23
D1166V1, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO38 MUTATED        3      1      0
  FBXO38 WILD-TYPE     40     66     36
D1166V2, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO38 MUTATED        1      3     14
  FBXO38 WILD-TYPE     41    170    133
D1166V3, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO38 MUTATED        7      1      6
  FBXO38 WILD-TYPE     55     72     69
D1166V4, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              1               72
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO38 MUTATED        1      3      9
  FBXO38 WILD-TYPE     69    117     91
D1166V5, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO38 MUTATED        1      0      0      2      2      8      0      0
  FBXO38 WILD-TYPE     40     26     30     27     37     61     20     14
                  vv
clus               CLUS_9
  FBXO38 MUTATED        0
  FBXO38 WILD-TYPE     22
D1166V6, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              8               61
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXO38 MUTATED        2      6      6      4
  FBXO38 WILD-TYPE     98     66     66    117
D1166V7, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              6               66
  CLUS_3              6               66
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO38 MUTATED        2      3      9      1      3
  FBXO38 WILD-TYPE     57     72     65    118     35
D1166V8, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              9               65
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO38 MUTATED        0     10      3      1      3
  FBXO38 WILD-TYPE     51     66     58     70     92
D1166V9, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              0               51
  CLUS_2             10               66
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO38 MUTATED        4      4      1      2      2      1      0      2
  FBXO38 WILD-TYPE     65     44     38     14     51     19     21     36
                  vv
clus               CLUS_9
  FBXO38 MUTATED        1
  FBXO38 WILD-TYPE     49
D1166V10, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FBXO38 MUTATED        1      0      2      0      3      0
  FBXO38 WILD-TYPE     12     16     12     11      8      9
D1166V11, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO38 MUTATED        0      0      0      0      2      1      2      1
  FBXO38 WILD-TYPE     11      7      7      9      6      6      9      8
                  vv
clus               CLUS_9
  FBXO38 MUTATED        0
  FBXO38 WILD-TYPE      5
D1166V12, multiclass
        clus
vv       FBXO38 MUTATED FBXO38 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1167) Variable = STAT3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAT3 MUTATED        0      0      0      1      0
  STAT3 WILD-TYPE     32     18     46     26     23
D1167V1, multiclass
[1] "Remove cluster labels:" "STAT3 MUTATED"         
clus
  STAT3 MUTATED STAT3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AY-4071 
"STAT3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAT3 MUTATED        0      1      0
  STAT3 WILD-TYPE     43     66     36
D1167V2, multiclass
[1] "Remove cluster labels:" "STAT3 MUTATED"         
clus
  STAT3 MUTATED STAT3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" "STAT3 WILD-TYPE" 
     TCGA-AY-4071 
"STAT3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAT3 MUTATED        0      4      5
  STAT3 WILD-TYPE     42    169    142
D1167V3, multiclass
        clus
vv       STAT3 MUTATED STAT3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAT3 MUTATED        3      2      3
  STAT3 WILD-TYPE     59     71     72
D1167V4, multiclass
        clus
vv       STAT3 MUTATED STAT3 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAT3 MUTATED        2      4      2
  STAT3 WILD-TYPE     68    116     98
D1167V5, multiclass
        clus
vv       STAT3 MUTATED STAT3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAT3 MUTATED        1      1      1      2      0      1      2      0
  STAT3 WILD-TYPE     40     25     29     27     39     68     18     14
                 vv
clus              CLUS_9
  STAT3 MUTATED        0
  STAT3 WILD-TYPE     22
D1167V6, multiclass
        clus
vv       STAT3 MUTATED STAT3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STAT3 MUTATED        3      0      4      2
  STAT3 WILD-TYPE     97     72     68    119
D1167V7, multiclass
        clus
vv       STAT3 MUTATED STAT3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             0              72
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAT3 MUTATED        1      2      4      2      0
  STAT3 WILD-TYPE     58     73     70    117     38
D1167V8, multiclass
        clus
vv       STAT3 MUTATED STAT3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAT3 MUTATED        3      4      0      0      2
  STAT3 WILD-TYPE     48     72     61     71     93
D1167V9, multiclass
        clus
vv       STAT3 MUTATED STAT3 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAT3 MUTATED        3      2      0      1      1      1      0      0
  STAT3 WILD-TYPE     66     46     39     15     52     19     21     38
                 vv
clus              CLUS_9
  STAT3 MUTATED        1
  STAT3 WILD-TYPE     49
D1167V10, multiclass
        clus
vv       STAT3 MUTATED STAT3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STAT3 MUTATED        0      1      1      1      2      0
  STAT3 WILD-TYPE     13     15     13     10      9      9
D1167V11, multiclass
        clus
vv       STAT3 MUTATED STAT3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAT3 MUTATED        0      0      0      1      1      0      3      0
  STAT3 WILD-TYPE     11      7      7      8      7      7      8      9
                 vv
clus              CLUS_9
  STAT3 MUTATED        0
  STAT3 WILD-TYPE      5
D1167V12, multiclass
        clus
vv       STAT3 MUTATED STAT3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1168) Variable = ATP11C MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP11C MUTATED        5      0      0      2      0
  ATP11C WILD-TYPE     27     18     46     25     23
D1168V1, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP11C MUTATED        4      2      1
  ATP11C WILD-TYPE     39     65     35
D1168V2, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              4               39
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP11C MUTATED        1      7     16
  ATP11C WILD-TYPE     41    166    131
D1168V3, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              1               41
  CLUS_2              7              166
  CLUS_3             16              131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP11C MUTATED        7      3      8
  ATP11C WILD-TYPE     55     70     67
D1168V4, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              7               55
  CLUS_2              3               70
  CLUS_3              8               67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP11C MUTATED        1      6     12
  ATP11C WILD-TYPE     69    114     88
D1168V5, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              1               69
  CLUS_2              6              114
  CLUS_3             12               88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP11C MUTATED        2      1      2      1      1      9      2      0
  ATP11C WILD-TYPE     39     25     28     28     38     60     18     14
                  vv
clus               CLUS_9
  ATP11C MUTATED        1
  ATP11C WILD-TYPE     21
D1168V6, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              9               60
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP11C MUTATED        4      8      6      7
  ATP11C WILD-TYPE     96     64     66    114
D1168V7, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              4               96
  CLUS_2              8               64
  CLUS_3              6               66
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP11C MUTATED        3      6      9      3      4
  ATP11C WILD-TYPE     56     69     65    116     34
D1168V8, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              3               56
  CLUS_2              6               69
  CLUS_3              9               65
  CLUS_4              3              116
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP11C MUTATED        2     11      3      3      4
  ATP11C WILD-TYPE     49     65     58     68     91
D1168V9, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              2               49
  CLUS_2             11               65
  CLUS_3              3               58
  CLUS_4              3               68
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP11C MUTATED        7      4      0      2      4      2      0      2
  ATP11C WILD-TYPE     62     44     39     14     49     18     21     36
                  vv
clus               CLUS_9
  ATP11C MUTATED        2
  ATP11C WILD-TYPE     48
D1168V10, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              7               62
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              4               49
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP11C MUTATED        1      2      0      0      4      1
  ATP11C WILD-TYPE     12     14     14     11      7      8
D1168V11, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              4                7
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP11C MUTATED        2      1      0      2      0      1      2      0
  ATP11C WILD-TYPE      9      6      7      7      8      6      9      9
                  vv
clus               CLUS_9
  ATP11C MUTATED        0
  ATP11C WILD-TYPE      5
D1168V12, multiclass
        clus
vv       ATP11C MUTATED ATP11C WILD-TYPE
  CLUS_1              2                9
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1169) Variable = IRF6 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRF6 MUTATED        1      0      0      1      0
  IRF6 WILD-TYPE     31     18     46     26     23
D1169V1, multiclass
[1] "Remove cluster labels:" "IRF6 MUTATED"          
clus
  IRF6 MUTATED IRF6 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRF6 MUTATED        2      0      0
  IRF6 WILD-TYPE     41     67     36
D1169V2, multiclass
[1] "Remove cluster labels:" "IRF6 MUTATED"          
clus
  IRF6 MUTATED IRF6 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRF6 MUTATED        1      1      4
  IRF6 WILD-TYPE     41    172    143
D1169V3, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRF6 MUTATED        2      0      2
  IRF6 WILD-TYPE     60     73     73
D1169V4, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRF6 MUTATED        2      3      1
  IRF6 WILD-TYPE     68    117     99
D1169V5, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IRF6 MUTATED        0      1      0      1      1      1      0      1      1
  IRF6 WILD-TYPE     41     25     30     28     38     68     20     13     21
D1169V6, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IRF6 MUTATED        0      2      1      3
  IRF6 WILD-TYPE    100     70     71    118
D1169V7, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRF6 MUTATED        0      1      2      1      2
  IRF6 WILD-TYPE     59     74     72    118     36
D1169V8, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRF6 MUTATED        1      1      1      0      2
  IRF6 WILD-TYPE     50     75     60     71     93
D1169V9, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IRF6 MUTATED        1      0      0      1      1      0      0      1      1
  IRF6 WILD-TYPE     68     48     39     15     52     20     21     37     49
D1169V10, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IRF6 MUTATED        1      0      1      0      0      0
  IRF6 WILD-TYPE     12     16     13     11     11      9
D1169V11, multiclass
[1] "Remove cluster labels:" "IRF6 MUTATED"          
clus
  IRF6 MUTATED IRF6 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6142 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IRF6 MUTATED        0      0      0      1      1      0      0      0      0
  IRF6 WILD-TYPE     11      7      7      8      7      7     11      9      5
D1169V12, multiclass
[1] "Remove cluster labels:" "IRF6 MUTATED"          
clus
  IRF6 MUTATED IRF6 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6142 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 

Clustering(1170) Variable = DNAJC11 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC11 MUTATED        3      0      0      0      0
  DNAJC11 WILD-TYPE     29     18     46     27     23
D1170V1, multiclass
        clus
vv       DNAJC11 MUTATED DNAJC11 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC11 MUTATED        2      0      1
  DNAJC11 WILD-TYPE     41     67     35
D1170V2, multiclass
        clus
vv       DNAJC11 MUTATED DNAJC11 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC11 MUTATED        1      2      6
  DNAJC11 WILD-TYPE     41    171    141
D1170V3, multiclass
        clus
vv       DNAJC11 MUTATED DNAJC11 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC11 MUTATED        1      2      2
  DNAJC11 WILD-TYPE     61     71     73
D1170V4, multiclass
        clus
vv       DNAJC11 MUTATED DNAJC11 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               2                71
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC11 MUTATED        1      3      2
  DNAJC11 WILD-TYPE     69    117     98
D1170V5, multiclass
        clus
vv       DNAJC11 MUTATED DNAJC11 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC11 MUTATED        0      0      1      0      0      2      2      1
  DNAJC11 WILD-TYPE     41     26     29     29     39     67     18     13
                   vv
clus                CLUS_9
  DNAJC11 MUTATED        0
  DNAJC11 WILD-TYPE     22
D1170V6, multiclass
        clus
vv       DNAJC11 MUTATED DNAJC11 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               2                18
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNAJC11 MUTATED        3      1      1      4
  DNAJC11 WILD-TYPE     97     71     71    117
D1170V7, multiclass
        clus
vv       DNAJC11 MUTATED DNAJC11 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               1                71
  CLUS_3               1                71
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC11 MUTATED        0      3      2      1      3
  DNAJC11 WILD-TYPE     59     72     72    118     35
D1170V8, multiclass
        clus
vv       DNAJC11 MUTATED DNAJC11 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               3                72
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC11 MUTATED        2      3      0      1      3
  DNAJC11 WILD-TYPE     49     73     61     70     92
D1170V9, multiclass
        clus
vv       DNAJC11 MUTATED DNAJC11 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               3                73
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC11 MUTATED        0      0      2      1      3      0      0      3
  DNAJC11 WILD-TYPE     69     48     37     15     50     20     21     35
                   vv
clus                CLUS_9
  DNAJC11 MUTATED        0
  DNAJC11 WILD-TYPE     50
D1170V10, multiclass
        clus
vv       DNAJC11 MUTATED DNAJC11 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               0                48
  CLUS_3               2                37
  CLUS_4               1                15
  CLUS_5               3                50
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNAJC11 MUTATED        0      0      0      0      1      0
  DNAJC11 WILD-TYPE     13     16     14     11     10      9
D1170V11, multiclass
[1] "Remove cluster labels:" "DNAJC11 MUTATED"       
clus
  DNAJC11 MUTATED DNAJC11 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-G4-6628 
"DNAJC11 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC11 MUTATED        0      0      0      0      1      0      0      0
  DNAJC11 WILD-TYPE     11      7      7      9      7      7     11      9
                   vv
clus                CLUS_9
  DNAJC11 MUTATED        0
  DNAJC11 WILD-TYPE      5
D1170V12, multiclass
[1] "Remove cluster labels:" "DNAJC11 MUTATED"       
clus
  DNAJC11 MUTATED DNAJC11 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" "DNAJC11 WILD-TYPE" 
       TCGA-G4-6628 
"DNAJC11 WILD-TYPE" 

Clustering(1171) Variable = CLDN10 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLDN10 MUTATED        1      0      0      0      0
  CLDN10 WILD-TYPE     31     18     46     27     23
D1171V1, multiclass
[1] "Remove cluster labels:" "CLDN10 MUTATED"        
clus
  CLDN10 MUTATED CLDN10 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AY-4071 
"CLDN10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLDN10 MUTATED        1      0      0
  CLDN10 WILD-TYPE     42     67     36
D1171V2, multiclass
[1] "Remove cluster labels:" "CLDN10 MUTATED"        
clus
  CLDN10 MUTATED CLDN10 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" "CLDN10 WILD-TYPE" 
      TCGA-AY-4071 
"CLDN10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLDN10 MUTATED        2      2      7
  CLDN10 WILD-TYPE     40    171    140
D1171V3, multiclass
        clus
vv       CLDN10 MUTATED CLDN10 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              2              171
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLDN10 MUTATED        5      1      4
  CLDN10 WILD-TYPE     57     72     71
D1171V4, multiclass
        clus
vv       CLDN10 MUTATED CLDN10 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLDN10 MUTATED        1      6      3
  CLDN10 WILD-TYPE     69    114     97
D1171V5, multiclass
        clus
vv       CLDN10 MUTATED CLDN10 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              6              114
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLDN10 MUTATED        0      2      0      3      1      3      1      0
  CLDN10 WILD-TYPE     41     24     30     26     38     66     19     14
                  vv
clus               CLUS_9
  CLDN10 MUTATED        0
  CLDN10 WILD-TYPE     22
D1171V6, multiclass
        clus
vv       CLDN10 MUTATED CLDN10 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              3               26
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLDN10 MUTATED        2      4      3      2
  CLDN10 WILD-TYPE     98     68     69    119
D1171V7, multiclass
        clus
vv       CLDN10 MUTATED CLDN10 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLDN10 MUTATED        0      3      5      2      1
  CLDN10 WILD-TYPE     59     72     69    117     37
D1171V8, multiclass
        clus
vv       CLDN10 MUTATED CLDN10 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              5               69
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLDN10 MUTATED        2      5      0      1      3
  CLDN10 WILD-TYPE     49     71     61     70     92
D1171V9, multiclass
        clus
vv       CLDN10 MUTATED CLDN10 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLDN10 MUTATED        3      1      1      2      0      1      0      2
  CLDN10 WILD-TYPE     66     47     38     14     53     19     21     36
                  vv
clus               CLUS_9
  CLDN10 MUTATED        1
  CLDN10 WILD-TYPE     49
D1171V10, multiclass
        clus
vv       CLDN10 MUTATED CLDN10 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLDN10 MUTATED        0      0      0      0      3      0
  CLDN10 WILD-TYPE     13     16     14     11      8      9
D1171V11, multiclass
        clus
vv       CLDN10 MUTATED CLDN10 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLDN10 MUTATED        0      0      0      1      1      1      0      0
  CLDN10 WILD-TYPE     11      7      7      8      7      6     11      9
                  vv
clus               CLUS_9
  CLDN10 MUTATED        0
  CLDN10 WILD-TYPE      5
D1171V12, multiclass
        clus
vv       CLDN10 MUTATED CLDN10 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1172) Variable = IGSF5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGSF5 MUTATED        4      0      2      1      0
  IGSF5 WILD-TYPE     28     18     44     26     23
D1172V1, multiclass
        clus
vv       IGSF5 MUTATED IGSF5 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGSF5 MUTATED        4      0      3
  IGSF5 WILD-TYPE     39     67     33
D1172V2, multiclass
        clus
vv       IGSF5 MUTATED IGSF5 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             3              33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGSF5 MUTATED        1      2     10
  IGSF5 WILD-TYPE     41    171    137
D1172V3, multiclass
        clus
vv       IGSF5 MUTATED IGSF5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGSF5 MUTATED        2      0      5
  IGSF5 WILD-TYPE     60     73     70
D1172V4, multiclass
        clus
vv       IGSF5 MUTATED IGSF5 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGSF5 MUTATED        2      3      6
  IGSF5 WILD-TYPE     68    117     94
D1172V5, multiclass
        clus
vv       IGSF5 MUTATED IGSF5 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGSF5 MUTATED        1      1      0      1      2      4      2      0
  IGSF5 WILD-TYPE     40     25     30     28     37     65     18     14
                 vv
clus              CLUS_9
  IGSF5 MUTATED        0
  IGSF5 WILD-TYPE     22
D1172V6, multiclass
        clus
vv       IGSF5 MUTATED IGSF5 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IGSF5 MUTATED        1      5      2      6
  IGSF5 WILD-TYPE     99     67     70    115
D1172V7, multiclass
        clus
vv       IGSF5 MUTATED IGSF5 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGSF5 MUTATED        1      1      4      4      4
  IGSF5 WILD-TYPE     58     74     70    115     34
D1172V8, multiclass
        clus
vv       IGSF5 MUTATED IGSF5 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             4             115
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGSF5 MUTATED        0      5      1      1      5
  IGSF5 WILD-TYPE     51     71     60     70     90
D1172V9, multiclass
        clus
vv       IGSF5 MUTATED IGSF5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGSF5 MUTATED        2      1      0      2      4      0      0      3
  IGSF5 WILD-TYPE     67     47     39     14     49     20     21     35
                 vv
clus              CLUS_9
  IGSF5 MUTATED        0
  IGSF5 WILD-TYPE     50
D1172V10, multiclass
        clus
vv       IGSF5 MUTATED IGSF5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             4              49
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IGSF5 MUTATED        0      1      0      0      1      0
  IGSF5 WILD-TYPE     13     15     14     11     10      9
D1172V11, multiclass
[1] "Remove cluster labels:" "IGSF5 MUTATED"         
clus
  IGSF5 MUTATED IGSF5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGSF5 MUTATED        1      0      0      0      1      0      0      0
  IGSF5 WILD-TYPE     10      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  IGSF5 MUTATED        0
  IGSF5 WILD-TYPE      5
D1172V12, multiclass
[1] "Remove cluster labels:" "IGSF5 MUTATED"         
clus
  IGSF5 MUTATED IGSF5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" "IGSF5 WILD-TYPE" 

Clustering(1173) Variable = PCSK5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCSK5 MUTATED        2      1      0      2      0
  PCSK5 WILD-TYPE     30     17     46     25     23
D1173V1, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK5 MUTATED        3      1      1
  PCSK5 WILD-TYPE     40     66     35
D1173V2, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK5 MUTATED        0      5      9
  PCSK5 WILD-TYPE     42    168    138
D1173V3, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK5 MUTATED        3      3      2
  PCSK5 WILD-TYPE     59     70     73
D1173V4, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK5 MUTATED        0      4      9
  PCSK5 WILD-TYPE     70    116     91
D1173V5, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCSK5 MUTATED        1      1      2      1      1      7      0      0
  PCSK5 WILD-TYPE     40     25     28     28     38     62     20     14
                 vv
clus              CLUS_9
  PCSK5 MUTATED        0
  PCSK5 WILD-TYPE     22
D1173V6, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             7              62
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCSK5 MUTATED        3      4      2      5
  PCSK5 WILD-TYPE     97     68     70    116
D1173V7, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCSK5 MUTATED        2      3      3      3      3
  PCSK5 WILD-TYPE     57     72     71    116     35
D1173V8, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCSK5 MUTATED        2      2      4      1      4
  PCSK5 WILD-TYPE     49     74     57     70     91
D1173V9, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCSK5 MUTATED        2      1      1      2      1      3      1      2
  PCSK5 WILD-TYPE     67     47     38     14     52     17     20     36
                 vv
clus              CLUS_9
  PCSK5 MUTATED        0
  PCSK5 WILD-TYPE     50
D1173V10, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             3              17
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCSK5 MUTATED        1      0      0      1      1      0
  PCSK5 WILD-TYPE     12     16     14     10     10      9
D1173V11, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCSK5 MUTATED        0      0      0      1      0      1      0      1
  PCSK5 WILD-TYPE     11      7      7      8      8      6     11      8
                 vv
clus              CLUS_9
  PCSK5 MUTATED        0
  PCSK5 WILD-TYPE      5
D1173V12, multiclass
        clus
vv       PCSK5 MUTATED PCSK5 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1174) Variable = DDHD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDHD2 MUTATED        3      0      0      0      0
  DDHD2 WILD-TYPE     29     18     46     27     23
D1174V1, multiclass
        clus
vv       DDHD2 MUTATED DDHD2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDHD2 MUTATED        3      0      0
  DDHD2 WILD-TYPE     40     67     36
D1174V2, multiclass
        clus
vv       DDHD2 MUTATED DDHD2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDHD2 MUTATED        2      1      6
  DDHD2 WILD-TYPE     40    172    141
D1174V3, multiclass
        clus
vv       DDHD2 MUTATED DDHD2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDHD2 MUTATED        1      3      2
  DDHD2 WILD-TYPE     61     70     73
D1174V4, multiclass
        clus
vv       DDHD2 MUTATED DDHD2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDHD2 MUTATED        0      5      3
  DDHD2 WILD-TYPE     70    115     97
D1174V5, multiclass
        clus
vv       DDHD2 MUTATED DDHD2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDHD2 MUTATED        0      0      0      0      2      2      1      1
  DDHD2 WILD-TYPE     41     26     30     29     37     67     19     13
                 vv
clus              CLUS_9
  DDHD2 MUTATED        2
  DDHD2 WILD-TYPE     20
D1174V6, multiclass
        clus
vv       DDHD2 MUTATED DDHD2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDHD2 MUTATED        2      2      2      3
  DDHD2 WILD-TYPE     98     70     70    118
D1174V7, multiclass
        clus
vv       DDHD2 MUTATED DDHD2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDHD2 MUTATED        1      2      3      0      3
  DDHD2 WILD-TYPE     58     73     71    119     35
D1174V8, multiclass
        clus
vv       DDHD2 MUTATED DDHD2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDHD2 MUTATED        3      2      0      1      3
  DDHD2 WILD-TYPE     48     74     61     70     92
D1174V9, multiclass
        clus
vv       DDHD2 MUTATED DDHD2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDHD2 MUTATED        3      0      1      1      1      0      0      3
  DDHD2 WILD-TYPE     66     48     38     15     52     20     21     35
                 vv
clus              CLUS_9
  DDHD2 MUTATED        0
  DDHD2 WILD-TYPE     50
D1174V10, multiclass
        clus
vv       DDHD2 MUTATED DDHD2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDHD2 MUTATED        0      0      0      0      1      0
  DDHD2 WILD-TYPE     13     16     14     11     10      9
D1174V11, multiclass
[1] "Remove cluster labels:" "DDHD2 MUTATED"         
clus
  DDHD2 MUTATED DDHD2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-G4-6628 
"DDHD2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDHD2 MUTATED        0      0      0      0      0      1      0      0
  DDHD2 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  DDHD2 MUTATED        0
  DDHD2 WILD-TYPE      5
D1174V12, multiclass
[1] "Remove cluster labels:" "DDHD2 MUTATED"         
clus
  DDHD2 MUTATED DDHD2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" "DDHD2 WILD-TYPE" 
     TCGA-G4-6628 
"DDHD2 WILD-TYPE" 

Clustering(1175) Variable = SPAG7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPAG7 MUTATED        0      0      0      0      0
  SPAG7 WILD-TYPE     32     18     46     27     23
D1175V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPAG7 MUTATED        0      0      0
  SPAG7 WILD-TYPE     43     67     36
D1175V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPAG7 MUTATED        1      1      1
  SPAG7 WILD-TYPE     41    172    146
D1175V3, multiclass
        clus
vv       SPAG7 MUTATED SPAG7 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             1             146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPAG7 MUTATED        0      1      2
  SPAG7 WILD-TYPE     62     72     73
D1175V4, multiclass
        clus
vv       SPAG7 MUTATED SPAG7 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SPAG7 MUTATED        1      2      0
  SPAG7 WILD-TYPE     69    118    100
D1175V5, multiclass
        clus
vv       SPAG7 MUTATED SPAG7 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             0             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPAG7 MUTATED        0      0      0      1      0      0      0      1
  SPAG7 WILD-TYPE     41     26     30     28     39     69     20     13
                 vv
clus              CLUS_9
  SPAG7 MUTATED        1
  SPAG7 WILD-TYPE     21
D1175V6, multiclass
        clus
vv       SPAG7 MUTATED SPAG7 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             0              69
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPAG7 MUTATED        1      2      0      0
  SPAG7 WILD-TYPE     99     70     72    121
D1175V7, multiclass
        clus
vv       SPAG7 MUTATED SPAG7 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             0              72
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPAG7 MUTATED        1      1      1      0      0
  SPAG7 WILD-TYPE     58     74     73    119     38
D1175V8, multiclass
        clus
vv       SPAG7 MUTATED SPAG7 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPAG7 MUTATED        1      2      0      0      0
  SPAG7 WILD-TYPE     50     74     61     71     95
D1175V9, multiclass
        clus
vv       SPAG7 MUTATED SPAG7 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPAG7 MUTATED        1      0      1      1      0      0      0      0
  SPAG7 WILD-TYPE     68     48     38     15     53     20     21     38
                 vv
clus              CLUS_9
  SPAG7 MUTATED        0
  SPAG7 WILD-TYPE     50
D1175V10, multiclass
        clus
vv       SPAG7 MUTATED SPAG7 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPAG7 MUTATED        0      0      0      0      1      0
  SPAG7 WILD-TYPE     13     16     14     11     10      9
D1175V11, multiclass
[1] "Remove cluster labels:" "SPAG7 MUTATED"         
clus
  SPAG7 MUTATED SPAG7 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-G4-6628 
"SPAG7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPAG7 MUTATED        0      0      0      1      0      0      0      0
  SPAG7 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  SPAG7 MUTATED        0
  SPAG7 WILD-TYPE      5
D1175V12, multiclass
[1] "Remove cluster labels:" "SPAG7 MUTATED"         
clus
  SPAG7 MUTATED SPAG7 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" "SPAG7 WILD-TYPE" 
     TCGA-G4-6628 
"SPAG7 WILD-TYPE" 

Clustering(1176) Variable = RARRES3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RARRES3 MUTATED        1      0      0      0      0
  RARRES3 WILD-TYPE     31     18     46     27     23
D1176V1, multiclass
[1] "Remove cluster labels:" "RARRES3 MUTATED"       
clus
  RARRES3 MUTATED RARRES3 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AY-4071 
"RARRES3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RARRES3 MUTATED        1      0      0
  RARRES3 WILD-TYPE     42     67     36
D1176V2, multiclass
[1] "Remove cluster labels:" "RARRES3 MUTATED"       
clus
  RARRES3 MUTATED RARRES3 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AY-4071 
"RARRES3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RARRES3 MUTATED        2      0      3
  RARRES3 WILD-TYPE     40    173    144
D1176V3, multiclass
        clus
vv       RARRES3 MUTATED RARRES3 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               0               173
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RARRES3 MUTATED        3      0      1
  RARRES3 WILD-TYPE     59     73     74
D1176V4, multiclass
        clus
vv       RARRES3 MUTATED RARRES3 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RARRES3 MUTATED        1      1      3
  RARRES3 WILD-TYPE     69    119     97
D1176V5, multiclass
        clus
vv       RARRES3 MUTATED RARRES3 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RARRES3 MUTATED        1      0      0      1      1      2      0      0
  RARRES3 WILD-TYPE     40     26     30     28     38     67     20     14
                   vv
clus                CLUS_9
  RARRES3 MUTATED        0
  RARRES3 WILD-TYPE     22
D1176V6, multiclass
        clus
vv       RARRES3 MUTATED RARRES3 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RARRES3 MUTATED        1      1      2      1
  RARRES3 WILD-TYPE     99     71     70    120
D1176V7, multiclass
        clus
vv       RARRES3 MUTATED RARRES3 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RARRES3 MUTATED        2      0      2      0      1
  RARRES3 WILD-TYPE     57     75     72    119     37
D1176V8, multiclass
        clus
vv       RARRES3 MUTATED RARRES3 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               0                75
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RARRES3 MUTATED        1      2      1      0      1
  RARRES3 WILD-TYPE     50     74     60     71     94
D1176V9, multiclass
        clus
vv       RARRES3 MUTATED RARRES3 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RARRES3 MUTATED        1      1      0      1      1      0      0      1
  RARRES3 WILD-TYPE     68     47     39     15     52     20     21     37
                   vv
clus                CLUS_9
  RARRES3 MUTATED        0
  RARRES3 WILD-TYPE     50
D1176V10, multiclass
        clus
vv       RARRES3 MUTATED RARRES3 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RARRES3 MUTATED        1      1      0      0      0      0
  RARRES3 WILD-TYPE     12     15     14     11     11      9
D1176V11, multiclass
[1] "Remove cluster labels:" "RARRES3 MUTATED"       
clus
  RARRES3 MUTATED RARRES3 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RARRES3 MUTATED        1      0      0      1      0      0      0      0
  RARRES3 WILD-TYPE     10      7      7      8      8      7     11      9
                   vv
clus                CLUS_9
  RARRES3 MUTATED        0
  RARRES3 WILD-TYPE      5
D1176V12, multiclass
[1] "Remove cluster labels:" "RARRES3 MUTATED"       
clus
  RARRES3 MUTATED RARRES3 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" "RARRES3 WILD-TYPE" 

Clustering(1177) Variable = TRAF3IP1 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRAF3IP1 MUTATED        0      0      0      1      0
  TRAF3IP1 WILD-TYPE     32     18     46     26     23
D1177V1, multiclass
[1] "Remove cluster labels:" "TRAF3IP1 MUTATED"      
clus
  TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3980         TCGA-AA-3982 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3984         TCGA-AA-3986         TCGA-AA-3989 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3994         TCGA-AA-A004         TCGA-AA-A00A 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A00D         TCGA-AA-A00E         TCGA-AA-A00F 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A00J         TCGA-AA-A00K         TCGA-AA-A00L 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A00N         TCGA-AA-A00O         TCGA-AA-A00Q 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A017         TCGA-AA-A01D 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AY-4071 
"TRAF3IP1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TRAF3IP1 MUTATED        0      1      0
  TRAF3IP1 WILD-TYPE     43     66     36
D1177V2, multiclass
[1] "Remove cluster labels:" "TRAF3IP1 MUTATED"      
clus
  TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3980         TCGA-AA-3982 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3984         TCGA-AA-3986         TCGA-AA-3989 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-3994         TCGA-AA-A004         TCGA-AA-A00A 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A00D         TCGA-AA-A00E         TCGA-AA-A00F 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A00J         TCGA-AA-A00K         TCGA-AA-A00L 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A00N         TCGA-AA-A00O         TCGA-AA-A00Q 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A017         TCGA-AA-A01D 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AY-4071 
"TRAF3IP1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TRAF3IP1 MUTATED        0      1      5
  TRAF3IP1 WILD-TYPE     42    172    142
D1177V3, multiclass
        clus
vv       TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                1                172
  CLUS_3                5                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TRAF3IP1 MUTATED        4      0      1
  TRAF3IP1 WILD-TYPE     58     73     74
D1177V4, multiclass
        clus
vv       TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                0                 73
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TRAF3IP1 MUTATED        0      1      4
  TRAF3IP1 WILD-TYPE     70    119     96
D1177V5, multiclass
        clus
vv       TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                1                119
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRAF3IP1 MUTATED        1      0      1      0      0      3      0      0
  TRAF3IP1 WILD-TYPE     40     26     29     29     39     66     20     14
                    vv
clus                 CLUS_9
  TRAF3IP1 MUTATED        0
  TRAF3IP1 WILD-TYPE     22
D1177V6, multiclass
        clus
vv       TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                3                 66
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRAF3IP1 MUTATED        0      2      3      1
  TRAF3IP1 WILD-TYPE    100     70     69    120
D1177V7, multiclass
        clus
vv       TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                2                 70
  CLUS_3                3                 69
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRAF3IP1 MUTATED        1      0      4      1      0
  TRAF3IP1 WILD-TYPE     58     75     70    118     38
D1177V8, multiclass
        clus
vv       TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                0                 75
  CLUS_3                4                 70
  CLUS_4                1                118
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRAF3IP1 MUTATED        0      2      3      0      1
  TRAF3IP1 WILD-TYPE     51     74     58     71     94
D1177V9, multiclass
        clus
vv       TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                2                 74
  CLUS_3                3                 58
  CLUS_4                0                 71
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRAF3IP1 MUTATED        2      2      0      0      1      1      0      0
  TRAF3IP1 WILD-TYPE     67     46     39     16     52     19     21     38
                    vv
clus                 CLUS_9
  TRAF3IP1 MUTATED        0
  TRAF3IP1 WILD-TYPE     50
D1177V10, multiclass
        clus
vv       TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                1                 52
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRAF3IP1 MUTATED        0      0      1      0      1      0
  TRAF3IP1 WILD-TYPE     13     16     13     11     10      9
D1177V11, multiclass
[1] "Remove cluster labels:" "TRAF3IP1 MUTATED"      
clus
  TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6965 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AY-6196         TCGA-AZ-4323         TCGA-AZ-4616 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AZ-5403         TCGA-AZ-6598         TCGA-AZ-6600 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AZ-6601         TCGA-AZ-6603         TCGA-AZ-6605 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRAF3IP1 MUTATED        0      0      0      0      1      1      0      0
  TRAF3IP1 WILD-TYPE     11      7      7      9      7      6     11      9
                    vv
clus                 CLUS_9
  TRAF3IP1 MUTATED        0
  TRAF3IP1 WILD-TYPE      5
D1177V12, multiclass
[1] "Remove cluster labels:" "TRAF3IP1 MUTATED"      
clus
  TRAF3IP1 MUTATED TRAF3IP1 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6965 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AY-6196         TCGA-AZ-4323         TCGA-AZ-4616 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AZ-5403         TCGA-AZ-6598         TCGA-AZ-6600 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AZ-6601         TCGA-AZ-6603         TCGA-AZ-6605 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" "TRAF3IP1 WILD-TYPE" 

Clustering(1178) Variable = C14ORF50 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF50 MUTATED        1      0      0      2      0
  C14ORF50 WILD-TYPE     31     18     46     25     23
D1178V1, multiclass
        clus
vv       C14ORF50 MUTATED C14ORF50 WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF50 MUTATED        2      1      0
  C14ORF50 WILD-TYPE     41     66     36
D1178V2, multiclass
        clus
vv       C14ORF50 MUTATED C14ORF50 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF50 MUTATED        0      0      6
  C14ORF50 WILD-TYPE     42    173    141
D1178V3, multiclass
        clus
vv       C14ORF50 MUTATED C14ORF50 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                6                141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF50 MUTATED        0      0      3
  C14ORF50 WILD-TYPE     62     73     72
D1178V4, multiclass
        clus
vv       C14ORF50 MUTATED C14ORF50 WILD-TYPE
  CLUS_1                0                 62
  CLUS_2                0                 73
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C14ORF50 MUTATED        1      1      2
  C14ORF50 WILD-TYPE     69    119     98
D1178V5, multiclass
        clus
vv       C14ORF50 MUTATED C14ORF50 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                1                119
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF50 MUTATED        0      0      0      1      2      1      0      0
  C14ORF50 WILD-TYPE     41     26     30     28     37     68     20     14
                    vv
clus                 CLUS_9
  C14ORF50 MUTATED        0
  C14ORF50 WILD-TYPE     22
D1178V6, multiclass
        clus
vv       C14ORF50 MUTATED C14ORF50 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                2                 37
  CLUS_6                1                 68
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF50 MUTATED        0      2      1      3
  C14ORF50 WILD-TYPE    100     70     71    118
D1178V7, multiclass
        clus
vv       C14ORF50 MUTATED C14ORF50 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                2                 70
  CLUS_3                1                 71
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF50 MUTATED        0      0      3      1      2
  C14ORF50 WILD-TYPE     59     75     71    118     36
D1178V8, multiclass
        clus
vv       C14ORF50 MUTATED C14ORF50 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                3                 71
  CLUS_4                1                118
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF50 MUTATED        0      2      1      0      3
  C14ORF50 WILD-TYPE     51     74     60     71     92
D1178V9, multiclass
        clus
vv       C14ORF50 MUTATED C14ORF50 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                2                 74
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF50 MUTATED        0      1      0      1      1      0      1      2
  C14ORF50 WILD-TYPE     69     47     39     15     52     20     20     36
                    vv
clus                 CLUS_9
  C14ORF50 MUTATED        0
  C14ORF50 WILD-TYPE     50
D1178V10, multiclass
        clus
vv       C14ORF50 MUTATED C14ORF50 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C14ORF50 MUTATED        0      0      0      0      1      0
  C14ORF50 WILD-TYPE     13     16     14     11     10      9
D1178V11, multiclass
[1] "Remove cluster labels:" "C14ORF50 MUTATED"      
clus
  C14ORF50 MUTATED C14ORF50 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-6748 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-G4-6628 
"C14ORF50 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF50 MUTATED        0      0      0      0      0      0      1      0
  C14ORF50 WILD-TYPE     11      7      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  C14ORF50 MUTATED        0
  C14ORF50 WILD-TYPE      5
D1178V12, multiclass
[1] "Remove cluster labels:" "C14ORF50 MUTATED"      
clus
  C14ORF50 MUTATED C14ORF50 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-6748 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" "C14ORF50 WILD-TYPE" 
        TCGA-G4-6628 
"C14ORF50 WILD-TYPE" 

Clustering(1179) Variable = ALAS1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALAS1 MUTATED        2      0      0      1      0
  ALAS1 WILD-TYPE     30     18     46     26     23
D1179V1, multiclass
        clus
vv       ALAS1 MUTATED ALAS1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALAS1 MUTATED        2      1      0
  ALAS1 WILD-TYPE     41     66     36
D1179V2, multiclass
        clus
vv       ALAS1 MUTATED ALAS1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALAS1 MUTATED        1      1      7
  ALAS1 WILD-TYPE     41    172    140
D1179V3, multiclass
        clus
vv       ALAS1 MUTATED ALAS1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALAS1 MUTATED        1      1      3
  ALAS1 WILD-TYPE     61     72     72
D1179V4, multiclass
        clus
vv       ALAS1 MUTATED ALAS1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ALAS1 MUTATED        2      1      2
  ALAS1 WILD-TYPE     68    119     98
D1179V5, multiclass
        clus
vv       ALAS1 MUTATED ALAS1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALAS1 MUTATED        0      0      2      0      0      2      0      0
  ALAS1 WILD-TYPE     41     26     28     29     39     67     20     14
                 vv
clus              CLUS_9
  ALAS1 MUTATED        1
  ALAS1 WILD-TYPE     21
D1179V6, multiclass
        clus
vv       ALAS1 MUTATED ALAS1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALAS1 MUTATED        1      2      2      4
  ALAS1 WILD-TYPE     99     70     70    117
D1179V7, multiclass
        clus
vv       ALAS1 MUTATED ALAS1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALAS1 MUTATED        0      2      3      1      3
  ALAS1 WILD-TYPE     59     73     71    118     35
D1179V8, multiclass
        clus
vv       ALAS1 MUTATED ALAS1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALAS1 MUTATED        2      2      1      1      3
  ALAS1 WILD-TYPE     49     74     60     70     92
D1179V9, multiclass
        clus
vv       ALAS1 MUTATED ALAS1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALAS1 MUTATED        0      1      1      2      1      1      0      3
  ALAS1 WILD-TYPE     69     47     38     14     52     19     21     35
                 vv
clus              CLUS_9
  ALAS1 MUTATED        0
  ALAS1 WILD-TYPE     50
D1179V10, multiclass
        clus
vv       ALAS1 MUTATED ALAS1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ALAS1 MUTATED        0      0      0      0      0      0
  ALAS1 WILD-TYPE     13     16     14     11     11      9
D1179V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ALAS1 MUTATED        0      0      0      0      0      0      0      0
  ALAS1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  ALAS1 MUTATED        0
  ALAS1 WILD-TYPE      5
D1179V12, multiclass

Clustering(1180) Variable = FAM151A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM151A MUTATED        1      0      0      0      0
  FAM151A WILD-TYPE     31     18     46     27     23
D1180V1, multiclass
[1] "Remove cluster labels:" "FAM151A MUTATED"       
clus
  FAM151A MUTATED FAM151A WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3812 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AY-4071 
"FAM151A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM151A MUTATED        1      0      0
  FAM151A WILD-TYPE     42     67     36
D1180V2, multiclass
[1] "Remove cluster labels:" "FAM151A MUTATED"       
clus
  FAM151A MUTATED FAM151A WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3812 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AY-4071 
"FAM151A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM151A MUTATED        1      0      5
  FAM151A WILD-TYPE     41    173    142
D1180V3, multiclass
        clus
vv       FAM151A MUTATED FAM151A WILD-TYPE
  CLUS_1               1                41
  CLUS_2               0               173
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM151A MUTATED        3      0      2
  FAM151A WILD-TYPE     59     73     73
D1180V4, multiclass
        clus
vv       FAM151A MUTATED FAM151A WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM151A MUTATED        0      1      5
  FAM151A WILD-TYPE     70    119     95
D1180V5, multiclass
        clus
vv       FAM151A MUTATED FAM151A WILD-TYPE
  CLUS_1               0                70
  CLUS_2               1               119
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM151A MUTATED        1      0      0      0      1      4      0      0
  FAM151A WILD-TYPE     40     26     30     29     38     65     20     14
                   vv
clus                CLUS_9
  FAM151A MUTATED        0
  FAM151A WILD-TYPE     22
D1180V6, multiclass
        clus
vv       FAM151A MUTATED FAM151A WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM151A MUTATED        0      3      2      1
  FAM151A WILD-TYPE    100     69     70    120
D1180V7, multiclass
        clus
vv       FAM151A MUTATED FAM151A WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM151A MUTATED        1      1      3      0      1
  FAM151A WILD-TYPE     58     74     71    119     37
D1180V8, multiclass
        clus
vv       FAM151A MUTATED FAM151A WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM151A MUTATED        0      4      1      1      0
  FAM151A WILD-TYPE     51     72     60     70     95
D1180V9, multiclass
        clus
vv       FAM151A MUTATED FAM151A WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM151A MUTATED        1      2      0      1      2      0      0      0
  FAM151A WILD-TYPE     68     46     39     15     51     20     21     38
                   vv
clus                CLUS_9
  FAM151A MUTATED        0
  FAM151A WILD-TYPE     50
D1180V10, multiclass
        clus
vv       FAM151A MUTATED FAM151A WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM151A MUTATED        0      0      0      0      1      0
  FAM151A WILD-TYPE     13     16     14     11     10      9
D1180V11, multiclass
[1] "Remove cluster labels:" "FAM151A MUTATED"       
clus
  FAM151A MUTATED FAM151A WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-G4-6628 
"FAM151A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM151A MUTATED        0      0      0      0      0      0      1      0
  FAM151A WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  FAM151A MUTATED        0
  FAM151A WILD-TYPE      5
D1180V12, multiclass
[1] "Remove cluster labels:" "FAM151A MUTATED"       
clus
  FAM151A MUTATED FAM151A WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" "FAM151A WILD-TYPE" 
       TCGA-G4-6628 
"FAM151A WILD-TYPE" 

Clustering(1181) Variable = SYNGR4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNGR4 MUTATED        0      0      1      1      0
  SYNGR4 WILD-TYPE     32     18     45     26     23
D1181V1, multiclass
[1] "Remove cluster labels:" "SYNGR4 MUTATED"        
clus
  SYNGR4 MUTATED SYNGR4 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SYNGR4 MUTATED        1      0      1
  SYNGR4 WILD-TYPE     42     67     35
D1181V2, multiclass
[1] "Remove cluster labels:" "SYNGR4 MUTATED"        
clus
  SYNGR4 MUTATED SYNGR4 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SYNGR4 MUTATED        0      2      4
  SYNGR4 WILD-TYPE     42    171    143
D1181V3, multiclass
        clus
vv       SYNGR4 MUTATED SYNGR4 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SYNGR4 MUTATED        2      0      2
  SYNGR4 WILD-TYPE     60     73     73
D1181V4, multiclass
        clus
vv       SYNGR4 MUTATED SYNGR4 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SYNGR4 MUTATED        1      1      4
  SYNGR4 WILD-TYPE     69    119     96
D1181V5, multiclass
        clus
vv       SYNGR4 MUTATED SYNGR4 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNGR4 MUTATED        1      0      0      0      1      4      0      0
  SYNGR4 WILD-TYPE     40     26     30     29     38     65     20     14
                  vv
clus               CLUS_9
  SYNGR4 MUTATED        0
  SYNGR4 WILD-TYPE     22
D1181V6, multiclass
        clus
vv       SYNGR4 MUTATED SYNGR4 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SYNGR4 MUTATED        0      2      2      2
  SYNGR4 WILD-TYPE    100     70     70    119
D1181V7, multiclass
        clus
vv       SYNGR4 MUTATED SYNGR4 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNGR4 MUTATED        0      1      3      1      1
  SYNGR4 WILD-TYPE     59     74     71    118     37
D1181V8, multiclass
        clus
vv       SYNGR4 MUTATED SYNGR4 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNGR4 MUTATED        0      2      1      0      2
  SYNGR4 WILD-TYPE     51     74     60     71     93
D1181V9, multiclass
        clus
vv       SYNGR4 MUTATED SYNGR4 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNGR4 MUTATED        1      2      0      0      0      0      0      0
  SYNGR4 WILD-TYPE     68     46     39     16     53     20     21     38
                  vv
clus               CLUS_9
  SYNGR4 MUTATED        2
  SYNGR4 WILD-TYPE     48
D1181V10, multiclass
        clus
vv       SYNGR4 MUTATED SYNGR4 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SYNGR4 MUTATED        0      1      0      0      1      0
  SYNGR4 WILD-TYPE     13     15     14     11     10      9
D1181V11, multiclass
[1] "Remove cluster labels:" "SYNGR4 MUTATED"        
clus
  SYNGR4 MUTATED SYNGR4 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901       TCGA-AD-6963 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196       TCGA-AZ-4323 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNGR4 MUTATED        0      0      0      0      0      1      1      0
  SYNGR4 WILD-TYPE     11      7      7      9      8      6     10      9
                  vv
clus               CLUS_9
  SYNGR4 MUTATED        0
  SYNGR4 WILD-TYPE      5
D1181V12, multiclass
[1] "Remove cluster labels:" "SYNGR4 MUTATED"        
clus
  SYNGR4 MUTATED SYNGR4 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901       TCGA-AD-6963 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196       TCGA-AZ-4323 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" "SYNGR4 WILD-TYPE" 

Clustering(1182) Variable = ADH7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADH7 MUTATED        1      0      0      2      0
  ADH7 WILD-TYPE     31     18     46     25     23
D1182V1, multiclass
        clus
vv       ADH7 MUTATED ADH7 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADH7 MUTATED        1      2      0
  ADH7 WILD-TYPE     42     65     36
D1182V2, multiclass
        clus
vv       ADH7 MUTATED ADH7 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADH7 MUTATED        2      0      4
  ADH7 WILD-TYPE     40    173    143
D1182V3, multiclass
        clus
vv       ADH7 MUTATED ADH7 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            0            173
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADH7 MUTATED        1      1      2
  ADH7 WILD-TYPE     61     72     73
D1182V4, multiclass
        clus
vv       ADH7 MUTATED ADH7 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADH7 MUTATED        0      6      1
  ADH7 WILD-TYPE     70    114     99
D1182V5, multiclass
        clus
vv       ADH7 MUTATED ADH7 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            114
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ADH7 MUTATED        0      0      1      1      0      1      1      2      1
  ADH7 WILD-TYPE     41     26     29     28     39     68     19     12     21
D1182V6, multiclass
        clus
vv       ADH7 MUTATED ADH7 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADH7 MUTATED        2      3      0      2
  ADH7 WILD-TYPE     98     69     72    119
D1182V7, multiclass
        clus
vv       ADH7 MUTATED ADH7 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            0             72
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADH7 MUTATED        0      3      1      2      1
  ADH7 WILD-TYPE     59     72     73    117     37
D1182V8, multiclass
        clus
vv       ADH7 MUTATED ADH7 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            3             72
  CLUS_3            1             73
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADH7 MUTATED        1      1      1      0      4
  ADH7 WILD-TYPE     50     75     60     71     91
D1182V9, multiclass
        clus
vv       ADH7 MUTATED ADH7 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ADH7 MUTATED        0      1      2      0      0      2      0      1      1
  ADH7 WILD-TYPE     69     47     37     16     53     18     21     37     49
D1182V10, multiclass
        clus
vv       ADH7 MUTATED ADH7 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            2             37
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADH7 MUTATED        0      0      0      0      0      0
  ADH7 WILD-TYPE     13     16     14     11     11      9
D1182V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ADH7 MUTATED        0      0      0      0      0      0      0      0      0
  ADH7 WILD-TYPE     11      7      7      9      8      7     11      9      5
D1182V12, multiclass

Clustering(1183) Variable = KLF3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF3 MUTATED        1      1      0      0      0
  KLF3 WILD-TYPE     31     17     46     27     23
D1183V1, multiclass
[1] "Remove cluster labels:" "KLF3 MUTATED"          
clus
  KLF3 MUTATED KLF3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3939     TCGA-AA-3941 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF3 MUTATED        1      0      1
  KLF3 WILD-TYPE     42     67     35
D1183V2, multiclass
[1] "Remove cluster labels:" "KLF3 MUTATED"          
clus
  KLF3 MUTATED KLF3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3939     TCGA-AA-3941 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" "KLF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF3 MUTATED        0      2      5
  KLF3 WILD-TYPE     42    171    142
D1183V3, multiclass
        clus
vv       KLF3 MUTATED KLF3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF3 MUTATED        1      0      4
  KLF3 WILD-TYPE     61     73     71
D1183V4, multiclass
        clus
vv       KLF3 MUTATED KLF3 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF3 MUTATED        0      4      1
  KLF3 WILD-TYPE     70    116     99
D1183V5, multiclass
        clus
vv       KLF3 MUTATED KLF3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLF3 MUTATED        0      0      1      3      0      1      0      0      0
  KLF3 WILD-TYPE     41     26     29     26     39     68     20     14     22
D1183V6, multiclass
        clus
vv       KLF3 MUTATED KLF3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLF3 MUTATED        0      4      1      2
  KLF3 WILD-TYPE    100     68     71    119
D1183V7, multiclass
        clus
vv       KLF3 MUTATED KLF3 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF3 MUTATED        0      1      4      2      0
  KLF3 WILD-TYPE     59     74     70    117     38
D1183V8, multiclass
        clus
vv       KLF3 MUTATED KLF3 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF3 MUTATED        0      3      1      2      1
  KLF3 WILD-TYPE     51     73     60     69     94
D1183V9, multiclass
        clus
vv       KLF3 MUTATED KLF3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLF3 MUTATED        1      1      0      2      0      0      1      1      1
  KLF3 WILD-TYPE     68     47     39     14     53     20     20     37     49
D1183V10, multiclass
        clus
vv       KLF3 MUTATED KLF3 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLF3 MUTATED        0      0      0      0      0      0
  KLF3 WILD-TYPE     13     16     14     11     11      9
D1183V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLF3 MUTATED        0      0      0      0      0      0      0      0      0
  KLF3 WILD-TYPE     11      7      7      9      8      7     11      9      5
D1183V12, multiclass

Clustering(1184) Variable = ARHGAP28 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP28 MUTATED        5      0      0      1      0
  ARHGAP28 WILD-TYPE     27     18     46     26     23
D1184V1, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                5                 27
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP28 MUTATED        5      1      0
  ARHGAP28 WILD-TYPE     38     66     36
D1184V2, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                5                 38
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP28 MUTATED        0      0     13
  ARHGAP28 WILD-TYPE     42    173    134
D1184V3, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3               13                134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP28 MUTATED        4      0      3
  ARHGAP28 WILD-TYPE     58     73     72
D1184V4, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                0                 73
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP28 MUTATED        1      4      7
  ARHGAP28 WILD-TYPE     69    116     93
D1184V5, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                4                116
  CLUS_3                7                 93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP28 MUTATED        1      1      1      1      2      6      0      0
  ARHGAP28 WILD-TYPE     40     25     29     28     37     63     20     14
                    vv
clus                 CLUS_9
  ARHGAP28 MUTATED        0
  ARHGAP28 WILD-TYPE     22
D1184V6, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                2                 37
  CLUS_6                6                 63
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGAP28 MUTATED        0      4      3      6
  ARHGAP28 WILD-TYPE    100     68     69    115
D1184V7, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                4                 68
  CLUS_3                3                 69
  CLUS_4                6                115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP28 MUTATED        0      0      7      1      5
  ARHGAP28 WILD-TYPE     59     75     67    118     33
D1184V8, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                7                 67
  CLUS_4                1                118
  CLUS_5                5                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP28 MUTATED        0      7      0      0      6
  ARHGAP28 WILD-TYPE     51     69     61     71     89
D1184V9, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                7                 69
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                6                 89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP28 MUTATED        2      2      0      3      0      1      1      4
  ARHGAP28 WILD-TYPE     67     46     39     13     53     19     20     34
                    vv
clus                 CLUS_9
  ARHGAP28 MUTATED        0
  ARHGAP28 WILD-TYPE     50
D1184V10, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                3                 13
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                1                 20
  CLUS_8                4                 34
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARHGAP28 MUTATED        0      0      2      0      3      0
  ARHGAP28 WILD-TYPE     13     16     12     11      8      9
D1184V11, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                0                 16
  CLUS_3                2                 12
  CLUS_4                0                 11
  CLUS_5                3                  8
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGAP28 MUTATED        0      0      0      2      0      2      1      0
  ARHGAP28 WILD-TYPE     11      7      7      7      8      5     10      9
                    vv
clus                 CLUS_9
  ARHGAP28 MUTATED        0
  ARHGAP28 WILD-TYPE      5
D1184V12, multiclass
        clus
vv       ARHGAP28 MUTATED ARHGAP28 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                2                  7
  CLUS_5                0                  8
  CLUS_6                2                  5
  CLUS_7                1                 10
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1185) Variable = SLC38A5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC38A5 MUTATED        0      0      0      1      0
  SLC38A5 WILD-TYPE     32     18     46     26     23
D1185V1, multiclass
[1] "Remove cluster labels:" "SLC38A5 MUTATED"       
clus
  SLC38A5 MUTATED SLC38A5 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808        TCGA-A6-3809 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AY-4071 
"SLC38A5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A5 MUTATED        0      1      0
  SLC38A5 WILD-TYPE     43     66     36
D1185V2, multiclass
[1] "Remove cluster labels:" "SLC38A5 MUTATED"       
clus
  SLC38A5 MUTATED SLC38A5 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808        TCGA-A6-3809 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AY-4071 
"SLC38A5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A5 MUTATED        0      2      4
  SLC38A5 WILD-TYPE     42    171    143
D1185V3, multiclass
        clus
vv       SLC38A5 MUTATED SLC38A5 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A5 MUTATED        1      0      4
  SLC38A5 WILD-TYPE     61     73     71
D1185V4, multiclass
        clus
vv       SLC38A5 MUTATED SLC38A5 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               0                73
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A5 MUTATED        1      2      1
  SLC38A5 WILD-TYPE     69    118     99
D1185V5, multiclass
        clus
vv       SLC38A5 MUTATED SLC38A5 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC38A5 MUTATED        0      0      1      2      0      1      0      0
  SLC38A5 WILD-TYPE     41     26     29     27     39     68     20     14
                   vv
clus                CLUS_9
  SLC38A5 MUTATED        0
  SLC38A5 WILD-TYPE     22
D1185V6, multiclass
        clus
vv       SLC38A5 MUTATED SLC38A5 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC38A5 MUTATED        0      4      1      1
  SLC38A5 WILD-TYPE    100     68     71    120
D1185V7, multiclass
        clus
vv       SLC38A5 MUTATED SLC38A5 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               4                68
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC38A5 MUTATED        1      0      4      1      0
  SLC38A5 WILD-TYPE     58     75     70    118     38
D1185V8, multiclass
        clus
vv       SLC38A5 MUTATED SLC38A5 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC38A5 MUTATED        0      4      1      0      1
  SLC38A5 WILD-TYPE     51     72     60     71     94
D1185V9, multiclass
        clus
vv       SLC38A5 MUTATED SLC38A5 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC38A5 MUTATED        2      1      0      2      1      0      0      0
  SLC38A5 WILD-TYPE     67     47     39     14     52     20     21     38
                   vv
clus                CLUS_9
  SLC38A5 MUTATED        0
  SLC38A5 WILD-TYPE     50
D1185V10, multiclass
        clus
vv       SLC38A5 MUTATED SLC38A5 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC38A5 MUTATED        0      0      1      0      0      0
  SLC38A5 WILD-TYPE     13     16     13     11     11      9
D1185V11, multiclass
[1] "Remove cluster labels:" "SLC38A5 MUTATED"       
clus
  SLC38A5 MUTATED SLC38A5 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-G4-6628 
"SLC38A5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC38A5 MUTATED        1      0      0      0      0      0      0      0
  SLC38A5 WILD-TYPE     10      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  SLC38A5 MUTATED        0
  SLC38A5 WILD-TYPE      5
D1185V12, multiclass
[1] "Remove cluster labels:" "SLC38A5 MUTATED"       
clus
  SLC38A5 MUTATED SLC38A5 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" "SLC38A5 WILD-TYPE" 
       TCGA-G4-6628 
"SLC38A5 WILD-TYPE" 

Clustering(1186) Variable = HIST1H1A MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1A MUTATED        1      0      0      1      0
  HIST1H1A WILD-TYPE     31     18     46     26     23
D1186V1, multiclass
[1] "Remove cluster labels:" "HIST1H1A MUTATED"      
clus
  HIST1H1A MUTATED HIST1H1A WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A029 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1A MUTATED        1      1      0
  HIST1H1A WILD-TYPE     42     66     36
D1186V2, multiclass
[1] "Remove cluster labels:" "HIST1H1A MUTATED"      
clus
  HIST1H1A MUTATED HIST1H1A WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A029 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1A MUTATED        1      1      7
  HIST1H1A WILD-TYPE     41    172    140
D1186V3, multiclass
        clus
vv       HIST1H1A MUTATED HIST1H1A WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                1                172
  CLUS_3                7                140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1A MUTATED        2      2      2
  HIST1H1A WILD-TYPE     60     71     73
D1186V4, multiclass
        clus
vv       HIST1H1A MUTATED HIST1H1A WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                2                 71
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1A MUTATED        3      3      3
  HIST1H1A WILD-TYPE     67    117     97
D1186V5, multiclass
        clus
vv       HIST1H1A MUTATED HIST1H1A WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                3                117
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1A MUTATED        0      1      2      0      2      2      0      1
  HIST1H1A WILD-TYPE     41     25     28     29     37     67     20     13
                    vv
clus                 CLUS_9
  HIST1H1A MUTATED        1
  HIST1H1A WILD-TYPE     21
D1186V6, multiclass
        clus
vv       HIST1H1A MUTATED HIST1H1A WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                2                 28
  CLUS_4                0                 29
  CLUS_5                2                 37
  CLUS_6                2                 67
  CLUS_7                0                 20
  CLUS_8                1                 13
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST1H1A MUTATED        1      5      1      2
  HIST1H1A WILD-TYPE     99     67     71    119
D1186V7, multiclass
        clus
vv       HIST1H1A MUTATED HIST1H1A WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                5                 67
  CLUS_3                1                 71
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1A MUTATED        1      2      3      1      2
  HIST1H1A WILD-TYPE     58     73     71    118     36
D1186V8, multiclass
        clus
vv       HIST1H1A MUTATED HIST1H1A WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                2                 73
  CLUS_3                3                 71
  CLUS_4                1                118
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1A MUTATED        0      1      2      1      5
  HIST1H1A WILD-TYPE     51     75     59     70     90
D1186V9, multiclass
        clus
vv       HIST1H1A MUTATED HIST1H1A WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                1                 75
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                5                 90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1A MUTATED        3      0      0      1      0      0      0      3
  HIST1H1A WILD-TYPE     66     48     39     15     53     20     21     35
                    vv
clus                 CLUS_9
  HIST1H1A MUTATED        2
  HIST1H1A WILD-TYPE     48
D1186V10, multiclass
        clus
vv       HIST1H1A MUTATED HIST1H1A WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                0                 48
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                3                 35
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIST1H1A MUTATED        0      0      1      0      0      0
  HIST1H1A WILD-TYPE     13     16     13     11     11      9
D1186V11, multiclass
[1] "Remove cluster labels:" "HIST1H1A MUTATED"      
clus
  HIST1H1A MUTATED HIST1H1A WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-6142         TCGA-A6-6649         TCGA-A6-6651 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6781 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-G4-6628 
"HIST1H1A WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1A MUTATED        0      0      0      0      1      0      0      0
  HIST1H1A WILD-TYPE     11      7      7      9      7      7     11      9
                    vv
clus                 CLUS_9
  HIST1H1A MUTATED        0
  HIST1H1A WILD-TYPE      5
D1186V12, multiclass
[1] "Remove cluster labels:" "HIST1H1A MUTATED"      
clus
  HIST1H1A MUTATED HIST1H1A WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-6142         TCGA-A6-6649         TCGA-A6-6651 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6781 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" "HIST1H1A WILD-TYPE" 
        TCGA-G4-6628 
"HIST1H1A WILD-TYPE" 

Clustering(1187) Variable = OR7D4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR7D4 MUTATED        1      0      0      0      0
  OR7D4 WILD-TYPE     31     18     46     27     23
D1187V1, multiclass
[1] "Remove cluster labels:" "OR7D4 MUTATED"         
clus
  OR7D4 MUTATED OR7D4 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AY-4071 
"OR7D4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7D4 MUTATED        1      0      0
  OR7D4 WILD-TYPE     42     67     36
D1187V2, multiclass
[1] "Remove cluster labels:" "OR7D4 MUTATED"         
clus
  OR7D4 MUTATED OR7D4 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" "OR7D4 WILD-TYPE" 
     TCGA-AY-4071 
"OR7D4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7D4 MUTATED        1      3      5
  OR7D4 WILD-TYPE     41    170    142
D1187V3, multiclass
        clus
vv       OR7D4 MUTATED OR7D4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7D4 MUTATED        3      3      2
  OR7D4 WILD-TYPE     59     70     73
D1187V4, multiclass
        clus
vv       OR7D4 MUTATED OR7D4 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR7D4 MUTATED        0      5      3
  OR7D4 WILD-TYPE     70    115     97
D1187V5, multiclass
        clus
vv       OR7D4 MUTATED OR7D4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR7D4 MUTATED        2      3      0      0      1      1      0      1
  OR7D4 WILD-TYPE     39     23     30     29     38     68     20     13
                 vv
clus              CLUS_9
  OR7D4 MUTATED        0
  OR7D4 WILD-TYPE     22
D1187V6, multiclass
        clus
vv       OR7D4 MUTATED OR7D4 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             3              23
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR7D4 MUTATED        4      1      2      2
  OR7D4 WILD-TYPE     96     71     70    119
D1187V7, multiclass
        clus
vv       OR7D4 MUTATED OR7D4 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR7D4 MUTATED        4      3      0      1      1
  OR7D4 WILD-TYPE     55     72     74    118     37
D1187V8, multiclass
        clus
vv       OR7D4 MUTATED OR7D4 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             3              72
  CLUS_3             0              74
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR7D4 MUTATED        3      0      2      2      2
  OR7D4 WILD-TYPE     48     76     59     69     93
D1187V9, multiclass
        clus
vv       OR7D4 MUTATED OR7D4 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             0              76
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR7D4 MUTATED        3      1      3      0      1      0      0      0
  OR7D4 WILD-TYPE     66     47     36     16     52     20     21     38
                 vv
clus              CLUS_9
  OR7D4 MUTATED        1
  OR7D4 WILD-TYPE     49
D1187V10, multiclass
        clus
vv       OR7D4 MUTATED OR7D4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             3              36
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR7D4 MUTATED        1      0      0      1      0      2
  OR7D4 WILD-TYPE     12     16     14     10     11      7
D1187V11, multiclass
        clus
vv       OR7D4 MUTATED OR7D4 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR7D4 MUTATED        1      0      0      0      0      0      1      2
  OR7D4 WILD-TYPE     10      7      7      9      8      7     10      7
                 vv
clus              CLUS_9
  OR7D4 MUTATED        0
  OR7D4 WILD-TYPE      5
D1187V12, multiclass
        clus
vv       OR7D4 MUTATED OR7D4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             2               7
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1188) Variable = OSR1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSR1 MUTATED        0      0      0      0      0
  OSR1 WILD-TYPE     32     18     46     27     23
D1188V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OSR1 MUTATED        0      0      0
  OSR1 WILD-TYPE     43     67     36
D1188V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OSR1 MUTATED        1      0      3
  OSR1 WILD-TYPE     41    173    144
D1188V3, multiclass
        clus
vv       OSR1 MUTATED OSR1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OSR1 MUTATED        1      1      2
  OSR1 WILD-TYPE     61     72     73
D1188V4, multiclass
        clus
vv       OSR1 MUTATED OSR1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OSR1 MUTATED        1      1      1
  OSR1 WILD-TYPE     69    119     99
D1188V5, multiclass
        clus
vv       OSR1 MUTATED OSR1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OSR1 MUTATED        0      0      0      0      0      1      1      0      1
  OSR1 WILD-TYPE     41     26     30     29     39     68     19     14     21
D1188V6, multiclass
        clus
vv       OSR1 MUTATED OSR1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OSR1 MUTATED        1      3      0      0
  OSR1 WILD-TYPE     99     69     72    121
D1188V7, multiclass
        clus
vv       OSR1 MUTATED OSR1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            0             72
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSR1 MUTATED        0      2      2      0      0
  OSR1 WILD-TYPE     59     73     72    119     38
D1188V8, multiclass
        clus
vv       OSR1 MUTATED OSR1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSR1 MUTATED        1      2      0      1      0
  OSR1 WILD-TYPE     50     74     61     70     95
D1188V9, multiclass
        clus
vv       OSR1 MUTATED OSR1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OSR1 MUTATED        3      0      0      0      0      1      0      0      0
  OSR1 WILD-TYPE     66     48     39     16     53     19     21     38     50
D1188V10, multiclass
        clus
vv       OSR1 MUTATED OSR1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OSR1 MUTATED        0      0      0      0      0      0
  OSR1 WILD-TYPE     13     16     14     11     11      9
D1188V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  OSR1 MUTATED        0      0      0      0      0      0      0      0      0
  OSR1 WILD-TYPE     11      7      7      9      8      7     11      9      5
D1188V12, multiclass

Clustering(1189) Variable = MAP2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP2 MUTATED        8      0      0      4      1
  MAP2 WILD-TYPE     24     18     46     23     22
D1189V1, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1            8             24
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            4             23
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP2 MUTATED        8      3      2
  MAP2 WILD-TYPE     35     64     34
D1189V2, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1            8             35
  CLUS_2            3             64
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP2 MUTATED        1      7     27
  MAP2 WILD-TYPE     41    166    120
D1189V3, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            7            166
  CLUS_3           27            120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP2 MUTATED        9      4      9
  MAP2 WILD-TYPE     53     69     66
D1189V4, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1            9             53
  CLUS_2            4             69
  CLUS_3            9             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP2 MUTATED       10      8     10
  MAP2 WILD-TYPE     60    112     90
D1189V5, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1           10             60
  CLUS_2            8            112
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAP2 MUTATED        6      1      2      1      3      9      2      3      1
  MAP2 WILD-TYPE     35     25     28     28     36     60     18     11     21
D1189V6, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1            6             35
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            3             36
  CLUS_6            9             60
  CLUS_7            2             18
  CLUS_8            3             11
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP2 MUTATED        4     10      8     14
  MAP2 WILD-TYPE     96     62     64    107
D1189V7, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1            4             96
  CLUS_2           10             62
  CLUS_3            8             64
  CLUS_4           14            107
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP2 MUTATED        4      4     13      7      8
  MAP2 WILD-TYPE     55     71     61    112     30
D1189V8, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            4             71
  CLUS_3           13             61
  CLUS_4            7            112
  CLUS_5            8             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP2 MUTATED        4     11      4      5     11
  MAP2 WILD-TYPE     47     65     57     66     84
D1189V9, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1            4             47
  CLUS_2           11             65
  CLUS_3            4             57
  CLUS_4            5             66
  CLUS_5           11             84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAP2 MUTATED        6      5      3      3      5      2      3      5      3
  MAP2 WILD-TYPE     63     43     36     13     48     18     18     33     47
D1189V10, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            5             43
  CLUS_3            3             36
  CLUS_4            3             13
  CLUS_5            5             48
  CLUS_6            2             18
  CLUS_7            3             18
  CLUS_8            5             33
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAP2 MUTATED        1      2      1      1      4      0
  MAP2 WILD-TYPE     12     14     13     10      7      9
D1189V11, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAP2 MUTATED        0      1      0      0      2      1      3      1      1
  MAP2 WILD-TYPE     11      6      7      9      6      6      8      8      4
D1189V12, multiclass
        clus
vv       MAP2 MUTATED MAP2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            2              6
  CLUS_6            1              6
  CLUS_7            3              8
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1190) Variable = UPF2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UPF2 MUTATED        3      0      0      2      0
  UPF2 WILD-TYPE     29     18     46     25     23
D1190V1, multiclass
        clus
vv       UPF2 MUTATED UPF2 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UPF2 MUTATED        4      1      0
  UPF2 WILD-TYPE     39     66     36
D1190V2, multiclass
        clus
vv       UPF2 MUTATED UPF2 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UPF2 MUTATED        1      1     14
  UPF2 WILD-TYPE     41    172    133
D1190V3, multiclass
        clus
vv       UPF2 MUTATED UPF2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3           14            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UPF2 MUTATED        4      0      6
  UPF2 WILD-TYPE     58     73     69
D1190V4, multiclass
        clus
vv       UPF2 MUTATED UPF2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UPF2 MUTATED        2      5      7
  UPF2 WILD-TYPE     68    115     93
D1190V5, multiclass
        clus
vv       UPF2 MUTATED UPF2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UPF2 MUTATED        2      0      1      3      1      4      3      0      0
  UPF2 WILD-TYPE     39     26     29     26     38     65     17     14     22
D1190V6, multiclass
        clus
vv       UPF2 MUTATED UPF2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UPF2 MUTATED        1      7      4      4
  UPF2 WILD-TYPE     99     65     68    117
D1190V7, multiclass
        clus
vv       UPF2 MUTATED UPF2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            7             65
  CLUS_3            4             68
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UPF2 MUTATED        1      3      7      1      4
  UPF2 WILD-TYPE     58     72     67    118     34
D1190V8, multiclass
        clus
vv       UPF2 MUTATED UPF2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            7             67
  CLUS_4            1            118
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UPF2 MUTATED        1      7      2      0      5
  UPF2 WILD-TYPE     50     69     59     71     90
D1190V9, multiclass
        clus
vv       UPF2 MUTATED UPF2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            7             69
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UPF2 MUTATED        2      4      0      2      1      0      1      3      2
  UPF2 WILD-TYPE     67     44     39     14     52     20     20     35     48
D1190V10, multiclass
        clus
vv       UPF2 MUTATED UPF2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UPF2 MUTATED        0      0      0      0      2      0
  UPF2 WILD-TYPE     13     16     14     11      9      9
D1190V11, multiclass
[1] "Remove cluster labels:" "UPF2 MUTATED"          
clus
  UPF2 MUTATED UPF2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-6748 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UPF2 MUTATED        0      0      0      0      0      0      2      0      0
  UPF2 WILD-TYPE     11      7      7      9      8      7      9      9      5
D1190V12, multiclass
[1] "Remove cluster labels:" "UPF2 MUTATED"          
clus
  UPF2 MUTATED UPF2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-6748 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" "UPF2 WILD-TYPE" 

Clustering(1191) Variable = MFSD6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFSD6 MUTATED        1      0      0      0      0
  MFSD6 WILD-TYPE     31     18     46     27     23
D1191V1, multiclass
[1] "Remove cluster labels:" "MFSD6 MUTATED"         
clus
  MFSD6 MUTATED MFSD6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3950 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AY-4071 
"MFSD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD6 MUTATED        1      0      0
  MFSD6 WILD-TYPE     42     67     36
D1191V2, multiclass
[1] "Remove cluster labels:" "MFSD6 MUTATED"         
clus
  MFSD6 MUTATED MFSD6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3950 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" "MFSD6 WILD-TYPE" 
     TCGA-AY-4071 
"MFSD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD6 MUTATED        2      3      2
  MFSD6 WILD-TYPE     40    170    145
D1191V3, multiclass
        clus
vv       MFSD6 MUTATED MFSD6 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD6 MUTATED        2      3      1
  MFSD6 WILD-TYPE     60     70     74
D1191V4, multiclass
        clus
vv       MFSD6 MUTATED MFSD6 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             3              70
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD6 MUTATED        1      1      4
  MFSD6 WILD-TYPE     69    119     96
D1191V5, multiclass
        clus
vv       MFSD6 MUTATED MFSD6 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MFSD6 MUTATED        1      0      0      0      0      4      0      1
  MFSD6 WILD-TYPE     40     26     30     29     39     65     20     13
                 vv
clus              CLUS_9
  MFSD6 MUTATED        0
  MFSD6 WILD-TYPE     22
D1191V6, multiclass
        clus
vv       MFSD6 MUTATED MFSD6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MFSD6 MUTATED        3      1      2      1
  MFSD6 WILD-TYPE     97     71     70    120
D1191V7, multiclass
        clus
vv       MFSD6 MUTATED MFSD6 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFSD6 MUTATED        1      2      3      0      1
  MFSD6 WILD-TYPE     58     73     71    119     37
D1191V8, multiclass
        clus
vv       MFSD6 MUTATED MFSD6 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFSD6 MUTATED        1      4      1      0      1
  MFSD6 WILD-TYPE     50     72     60     71     94
D1191V9, multiclass
        clus
vv       MFSD6 MUTATED MFSD6 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MFSD6 MUTATED        2      2      1      0      0      1      1      0
  MFSD6 WILD-TYPE     67     46     38     16     53     19     20     38
                 vv
clus              CLUS_9
  MFSD6 MUTATED        0
  MFSD6 WILD-TYPE     50
D1191V10, multiclass
        clus
vv       MFSD6 MUTATED MFSD6 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MFSD6 MUTATED        2      1      1      0      0      0
  MFSD6 WILD-TYPE     11     15     13     11     11      9
D1191V11, multiclass
        clus
vv       MFSD6 MUTATED MFSD6 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MFSD6 MUTATED        0      0      0      0      1      0      1      1
  MFSD6 WILD-TYPE     11      7      7      9      7      7     10      8
                 vv
clus              CLUS_9
  MFSD6 MUTATED        1
  MFSD6 WILD-TYPE      4
D1191V12, multiclass
        clus
vv       MFSD6 MUTATED MFSD6 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1192) Variable = CACNA1D MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNA1D MUTATED        1      0      0      2      0
  CACNA1D WILD-TYPE     31     18     46     25     23
D1192V1, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1D MUTATED        1      2      0
  CACNA1D WILD-TYPE     42     65     36
D1192V2, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               1                42
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1D MUTATED        2      0     20
  CACNA1D WILD-TYPE     40    173    127
D1192V3, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               2                40
  CLUS_2               0               173
  CLUS_3              20               127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1D MUTATED        7      0     10
  CACNA1D WILD-TYPE     55     73     65
D1192V4, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               7                55
  CLUS_2               0                73
  CLUS_3              10                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1D MUTATED        3      7      9
  CACNA1D WILD-TYPE     67    113     91
D1192V5, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               3                67
  CLUS_2               7               113
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACNA1D MUTATED        3      0      3      3      0      8      0      2
  CACNA1D WILD-TYPE     38     26     27     26     39     61     20     12
                   vv
clus                CLUS_9
  CACNA1D MUTATED        0
  CACNA1D WILD-TYPE     22
D1192V6, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               3                38
  CLUS_2               0                26
  CLUS_3               3                27
  CLUS_4               3                26
  CLUS_5               0                39
  CLUS_6               8                61
  CLUS_7               0                20
  CLUS_8               2                12
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNA1D MUTATED        0      9      8      5
  CACNA1D WILD-TYPE    100     63     64    116
D1192V7, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               0               100
  CLUS_2               9                63
  CLUS_3               8                64
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNA1D MUTATED        1      2     14      2      3
  CACNA1D WILD-TYPE     58     73     60    117     35
D1192V8, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3              14                60
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNA1D MUTATED        1     12      2      1      5
  CACNA1D WILD-TYPE     50     64     59     70     90
D1192V9, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               1                50
  CLUS_2              12                64
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACNA1D MUTATED        1      7      0      5      1      3      0      3
  CACNA1D WILD-TYPE     68     41     39     11     52     17     21     35
                   vv
clus                CLUS_9
  CACNA1D MUTATED        1
  CACNA1D WILD-TYPE     49
D1192V10, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               1                68
  CLUS_2               7                41
  CLUS_3               0                39
  CLUS_4               5                11
  CLUS_5               1                52
  CLUS_6               3                17
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CACNA1D MUTATED        1      1      1      0      6      0
  CACNA1D WILD-TYPE     12     15     13     11      5      9
D1192V11, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               1                12
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               6                 5
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACNA1D MUTATED        0      0      0      3      0      1      4      0
  CACNA1D WILD-TYPE     11      7      7      6      8      6      7      9
                   vv
clus                CLUS_9
  CACNA1D MUTATED        1
  CACNA1D WILD-TYPE      4
D1192V12, multiclass
        clus
vv       CACNA1D MUTATED CACNA1D WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               3                 6
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               4                 7
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1193) Variable = OR9Q1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR9Q1 MUTATED        0      0      0      0      0
  OR9Q1 WILD-TYPE     32     18     46     27     23
D1193V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9Q1 MUTATED        0      0      0
  OR9Q1 WILD-TYPE     43     67     36
D1193V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9Q1 MUTATED        0      1      5
  OR9Q1 WILD-TYPE     42    172    142
D1193V3, multiclass
        clus
vv       OR9Q1 MUTATED OR9Q1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9Q1 MUTATED        1      1      4
  OR9Q1 WILD-TYPE     61     72     71
D1193V4, multiclass
        clus
vv       OR9Q1 MUTATED OR9Q1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9Q1 MUTATED        2      2      1
  OR9Q1 WILD-TYPE     68    118     99
D1193V5, multiclass
        clus
vv       OR9Q1 MUTATED OR9Q1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             118
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR9Q1 MUTATED        0      1      0      0      1      1      1      0
  OR9Q1 WILD-TYPE     41     25     30     29     38     68     19     14
                 vv
clus              CLUS_9
  OR9Q1 MUTATED        1
  OR9Q1 WILD-TYPE     21
D1193V6, multiclass
        clus
vv       OR9Q1 MUTATED OR9Q1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR9Q1 MUTATED        1      3      2      0
  OR9Q1 WILD-TYPE     99     69     70    121
D1193V7, multiclass
        clus
vv       OR9Q1 MUTATED OR9Q1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR9Q1 MUTATED        0      1      5      0      0
  OR9Q1 WILD-TYPE     59     74     69    119     38
D1193V8, multiclass
        clus
vv       OR9Q1 MUTATED OR9Q1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR9Q1 MUTATED        1      5      0      0      0
  OR9Q1 WILD-TYPE     50     71     61     71     95
D1193V9, multiclass
        clus
vv       OR9Q1 MUTATED OR9Q1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR9Q1 MUTATED        1      1      0      3      0      1      0      0
  OR9Q1 WILD-TYPE     68     47     39     13     53     19     21     38
                 vv
clus              CLUS_9
  OR9Q1 MUTATED        0
  OR9Q1 WILD-TYPE     50
D1193V10, multiclass
        clus
vv       OR9Q1 MUTATED OR9Q1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR9Q1 MUTATED        0      0      1      0      2      0
  OR9Q1 WILD-TYPE     13     16     13     11      9      9
D1193V11, multiclass
        clus
vv       OR9Q1 MUTATED OR9Q1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR9Q1 MUTATED        0      0      0      1      1      1      0      0
  OR9Q1 WILD-TYPE     11      7      7      8      7      6     11      9
                 vv
clus              CLUS_9
  OR9Q1 MUTATED        0
  OR9Q1 WILD-TYPE      5
D1193V12, multiclass
        clus
vv       OR9Q1 MUTATED OR9Q1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1194) Variable = SSRP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SSRP1 MUTATED        1      0      0      0      0
  SSRP1 WILD-TYPE     31     18     46     27     23
D1194V1, multiclass
[1] "Remove cluster labels:" "SSRP1 MUTATED"         
clus
  SSRP1 MUTATED SSRP1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AY-4071 
"SSRP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SSRP1 MUTATED        1      0      0
  SSRP1 WILD-TYPE     42     67     36
D1194V2, multiclass
[1] "Remove cluster labels:" "SSRP1 MUTATED"         
clus
  SSRP1 MUTATED SSRP1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" "SSRP1 WILD-TYPE" 
     TCGA-AY-4071 
"SSRP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SSRP1 MUTATED        0      3     10
  SSRP1 WILD-TYPE     42    170    137
D1194V3, multiclass
        clus
vv       SSRP1 MUTATED SSRP1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SSRP1 MUTATED        6      3      3
  SSRP1 WILD-TYPE     56     70     72
D1194V4, multiclass
        clus
vv       SSRP1 MUTATED SSRP1 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SSRP1 MUTATED        1      2      7
  SSRP1 WILD-TYPE     69    118     93
D1194V5, multiclass
        clus
vv       SSRP1 MUTATED SSRP1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SSRP1 MUTATED        1      1      0      0      0      5      2      1
  SSRP1 WILD-TYPE     40     25     30     29     39     64     18     13
                 vv
clus              CLUS_9
  SSRP1 MUTATED        0
  SSRP1 WILD-TYPE     22
D1194V6, multiclass
        clus
vv       SSRP1 MUTATED SSRP1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SSRP1 MUTATED        3      4      5      1
  SSRP1 WILD-TYPE     97     68     67    120
D1194V7, multiclass
        clus
vv       SSRP1 MUTATED SSRP1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             5              67
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SSRP1 MUTATED        0      3      9      0      1
  SSRP1 WILD-TYPE     59     72     65    119     37
D1194V8, multiclass
        clus
vv       SSRP1 MUTATED SSRP1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             9              65
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SSRP1 MUTATED        1     10      1      0      1
  SSRP1 WILD-TYPE     50     66     60     71     94
D1194V9, multiclass
        clus
vv       SSRP1 MUTATED SSRP1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2            10              66
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SSRP1 MUTATED        1      3      1      2      3      2      0      1
  SSRP1 WILD-TYPE     68     45     38     14     50     18     21     37
                 vv
clus              CLUS_9
  SSRP1 MUTATED        0
  SSRP1 WILD-TYPE     50
D1194V10, multiclass
        clus
vv       SSRP1 MUTATED SSRP1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SSRP1 MUTATED        0      0      3      0      1      0
  SSRP1 WILD-TYPE     13     16     11     11     10      9
D1194V11, multiclass
        clus
vv       SSRP1 MUTATED SSRP1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             3              11
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SSRP1 MUTATED        0      0      0      1      1      1      1      0
  SSRP1 WILD-TYPE     11      7      7      8      7      6     10      9
                 vv
clus              CLUS_9
  SSRP1 MUTATED        0
  SSRP1 WILD-TYPE      5
D1194V12, multiclass
        clus
vv       SSRP1 MUTATED SSRP1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1195) Variable = ST6GALNAC3 MUTATION ANALYSIS
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST6GALNAC3 MUTATED        0      0      0      1      0
  ST6GALNAC3 WILD-TYPE     32     18     46     26     23
D1195V1, multiclass
[1] "Remove cluster labels:" "ST6GALNAC3 MUTATED"    
clus
  ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE 
                   1                  145 
          TCGA-A6-2672           TCGA-A6-2674           TCGA-A6-2676 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-A6-2677           TCGA-A6-2678           TCGA-A6-2683 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-A6-3807           TCGA-A6-3808           TCGA-A6-3809 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-A6-3810           TCGA-AA-3514           TCGA-AA-3516 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3517           TCGA-AA-3518           TCGA-AA-3519 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3520           TCGA-AA-3521           TCGA-AA-3522 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3524           TCGA-AA-3525           TCGA-AA-3526 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3527           TCGA-AA-3529           TCGA-AA-3530 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3531           TCGA-AA-3532           TCGA-AA-3534 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3538           TCGA-AA-3542           TCGA-AA-3543 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3544           TCGA-AA-3548           TCGA-AA-3549 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3552           TCGA-AA-3553           TCGA-AA-3554 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3555           TCGA-AA-3556           TCGA-AA-3558 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3560           TCGA-AA-3561           TCGA-AA-3562 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3664           TCGA-AA-3666           TCGA-AA-3667 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3672           TCGA-AA-3673           TCGA-AA-3678 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3679           TCGA-AA-3680           TCGA-AA-3681 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3684           TCGA-AA-3685           TCGA-AA-3688 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3692           TCGA-AA-3693           TCGA-AA-3696 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3710           TCGA-AA-3715           TCGA-AA-3811 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3812           TCGA-AA-3814           TCGA-AA-3815 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3818           TCGA-AA-3819           TCGA-AA-3821 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3831           TCGA-AA-3833           TCGA-AA-3837 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3842           TCGA-AA-3844           TCGA-AA-3845 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3846           TCGA-AA-3848           TCGA-AA-3850 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3851           TCGA-AA-3852           TCGA-AA-3854 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3855           TCGA-AA-3856           TCGA-AA-3858 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3860           TCGA-AA-3861           TCGA-AA-3864 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3866           TCGA-AA-3867           TCGA-AA-3869 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3870           TCGA-AA-3872           TCGA-AA-3875 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3877           TCGA-AA-3930           TCGA-AA-3939 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3941           TCGA-AA-3947           TCGA-AA-3949 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3950           TCGA-AA-3952           TCGA-AA-3955 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3956           TCGA-AA-3966           TCGA-AA-3968 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3971           TCGA-AA-3972           TCGA-AA-3973 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3975           TCGA-AA-3976           TCGA-AA-3977 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3979           TCGA-AA-3980           TCGA-AA-3982 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3984           TCGA-AA-3986           TCGA-AA-3989 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3994           TCGA-AA-A004           TCGA-AA-A00A 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A00D           TCGA-AA-A00E           TCGA-AA-A00F 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A00J           TCGA-AA-A00K           TCGA-AA-A00L 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A00O           TCGA-AA-A00Q           TCGA-AA-A00R 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A00U           TCGA-AA-A00W           TCGA-AA-A00Z 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A010           TCGA-AA-A017           TCGA-AA-A01D 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A01F           TCGA-AA-A01G           TCGA-AA-A01I 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A01K           TCGA-AA-A01Q           TCGA-AA-A024 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A029           TCGA-AA-A02F           TCGA-AA-A02H 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A02J           TCGA-AA-A02W           TCGA-AY-4070 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AY-4071 
"ST6GALNAC3 WILD-TYPE" 
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  ST6GALNAC3 MUTATED        1      0      0
  ST6GALNAC3 WILD-TYPE     42     67     36
D1195V2, multiclass
[1] "Remove cluster labels:" "ST6GALNAC3 MUTATED"    
clus
  ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE 
                   1                  145 
          TCGA-A6-2672           TCGA-A6-2674           TCGA-A6-2676 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-A6-2677           TCGA-A6-2678           TCGA-A6-2683 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-A6-3807           TCGA-A6-3808           TCGA-A6-3809 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-A6-3810           TCGA-AA-3514           TCGA-AA-3516 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3517           TCGA-AA-3518           TCGA-AA-3519 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3520           TCGA-AA-3521           TCGA-AA-3522 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3524           TCGA-AA-3525           TCGA-AA-3526 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3527           TCGA-AA-3529           TCGA-AA-3530 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3531           TCGA-AA-3532           TCGA-AA-3534 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3538           TCGA-AA-3542           TCGA-AA-3543 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3544           TCGA-AA-3548           TCGA-AA-3549 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3552           TCGA-AA-3553           TCGA-AA-3554 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3555           TCGA-AA-3556           TCGA-AA-3558 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3560           TCGA-AA-3561           TCGA-AA-3562 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3664           TCGA-AA-3666           TCGA-AA-3667 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3672           TCGA-AA-3673           TCGA-AA-3678 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3679           TCGA-AA-3680           TCGA-AA-3681 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3684           TCGA-AA-3685           TCGA-AA-3688 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3692           TCGA-AA-3693           TCGA-AA-3696 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3710           TCGA-AA-3715           TCGA-AA-3811 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3812           TCGA-AA-3814           TCGA-AA-3815 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3818           TCGA-AA-3819           TCGA-AA-3821 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3831           TCGA-AA-3833           TCGA-AA-3837 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3842           TCGA-AA-3844           TCGA-AA-3845 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3846           TCGA-AA-3848           TCGA-AA-3850 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3851           TCGA-AA-3852           TCGA-AA-3854 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3855           TCGA-AA-3856           TCGA-AA-3858 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3860           TCGA-AA-3861           TCGA-AA-3864 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3866           TCGA-AA-3867           TCGA-AA-3869 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3870           TCGA-AA-3872           TCGA-AA-3875 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3877           TCGA-AA-3930           TCGA-AA-3939 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3941           TCGA-AA-3947           TCGA-AA-3949 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3950           TCGA-AA-3952           TCGA-AA-3955 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3956           TCGA-AA-3966           TCGA-AA-3968 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3971           TCGA-AA-3972           TCGA-AA-3973 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3975           TCGA-AA-3976           TCGA-AA-3977 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3979           TCGA-AA-3980           TCGA-AA-3982 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3984           TCGA-AA-3986           TCGA-AA-3989 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-3994           TCGA-AA-A004           TCGA-AA-A00A 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A00D           TCGA-AA-A00E           TCGA-AA-A00F 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A00J           TCGA-AA-A00K           TCGA-AA-A00L 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A00O           TCGA-AA-A00Q           TCGA-AA-A00R 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A00U           TCGA-AA-A00W           TCGA-AA-A00Z 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A010           TCGA-AA-A017           TCGA-AA-A01D 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A01F           TCGA-AA-A01G           TCGA-AA-A01I 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A01K           TCGA-AA-A01Q           TCGA-AA-A024 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A029           TCGA-AA-A02F           TCGA-AA-A02H 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AA-A02J           TCGA-AA-A02W           TCGA-AY-4070 
"ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" "ST6GALNAC3 WILD-TYPE" 
          TCGA-AY-4071 
"ST6GALNAC3 WILD-TYPE" 
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  ST6GALNAC3 MUTATED        1      3      8
  ST6GALNAC3 WILD-TYPE     41    170    139
D1195V3, multiclass
        clus
vv       ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE
  CLUS_1                  1                   41
  CLUS_2                  3                  170
  CLUS_3                  8                  139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  ST6GALNAC3 MUTATED        6      2      2
  ST6GALNAC3 WILD-TYPE     56     71     73
D1195V4, multiclass
        clus
vv       ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE
  CLUS_1                  6                   56
  CLUS_2                  2                   71
  CLUS_3                  2                   73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  ST6GALNAC3 MUTATED        3      3      6
  ST6GALNAC3 WILD-TYPE     67    117     94
D1195V5, multiclass
        clus
vv       ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE
  CLUS_1                  3                   67
  CLUS_2                  3                  117
  CLUS_3                  6                   94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ST6GALNAC3 MUTATED        2      1      0      2      1      5      0      0
  ST6GALNAC3 WILD-TYPE     39     25     30     27     38     64     20     14
                      vv
clus                   CLUS_9
  ST6GALNAC3 MUTATED        1
  ST6GALNAC3 WILD-TYPE     21
D1195V6, multiclass
        clus
vv       ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE
  CLUS_1                  2                   39
  CLUS_2                  1                   25
  CLUS_3                  0                   30
  CLUS_4                  2                   27
  CLUS_5                  1                   38
  CLUS_6                  5                   64
  CLUS_7                  0                   20
  CLUS_8                  0                   14
  CLUS_9                  1                   21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ST6GALNAC3 MUTATED        2      2      7      1
  ST6GALNAC3 WILD-TYPE     98     70     65    120
D1195V7, multiclass
        clus
vv       ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE
  CLUS_1                  2                   98
  CLUS_2                  2                   70
  CLUS_3                  7                   65
  CLUS_4                  1                  120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST6GALNAC3 MUTATED        4      2      5      0      1
  ST6GALNAC3 WILD-TYPE     55     73     69    119     37
D1195V8, multiclass
        clus
vv       ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE
  CLUS_1                  4                   55
  CLUS_2                  2                   73
  CLUS_3                  5                   69
  CLUS_4                  0                  119
  CLUS_5                  1                   37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST6GALNAC3 MUTATED        1      4      5      0      1
  ST6GALNAC3 WILD-TYPE     50     72     56     71     94
D1195V9, multiclass
        clus
vv       ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE
  CLUS_1                  1                   50
  CLUS_2                  4                   72
  CLUS_3                  5                   56
  CLUS_4                  0                   71
  CLUS_5                  1                   94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ST6GALNAC3 MUTATED        3      4      0      1      2      0      1      0
  ST6GALNAC3 WILD-TYPE     66     44     39     15     51     20     20     38
                      vv
clus                   CLUS_9
  ST6GALNAC3 MUTATED        0
  ST6GALNAC3 WILD-TYPE     50
D1195V10, multiclass
        clus
vv       ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE
  CLUS_1                  3                   66
  CLUS_2                  4                   44
  CLUS_3                  0                   39
  CLUS_4                  1                   15
  CLUS_5                  2                   51
  CLUS_6                  0                   20
  CLUS_7                  1                   20
  CLUS_8                  0                   38
  CLUS_9                  0                   50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ST6GALNAC3 MUTATED        0      1      1      1      1      0
  ST6GALNAC3 WILD-TYPE     13     15     13     10     10      9
D1195V11, multiclass
        clus
vv       ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE
  CLUS_1                  0                   13
  CLUS_2                  1                   15
  CLUS_3                  1                   13
  CLUS_4                  1                   10
  CLUS_5                  1                   10
  CLUS_6                  0                    9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ST6GALNAC3 MUTATED        0      1      0      0      0      2      1      0
  ST6GALNAC3 WILD-TYPE     11      6      7      9      8      5     10      9
                      vv
clus                   CLUS_9
  ST6GALNAC3 MUTATED        0
  ST6GALNAC3 WILD-TYPE      5
D1195V12, multiclass
        clus
vv       ST6GALNAC3 MUTATED ST6GALNAC3 WILD-TYPE
  CLUS_1                  0                   11
  CLUS_2                  1                    6
  CLUS_3                  0                    7
  CLUS_4                  0                    9
  CLUS_5                  0                    8
  CLUS_6                  2                    5
  CLUS_7                  1                   10
  CLUS_8                  0                    9
  CLUS_9                  0                    5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1196) Variable = TCF7L2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCF7L2 MUTATED        3      0      1      3      1
  TCF7L2 WILD-TYPE     29     18     45     24     22
D1196V1, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              3               24
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        2      4      2
  TCF7L2 WILD-TYPE     41     63     34
D1196V2, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              4               63
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        4      3     16
  TCF7L2 WILD-TYPE     38    170    131
D1196V3, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              4               38
  CLUS_2              3              170
  CLUS_3             16              131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        5      3      5
  TCF7L2 WILD-TYPE     57     70     70
D1196V4, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              3               70
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        4      5      9
  TCF7L2 WILD-TYPE     66    115     91
D1196V5, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              5              115
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TCF7L2 MUTATED        2      1      3      1      2      6      2      0
  TCF7L2 WILD-TYPE     39     25     27     28     37     63     18     14
                  vv
clus               CLUS_9
  TCF7L2 MUTATED        1
  TCF7L2 WILD-TYPE     21
D1196V6, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              3               27
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF7L2 MUTATED        3      6      6      7
  TCF7L2 WILD-TYPE     97     66     66    114
D1196V7, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              6               66
  CLUS_3              6               66
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCF7L2 MUTATED        3      3      7      7      2
  TCF7L2 WILD-TYPE     56     72     67    112     36
D1196V8, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              7              112
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCF7L2 MUTATED        0      9      2      5      5
  TCF7L2 WILD-TYPE     51     67     59     66     90
D1196V9, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              9               67
  CLUS_3              2               59
  CLUS_4              5               66
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TCF7L2 MUTATED        2      6      2      2      2      1      1      2
  TCF7L2 WILD-TYPE     67     42     37     14     51     19     20     36
                  vv
clus               CLUS_9
  TCF7L2 MUTATED        3
  TCF7L2 WILD-TYPE     47
D1196V10, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              6               42
  CLUS_3              2               37
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TCF7L2 MUTATED        1      0      0      1      2      0
  TCF7L2 WILD-TYPE     12     16     14     10      9      9
D1196V11, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TCF7L2 MUTATED        0      0      1      0      0      1      1      1
  TCF7L2 WILD-TYPE     11      7      6      9      8      6     10      8
                  vv
clus               CLUS_9
  TCF7L2 MUTATED        0
  TCF7L2 WILD-TYPE      5
D1196V12, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1197) Variable = PACS2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PACS2 MUTATED        0      0      0      0      0
  PACS2 WILD-TYPE     32     18     46     27     23
D1197V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PACS2 MUTATED        0      0      0
  PACS2 WILD-TYPE     43     67     36
D1197V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PACS2 MUTATED        0      0      5
  PACS2 WILD-TYPE     42    173    142
D1197V3, multiclass
        clus
vv       PACS2 MUTATED PACS2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PACS2 MUTATED        1      0      4
  PACS2 WILD-TYPE     61     73     71
D1197V4, multiclass
        clus
vv       PACS2 MUTATED PACS2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PACS2 MUTATED        2      1      1
  PACS2 WILD-TYPE     68    119     99
D1197V5, multiclass
        clus
vv       PACS2 MUTATED PACS2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PACS2 MUTATED        1      1      0      0      0      1      1      0
  PACS2 WILD-TYPE     40     25     30     29     39     68     19     14
                 vv
clus              CLUS_9
  PACS2 MUTATED        0
  PACS2 WILD-TYPE     22
D1197V6, multiclass
        clus
vv       PACS2 MUTATED PACS2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PACS2 MUTATED        0      2      3      0
  PACS2 WILD-TYPE    100     70     69    121
D1197V7, multiclass
        clus
vv       PACS2 MUTATED PACS2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PACS2 MUTATED        0      1      4      0      0
  PACS2 WILD-TYPE     59     74     70    119     38
D1197V8, multiclass
        clus
vv       PACS2 MUTATED PACS2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PACS2 MUTATED        1      4      0      0      0
  PACS2 WILD-TYPE     50     72     61     71     95
D1197V9, multiclass
        clus
vv       PACS2 MUTATED PACS2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PACS2 MUTATED        1      2      0      2      0      0      0      0
  PACS2 WILD-TYPE     68     46     39     14     53     20     21     38
                 vv
clus              CLUS_9
  PACS2 MUTATED        0
  PACS2 WILD-TYPE     50
D1197V10, multiclass
        clus
vv       PACS2 MUTATED PACS2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PACS2 MUTATED        0      1      1      0      1      0
  PACS2 WILD-TYPE     13     15     13     11     10      9
D1197V11, multiclass
        clus
vv       PACS2 MUTATED PACS2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PACS2 MUTATED        0      0      0      0      1      1      1      0
  PACS2 WILD-TYPE     11      7      7      9      7      6     10      9
                 vv
clus              CLUS_9
  PACS2 MUTATED        0
  PACS2 WILD-TYPE      5
D1197V12, multiclass
        clus
vv       PACS2 MUTATED PACS2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1198) Variable = STAT5B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAT5B MUTATED        3      0      0      2      0
  STAT5B WILD-TYPE     29     18     46     25     23
D1198V1, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STAT5B MUTATED        4      1      0
  STAT5B WILD-TYPE     39     66     36
D1198V2, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STAT5B MUTATED        0      1     10
  STAT5B WILD-TYPE     42    172    137
D1198V3, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STAT5B MUTATED        4      1      3
  STAT5B WILD-TYPE     58     72     72
D1198V4, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STAT5B MUTATED        1      2      9
  STAT5B WILD-TYPE     69    118     91
D1198V5, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAT5B MUTATED        2      0      1      0      1      7      1      0
  STAT5B WILD-TYPE     39     26     29     29     38     62     19     14
                  vv
clus               CLUS_9
  STAT5B MUTATED        0
  STAT5B WILD-TYPE     22
D1198V6, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STAT5B MUTATED        0      2      5      5
  STAT5B WILD-TYPE    100     70     67    116
D1198V7, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              5               67
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAT5B MUTATED        2      1      4      1      4
  STAT5B WILD-TYPE     57     74     70    118     34
D1198V8, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAT5B MUTATED        0      5      2      0      4
  STAT5B WILD-TYPE     51     71     59     71     91
D1198V9, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAT5B MUTATED        2      3      0      1      1      1      0      3
  STAT5B WILD-TYPE     67     45     39     15     52     19     21     35
                  vv
clus               CLUS_9
  STAT5B MUTATED        0
  STAT5B WILD-TYPE     50
D1198V10, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              2               67
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STAT5B MUTATED        0      1      1      1      1      0
  STAT5B WILD-TYPE     13     15     13     10     10      9
D1198V11, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAT5B MUTATED        1      0      1      1      0      0      1      0
  STAT5B WILD-TYPE     10      7      6      8      8      7     10      9
                  vv
clus               CLUS_9
  STAT5B MUTATED        0
  STAT5B WILD-TYPE      5
D1198V12, multiclass
        clus
vv       STAT5B MUTATED STAT5B WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1199) Variable = ZNF622 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF622 MUTATED        1      0      0      0      0
  ZNF622 WILD-TYPE     31     18     46     27     23
D1199V1, multiclass
[1] "Remove cluster labels:" "ZNF622 MUTATED"        
clus
  ZNF622 MUTATED ZNF622 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF622 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF622 MUTATED        1      0      0
  ZNF622 WILD-TYPE     42     67     36
D1199V2, multiclass
[1] "Remove cluster labels:" "ZNF622 MUTATED"        
clus
  ZNF622 MUTATED ZNF622 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" "ZNF622 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF622 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF622 MUTATED        0      2      5
  ZNF622 WILD-TYPE     42    171    142
D1199V3, multiclass
        clus
vv       ZNF622 MUTATED ZNF622 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF622 MUTATED        0      2      4
  ZNF622 WILD-TYPE     62     71     71
D1199V4, multiclass
        clus
vv       ZNF622 MUTATED ZNF622 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              2               71
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF622 MUTATED        1      2      1
  ZNF622 WILD-TYPE     69    118     99
D1199V5, multiclass
        clus
vv       ZNF622 MUTATED ZNF622 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF622 MUTATED        0      0      1      0      1      1      0      0
  ZNF622 WILD-TYPE     41     26     29     29     38     68     20     14
                  vv
clus               CLUS_9
  ZNF622 MUTATED        1
  ZNF622 WILD-TYPE     21
D1199V6, multiclass
        clus
vv       ZNF622 MUTATED ZNF622 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF622 MUTATED        0      3      3      1
  ZNF622 WILD-TYPE    100     69     69    120
D1199V7, multiclass
        clus
vv       ZNF622 MUTATED ZNF622 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF622 MUTATED        2      0      4      0      1
  ZNF622 WILD-TYPE     57     75     70    119     37
D1199V8, multiclass
        clus
vv       ZNF622 MUTATED ZNF622 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF622 MUTATED        1      3      1      1      1
  ZNF622 WILD-TYPE     50     73     60     70     94
D1199V9, multiclass
        clus
vv       ZNF622 MUTATED ZNF622 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF622 MUTATED        2      1      0      2      0      1      0      1
  ZNF622 WILD-TYPE     67     47     39     14     53     19     21     37
                  vv
clus               CLUS_9
  ZNF622 MUTATED        0
  ZNF622 WILD-TYPE     50
D1199V10, multiclass
        clus
vv       ZNF622 MUTATED ZNF622 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF622 MUTATED        0      0      1      0      1      1
  ZNF622 WILD-TYPE     13     16     13     11     10      8
D1199V11, multiclass
        clus
vv       ZNF622 MUTATED ZNF622 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF622 MUTATED        1      0      0      0      0      0      1      0
  ZNF622 WILD-TYPE     10      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  ZNF622 MUTATED        1
  ZNF622 WILD-TYPE      4
D1199V12, multiclass
        clus
vv       ZNF622 MUTATED ZNF622 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1200) Variable = ABCB6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCB6 MUTATED        2      0      0      1      0
  ABCB6 WILD-TYPE     30     18     46     26     23
D1200V1, multiclass
        clus
vv       ABCB6 MUTATED ABCB6 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCB6 MUTATED        2      1      0
  ABCB6 WILD-TYPE     41     66     36
D1200V2, multiclass
        clus
vv       ABCB6 MUTATED ABCB6 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCB6 MUTATED        2      1      4
  ABCB6 WILD-TYPE     40    172    143
D1200V3, multiclass
        clus
vv       ABCB6 MUTATED ABCB6 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCB6 MUTATED        3      1      0
  ABCB6 WILD-TYPE     59     72     75
D1200V4, multiclass
        clus
vv       ABCB6 MUTATED ABCB6 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCB6 MUTATED        0      1      5
  ABCB6 WILD-TYPE     70    119     95
D1200V5, multiclass
        clus
vv       ABCB6 MUTATED ABCB6 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCB6 MUTATED        1      0      0      0      1      4      0      0
  ABCB6 WILD-TYPE     40     26     30     29     38     65     20     14
                 vv
clus              CLUS_9
  ABCB6 MUTATED        0
  ABCB6 WILD-TYPE     22
D1200V6, multiclass
        clus
vv       ABCB6 MUTATED ABCB6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCB6 MUTATED        2      1      2      2
  ABCB6 WILD-TYPE     98     71     70    119
D1200V7, multiclass
        clus
vv       ABCB6 MUTATED ABCB6 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCB6 MUTATED        0      1      3      2      1
  ABCB6 WILD-TYPE     59     74     71    117     37
D1200V8, multiclass
        clus
vv       ABCB6 MUTATED ABCB6 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCB6 MUTATED        1      3      0      0      2
  ABCB6 WILD-TYPE     50     73     61     71     93
D1200V9, multiclass
        clus
vv       ABCB6 MUTATED ABCB6 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCB6 MUTATED        2      2      0      0      1      0      1      0
  ABCB6 WILD-TYPE     67     46     39     16     52     20     20     38
                 vv
clus              CLUS_9
  ABCB6 MUTATED        0
  ABCB6 WILD-TYPE     50
D1200V10, multiclass
        clus
vv       ABCB6 MUTATED ABCB6 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABCB6 MUTATED        0      1      0      0      1      0
  ABCB6 WILD-TYPE     13     15     14     11     10      9
D1200V11, multiclass
[1] "Remove cluster labels:" "ABCB6 MUTATED"         
clus
  ABCB6 MUTATED ABCB6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCB6 MUTATED        1      0      0      0      0      0      1      0
  ABCB6 WILD-TYPE     10      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  ABCB6 MUTATED        0
  ABCB6 WILD-TYPE      5
D1200V12, multiclass
[1] "Remove cluster labels:" "ABCB6 MUTATED"         
clus
  ABCB6 MUTATED ABCB6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" "ABCB6 WILD-TYPE" 

Clustering(1201) Variable = ZKSCAN1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZKSCAN1 MUTATED        3      0      0      1      0
  ZKSCAN1 WILD-TYPE     29     18     46     26     23
D1201V1, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN1 MUTATED        4      0      0
  ZKSCAN1 WILD-TYPE     39     67     36
D1201V2, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN1 MUTATED        0      0      7
  ZKSCAN1 WILD-TYPE     42    173    140
D1201V3, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN1 MUTATED        0      0      3
  ZKSCAN1 WILD-TYPE     62     73     72
D1201V4, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               0                62
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN1 MUTATED        3      2      0
  ZKSCAN1 WILD-TYPE     67    118    100
D1201V5, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               2               118
  CLUS_3               0               100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZKSCAN1 MUTATED        2      0      0      0      2      0      1      0
  ZKSCAN1 WILD-TYPE     39     26     30     29     37     69     19     14
                   vv
clus                CLUS_9
  ZKSCAN1 MUTATED        0
  ZKSCAN1 WILD-TYPE     22
D1201V6, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               2                37
  CLUS_6               0                69
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZKSCAN1 MUTATED        0      2      1      4
  ZKSCAN1 WILD-TYPE    100     70     71    117
D1201V7, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               1                71
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZKSCAN1 MUTATED        0      1      2      0      4
  ZKSCAN1 WILD-TYPE     59     74     72    119     34
D1201V8, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZKSCAN1 MUTATED        1      1      0      0      5
  ZKSCAN1 WILD-TYPE     50     75     61     71     90
D1201V9, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               1                75
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZKSCAN1 MUTATED        0      1      0      0      0      2      0      4
  ZKSCAN1 WILD-TYPE     69     47     39     16     53     18     21     34
                   vv
clus                CLUS_9
  ZKSCAN1 MUTATED        0
  ZKSCAN1 WILD-TYPE     50
D1201V10, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               0                53
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               4                34
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZKSCAN1 MUTATED        0      1      0      0      0      0
  ZKSCAN1 WILD-TYPE     13     15     14     11     11      9
D1201V11, multiclass
[1] "Remove cluster labels:" "ZKSCAN1 MUTATED"       
clus
  ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-G4-6628 
"ZKSCAN1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZKSCAN1 MUTATED        0      0      0      0      0      0      1      0
  ZKSCAN1 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  ZKSCAN1 MUTATED        0
  ZKSCAN1 WILD-TYPE      5
D1201V12, multiclass
[1] "Remove cluster labels:" "ZKSCAN1 MUTATED"       
clus
  ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-G4-6628 
"ZKSCAN1 WILD-TYPE" 

Clustering(1202) Variable = C10ORF119 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C10ORF119 MUTATED        1      0      0      1      0
  C10ORF119 WILD-TYPE     31     18     46     26     23
D1202V1, multiclass
[1] "Remove cluster labels:" "C10ORF119 MUTATED"     
clus
  C10ORF119 MUTATED C10ORF119 WILD-TYPE 
                  2                 144 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3986          TCGA-AA-3989          TCGA-AA-3994 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00D 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A00E          TCGA-AA-A00F          TCGA-AA-A00J 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A00K          TCGA-AA-A00L          TCGA-AA-A00N 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A00O          TCGA-AA-A00Q          TCGA-AA-A00R 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A00U          TCGA-AA-A00W          TCGA-AA-A00Z 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A017          TCGA-AA-A01D          TCGA-AA-A01F 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A01G          TCGA-AA-A01I          TCGA-AA-A01K 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A01Q          TCGA-AA-A024          TCGA-AA-A029 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A02F          TCGA-AA-A02H          TCGA-AA-A02J 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AY-4070          TCGA-AY-4071 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C10ORF119 MUTATED        0      1      1
  C10ORF119 WILD-TYPE     43     66     35
D1202V2, multiclass
[1] "Remove cluster labels:" "C10ORF119 MUTATED"     
clus
  C10ORF119 MUTATED C10ORF119 WILD-TYPE 
                  2                 144 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3986          TCGA-AA-3989          TCGA-AA-3994 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00D 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A00E          TCGA-AA-A00F          TCGA-AA-A00J 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A00K          TCGA-AA-A00L          TCGA-AA-A00N 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A00O          TCGA-AA-A00Q          TCGA-AA-A00R 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A00U          TCGA-AA-A00W          TCGA-AA-A00Z 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A017          TCGA-AA-A01D          TCGA-AA-A01F 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A01G          TCGA-AA-A01I          TCGA-AA-A01K 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A01Q          TCGA-AA-A024          TCGA-AA-A029 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A02F          TCGA-AA-A02H          TCGA-AA-A02J 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AY-4070          TCGA-AY-4071 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C10ORF119 MUTATED        0      3      6
  C10ORF119 WILD-TYPE     42    170    141
D1202V3, multiclass
        clus
vv       C10ORF119 MUTATED C10ORF119 WILD-TYPE
  CLUS_1                 0                  42
  CLUS_2                 3                 170
  CLUS_3                 6                 141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C10ORF119 MUTATED        4      1      2
  C10ORF119 WILD-TYPE     58     72     73
D1202V4, multiclass
        clus
vv       C10ORF119 MUTATED C10ORF119 WILD-TYPE
  CLUS_1                 4                  58
  CLUS_2                 1                  72
  CLUS_3                 2                  73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C10ORF119 MUTATED        0      3      3
  C10ORF119 WILD-TYPE     70    117     97
D1202V5, multiclass
        clus
vv       C10ORF119 MUTATED C10ORF119 WILD-TYPE
  CLUS_1                 0                  70
  CLUS_2                 3                 117
  CLUS_3                 3                  97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C10ORF119 MUTATED        0      0      1      1      1      3      0      0
  C10ORF119 WILD-TYPE     41     26     29     28     38     66     20     14
                     vv
clus                  CLUS_9
  C10ORF119 MUTATED        0
  C10ORF119 WILD-TYPE     22
D1202V6, multiclass
        clus
vv       C10ORF119 MUTATED C10ORF119 WILD-TYPE
  CLUS_1                 0                  41
  CLUS_2                 0                  26
  CLUS_3                 1                  29
  CLUS_4                 1                  28
  CLUS_5                 1                  38
  CLUS_6                 3                  66
  CLUS_7                 0                  20
  CLUS_8                 0                  14
  CLUS_9                 0                  22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C10ORF119 MUTATED        3      2      2      2
  C10ORF119 WILD-TYPE     97     70     70    119
D1202V7, multiclass
        clus
vv       C10ORF119 MUTATED C10ORF119 WILD-TYPE
  CLUS_1                 3                  97
  CLUS_2                 2                  70
  CLUS_3                 2                  70
  CLUS_4                 2                 119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C10ORF119 MUTATED        1      4      2      2      0
  C10ORF119 WILD-TYPE     58     71     72    117     38
D1202V8, multiclass
        clus
vv       C10ORF119 MUTATED C10ORF119 WILD-TYPE
  CLUS_1                 1                  58
  CLUS_2                 4                  71
  CLUS_3                 2                  72
  CLUS_4                 2                 117
  CLUS_5                 0                  38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C10ORF119 MUTATED        1      3      1      2      2
  C10ORF119 WILD-TYPE     50     73     60     69     93
D1202V9, multiclass
        clus
vv       C10ORF119 MUTATED C10ORF119 WILD-TYPE
  CLUS_1                 1                  50
  CLUS_2                 3                  73
  CLUS_3                 1                  60
  CLUS_4                 2                  69
  CLUS_5                 2                  93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C10ORF119 MUTATED        2      1      0      0      3      2      0      0
  C10ORF119 WILD-TYPE     67     47     39     16     50     18     21     38
                     vv
clus                  CLUS_9
  C10ORF119 MUTATED        1
  C10ORF119 WILD-TYPE     49
D1202V10, multiclass
        clus
vv       C10ORF119 MUTATED C10ORF119 WILD-TYPE
  CLUS_1                 2                  67
  CLUS_2                 1                  47
  CLUS_3                 0                  39
  CLUS_4                 0                  16
  CLUS_5                 3                  50
  CLUS_6                 2                  18
  CLUS_7                 0                  21
  CLUS_8                 0                  38
  CLUS_9                 1                  49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C10ORF119 MUTATED        0      0      2      0      0      0
  C10ORF119 WILD-TYPE     13     16     12     11     11      9
D1202V11, multiclass
[1] "Remove cluster labels:" "C10ORF119 MUTATED"     
clus
  C10ORF119 MUTATED C10ORF119 WILD-TYPE 
                  2                  72 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6963 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AD-6965          TCGA-AY-6196          TCGA-AZ-4323 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AZ-4616          TCGA-AZ-5403          TCGA-AZ-6598 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AZ-6600          TCGA-AZ-6601          TCGA-AZ-6603 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AZ-6605          TCGA-AZ-6607          TCGA-CA-6718 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-CA-6719          TCGA-CK-5916          TCGA-CK-6748 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-CM-5860          TCGA-CM-6167          TCGA-CM-6674 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-CM-6676          TCGA-CM-6677          TCGA-CM-6678 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-CM-6679          TCGA-CM-6680          TCGA-D5-5537 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-D5-6533          TCGA-D5-6534          TCGA-D5-6536 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-D5-6922          TCGA-D5-6924          TCGA-DM-A0XD 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-DM-A0XF          TCGA-DM-A1D0          TCGA-DM-A1D7 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-DM-A1D8          TCGA-DM-A1D9          TCGA-DM-A1DA 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-DM-A1HA          TCGA-DM-A282          TCGA-DM-A285 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-DM-A28F          TCGA-F4-6459          TCGA-F4-6460 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-F4-6569          TCGA-F4-6570          TCGA-F4-6704 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-F4-6805          TCGA-F4-6807          TCGA-F4-6808 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-F4-6809          TCGA-G4-6299          TCGA-G4-6303 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-G4-6306          TCGA-G4-6309          TCGA-G4-6625 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C10ORF119 MUTATED        0      0      0      0      1      0      1      0
  C10ORF119 WILD-TYPE     11      7      7      9      7      7     10      9
                     vv
clus                  CLUS_9
  C10ORF119 MUTATED        0
  C10ORF119 WILD-TYPE      5
D1202V12, multiclass
[1] "Remove cluster labels:" "C10ORF119 MUTATED"     
clus
  C10ORF119 MUTATED C10ORF119 WILD-TYPE 
                  2                  72 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6963 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AD-6965          TCGA-AY-6196          TCGA-AZ-4323 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AZ-4616          TCGA-AZ-5403          TCGA-AZ-6598 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AZ-6600          TCGA-AZ-6601          TCGA-AZ-6603 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-AZ-6605          TCGA-AZ-6607          TCGA-CA-6718 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-CA-6719          TCGA-CK-5916          TCGA-CK-6748 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-CM-5860          TCGA-CM-6167          TCGA-CM-6674 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-CM-6676          TCGA-CM-6677          TCGA-CM-6678 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-CM-6679          TCGA-CM-6680          TCGA-D5-5537 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-D5-6533          TCGA-D5-6534          TCGA-D5-6536 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-D5-6922          TCGA-D5-6924          TCGA-DM-A0XD 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-DM-A0XF          TCGA-DM-A1D0          TCGA-DM-A1D7 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-DM-A1D8          TCGA-DM-A1D9          TCGA-DM-A1DA 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-DM-A1HA          TCGA-DM-A282          TCGA-DM-A285 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-DM-A28F          TCGA-F4-6459          TCGA-F4-6460 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-F4-6569          TCGA-F4-6570          TCGA-F4-6704 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-F4-6805          TCGA-F4-6807          TCGA-F4-6808 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-F4-6809          TCGA-G4-6299          TCGA-G4-6303 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 
         TCGA-G4-6306          TCGA-G4-6309          TCGA-G4-6625 
"C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" "C10ORF119 WILD-TYPE" 

Clustering(1203) Variable = CLTCL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLTCL1 MUTATED        2      1      1      2      0
  CLTCL1 WILD-TYPE     30     17     45     25     23
D1203V1, multiclass
        clus
vv       CLTCL1 MUTATED CLTCL1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              1               17
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLTCL1 MUTATED        2      3      1
  CLTCL1 WILD-TYPE     41     64     35
D1203V2, multiclass
        clus
vv       CLTCL1 MUTATED CLTCL1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              3               64
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLTCL1 MUTATED        2      6     10
  CLTCL1 WILD-TYPE     40    167    137
D1203V3, multiclass
        clus
vv       CLTCL1 MUTATED CLTCL1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              6              167
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLTCL1 MUTATED        3      4      5
  CLTCL1 WILD-TYPE     59     69     70
D1203V4, multiclass
        clus
vv       CLTCL1 MUTATED CLTCL1 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              4               69
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLTCL1 MUTATED        4      5      5
  CLTCL1 WILD-TYPE     66    115     95
D1203V5, multiclass
        clus
vv       CLTCL1 MUTATED CLTCL1 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              5              115
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLTCL1 MUTATED        3      0      2      1      3      4      1      0
  CLTCL1 WILD-TYPE     38     26     28     28     36     65     19     14
                  vv
clus               CLUS_9
  CLTCL1 MUTATED        0
  CLTCL1 WILD-TYPE     22
D1203V6, multiclass
        clus
vv       CLTCL1 MUTATED CLTCL1 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLTCL1 MUTATED        4      4      4      6
  CLTCL1 WILD-TYPE     96     68     68    115
D1203V7, multiclass
        clus
vv       CLTCL1 MUTATED CLTCL1 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              4               68
  CLUS_3              4               68
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLTCL1 MUTATED        2      4      6      4      2
  CLTCL1 WILD-TYPE     57     71     68    115     36
D1203V8, multiclass
        clus
vv       CLTCL1 MUTATED CLTCL1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              6               68
  CLUS_4              4              115
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLTCL1 MUTATED        3      6      4      2      3
  CLTCL1 WILD-TYPE     48     70     57     69     92
D1203V9, multiclass
        clus
vv       CLTCL1 MUTATED CLTCL1 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              6               70
  CLUS_3              4               57
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLTCL1 MUTATED        2      3      1      1      3      3      3      1
  CLTCL1 WILD-TYPE     67     45     38     15     50     17     18     37
                  vv
clus               CLUS_9
  CLTCL1 MUTATED        1
  CLTCL1 WILD-TYPE     49
D1203V10, multiclass
        clus
vv       CLTCL1 MUTATED CLTCL1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              3               17
  CLUS_7              3               18
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLTCL1 MUTATED        1      1      0      0      0      0
  CLTCL1 WILD-TYPE     12     15     14     11     11      9
D1203V11, multiclass
[1] "Remove cluster labels:" "CLTCL1 MUTATED"        
clus
  CLTCL1 MUTATED CLTCL1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLTCL1 MUTATED        0      0      0      0      0      0      1      0
  CLTCL1 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  CLTCL1 MUTATED        1
  CLTCL1 WILD-TYPE      4
D1203V12, multiclass
[1] "Remove cluster labels:" "CLTCL1 MUTATED"        
clus
  CLTCL1 MUTATED CLTCL1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" "CLTCL1 WILD-TYPE" 

Clustering(1204) Variable = GFRA4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GFRA4 MUTATED        0      0      0      1      0
  GFRA4 WILD-TYPE     32     18     46     26     23
D1204V1, multiclass
[1] "Remove cluster labels:" "GFRA4 MUTATED"         
clus
  GFRA4 MUTATED GFRA4 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AY-4071 
"GFRA4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GFRA4 MUTATED        1      0      0
  GFRA4 WILD-TYPE     42     67     36
D1204V2, multiclass
[1] "Remove cluster labels:" "GFRA4 MUTATED"         
clus
  GFRA4 MUTATED GFRA4 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AY-4071 
"GFRA4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GFRA4 MUTATED        0      0      3
  GFRA4 WILD-TYPE     42    173    144
D1204V3, multiclass
        clus
vv       GFRA4 MUTATED GFRA4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GFRA4 MUTATED        2      0      0
  GFRA4 WILD-TYPE     60     73     75
D1204V4, multiclass
[1] "Remove cluster labels:" "GFRA4 MUTATED"         
clus
  GFRA4 MUTATED GFRA4 WILD-TYPE 
              2             208 
     TCGA-A6-2671      TCGA-A6-2677      TCGA-A6-3809      TCGA-A6-3810 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-A6-4105      TCGA-A6-5656      TCGA-A6-5657      TCGA-A6-5659 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662      TCGA-A6-5664 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502      TCGA-AA-3511 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3655      TCGA-AA-3660      TCGA-AA-3662      TCGA-AA-3663 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AA-3697      TCGA-AA-3712      TCGA-AA-3713      TCGA-AD-5900 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6888      TCGA-AD-6889      TCGA-AD-6890 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AD-6895      TCGA-AD-6899      TCGA-AD-6901      TCGA-AD-6963 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AU-3779      TCGA-AU-6004 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197      TCGA-AY-6386 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-4681 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AZ-4682      TCGA-AZ-5403      TCGA-AZ-5407      TCGA-AZ-6598 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AZ-6599      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6606      TCGA-AZ-6607      TCGA-AZ-6608 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CA-5254      TCGA-CA-5255      TCGA-CA-5796      TCGA-CA-5797 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CA-6715      TCGA-CA-6716      TCGA-CA-6717      TCGA-CA-6718 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CA-6719      TCGA-CK-4947      TCGA-CK-4948      TCGA-CK-4950 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CK-4952      TCGA-CK-5912      TCGA-CK-5913      TCGA-CK-5914 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CK-5915      TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CM-4746      TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CM-5344      TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CM-5861      TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CM-5868      TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CM-6164      TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CM-6168      TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CM-6172      TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-5538      TCGA-D5-5539      TCGA-D5-5540 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-D5-5541      TCGA-D5-6529      TCGA-D5-6532      TCGA-D5-6533 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6535      TCGA-D5-6536      TCGA-D5-6537 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-D5-6538      TCGA-D5-6539      TCGA-D5-6540      TCGA-D5-6541 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-D5-6898      TCGA-D5-6920      TCGA-D5-6922      TCGA-D5-6923 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-D5-6924      TCGA-D5-6926      TCGA-D5-6927      TCGA-D5-6928 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-D5-6929      TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-D5-7000      TCGA-DM-A0X9      TCGA-DM-A0XD      TCGA-DM-A0XF 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-DM-A1HA      TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A285 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-DM-A28C      TCGA-DM-A28E      TCGA-DM-A28F      TCGA-DM-A28G 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-DM-A28H      TCGA-DM-A28K      TCGA-F4-6459      TCGA-F4-6460 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-F4-6809      TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-G4-6293      TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310      TCGA-G4-6315 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323      TCGA-G4-6586 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" "GFRA4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GFRA4 MUTATED        0      2      1
  GFRA4 WILD-TYPE     70    118     99
D1204V5, multiclass
        clus
vv       GFRA4 MUTATED GFRA4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GFRA4 MUTATED        0      1      0      0      1      0      1      0
  GFRA4 WILD-TYPE     41     25     30     29     38     69     19     14
                 vv
clus              CLUS_9
  GFRA4 MUTATED        0
  GFRA4 WILD-TYPE     22
D1204V6, multiclass
        clus
vv       GFRA4 MUTATED GFRA4 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             0              69
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GFRA4 MUTATED        0      1      0      2
  GFRA4 WILD-TYPE    100     71     72    119
D1204V7, multiclass
        clus
vv       GFRA4 MUTATED GFRA4 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             1              71
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GFRA4 MUTATED        0      0      1      1      1
  GFRA4 WILD-TYPE     59     75     73    118     37
D1204V8, multiclass
        clus
vv       GFRA4 MUTATED GFRA4 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GFRA4 MUTATED        0      1      0      0      2
  GFRA4 WILD-TYPE     51     75     61     71     93
D1204V9, multiclass
        clus
vv       GFRA4 MUTATED GFRA4 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GFRA4 MUTATED        0      0      0      0      0      1      0      1
  GFRA4 WILD-TYPE     69     48     39     16     53     19     21     37
                 vv
clus              CLUS_9
  GFRA4 MUTATED        1
  GFRA4 WILD-TYPE     49
D1204V10, multiclass
        clus
vv       GFRA4 MUTATED GFRA4 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GFRA4 MUTATED        0      0      0      0      0      0
  GFRA4 WILD-TYPE     13     16     14     11     11      9
D1204V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GFRA4 MUTATED        0      0      0      0      0      0      0      0
  GFRA4 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  GFRA4 MUTATED        0
  GFRA4 WILD-TYPE      5
D1204V12, multiclass

Clustering(1205) Variable = CYP3A7 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP3A7 MUTATED        2      0      1      2      0
  CYP3A7 WILD-TYPE     30     18     45     25     23
D1205V1, multiclass
        clus
vv       CYP3A7 MUTATED CYP3A7 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP3A7 MUTATED        3      2      0
  CYP3A7 WILD-TYPE     40     65     36
D1205V2, multiclass
        clus
vv       CYP3A7 MUTATED CYP3A7 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP3A7 MUTATED        0      2      8
  CYP3A7 WILD-TYPE     42    171    139
D1205V3, multiclass
        clus
vv       CYP3A7 MUTATED CYP3A7 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP3A7 MUTATED        2      2      2
  CYP3A7 WILD-TYPE     60     71     73
D1205V4, multiclass
        clus
vv       CYP3A7 MUTATED CYP3A7 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP3A7 MUTATED        2      3      3
  CYP3A7 WILD-TYPE     68    117     97
D1205V5, multiclass
        clus
vv       CYP3A7 MUTATED CYP3A7 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              117
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP3A7 MUTATED        2      0      1      0      3      0      1      1
  CYP3A7 WILD-TYPE     39     26     29     29     36     69     19     13
                  vv
clus               CLUS_9
  CYP3A7 MUTATED        0
  CYP3A7 WILD-TYPE     22
D1205V6, multiclass
        clus
vv       CYP3A7 MUTATED CYP3A7 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              3               36
  CLUS_6              0               69
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYP3A7 MUTATED        3      1      2      4
  CYP3A7 WILD-TYPE     97     71     70    117
D1205V7, multiclass
        clus
vv       CYP3A7 MUTATED CYP3A7 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP3A7 MUTATED        1      2      2      2      3
  CYP3A7 WILD-TYPE     58     73     72    117     35
D1205V8, multiclass
        clus
vv       CYP3A7 MUTATED CYP3A7 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP3A7 MUTATED        0      4      1      0      5
  CYP3A7 WILD-TYPE     51     72     60     71     90
D1205V9, multiclass
        clus
vv       CYP3A7 MUTATED CYP3A7 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP3A7 MUTATED        1      2      1      0      3      1      0      2
  CYP3A7 WILD-TYPE     68     46     38     16     50     19     21     36
                  vv
clus               CLUS_9
  CYP3A7 MUTATED        0
  CYP3A7 WILD-TYPE     50
D1205V10, multiclass
        clus
vv       CYP3A7 MUTATED CYP3A7 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CYP3A7 MUTATED        0      0      0      0      0      0
  CYP3A7 WILD-TYPE     13     16     14     11     11      9
D1205V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP3A7 MUTATED        0      0      0      0      0      0      0      0
  CYP3A7 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  CYP3A7 MUTATED        0
  CYP3A7 WILD-TYPE      5
D1205V12, multiclass

Clustering(1206) Variable = THRAP3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THRAP3 MUTATED        3      0      0      1      0
  THRAP3 WILD-TYPE     29     18     46     26     23
D1206V1, multiclass
        clus
vv       THRAP3 MUTATED THRAP3 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  THRAP3 MUTATED        4      0      0
  THRAP3 WILD-TYPE     39     67     36
D1206V2, multiclass
        clus
vv       THRAP3 MUTATED THRAP3 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  THRAP3 MUTATED        0      1      9
  THRAP3 WILD-TYPE     42    172    138
D1206V3, multiclass
        clus
vv       THRAP3 MUTATED THRAP3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  THRAP3 MUTATED        3      1      3
  THRAP3 WILD-TYPE     59     72     72
D1206V4, multiclass
        clus
vv       THRAP3 MUTATED THRAP3 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  THRAP3 MUTATED        2      0      8
  THRAP3 WILD-TYPE     68    120     92
D1206V5, multiclass
        clus
vv       THRAP3 MUTATED THRAP3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              0              120
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THRAP3 MUTATED        1      0      0      0      2      4      1      1
  THRAP3 WILD-TYPE     40     26     30     29     37     65     19     13
                  vv
clus               CLUS_9
  THRAP3 MUTATED        1
  THRAP3 WILD-TYPE     21
D1206V6, multiclass
        clus
vv       THRAP3 MUTATED THRAP3 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  THRAP3 MUTATED        0      4      3      4
  THRAP3 WILD-TYPE    100     68     69    117
D1206V7, multiclass
        clus
vv       THRAP3 MUTATED THRAP3 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              3               69
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THRAP3 MUTATED        2      1      4      0      4
  THRAP3 WILD-TYPE     57     74     70    119     34
D1206V8, multiclass
        clus
vv       THRAP3 MUTATED THRAP3 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THRAP3 MUTATED        1      3      2      1      3
  THRAP3 WILD-TYPE     50     73     59     70     92
D1206V9, multiclass
        clus
vv       THRAP3 MUTATED THRAP3 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THRAP3 MUTATED        1      2      1      2      1      0      0      3
  THRAP3 WILD-TYPE     68     46     38     14     52     20     21     35
                  vv
clus               CLUS_9
  THRAP3 MUTATED        0
  THRAP3 WILD-TYPE     50
D1206V10, multiclass
        clus
vv       THRAP3 MUTATED THRAP3 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  THRAP3 MUTATED        0      0      0      1      0      0
  THRAP3 WILD-TYPE     13     16     14     10     11      9
D1206V11, multiclass
[1] "Remove cluster labels:" "THRAP3 MUTATED"        
clus
  THRAP3 MUTATED THRAP3 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-DM-A0XD 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-G4-6628 
"THRAP3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  THRAP3 MUTATED        0      0      0      0      0      0      0      1
  THRAP3 WILD-TYPE     11      7      7      9      8      7     11      8
                  vv
clus               CLUS_9
  THRAP3 MUTATED        0
  THRAP3 WILD-TYPE      5
D1206V12, multiclass
[1] "Remove cluster labels:" "THRAP3 MUTATED"        
clus
  THRAP3 MUTATED THRAP3 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-DM-A0XD 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" "THRAP3 WILD-TYPE" 
      TCGA-G4-6628 
"THRAP3 WILD-TYPE" 

Clustering(1207) Variable = DNAH8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH8 MUTATED        8      1      1      4      1
  DNAH8 WILD-TYPE     24     17     45     23     22
D1207V1, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1             8              24
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             4              23
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNAH8 MUTATED        9      3      3
  DNAH8 WILD-TYPE     34     64     33
D1207V2, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1             9              34
  CLUS_2             3              64
  CLUS_3             3              33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNAH8 MUTATED        5     18     35
  DNAH8 WILD-TYPE     37    155    112
D1207V3, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1             5              37
  CLUS_2            18             155
  CLUS_3            35             112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNAH8 MUTATED       17     11     17
  DNAH8 WILD-TYPE     45     62     58
D1207V4, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1            17              45
  CLUS_2            11              62
  CLUS_3            17              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNAH8 MUTATED        8     19     24
  DNAH8 WILD-TYPE     62    101     76
D1207V5, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1             8              62
  CLUS_2            19             101
  CLUS_3            24              76
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH8 MUTATED        5      4      4      5      7     18      4      3
  DNAH8 WILD-TYPE     36     22     26     24     32     51     16     11
                 vv
clus              CLUS_9
  DNAH8 MUTATED        1
  DNAH8 WILD-TYPE     21
D1207V6, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1             5              36
  CLUS_2             4              22
  CLUS_3             4              26
  CLUS_4             5              24
  CLUS_5             7              32
  CLUS_6            18              51
  CLUS_7             4              16
  CLUS_8             3              11
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNAH8 MUTATED       13     16     14     16
  DNAH8 WILD-TYPE     87     56     58    105
D1207V7, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1            13              87
  CLUS_2            16              56
  CLUS_3            14              58
  CLUS_4            16             105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH8 MUTATED        8     12     21      9      9
  DNAH8 WILD-TYPE     51     63     53    110     29
D1207V8, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1             8              51
  CLUS_2            12              63
  CLUS_3            21              53
  CLUS_4             9             110
  CLUS_5             9              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAH8 MUTATED        8     20     10      7     12
  DNAH8 WILD-TYPE     43     56     51     64     83
D1207V9, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1             8              43
  CLUS_2            20              56
  CLUS_3            10              51
  CLUS_4             7              64
  CLUS_5            12              83
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH8 MUTATED       12      7      4      7      8      4      4      7
  DNAH8 WILD-TYPE     57     41     35      9     45     16     17     31
                 vv
clus              CLUS_9
  DNAH8 MUTATED        4
  DNAH8 WILD-TYPE     46
D1207V10, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1            12              57
  CLUS_2             7              41
  CLUS_3             4              35
  CLUS_4             7               9
  CLUS_5             8              45
  CLUS_6             4              16
  CLUS_7             4              17
  CLUS_8             7              31
  CLUS_9             4              46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNAH8 MUTATED        3      1      3      0      7      0
  DNAH8 WILD-TYPE     10     15     11     11      4      9
D1207V11, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1             3              10
  CLUS_2             1              15
  CLUS_3             3              11
  CLUS_4             0              11
  CLUS_5             7               4
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAH8 MUTATED        0      1      0      5      3      1      2      1
  DNAH8 WILD-TYPE     11      6      7      4      5      6      9      8
                 vv
clus              CLUS_9
  DNAH8 MUTATED        1
  DNAH8 WILD-TYPE      4
D1207V12, multiclass
        clus
vv       DNAH8 MUTATED DNAH8 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             5               4
  CLUS_5             3               5
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1208) Variable = PDGFC MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDGFC MUTATED        1      0      0      1      0
  PDGFC WILD-TYPE     31     18     46     26     23
D1208V1, multiclass
[1] "Remove cluster labels:" "PDGFC MUTATED"         
clus
  PDGFC MUTATED PDGFC WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDGFC MUTATED        1      1      0
  PDGFC WILD-TYPE     42     66     36
D1208V2, multiclass
[1] "Remove cluster labels:" "PDGFC MUTATED"         
clus
  PDGFC MUTATED PDGFC WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" "PDGFC WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDGFC MUTATED        0      2      6
  PDGFC WILD-TYPE     42    171    141
D1208V3, multiclass
        clus
vv       PDGFC MUTATED PDGFC WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDGFC MUTATED        4      1      1
  PDGFC WILD-TYPE     58     72     74
D1208V4, multiclass
        clus
vv       PDGFC MUTATED PDGFC WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDGFC MUTATED        1      2      5
  PDGFC WILD-TYPE     69    118     95
D1208V5, multiclass
        clus
vv       PDGFC MUTATED PDGFC WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PDGFC MUTATED        0      0      1      1      1      4      1      0
  PDGFC WILD-TYPE     41     26     29     28     38     65     19     14
                 vv
clus              CLUS_9
  PDGFC MUTATED        0
  PDGFC WILD-TYPE     22
D1208V6, multiclass
        clus
vv       PDGFC MUTATED PDGFC WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PDGFC MUTATED        3      1      3      2
  PDGFC WILD-TYPE     97     71     69    119
D1208V7, multiclass
        clus
vv       PDGFC MUTATED PDGFC WILD-TYPE
  CLUS_1             3              97
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDGFC MUTATED        2      3      2      1      1
  PDGFC WILD-TYPE     57     72     72    118     37
D1208V8, multiclass
        clus
vv       PDGFC MUTATED PDGFC WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDGFC MUTATED        0      3      2      1      3
  PDGFC WILD-TYPE     51     73     59     70     92
D1208V9, multiclass
        clus
vv       PDGFC MUTATED PDGFC WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PDGFC MUTATED        4      1      0      0      2      1      0      1
  PDGFC WILD-TYPE     65     47     39     16     51     19     21     37
                 vv
clus              CLUS_9
  PDGFC MUTATED        0
  PDGFC WILD-TYPE     50
D1208V10, multiclass
        clus
vv       PDGFC MUTATED PDGFC WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PDGFC MUTATED        1      0      2      0      1      0
  PDGFC WILD-TYPE     12     16     12     11     10      9
D1208V11, multiclass
        clus
vv       PDGFC MUTATED PDGFC WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PDGFC MUTATED        0      0      0      1      1      1      1      0
  PDGFC WILD-TYPE     11      7      7      8      7      6     10      9
                 vv
clus              CLUS_9
  PDGFC MUTATED        0
  PDGFC WILD-TYPE      5
D1208V12, multiclass
        clus
vv       PDGFC MUTATED PDGFC WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1209) Variable = STAG2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAG2 MUTATED        3      0      0      2      0
  STAG2 WILD-TYPE     29     18     46     25     23
D1209V1, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAG2 MUTATED        2      2      1
  STAG2 WILD-TYPE     41     65     35
D1209V2, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAG2 MUTATED        0      6      7
  STAG2 WILD-TYPE     42    167    140
D1209V3, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             6             167
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAG2 MUTATED        3      5      0
  STAG2 WILD-TYPE     59     68     75
D1209V4, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             5              68
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAG2 MUTATED        1      6      3
  STAG2 WILD-TYPE     69    114     97
D1209V5, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAG2 MUTATED        0      1      2      1      0      3      0      1
  STAG2 WILD-TYPE     41     25     28     28     39     66     20     13
                 vv
clus              CLUS_9
  STAG2 MUTATED        2
  STAG2 WILD-TYPE     20
D1209V6, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STAG2 MUTATED        5      0      2      6
  STAG2 WILD-TYPE     95     72     70    115
D1209V7, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             0              72
  CLUS_3             2              70
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAG2 MUTATED        2      4      1      4      2
  STAG2 WILD-TYPE     57     71     73    115     36
D1209V8, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             1              73
  CLUS_4             4             115
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAG2 MUTATED        3      2      1      3      4
  STAG2 WILD-TYPE     48     74     60     68     91
D1209V9, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             3              68
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAG2 MUTATED        2      2      0      0      5      1      0      2
  STAG2 WILD-TYPE     67     46     39     16     48     19     21     36
                 vv
clus              CLUS_9
  STAG2 MUTATED        1
  STAG2 WILD-TYPE     49
D1209V10, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             5              48
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STAG2 MUTATED        0      0      0      1      1      0
  STAG2 WILD-TYPE     13     16     14     10     10      9
D1209V11, multiclass
[1] "Remove cluster labels:" "STAG2 MUTATED"         
clus
  STAG2 MUTATED STAG2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6679      TCGA-CM-6680 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAG2 MUTATED        0      0      0      0      0      0      2      0
  STAG2 WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  STAG2 MUTATED        0
  STAG2 WILD-TYPE      5
D1209V12, multiclass
[1] "Remove cluster labels:" "STAG2 MUTATED"         
clus
  STAG2 MUTATED STAG2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6679      TCGA-CM-6680 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 

Clustering(1210) Variable = CNOT10 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNOT10 MUTATED        0      0      0      2      0
  CNOT10 WILD-TYPE     32     18     46     25     23
D1210V1, multiclass
[1] "Remove cluster labels:" "CNOT10 MUTATED"        
clus
  CNOT10 MUTATED CNOT10 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CNOT10 MUTATED        1      1      0
  CNOT10 WILD-TYPE     42     66     36
D1210V2, multiclass
[1] "Remove cluster labels:" "CNOT10 MUTATED"        
clus
  CNOT10 MUTATED CNOT10 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CNOT10 MUTATED        1      1      7
  CNOT10 WILD-TYPE     41    172    140
D1210V3, multiclass
        clus
vv       CNOT10 MUTATED CNOT10 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CNOT10 MUTATED        4      1      1
  CNOT10 WILD-TYPE     58     72     74
D1210V4, multiclass
        clus
vv       CNOT10 MUTATED CNOT10 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CNOT10 MUTATED        0      2      7
  CNOT10 WILD-TYPE     70    118     93
D1210V5, multiclass
        clus
vv       CNOT10 MUTATED CNOT10 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNOT10 MUTATED        1      0      2      0      0      6      0      0
  CNOT10 WILD-TYPE     40     26     28     29     39     63     20     14
                  vv
clus               CLUS_9
  CNOT10 MUTATED        0
  CNOT10 WILD-TYPE     22
D1210V6, multiclass
        clus
vv       CNOT10 MUTATED CNOT10 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              6               63
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CNOT10 MUTATED        1      2      3      3
  CNOT10 WILD-TYPE     99     70     69    118
D1210V7, multiclass
        clus
vv       CNOT10 MUTATED CNOT10 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNOT10 MUTATED        1      2      3      1      2
  CNOT10 WILD-TYPE     58     73     71    118     36
D1210V8, multiclass
        clus
vv       CNOT10 MUTATED CNOT10 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNOT10 MUTATED        1      3      1      0      3
  CNOT10 WILD-TYPE     50     73     60     71     92
D1210V9, multiclass
        clus
vv       CNOT10 MUTATED CNOT10 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNOT10 MUTATED        3      2      0      0      0      1      0      1
  CNOT10 WILD-TYPE     66     46     39     16     53     19     21     37
                  vv
clus               CLUS_9
  CNOT10 MUTATED        1
  CNOT10 WILD-TYPE     49
D1210V10, multiclass
        clus
vv       CNOT10 MUTATED CNOT10 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CNOT10 MUTATED        0      0      1      0      1      0
  CNOT10 WILD-TYPE     13     16     13     11     10      9
D1210V11, multiclass
[1] "Remove cluster labels:" "CNOT10 MUTATED"        
clus
  CNOT10 MUTATED CNOT10 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-5403       TCGA-AZ-6598 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNOT10 MUTATED        0      0      0      0      1      0      1      0
  CNOT10 WILD-TYPE     11      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  CNOT10 MUTATED        0
  CNOT10 WILD-TYPE      5
D1210V12, multiclass
[1] "Remove cluster labels:" "CNOT10 MUTATED"        
clus
  CNOT10 MUTATED CNOT10 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-5403       TCGA-AZ-6598 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" "CNOT10 WILD-TYPE" 

Clustering(1211) Variable = RSPO2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RSPO2 MUTATED        2      0      0      1      1
  RSPO2 WILD-TYPE     30     18     46     26     22
D1211V1, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RSPO2 MUTATED        1      1      2
  RSPO2 WILD-TYPE     42     66     34
D1211V2, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RSPO2 MUTATED        0      7     10
  RSPO2 WILD-TYPE     42    166    137
D1211V3, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             7             166
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RSPO2 MUTATED        6      0      7
  RSPO2 WILD-TYPE     56     73     68
D1211V4, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             0              73
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RSPO2 MUTATED        3      4      5
  RSPO2 WILD-TYPE     67    116     95
D1211V5, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RSPO2 MUTATED        2      3      1      1      1      2      2      0
  RSPO2 WILD-TYPE     39     23     29     28     38     67     18     14
                 vv
clus              CLUS_9
  RSPO2 MUTATED        0
  RSPO2 WILD-TYPE     22
D1211V6, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             3              23
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RSPO2 MUTATED        4      3      6      4
  RSPO2 WILD-TYPE     96     69     66    117
D1211V7, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             3              69
  CLUS_3             6              66
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RSPO2 MUTATED        5      3      5      3      1
  RSPO2 WILD-TYPE     54     72     69    116     37
D1211V8, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RSPO2 MUTATED        2      7      3      3      2
  RSPO2 WILD-TYPE     49     69     58     68     93
D1211V9, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             3              58
  CLUS_4             3              68
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RSPO2 MUTATED        4      4      2      1      2      2      0      1
  RSPO2 WILD-TYPE     65     44     37     15     51     18     21     37
                 vv
clus              CLUS_9
  RSPO2 MUTATED        1
  RSPO2 WILD-TYPE     49
D1211V10, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              44
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RSPO2 MUTATED        0      2      2      0      2      0
  RSPO2 WILD-TYPE     13     14     12     11      9      9
D1211V11, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RSPO2 MUTATED        1      2      0      0      1      0      2      0
  RSPO2 WILD-TYPE     10      5      7      9      7      7      9      9
                 vv
clus              CLUS_9
  RSPO2 MUTATED        0
  RSPO2 WILD-TYPE      5
D1211V12, multiclass
        clus
vv       RSPO2 MUTATED RSPO2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             2               5
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1212) Variable = LPAR6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPAR6 MUTATED        0      0      0      1      0
  LPAR6 WILD-TYPE     32     18     46     26     23
D1212V1, multiclass
[1] "Remove cluster labels:" "LPAR6 MUTATED"         
clus
  LPAR6 MUTATED LPAR6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AY-4071 
"LPAR6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LPAR6 MUTATED        1      0      0
  LPAR6 WILD-TYPE     42     67     36
D1212V2, multiclass
[1] "Remove cluster labels:" "LPAR6 MUTATED"         
clus
  LPAR6 MUTATED LPAR6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AY-4071 
"LPAR6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LPAR6 MUTATED        1      2      4
  LPAR6 WILD-TYPE     41    171    143
D1212V3, multiclass
        clus
vv       LPAR6 MUTATED LPAR6 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LPAR6 MUTATED        3      1      2
  LPAR6 WILD-TYPE     59     72     73
D1212V4, multiclass
        clus
vv       LPAR6 MUTATED LPAR6 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LPAR6 MUTATED        0      1      4
  LPAR6 WILD-TYPE     70    119     96
D1212V5, multiclass
        clus
vv       LPAR6 MUTATED LPAR6 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPAR6 MUTATED        1      0      0      0      0      3      1      0
  LPAR6 WILD-TYPE     40     26     30     29     39     66     19     14
                 vv
clus              CLUS_9
  LPAR6 MUTATED        0
  LPAR6 WILD-TYPE     22
D1212V6, multiclass
        clus
vv       LPAR6 MUTATED LPAR6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LPAR6 MUTATED        2      2      2      1
  LPAR6 WILD-TYPE     98     70     70    120
D1212V7, multiclass
        clus
vv       LPAR6 MUTATED LPAR6 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPAR6 MUTATED        1      3      2      0      1
  LPAR6 WILD-TYPE     58     72     72    119     37
D1212V8, multiclass
        clus
vv       LPAR6 MUTATED LPAR6 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPAR6 MUTATED        2      3      0      0      1
  LPAR6 WILD-TYPE     49     73     61     71     94
D1212V9, multiclass
        clus
vv       LPAR6 MUTATED LPAR6 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPAR6 MUTATED        1      2      1      0      1      0      0      0
  LPAR6 WILD-TYPE     68     46     38     16     52     20     21     38
                 vv
clus              CLUS_9
  LPAR6 MUTATED        1
  LPAR6 WILD-TYPE     49
D1212V10, multiclass
        clus
vv       LPAR6 MUTATED LPAR6 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LPAR6 MUTATED        0      0      1      0      1      0
  LPAR6 WILD-TYPE     13     16     13     11     10      9
D1212V11, multiclass
[1] "Remove cluster labels:" "LPAR6 MUTATED"         
clus
  LPAR6 MUTATED LPAR6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPAR6 MUTATED        0      0      0      0      1      0      1      0
  LPAR6 WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  LPAR6 MUTATED        0
  LPAR6 WILD-TYPE      5
D1212V12, multiclass
[1] "Remove cluster labels:" "LPAR6 MUTATED"         
clus
  LPAR6 MUTATED LPAR6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" "LPAR6 WILD-TYPE" 

Clustering(1213) Variable = FAM175A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM175A MUTATED        1      0      0      2      0
  FAM175A WILD-TYPE     31     18     46     25     23
D1213V1, multiclass
        clus
vv       FAM175A MUTATED FAM175A WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM175A MUTATED        2      1      0
  FAM175A WILD-TYPE     41     66     36
D1213V2, multiclass
        clus
vv       FAM175A MUTATED FAM175A WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM175A MUTATED        0      1      7
  FAM175A WILD-TYPE     42    172    140
D1213V3, multiclass
        clus
vv       FAM175A MUTATED FAM175A WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM175A MUTATED        2      1      2
  FAM175A WILD-TYPE     60     72     73
D1213V4, multiclass
        clus
vv       FAM175A MUTATED FAM175A WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM175A MUTATED        0      5      3
  FAM175A WILD-TYPE     70    115     97
D1213V5, multiclass
        clus
vv       FAM175A MUTATED FAM175A WILD-TYPE
  CLUS_1               0                70
  CLUS_2               5               115
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM175A MUTATED        0      1      1      1      0      3      1      1
  FAM175A WILD-TYPE     41     25     29     28     39     66     19     13
                   vv
clus                CLUS_9
  FAM175A MUTATED        0
  FAM175A WILD-TYPE     22
D1213V6, multiclass
        clus
vv       FAM175A MUTATED FAM175A WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM175A MUTATED        1      3      1      3
  FAM175A WILD-TYPE     99     69     71    118
D1213V7, multiclass
        clus
vv       FAM175A MUTATED FAM175A WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               1                71
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM175A MUTATED        1      1      3      1      2
  FAM175A WILD-TYPE     58     74     71    118     36
D1213V8, multiclass
        clus
vv       FAM175A MUTATED FAM175A WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM175A MUTATED        1      2      1      1      1
  FAM175A WILD-TYPE     50     74     60     70     94
D1213V9, multiclass
        clus
vv       FAM175A MUTATED FAM175A WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM175A MUTATED        2      0      1      1      1      1      0      0
  FAM175A WILD-TYPE     67     48     38     15     52     19     21     38
                   vv
clus                CLUS_9
  FAM175A MUTATED        0
  FAM175A WILD-TYPE     50
D1213V10, multiclass
        clus
vv       FAM175A MUTATED FAM175A WILD-TYPE
  CLUS_1               2                67
  CLUS_2               0                48
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM175A MUTATED        0      0      0      0      1      0
  FAM175A WILD-TYPE     13     16     14     11     10      9
D1213V11, multiclass
[1] "Remove cluster labels:" "FAM175A MUTATED"       
clus
  FAM175A MUTATED FAM175A WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-G4-6628 
"FAM175A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM175A MUTATED        0      0      0      1      0      0      0      0
  FAM175A WILD-TYPE     11      7      7      8      8      7     11      9
                   vv
clus                CLUS_9
  FAM175A MUTATED        0
  FAM175A WILD-TYPE      5
D1213V12, multiclass
[1] "Remove cluster labels:" "FAM175A MUTATED"       
clus
  FAM175A MUTATED FAM175A WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625 
"FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" "FAM175A WILD-TYPE" 
       TCGA-G4-6628 
"FAM175A WILD-TYPE" 

Clustering(1214) Variable = SLC8A3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC8A3 MUTATED        2      0      1      2      0
  SLC8A3 WILD-TYPE     30     18     45     25     23
D1214V1, multiclass
        clus
vv       SLC8A3 MUTATED SLC8A3 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC8A3 MUTATED        3      1      1
  SLC8A3 WILD-TYPE     40     66     35
D1214V2, multiclass
        clus
vv       SLC8A3 MUTATED SLC8A3 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC8A3 MUTATED        1      2      9
  SLC8A3 WILD-TYPE     41    171    138
D1214V3, multiclass
        clus
vv       SLC8A3 MUTATED SLC8A3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC8A3 MUTATED        3      2      2
  SLC8A3 WILD-TYPE     59     71     73
D1214V4, multiclass
        clus
vv       SLC8A3 MUTATED SLC8A3 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC8A3 MUTATED        2      5      4
  SLC8A3 WILD-TYPE     68    115     96
D1214V5, multiclass
        clus
vv       SLC8A3 MUTATED SLC8A3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC8A3 MUTATED        0      1      0      2      3      3      1      1
  SLC8A3 WILD-TYPE     41     25     30     27     36     66     19     13
                  vv
clus               CLUS_9
  SLC8A3 MUTATED        0
  SLC8A3 WILD-TYPE     22
D1214V6, multiclass
        clus
vv       SLC8A3 MUTATED SLC8A3 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              3               36
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC8A3 MUTATED        1      4      2      5
  SLC8A3 WILD-TYPE     99     68     70    116
D1214V7, multiclass
        clus
vv       SLC8A3 MUTATED SLC8A3 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC8A3 MUTATED        0      3      3      3      3
  SLC8A3 WILD-TYPE     59     72     71    116     35
D1214V8, multiclass
        clus
vv       SLC8A3 MUTATED SLC8A3 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              3               71
  CLUS_4              3              116
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC8A3 MUTATED        1      1      1      3      6
  SLC8A3 WILD-TYPE     50     75     60     68     89
D1214V9, multiclass
        clus
vv       SLC8A3 MUTATED SLC8A3 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC8A3 MUTATED        2      1      0      0      1      2      0      3
  SLC8A3 WILD-TYPE     67     47     39     16     52     18     21     35
                  vv
clus               CLUS_9
  SLC8A3 MUTATED        3
  SLC8A3 WILD-TYPE     47
D1214V10, multiclass
        clus
vv       SLC8A3 MUTATED SLC8A3 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC8A3 MUTATED        1      0      1      0      0      0
  SLC8A3 WILD-TYPE     12     16     13     11     11      9
D1214V11, multiclass
[1] "Remove cluster labels:" "SLC8A3 MUTATED"        
clus
  SLC8A3 MUTATED SLC8A3 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC8A3 MUTATED        0      0      0      1      1      0      0      0
  SLC8A3 WILD-TYPE     11      7      7      8      7      7     11      9
                  vv
clus               CLUS_9
  SLC8A3 MUTATED        0
  SLC8A3 WILD-TYPE      5
D1214V12, multiclass
[1] "Remove cluster labels:" "SLC8A3 MUTATED"        
clus
  SLC8A3 MUTATED SLC8A3 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" "SLC8A3 WILD-TYPE" 

Clustering(1215) Variable = A1CF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  A1CF MUTATED        3      0      0      0      0
  A1CF WILD-TYPE     29     18     46     27     23
D1215V1, multiclass
        clus
vv       A1CF MUTATED A1CF WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  A1CF MUTATED        2      0      1
  A1CF WILD-TYPE     41     67     35
D1215V2, multiclass
        clus
vv       A1CF MUTATED A1CF WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  A1CF MUTATED        0      4      4
  A1CF WILD-TYPE     42    169    143
D1215V3, multiclass
        clus
vv       A1CF MUTATED A1CF WILD-TYPE
  CLUS_1            0             42
  CLUS_2            4            169
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  A1CF MUTATED        1      3      2
  A1CF WILD-TYPE     61     70     73
D1215V4, multiclass
        clus
vv       A1CF MUTATED A1CF WILD-TYPE
  CLUS_1            1             61
  CLUS_2            3             70
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  A1CF MUTATED        0      2      4
  A1CF WILD-TYPE     70    118     96
D1215V5, multiclass
        clus
vv       A1CF MUTATED A1CF WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  A1CF MUTATED        2      0      0      0      1      2      0      1      0
  A1CF WILD-TYPE     39     26     30     29     38     67     20     13     22
D1215V6, multiclass
        clus
vv       A1CF MUTATED A1CF WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  A1CF MUTATED        3      0      2      3
  A1CF WILD-TYPE     97     72     70    118
D1215V7, multiclass
        clus
vv       A1CF MUTATED A1CF WILD-TYPE
  CLUS_1            3             97
  CLUS_2            0             72
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  A1CF MUTATED        3      2      0      1      2
  A1CF WILD-TYPE     56     73     74    118     36
D1215V8, multiclass
        clus
vv       A1CF MUTATED A1CF WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3            0             74
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  A1CF MUTATED        2      1      1      2      2
  A1CF WILD-TYPE     49     75     60     69     93
D1215V9, multiclass
        clus
vv       A1CF MUTATED A1CF WILD-TYPE
  CLUS_1            2             49
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  A1CF MUTATED        2      1      1      0      2      0      0      2      0
  A1CF WILD-TYPE     67     47     38     16     51     20     21     36     50
D1215V10, multiclass
        clus
vv       A1CF MUTATED A1CF WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  A1CF MUTATED        0      0      0      1      0      1
  A1CF WILD-TYPE     13     16     14     10     11      8
D1215V11, multiclass
[1] "Remove cluster labels:" "A1CF MUTATED"          
clus
  A1CF MUTATED A1CF WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  A1CF MUTATED        1      0      0      0      0      0      0      1      0
  A1CF WILD-TYPE     10      7      7      9      8      7     11      8      5
D1215V12, multiclass
[1] "Remove cluster labels:" "A1CF MUTATED"          
clus
  A1CF MUTATED A1CF WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" "A1CF WILD-TYPE" 

Clustering(1216) Variable = ARHGEF1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGEF1 MUTATED        3      0      0      0      1
  ARHGEF1 WILD-TYPE     29     18     46     27     22
D1216V1, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               0                27
  CLUS_5               1                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGEF1 MUTATED        3      0      1
  ARHGEF1 WILD-TYPE     40     67     35
D1216V2, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGEF1 MUTATED        1      2      9
  ARHGEF1 WILD-TYPE     41    171    138
D1216V3, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGEF1 MUTATED        2      2      5
  ARHGEF1 WILD-TYPE     60     71     70
D1216V4, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               2                71
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGEF1 MUTATED        2      3      6
  ARHGEF1 WILD-TYPE     68    117     94
D1216V5, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               3               117
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGEF1 MUTATED        0      1      0      1      1      5      2      1
  ARHGEF1 WILD-TYPE     41     25     30     28     38     64     18     13
                   vv
clus                CLUS_9
  ARHGEF1 MUTATED        0
  ARHGEF1 WILD-TYPE     22
D1216V6, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               2                18
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGEF1 MUTATED        2      4      3      4
  ARHGEF1 WILD-TYPE     98     68     69    117
D1216V7, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               4                68
  CLUS_3               3                69
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGEF1 MUTATED        0      2      7      1      3
  ARHGEF1 WILD-TYPE     59     73     67    118     35
D1216V8, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               7                67
  CLUS_4               1               118
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGEF1 MUTATED        1      6      1      2      3
  ARHGEF1 WILD-TYPE     50     70     60     69     92
D1216V9, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               6                70
  CLUS_3               1                60
  CLUS_4               2                69
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGEF1 MUTATED        3      2      1      3      1      1      0      2
  ARHGEF1 WILD-TYPE     66     46     38     13     52     19     21     36
                   vv
clus                CLUS_9
  ARHGEF1 MUTATED        0
  ARHGEF1 WILD-TYPE     50
D1216V10, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               3                13
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARHGEF1 MUTATED        1      0      1      0      3      0
  ARHGEF1 WILD-TYPE     12     16     13     11      8      9
D1216V11, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARHGEF1 MUTATED        0      0      0      2      2      0      1      0
  ARHGEF1 WILD-TYPE     11      7      7      7      6      7     10      9
                   vv
clus                CLUS_9
  ARHGEF1 MUTATED        0
  ARHGEF1 WILD-TYPE      5
D1216V12, multiclass
        clus
vv       ARHGEF1 MUTATED ARHGEF1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               2                 6
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1217) Variable = ZNF559 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF559 MUTATED        5      1      0      1      0
  ZNF559 WILD-TYPE     27     17     46     26     23
D1217V1, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF559 MUTATED        5      2      0
  ZNF559 WILD-TYPE     38     65     36
D1217V2, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF559 MUTATED        0      3     12
  ZNF559 WILD-TYPE     42    170    135
D1217V3, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF559 MUTATED        5      3      1
  ZNF559 WILD-TYPE     57     70     74
D1217V4, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              3               70
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF559 MUTATED        3      5      7
  ZNF559 WILD-TYPE     67    115     93
D1217V5, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              5              115
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF559 MUTATED        3      0      1      0      3      6      1      1
  ZNF559 WILD-TYPE     38     26     29     29     36     63     19     13
                  vv
clus               CLUS_9
  ZNF559 MUTATED        0
  ZNF559 WILD-TYPE     22
D1217V6, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              3               36
  CLUS_6              6               63
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF559 MUTATED        2      4      3      6
  ZNF559 WILD-TYPE     98     68     69    115
D1217V7, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              3               69
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF559 MUTATED        1      3      4      4      3
  ZNF559 WILD-TYPE     58     72     70    115     35
D1217V8, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              4               70
  CLUS_4              4              115
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF559 MUTATED        1      3      2      2      6
  ZNF559 WILD-TYPE     50     73     59     69     89
D1217V9, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF559 MUTATED        2      2      1      0      2      1      2      3
  ZNF559 WILD-TYPE     67     46     38     16     51     19     19     35
                  vv
clus               CLUS_9
  ZNF559 MUTATED        1
  ZNF559 WILD-TYPE     49
D1217V10, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              2               19
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF559 MUTATED        1      0      1      0      1      0
  ZNF559 WILD-TYPE     12     16     13     11     10      9
D1217V11, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF559 MUTATED        0      0      0      1      1      0      1      0
  ZNF559 WILD-TYPE     11      7      7      8      7      7     10      9
                  vv
clus               CLUS_9
  ZNF559 MUTATED        0
  ZNF559 WILD-TYPE      5
D1217V12, multiclass
        clus
vv       ZNF559 MUTATED ZNF559 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1218) Variable = EPHA7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA7 MUTATED        6      0      0      2      1
  EPHA7 WILD-TYPE     26     18     46     25     22
D1218V1, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA7 MUTATED        7      1      1
  EPHA7 WILD-TYPE     36     66     35
D1218V2, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA7 MUTATED        2      8     24
  EPHA7 WILD-TYPE     40    165    123
D1218V3, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             8             165
  CLUS_3            24             123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA7 MUTATED       12      4     11
  EPHA7 WILD-TYPE     50     69     64
D1218V4, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1            12              50
  CLUS_2             4              69
  CLUS_3            11              64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA7 MUTATED        4      9     16
  EPHA7 WILD-TYPE     66    111     84
D1218V5, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             9             111
  CLUS_3            16              84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA7 MUTATED        3      2      1      1      5     11      4      0
  EPHA7 WILD-TYPE     38     24     29     28     34     58     16     14
                 vv
clus              CLUS_9
  EPHA7 MUTATED        2
  EPHA7 WILD-TYPE     20
D1218V6, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             5              34
  CLUS_6            11              58
  CLUS_7             4              16
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPHA7 MUTATED        2     11     13      9
  EPHA7 WILD-TYPE     98     61     59    112
D1218V7, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1             2              98
  CLUS_2            11              61
  CLUS_3            13              59
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA7 MUTATED        5      6     15      2      7
  EPHA7 WILD-TYPE     54     69     59    117     31
D1218V8, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             6              69
  CLUS_3            15              59
  CLUS_4             2             117
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA7 MUTATED        2     16      5      2      9
  EPHA7 WILD-TYPE     49     60     56     69     86
D1218V9, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1             2              49
  CLUS_2            16              60
  CLUS_3             5              56
  CLUS_4             2              69
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA7 MUTATED       10      7      1      3      2      2      0      7
  EPHA7 WILD-TYPE     59     41     38     13     51     18     21     31
                 vv
clus              CLUS_9
  EPHA7 MUTATED        2
  EPHA7 WILD-TYPE     48
D1218V10, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1            10              59
  CLUS_2             7              41
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             7              31
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EPHA7 MUTATED        1      2      2      1      1      1
  EPHA7 WILD-TYPE     12     14     12     10     10      8
D1218V11, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA7 MUTATED        3      0      0      1      1      0      3      0
  EPHA7 WILD-TYPE      8      7      7      8      7      7      8      9
                 vv
clus              CLUS_9
  EPHA7 MUTATED        0
  EPHA7 WILD-TYPE      5
D1218V12, multiclass
        clus
vv       EPHA7 MUTATED EPHA7 WILD-TYPE
  CLUS_1             3               8
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1219) Variable = KCTD9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCTD9 MUTATED        0      0      0      0      0
  KCTD9 WILD-TYPE     32     18     46     27     23
D1219V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD9 MUTATED        0      0      0
  KCTD9 WILD-TYPE     43     67     36
D1219V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD9 MUTATED        0      0      5
  KCTD9 WILD-TYPE     42    173    142
D1219V3, multiclass
        clus
vv       KCTD9 MUTATED KCTD9 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD9 MUTATED        4      0      1
  KCTD9 WILD-TYPE     58     73     74
D1219V4, multiclass
        clus
vv       KCTD9 MUTATED KCTD9 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD9 MUTATED        1      0      4
  KCTD9 WILD-TYPE     69    120     96
D1219V5, multiclass
        clus
vv       KCTD9 MUTATED KCTD9 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             0             120
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCTD9 MUTATED        1      0      0      0      0      3      1      0
  KCTD9 WILD-TYPE     40     26     30     29     39     66     19     14
                 vv
clus              CLUS_9
  KCTD9 MUTATED        0
  KCTD9 WILD-TYPE     22
D1219V6, multiclass
        clus
vv       KCTD9 MUTATED KCTD9 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCTD9 MUTATED        0      0      5      0
  KCTD9 WILD-TYPE    100     72     67    121
D1219V7, multiclass
        clus
vv       KCTD9 MUTATED KCTD9 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             0              72
  CLUS_3             5              67
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCTD9 MUTATED        0      0      5      0      0
  KCTD9 WILD-TYPE     59     75     69    119     38
D1219V8, multiclass
        clus
vv       KCTD9 MUTATED KCTD9 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCTD9 MUTATED        0      5      0      0      0
  KCTD9 WILD-TYPE     51     71     61     71     95
D1219V9, multiclass
        clus
vv       KCTD9 MUTATED KCTD9 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCTD9 MUTATED        2      3      0      0      0      0      0      0
  KCTD9 WILD-TYPE     67     45     39     16     53     20     21     38
                 vv
clus              CLUS_9
  KCTD9 MUTATED        0
  KCTD9 WILD-TYPE     50
D1219V10, multiclass
        clus
vv       KCTD9 MUTATED KCTD9 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KCTD9 MUTATED        0      1      2      0      1      0
  KCTD9 WILD-TYPE     13     15     12     11     10      9
D1219V11, multiclass
        clus
vv       KCTD9 MUTATED KCTD9 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCTD9 MUTATED        0      0      0      0      0      2      2      0
  KCTD9 WILD-TYPE     11      7      7      9      8      5      9      9
                 vv
clus              CLUS_9
  KCTD9 MUTATED        0
  KCTD9 WILD-TYPE      5
D1219V12, multiclass
        clus
vv       KCTD9 MUTATED KCTD9 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             2               5
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1220) Variable = CD47 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD47 MUTATED        1      0      0      1      0
  CD47 WILD-TYPE     31     18     46     26     23
D1220V1, multiclass
[1] "Remove cluster labels:" "CD47 MUTATED"          
clus
  CD47 MUTATED CD47 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD47 MUTATED        1      1      0
  CD47 WILD-TYPE     42     66     36
D1220V2, multiclass
[1] "Remove cluster labels:" "CD47 MUTATED"          
clus
  CD47 MUTATED CD47 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" "CD47 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD47 MUTATED        0      2      6
  CD47 WILD-TYPE     42    171    141
D1220V3, multiclass
        clus
vv       CD47 MUTATED CD47 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD47 MUTATED        2      2      1
  CD47 WILD-TYPE     60     71     74
D1220V4, multiclass
        clus
vv       CD47 MUTATED CD47 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD47 MUTATED        1      2      4
  CD47 WILD-TYPE     69    118     96
D1220V5, multiclass
        clus
vv       CD47 MUTATED CD47 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD47 MUTATED        2      1      2      0      1      1      0      0      0
  CD47 WILD-TYPE     39     25     28     29     38     68     20     14     22
D1220V6, multiclass
        clus
vv       CD47 MUTATED CD47 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD47 MUTATED        2      1      2      3
  CD47 WILD-TYPE     98     71     70    118
D1220V7, multiclass
        clus
vv       CD47 MUTATED CD47 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD47 MUTATED        2      2      1      1      2
  CD47 WILD-TYPE     57     73     73    118     36
D1220V8, multiclass
        clus
vv       CD47 MUTATED CD47 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            1             73
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD47 MUTATED        0      3      2      0      3
  CD47 WILD-TYPE     51     73     59     71     92
D1220V9, multiclass
        clus
vv       CD47 MUTATED CD47 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD47 MUTATED        1      2      0      1      0      2      0      2      0
  CD47 WILD-TYPE     68     46     39     15     53     18     21     36     50
D1220V10, multiclass
        clus
vv       CD47 MUTATED CD47 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CD47 MUTATED        0      0      0      0      0      0
  CD47 WILD-TYPE     13     16     14     11     11      9
D1220V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD47 MUTATED        0      0      0      0      0      0      0      0      0
  CD47 WILD-TYPE     11      7      7      9      8      7     11      9      5
D1220V12, multiclass

Clustering(1221) Variable = PTPRB MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRB MUTATED        3      0      0      1      0
  PTPRB WILD-TYPE     29     18     46     26     23
D1221V1, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRB MUTATED        3      0      1
  PTPRB WILD-TYPE     40     67     35
D1221V2, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRB MUTATED        1      2     14
  PTPRB WILD-TYPE     41    171    133
D1221V3, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRB MUTATED        7      2      4
  PTPRB WILD-TYPE     55     71     71
D1221V4, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             7              55
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRB MUTATED        3      3      8
  PTPRB WILD-TYPE     67    117     92
D1221V5, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             3              67
  CLUS_2             3             117
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRB MUTATED        2      1      0      0      3      6      1      0
  PTPRB WILD-TYPE     39     25     30     29     36     63     19     14
                 vv
clus              CLUS_9
  PTPRB MUTATED        1
  PTPRB WILD-TYPE     21
D1221V6, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             3              36
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRB MUTATED        3      4      5      5
  PTPRB WILD-TYPE     97     68     67    116
D1221V7, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             5              67
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRB MUTATED        2      3      7      2      3
  PTPRB WILD-TYPE     57     72     67    117     35
D1221V8, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             7              67
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRB MUTATED        4      5      3      1      4
  PTPRB WILD-TYPE     47     71     58     70     91
D1221V9, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             4              47
  CLUS_2             5              71
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRB MUTATED        2      5      1      2      3      1      1      1
  PTPRB WILD-TYPE     67     43     38     14     50     19     20     37
                 vv
clus              CLUS_9
  PTPRB MUTATED        1
  PTPRB WILD-TYPE     49
D1221V10, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             2              67
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPRB MUTATED        1      1      0      0      1      0
  PTPRB WILD-TYPE     12     15     14     11     10      9
D1221V11, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRB MUTATED        1      0      0      1      0      0      0      0
  PTPRB WILD-TYPE     10      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  PTPRB MUTATED        1
  PTPRB WILD-TYPE      4
D1221V12, multiclass
        clus
vv       PTPRB MUTATED PTPRB WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1222) Variable = GPR113 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR113 MUTATED        3      0      1      0      0
  GPR113 WILD-TYPE     29     18     45     27     23
D1222V1, multiclass
        clus
vv       GPR113 MUTATED GPR113 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR113 MUTATED        3      1      0
  GPR113 WILD-TYPE     40     66     36
D1222V2, multiclass
        clus
vv       GPR113 MUTATED GPR113 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR113 MUTATED        0      2     12
  GPR113 WILD-TYPE     42    171    135
D1222V3, multiclass
        clus
vv       GPR113 MUTATED GPR113 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR113 MUTATED        5      1      4
  GPR113 WILD-TYPE     57     72     71
D1222V4, multiclass
        clus
vv       GPR113 MUTATED GPR113 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR113 MUTATED        0      4      6
  GPR113 WILD-TYPE     70    116     94
D1222V5, multiclass
        clus
vv       GPR113 MUTATED GPR113 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR113 MUTATED        1      1      1      2      1      3      1      0
  GPR113 WILD-TYPE     40     25     29     27     38     66     19     14
                  vv
clus               CLUS_9
  GPR113 MUTATED        0
  GPR113 WILD-TYPE     22
D1222V6, multiclass
        clus
vv       GPR113 MUTATED GPR113 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR113 MUTATED        1      5      3      5
  GPR113 WILD-TYPE     99     67     69    116
D1222V7, multiclass
        clus
vv       GPR113 MUTATED GPR113 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              5               67
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR113 MUTATED        1      1      7      2      3
  GPR113 WILD-TYPE     58     74     67    117     35
D1222V8, multiclass
        clus
vv       GPR113 MUTATED GPR113 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              7               67
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR113 MUTATED        1      6      2      0      5
  GPR113 WILD-TYPE     50     70     59     71     90
D1222V9, multiclass
        clus
vv       GPR113 MUTATED GPR113 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              6               70
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR113 MUTATED        1      3      1      5      0      0      1      2
  GPR113 WILD-TYPE     68     45     38     11     53     20     20     36
                  vv
clus               CLUS_9
  GPR113 MUTATED        1
  GPR113 WILD-TYPE     49
D1222V10, multiclass
        clus
vv       GPR113 MUTATED GPR113 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              5               11
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR113 MUTATED        0      0      0      0      1      0
  GPR113 WILD-TYPE     13     16     14     11     10      9
D1222V11, multiclass
[1] "Remove cluster labels:" "GPR113 MUTATED"        
clus
  GPR113 MUTATED GPR113 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-G4-6628 
"GPR113 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR113 MUTATED        0      0      0      0      0      0      1      0
  GPR113 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  GPR113 MUTATED        0
  GPR113 WILD-TYPE      5
D1222V12, multiclass
[1] "Remove cluster labels:" "GPR113 MUTATED"        
clus
  GPR113 MUTATED GPR113 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" "GPR113 WILD-TYPE" 
      TCGA-G4-6628 
"GPR113 WILD-TYPE" 

Clustering(1223) Variable = KIAA1407 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1407 MUTATED        3      0      0      1      0
  KIAA1407 WILD-TYPE     29     18     46     26     23
D1223V1, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1407 MUTATED        3      1      0
  KIAA1407 WILD-TYPE     40     66     36
D1223V2, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1407 MUTATED        1      4      5
  KIAA1407 WILD-TYPE     41    169    142
D1223V3, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                4                169
  CLUS_3                5                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1407 MUTATED        3      2      2
  KIAA1407 WILD-TYPE     59     71     73
D1223V4, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                2                 71
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1407 MUTATED        0      5      5
  KIAA1407 WILD-TYPE     70    115     95
D1223V5, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                5                115
  CLUS_3                5                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1407 MUTATED        0      1      1      1      2      3      1      1
  KIAA1407 WILD-TYPE     41     25     29     28     37     66     19     13
                    vv
clus                 CLUS_9
  KIAA1407 MUTATED        0
  KIAA1407 WILD-TYPE     22
D1223V6, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                2                 37
  CLUS_6                3                 66
  CLUS_7                1                 19
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1407 MUTATED        2      2      3      4
  KIAA1407 WILD-TYPE     98     70     69    117
D1223V7, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                2                 70
  CLUS_3                3                 69
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1407 MUTATED        3      1      3      1      3
  KIAA1407 WILD-TYPE     56     74     71    118     35
D1223V8, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                1                 74
  CLUS_3                3                 71
  CLUS_4                1                118
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1407 MUTATED        0      4      2      1      4
  KIAA1407 WILD-TYPE     51     72     59     70     91
D1223V9, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                4                 72
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1407 MUTATED        3      2      0      2      0      1      0      3
  KIAA1407 WILD-TYPE     66     46     39     14     53     19     21     35
                    vv
clus                 CLUS_9
  KIAA1407 MUTATED        0
  KIAA1407 WILD-TYPE     50
D1223V10, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                3                 35
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA1407 MUTATED        0      1      1      1      2      0
  KIAA1407 WILD-TYPE     13     15     13     10      9      9
D1223V11, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                1                 10
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1407 MUTATED        1      1      0      1      0      0      1      1
  KIAA1407 WILD-TYPE     10      6      7      8      8      7     10      8
                    vv
clus                 CLUS_9
  KIAA1407 MUTATED        0
  KIAA1407 WILD-TYPE      5
D1223V12, multiclass
        clus
vv       KIAA1407 MUTATED KIAA1407 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                1                  6
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                1                  8
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1224) Variable = PCDH20 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH20 MUTATED        3      0      1      1      1
  PCDH20 WILD-TYPE     29     18     45     26     22
D1224V1, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH20 MUTATED        3      1      2
  PCDH20 WILD-TYPE     40     66     34
D1224V2, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH20 MUTATED        5      3     13
  PCDH20 WILD-TYPE     37    170    134
D1224V3, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              5               37
  CLUS_2              3              170
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH20 MUTATED        5      3      7
  PCDH20 WILD-TYPE     57     70     68
D1224V4, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              3               70
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDH20 MUTATED        3      7      8
  PCDH20 WILD-TYPE     67    113     92
D1224V5, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              7              113
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH20 MUTATED        1      0      1      3      3      7      2      0
  PCDH20 WILD-TYPE     40     26     29     26     36     62     18     14
                  vv
clus               CLUS_9
  PCDH20 MUTATED        1
  PCDH20 WILD-TYPE     21
D1224V6, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              3               36
  CLUS_6              7               62
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDH20 MUTATED        4      7      4      6
  PCDH20 WILD-TYPE     96     65     68    115
D1224V7, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              7               65
  CLUS_3              4               68
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH20 MUTATED        1      6      8      4      2
  PCDH20 WILD-TYPE     58     69     66    115     36
D1224V8, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              6               69
  CLUS_3              8               66
  CLUS_4              4              115
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH20 MUTATED        3      6      2      2      8
  PCDH20 WILD-TYPE     48     70     59     69     87
D1224V9, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              6               70
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH20 MUTATED        5      3      0      3      1      2      1      3
  PCDH20 WILD-TYPE     64     45     39     13     52     18     20     35
                  vv
clus               CLUS_9
  PCDH20 MUTATED        3
  PCDH20 WILD-TYPE     47
D1224V10, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCDH20 MUTATED        3      0      1      1      2      1
  PCDH20 WILD-TYPE     10     16     13     10      9      8
D1224V11, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              3               10
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH20 MUTATED        1      0      0      2      0      0      3      1
  PCDH20 WILD-TYPE     10      7      7      7      8      7      8      8
                  vv
clus               CLUS_9
  PCDH20 MUTATED        1
  PCDH20 WILD-TYPE      4
D1224V12, multiclass
        clus
vv       PCDH20 MUTATED PCDH20 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              3                8
  CLUS_8              1                8
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1225) Variable = ADH1B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADH1B MUTATED        1      0      1      0      0
  ADH1B WILD-TYPE     31     18     45     27     23
D1225V1, multiclass
[1] "Remove cluster labels:" "ADH1B MUTATED"         
clus
  ADH1B MUTATED ADH1B WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02H 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADH1B MUTATED        1      1      0
  ADH1B WILD-TYPE     42     66     36
D1225V2, multiclass
[1] "Remove cluster labels:" "ADH1B MUTATED"         
clus
  ADH1B MUTATED ADH1B WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02H 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADH1B MUTATED        0      2      5
  ADH1B WILD-TYPE     42    171    142
D1225V3, multiclass
        clus
vv       ADH1B MUTATED ADH1B WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADH1B MUTATED        0      1      4
  ADH1B WILD-TYPE     62     72     71
D1225V4, multiclass
        clus
vv       ADH1B MUTATED ADH1B WILD-TYPE
  CLUS_1             0              62
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADH1B MUTATED        1      2      2
  ADH1B WILD-TYPE     69    118     98
D1225V5, multiclass
        clus
vv       ADH1B MUTATED ADH1B WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADH1B MUTATED        0      1      1      0      0      2      1      0
  ADH1B WILD-TYPE     41     25     29     29     39     67     19     14
                 vv
clus              CLUS_9
  ADH1B MUTATED        0
  ADH1B WILD-TYPE     22
D1225V6, multiclass
        clus
vv       ADH1B MUTATED ADH1B WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADH1B MUTATED        2      3      1      1
  ADH1B WILD-TYPE     98     69     71    120
D1225V7, multiclass
        clus
vv       ADH1B MUTATED ADH1B WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADH1B MUTATED        1      0      3      2      1
  ADH1B WILD-TYPE     58     75     71    117     37
D1225V8, multiclass
        clus
vv       ADH1B MUTATED ADH1B WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADH1B MUTATED        1      3      0      1      2
  ADH1B WILD-TYPE     50     73     61     70     93
D1225V9, multiclass
        clus
vv       ADH1B MUTATED ADH1B WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADH1B MUTATED        0      0      0      3      1      0      0      2
  ADH1B WILD-TYPE     69     48     39     13     52     20     21     36
                 vv
clus              CLUS_9
  ADH1B MUTATED        1
  ADH1B WILD-TYPE     49
D1225V10, multiclass
        clus
vv       ADH1B MUTATED ADH1B WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADH1B MUTATED        0      0      0      0      1      0
  ADH1B WILD-TYPE     13     16     14     11     10      9
D1225V11, multiclass
[1] "Remove cluster labels:" "ADH1B MUTATED"         
clus
  ADH1B MUTATED ADH1B WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-G4-6628 
"ADH1B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADH1B MUTATED        0      0      0      0      1      0      0      0
  ADH1B WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  ADH1B MUTATED        0
  ADH1B WILD-TYPE      5
D1225V12, multiclass
[1] "Remove cluster labels:" "ADH1B MUTATED"         
clus
  ADH1B MUTATED ADH1B WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" "ADH1B WILD-TYPE" 
     TCGA-G4-6628 
"ADH1B WILD-TYPE" 

Clustering(1226) Variable = TGIF1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGIF1 MUTATED        0      0      1      0      0
  TGIF1 WILD-TYPE     32     18     45     27     23
D1226V1, multiclass
[1] "Remove cluster labels:" "TGIF1 MUTATED"         
clus
  TGIF1 MUTATED TGIF1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AY-4071 
"TGIF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TGIF1 MUTATED        0      1      0
  TGIF1 WILD-TYPE     43     66     36
D1226V2, multiclass
[1] "Remove cluster labels:" "TGIF1 MUTATED"         
clus
  TGIF1 MUTATED TGIF1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" "TGIF1 WILD-TYPE" 
     TCGA-AY-4071 
"TGIF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TGIF1 MUTATED        2      2      5
  TGIF1 WILD-TYPE     40    171    142
D1226V3, multiclass
        clus
vv       TGIF1 MUTATED TGIF1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TGIF1 MUTATED        4      3      1
  TGIF1 WILD-TYPE     58     70     74
D1226V4, multiclass
        clus
vv       TGIF1 MUTATED TGIF1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TGIF1 MUTATED        0      5      3
  TGIF1 WILD-TYPE     70    115     97
D1226V5, multiclass
        clus
vv       TGIF1 MUTATED TGIF1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TGIF1 MUTATED        0      2      1      2      0      2      0      1
  TGIF1 WILD-TYPE     41     24     29     27     39     67     20     13
                 vv
clus              CLUS_9
  TGIF1 MUTATED        0
  TGIF1 WILD-TYPE     22
D1226V6, multiclass
        clus
vv       TGIF1 MUTATED TGIF1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TGIF1 MUTATED        3      1      3      2
  TGIF1 WILD-TYPE     97     71     69    119
D1226V7, multiclass
        clus
vv       TGIF1 MUTATED TGIF1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGIF1 MUTATED        1      4      2      2      0
  TGIF1 WILD-TYPE     58     71     72    117     38
D1226V8, multiclass
        clus
vv       TGIF1 MUTATED TGIF1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGIF1 MUTATED        1      3      2      1      2
  TGIF1 WILD-TYPE     50     73     59     70     93
D1226V9, multiclass
        clus
vv       TGIF1 MUTATED TGIF1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TGIF1 MUTATED        3      2      2      0      0      0      0      1
  TGIF1 WILD-TYPE     66     46     37     16     53     20     21     37
                 vv
clus              CLUS_9
  TGIF1 MUTATED        1
  TGIF1 WILD-TYPE     49
D1226V10, multiclass
        clus
vv       TGIF1 MUTATED TGIF1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TGIF1 MUTATED        0      0      0      0      0      0
  TGIF1 WILD-TYPE     13     16     14     11     11      9
D1226V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TGIF1 MUTATED        0      0      0      0      0      0      0      0
  TGIF1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  TGIF1 MUTATED        0
  TGIF1 WILD-TYPE      5
D1226V12, multiclass

Clustering(1227) Variable = IGFBP3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGFBP3 MUTATED        1      0      1      0      0
  IGFBP3 WILD-TYPE     31     18     45     27     23
D1227V1, multiclass
[1] "Remove cluster labels:" "IGFBP3 MUTATED"        
clus
  IGFBP3 MUTATED IGFBP3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2678 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3968 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGFBP3 MUTATED        1      1      0
  IGFBP3 WILD-TYPE     42     66     36
D1227V2, multiclass
[1] "Remove cluster labels:" "IGFBP3 MUTATED"        
clus
  IGFBP3 MUTATED IGFBP3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2678 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3968 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGFBP3 MUTATED        0      1      5
  IGFBP3 WILD-TYPE     42    172    142
D1227V3, multiclass
        clus
vv       IGFBP3 MUTATED IGFBP3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGFBP3 MUTATED        1      2      2
  IGFBP3 WILD-TYPE     61     71     73
D1227V4, multiclass
        clus
vv       IGFBP3 MUTATED IGFBP3 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGFBP3 MUTATED        1      1      3
  IGFBP3 WILD-TYPE     69    119     97
D1227V5, multiclass
        clus
vv       IGFBP3 MUTATED IGFBP3 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGFBP3 MUTATED        1      0      0      1      0      3      0      0
  IGFBP3 WILD-TYPE     40     26     30     28     39     66     20     14
                  vv
clus               CLUS_9
  IGFBP3 MUTATED        0
  IGFBP3 WILD-TYPE     22
D1227V6, multiclass
        clus
vv       IGFBP3 MUTATED IGFBP3 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IGFBP3 MUTATED        2      2      1      1
  IGFBP3 WILD-TYPE     98     70     71    120
D1227V7, multiclass
        clus
vv       IGFBP3 MUTATED IGFBP3 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGFBP3 MUTATED        1      1      2      1      1
  IGFBP3 WILD-TYPE     58     74     72    118     37
D1227V8, multiclass
        clus
vv       IGFBP3 MUTATED IGFBP3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGFBP3 MUTATED        0      2      0      1      3
  IGFBP3 WILD-TYPE     51     74     61     70     92
D1227V9, multiclass
        clus
vv       IGFBP3 MUTATED IGFBP3 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGFBP3 MUTATED        1      2      1      0      0      0      0      1
  IGFBP3 WILD-TYPE     68     46     38     16     53     20     21     37
                  vv
clus               CLUS_9
  IGFBP3 MUTATED        1
  IGFBP3 WILD-TYPE     49
D1227V10, multiclass
        clus
vv       IGFBP3 MUTATED IGFBP3 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IGFBP3 MUTATED        0      0      0      1      1      0
  IGFBP3 WILD-TYPE     13     16     14     10     10      9
D1227V11, multiclass
[1] "Remove cluster labels:" "IGFBP3 MUTATED"        
clus
  IGFBP3 MUTATED IGFBP3 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6679       TCGA-CM-6680 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGFBP3 MUTATED        0      0      0      0      0      0      2      0
  IGFBP3 WILD-TYPE     11      7      7      9      8      7      9      9
                  vv
clus               CLUS_9
  IGFBP3 MUTATED        0
  IGFBP3 WILD-TYPE      5
D1227V12, multiclass
[1] "Remove cluster labels:" "IGFBP3 MUTATED"        
clus
  IGFBP3 MUTATED IGFBP3 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6679       TCGA-CM-6680 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" "IGFBP3 WILD-TYPE" 

Clustering(1228) Variable = POPDC3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POPDC3 MUTATED        2      0      0      1      0
  POPDC3 WILD-TYPE     30     18     46     26     23
D1228V1, multiclass
        clus
vv       POPDC3 MUTATED POPDC3 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  POPDC3 MUTATED        1      1      1
  POPDC3 WILD-TYPE     42     66     35
D1228V2, multiclass
        clus
vv       POPDC3 MUTATED POPDC3 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  POPDC3 MUTATED        0      1      5
  POPDC3 WILD-TYPE     42    172    142
D1228V3, multiclass
        clus
vv       POPDC3 MUTATED POPDC3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  POPDC3 MUTATED        1      1      1
  POPDC3 WILD-TYPE     61     72     74
D1228V4, multiclass
        clus
vv       POPDC3 MUTATED POPDC3 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  POPDC3 MUTATED        1      3      0
  POPDC3 WILD-TYPE     69    117    100
D1228V5, multiclass
        clus
vv       POPDC3 MUTATED POPDC3 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              0              100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POPDC3 MUTATED        0      0      1      0      0      0      1      1
  POPDC3 WILD-TYPE     41     26     29     29     39     69     19     13
                  vv
clus               CLUS_9
  POPDC3 MUTATED        1
  POPDC3 WILD-TYPE     21
D1228V6, multiclass
        clus
vv       POPDC3 MUTATED POPDC3 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              0               69
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  POPDC3 MUTATED        1      2      0      3
  POPDC3 WILD-TYPE     99     70     72    118
D1228V7, multiclass
        clus
vv       POPDC3 MUTATED POPDC3 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              0               72
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POPDC3 MUTATED        0      1      2      2      1
  POPDC3 WILD-TYPE     59     74     72    117     37
D1228V8, multiclass
        clus
vv       POPDC3 MUTATED POPDC3 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POPDC3 MUTATED        2      0      1      1      2
  POPDC3 WILD-TYPE     49     76     60     70     93
D1228V9, multiclass
        clus
vv       POPDC3 MUTATED POPDC3 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              0               76
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POPDC3 MUTATED        1      0      0      0      2      2      0      1
  POPDC3 WILD-TYPE     68     48     39     16     51     18     21     37
                  vv
clus               CLUS_9
  POPDC3 MUTATED        0
  POPDC3 WILD-TYPE     50
D1228V10, multiclass
        clus
vv       POPDC3 MUTATED POPDC3 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  POPDC3 MUTATED        0      0      1      0      0      0
  POPDC3 WILD-TYPE     13     16     13     11     11      9
D1228V11, multiclass
[1] "Remove cluster labels:" "POPDC3 MUTATED"        
clus
  POPDC3 MUTATED POPDC3 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6142 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-G4-6628 
"POPDC3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POPDC3 MUTATED        0      0      0      0      1      0      0      0
  POPDC3 WILD-TYPE     11      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  POPDC3 MUTATED        0
  POPDC3 WILD-TYPE      5
D1228V12, multiclass
[1] "Remove cluster labels:" "POPDC3 MUTATED"        
clus
  POPDC3 MUTATED POPDC3 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6142 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" "POPDC3 WILD-TYPE" 
      TCGA-G4-6628 
"POPDC3 WILD-TYPE" 

Clustering(1229) Variable = SNRNP200 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNRNP200 MUTATED        4      0      1      1      1
  SNRNP200 WILD-TYPE     28     18     45     26     22
D1229V1, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                1                 45
  CLUS_4                1                 26
  CLUS_5                1                 22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SNRNP200 MUTATED        4      1      2
  SNRNP200 WILD-TYPE     39     66     34
D1229V2, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                1                 66
  CLUS_3                2                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SNRNP200 MUTATED        2      7     11
  SNRNP200 WILD-TYPE     40    166    136
D1229V3, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                7                166
  CLUS_3               11                136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SNRNP200 MUTATED        6      3      4
  SNRNP200 WILD-TYPE     56     70     71
D1229V4, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                6                 56
  CLUS_2                3                 70
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SNRNP200 MUTATED        3      4     10
  SNRNP200 WILD-TYPE     67    116     90
D1229V5, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                4                116
  CLUS_3               10                 90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNRNP200 MUTATED        1      4      1      0      2      7      2      0
  SNRNP200 WILD-TYPE     40     22     29     29     37     62     18     14
                    vv
clus                 CLUS_9
  SNRNP200 MUTATED        0
  SNRNP200 WILD-TYPE     22
D1229V6, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                4                 22
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                2                 37
  CLUS_6                7                 62
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SNRNP200 MUTATED        4      6      5      5
  SNRNP200 WILD-TYPE     96     66     67    116
D1229V7, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                4                 96
  CLUS_2                6                 66
  CLUS_3                5                 67
  CLUS_4                5                116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNRNP200 MUTATED        4      5      5      2      4
  SNRNP200 WILD-TYPE     55     70     69    117     34
D1229V8, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                4                 55
  CLUS_2                5                 70
  CLUS_3                5                 69
  CLUS_4                2                117
  CLUS_5                4                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNRNP200 MUTATED        1      8      3      6      1
  SNRNP200 WILD-TYPE     50     68     58     65     94
D1229V9, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                8                 68
  CLUS_3                3                 58
  CLUS_4                6                 65
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNRNP200 MUTATED        3      4      2      0      5      2      0      2
  SNRNP200 WILD-TYPE     66     44     37     16     48     18     21     36
                    vv
clus                 CLUS_9
  SNRNP200 MUTATED        1
  SNRNP200 WILD-TYPE     49
D1229V10, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                4                 44
  CLUS_3                2                 37
  CLUS_4                0                 16
  CLUS_5                5                 48
  CLUS_6                2                 18
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SNRNP200 MUTATED        1      1      1      1      0      0
  SNRNP200 WILD-TYPE     12     15     13     10     11      9
D1229V11, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                1                 15
  CLUS_3                1                 13
  CLUS_4                1                 10
  CLUS_5                0                 11
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SNRNP200 MUTATED        0      1      0      0      0      1      1      1
  SNRNP200 WILD-TYPE     11      6      7      9      8      6     10      8
                    vv
clus                 CLUS_9
  SNRNP200 MUTATED        0
  SNRNP200 WILD-TYPE      5
D1229V12, multiclass
        clus
vv       SNRNP200 MUTATED SNRNP200 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  6
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                1                 10
  CLUS_8                1                  8
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1230) Variable = BEND2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BEND2 MUTATED        7      1      1      0      0
  BEND2 WILD-TYPE     25     17     45     27     23
D1230V1, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             7              25
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BEND2 MUTATED        7      1      1
  BEND2 WILD-TYPE     36     66     35
D1230V2, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BEND2 MUTATED        1      8     14
  BEND2 WILD-TYPE     41    165    133
D1230V3, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             8             165
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BEND2 MUTATED        5      7      3
  BEND2 WILD-TYPE     57     66     72
D1230V4, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             7              66
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BEND2 MUTATED        3      9      7
  BEND2 WILD-TYPE     67    111     93
D1230V5, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             9             111
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BEND2 MUTATED        3      1      1      4      4      3      2      0
  BEND2 WILD-TYPE     38     25     29     25     35     66     18     14
                 vv
clus              CLUS_9
  BEND2 MUTATED        1
  BEND2 WILD-TYPE     21
D1230V6, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             4              35
  CLUS_6             3              66
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BEND2 MUTATED        7      3      4      9
  BEND2 WILD-TYPE     93     69     68    112
D1230V7, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             7              93
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BEND2 MUTATED        4      6      4      3      6
  BEND2 WILD-TYPE     55     69     70    116     32
D1230V8, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             6              69
  CLUS_3             4              70
  CLUS_4             3             116
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BEND2 MUTATED        2      6      4      3      8
  BEND2 WILD-TYPE     49     70     57     68     87
D1230V9, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             6              70
  CLUS_3             4              57
  CLUS_4             3              68
  CLUS_5             8              87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BEND2 MUTATED        2      4      2      0      5      1      2      6
  BEND2 WILD-TYPE     67     44     37     16     48     19     19     32
                 vv
clus              CLUS_9
  BEND2 MUTATED        1
  BEND2 WILD-TYPE     49
D1230V10, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              44
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             5              48
  CLUS_6             1              19
  CLUS_7             2              19
  CLUS_8             6              32
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BEND2 MUTATED        2      0      0      0      1      0
  BEND2 WILD-TYPE     11     16     14     11     10      9
D1230V11, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BEND2 MUTATED        0      0      1      1      0      0      1      0
  BEND2 WILD-TYPE     11      7      6      8      8      7     10      9
                 vv
clus              CLUS_9
  BEND2 MUTATED        0
  BEND2 WILD-TYPE      5
D1230V12, multiclass
        clus
vv       BEND2 MUTATED BEND2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1231) Variable = MAP3K13 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP3K13 MUTATED        5      0      0      3      0
  MAP3K13 WILD-TYPE     27     18     46     24     23
D1231V1, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               5                27
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               3                24
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MAP3K13 MUTATED        7      1      0
  MAP3K13 WILD-TYPE     36     66     36
D1231V2, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               7                36
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MAP3K13 MUTATED        1      3     14
  MAP3K13 WILD-TYPE     41    170    133
D1231V3, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3              14               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MAP3K13 MUTATED        1      1      8
  MAP3K13 WILD-TYPE     61     72     67
D1231V4, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               8                67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MAP3K13 MUTATED        2      8      6
  MAP3K13 WILD-TYPE     68    112     94
D1231V5, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               8               112
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP3K13 MUTATED        0      2      2      1      3      4      3      1
  MAP3K13 WILD-TYPE     41     24     28     28     36     65     17     13
                   vv
clus                CLUS_9
  MAP3K13 MUTATED        0
  MAP3K13 WILD-TYPE     22
D1231V6, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               2                24
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               3                36
  CLUS_6               4                65
  CLUS_7               3                17
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP3K13 MUTATED        2      7      1      8
  MAP3K13 WILD-TYPE     98     65     71    113
D1231V7, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               7                65
  CLUS_3               1                71
  CLUS_4               8               113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP3K13 MUTATED        1      1      7      2      7
  MAP3K13 WILD-TYPE     58     74     67    117     31
D1231V8, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               7                67
  CLUS_4               2               117
  CLUS_5               7                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP3K13 MUTATED        3      4      1      2      7
  MAP3K13 WILD-TYPE     48     72     60     69     88
D1231V9, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               3                48
  CLUS_2               4                72
  CLUS_3               1                60
  CLUS_4               2                69
  CLUS_5               7                88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP3K13 MUTATED        5      0      0      2      2      2      1      5
  MAP3K13 WILD-TYPE     64     48     39     14     51     18     20     33
                   vv
clus                CLUS_9
  MAP3K13 MUTATED        0
  MAP3K13 WILD-TYPE     50
D1231V10, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               5                64
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               2                51
  CLUS_6               2                18
  CLUS_7               1                20
  CLUS_8               5                33
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAP3K13 MUTATED        1      0      2      0      2      0
  MAP3K13 WILD-TYPE     12     16     12     11      9      9
D1231V11, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               2                12
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP3K13 MUTATED        0      0      0      1      2      0      1      1
  MAP3K13 WILD-TYPE     11      7      7      8      6      7     10      8
                   vv
clus                CLUS_9
  MAP3K13 MUTATED        0
  MAP3K13 WILD-TYPE      5
D1231V12, multiclass
        clus
vv       MAP3K13 MUTATED MAP3K13 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               2                 6
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1232) Variable = ADAMTS16 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAMTS16 MUTATED        3      0      1      4      2
  ADAMTS16 WILD-TYPE     29     18     45     23     21
D1232V1, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                0                 18
  CLUS_3                1                 45
  CLUS_4                4                 23
  CLUS_5                2                 21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ADAMTS16 MUTATED        4      3      3
  ADAMTS16 WILD-TYPE     39     64     33
D1232V2, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                3                 64
  CLUS_3                3                 33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ADAMTS16 MUTATED        5      5     19
  ADAMTS16 WILD-TYPE     37    168    128
D1232V3, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                5                 37
  CLUS_2                5                168
  CLUS_3               19                128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ADAMTS16 MUTATED        7      5      8
  ADAMTS16 WILD-TYPE     55     68     67
D1232V4, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                7                 55
  CLUS_2                5                 68
  CLUS_3                8                 67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ADAMTS16 MUTATED        4      8     12
  ADAMTS16 WILD-TYPE     66    112     88
D1232V5, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                4                 66
  CLUS_2                8                112
  CLUS_3               12                 88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAMTS16 MUTATED        4      2      2      2      2      8      3      0
  ADAMTS16 WILD-TYPE     37     24     28     27     37     61     17     14
                    vv
clus                 CLUS_9
  ADAMTS16 MUTATED        1
  ADAMTS16 WILD-TYPE     21
D1232V6, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                4                 37
  CLUS_2                2                 24
  CLUS_3                2                 28
  CLUS_4                2                 27
  CLUS_5                2                 37
  CLUS_6                8                 61
  CLUS_7                3                 17
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAMTS16 MUTATED        6      9      7      8
  ADAMTS16 WILD-TYPE     94     63     65    113
D1232V7, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                6                 94
  CLUS_2                9                 63
  CLUS_3                7                 65
  CLUS_4                8                113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAMTS16 MUTATED        4      5     10      7      4
  ADAMTS16 WILD-TYPE     55     70     64    112     34
D1232V8, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                4                 55
  CLUS_2                5                 70
  CLUS_3               10                 64
  CLUS_4                7                112
  CLUS_5                4                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAMTS16 MUTATED        2     11      3      5      7
  ADAMTS16 WILD-TYPE     49     65     58     66     88
D1232V9, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2               11                 65
  CLUS_3                3                 58
  CLUS_4                5                 66
  CLUS_5                7                 88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAMTS16 MUTATED        4      5      0      4      5      2      0      3
  ADAMTS16 WILD-TYPE     65     43     39     12     48     18     21     35
                    vv
clus                 CLUS_9
  ADAMTS16 MUTATED        5
  ADAMTS16 WILD-TYPE     45
D1232V10, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                4                 65
  CLUS_2                5                 43
  CLUS_3                0                 39
  CLUS_4                4                 12
  CLUS_5                5                 48
  CLUS_6                2                 18
  CLUS_7                0                 21
  CLUS_8                3                 35
  CLUS_9                5                 45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADAMTS16 MUTATED        0      2      1      1      1      0
  ADAMTS16 WILD-TYPE     13     14     13     10     10      9
D1232V11, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                2                 14
  CLUS_3                1                 13
  CLUS_4                1                 10
  CLUS_5                1                 10
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAMTS16 MUTATED        1      0      2      0      0      0      2      0
  ADAMTS16 WILD-TYPE     10      7      5      9      8      7      9      9
                    vv
clus                 CLUS_9
  ADAMTS16 MUTATED        0
  ADAMTS16 WILD-TYPE      5
D1232V12, multiclass
        clus
vv       ADAMTS16 MUTATED ADAMTS16 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                2                  5
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1233) Variable = MAP3K10 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP3K10 MUTATED        2      0      0      0      0
  MAP3K10 WILD-TYPE     30     18     46     27     23
D1233V1, multiclass
[1] "Remove cluster labels:" "MAP3K10 MUTATED"       
clus
  MAP3K10 MUTATED MAP3K10 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MAP3K10 MUTATED        2      0      0
  MAP3K10 WILD-TYPE     41     67     36
D1233V2, multiclass
[1] "Remove cluster labels:" "MAP3K10 MUTATED"       
clus
  MAP3K10 MUTATED MAP3K10 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MAP3K10 MUTATED        0      2      8
  MAP3K10 WILD-TYPE     42    171    139
D1233V3, multiclass
        clus
vv       MAP3K10 MUTATED MAP3K10 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MAP3K10 MUTATED        3      1      4
  MAP3K10 WILD-TYPE     59     72     71
D1233V4, multiclass
        clus
vv       MAP3K10 MUTATED MAP3K10 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  MAP3K10 MUTATED        0      2      5
  MAP3K10 WILD-TYPE     70    118     95
D1233V5, multiclass
        clus
vv       MAP3K10 MUTATED MAP3K10 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP3K10 MUTATED        1      0      1      0      1      4      0      0
  MAP3K10 WILD-TYPE     40     26     29     29     38     65     20     14
                   vv
clus                CLUS_9
  MAP3K10 MUTATED        0
  MAP3K10 WILD-TYPE     22
D1233V6, multiclass
        clus
vv       MAP3K10 MUTATED MAP3K10 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP3K10 MUTATED        0      5      3      2
  MAP3K10 WILD-TYPE    100     67     69    119
D1233V7, multiclass
        clus
vv       MAP3K10 MUTATED MAP3K10 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               5                67
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP3K10 MUTATED        0      1      7      0      2
  MAP3K10 WILD-TYPE     59     74     67    119     36
D1233V8, multiclass
        clus
vv       MAP3K10 MUTATED MAP3K10 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               7                67
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP3K10 MUTATED        0      5      2      2      1
  MAP3K10 WILD-TYPE     51     71     59     69     94
D1233V9, multiclass
        clus
vv       MAP3K10 MUTATED MAP3K10 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               5                71
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP3K10 MUTATED        3      1      0      3      1      0      0      2
  MAP3K10 WILD-TYPE     66     47     39     13     52     20     21     36
                   vv
clus                CLUS_9
  MAP3K10 MUTATED        0
  MAP3K10 WILD-TYPE     50
D1233V10, multiclass
        clus
vv       MAP3K10 MUTATED MAP3K10 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAP3K10 MUTATED        0      0      2      0      0      0
  MAP3K10 WILD-TYPE     13     16     12     11     11      9
D1233V11, multiclass
[1] "Remove cluster labels:" "MAP3K10 MUTATED"       
clus
  MAP3K10 MUTATED MAP3K10 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP3K10 MUTATED        0      0      0      0      1      0      1      0
  MAP3K10 WILD-TYPE     11      7      7      9      7      7     10      9
                   vv
clus                CLUS_9
  MAP3K10 MUTATED        0
  MAP3K10 WILD-TYPE      5
D1233V12, multiclass
[1] "Remove cluster labels:" "MAP3K10 MUTATED"       
clus
  MAP3K10 MUTATED MAP3K10 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" "MAP3K10 WILD-TYPE" 

Clustering(1234) Variable = RUNX2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUNX2 MUTATED        3      0      0      1      0
  RUNX2 WILD-TYPE     29     18     46     26     23
D1234V1, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUNX2 MUTATED        3      0      1
  RUNX2 WILD-TYPE     40     67     35
D1234V2, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUNX2 MUTATED        0      0      8
  RUNX2 WILD-TYPE     42    173    139
D1234V3, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUNX2 MUTATED        1      0      4
  RUNX2 WILD-TYPE     61     73     71
D1234V4, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUNX2 MUTATED        2      2      3
  RUNX2 WILD-TYPE     68    118     97
D1234V5, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUNX2 MUTATED        1      0      0      0      3      2      1      0
  RUNX2 WILD-TYPE     40     26     30     29     36     67     19     14
                 vv
clus              CLUS_9
  RUNX2 MUTATED        0
  RUNX2 WILD-TYPE     22
D1234V6, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             3              36
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RUNX2 MUTATED        0      0      4      4
  RUNX2 WILD-TYPE    100     72     68    117
D1234V7, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             0              72
  CLUS_3             4              68
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUNX2 MUTATED        0      0      4      1      3
  RUNX2 WILD-TYPE     59     75     70    118     35
D1234V8, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUNX2 MUTATED        0      4      0      1      3
  RUNX2 WILD-TYPE     51     72     61     70     92
D1234V9, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUNX2 MUTATED        0      3      0      1      1      0      0      3
  RUNX2 WILD-TYPE     69     45     39     15     52     20     21     35
                 vv
clus              CLUS_9
  RUNX2 MUTATED        0
  RUNX2 WILD-TYPE     50
D1234V10, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RUNX2 MUTATED        0      1      0      0      2      0
  RUNX2 WILD-TYPE     13     15     14     11      9      9
D1234V11, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUNX2 MUTATED        0      0      0      0      1      0      2      0
  RUNX2 WILD-TYPE     11      7      7      9      7      7      9      9
                 vv
clus              CLUS_9
  RUNX2 MUTATED        0
  RUNX2 WILD-TYPE      5
D1234V12, multiclass
        clus
vv       RUNX2 MUTATED RUNX2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1235) Variable = SMARCA1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMARCA1 MUTATED        3      0      0      1      1
  SMARCA1 WILD-TYPE     29     18     46     26     22
D1235V1, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               1                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA1 MUTATED        3      2      0
  SMARCA1 WILD-TYPE     40     65     36
D1235V2, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA1 MUTATED        0      2     17
  SMARCA1 WILD-TYPE     42    171    130
D1235V3, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3              17               130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA1 MUTATED        4      1      8
  SMARCA1 WILD-TYPE     58     72     67
D1235V4, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               1                72
  CLUS_3               8                67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA1 MUTATED        4      8      4
  SMARCA1 WILD-TYPE     66    112     96
D1235V5, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               4                66
  CLUS_2               8               112
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMARCA1 MUTATED        3      3      1      2      1      2      3      0
  SMARCA1 WILD-TYPE     38     23     29     27     38     67     17     14
                   vv
clus                CLUS_9
  SMARCA1 MUTATED        1
  SMARCA1 WILD-TYPE     21
D1235V6, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               3                23
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               3                17
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCA1 MUTATED        2      6      5      6
  SMARCA1 WILD-TYPE     98     66     67    115
D1235V7, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               6                66
  CLUS_3               5                67
  CLUS_4               6               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMARCA1 MUTATED        2      3      8      2      4
  SMARCA1 WILD-TYPE     57     72     66    117     34
D1235V8, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               3                72
  CLUS_3               8                66
  CLUS_4               2               117
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMARCA1 MUTATED        4      6      2      0      6
  SMARCA1 WILD-TYPE     47     70     59     71     89
D1235V9, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               4                47
  CLUS_2               6                70
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMARCA1 MUTATED        5      3      1      0      4      0      1      4
  SMARCA1 WILD-TYPE     64     45     38     16     49     20     20     34
                   vv
clus                CLUS_9
  SMARCA1 MUTATED        0
  SMARCA1 WILD-TYPE     50
D1235V10, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               5                64
  CLUS_2               3                45
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               4                49
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               4                34
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMARCA1 MUTATED        0      0      1      1      1      0
  SMARCA1 WILD-TYPE     13     16     13     10     10      9
D1235V11, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMARCA1 MUTATED        0      0      0      0      1      1      1      0
  SMARCA1 WILD-TYPE     11      7      7      9      7      6     10      9
                   vv
clus                CLUS_9
  SMARCA1 MUTATED        0
  SMARCA1 WILD-TYPE      5
D1235V12, multiclass
        clus
vv       SMARCA1 MUTATED SMARCA1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               1                 7
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1236) Variable = ZNF41 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF41 MUTATED        0      0      1      1      1
  ZNF41 WILD-TYPE     32     18     45     26     22
D1236V1, multiclass
        clus
vv       ZNF41 MUTATED ZNF41 WILD-TYPE
  CLUS_1             0              32
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF41 MUTATED        0      3      0
  ZNF41 WILD-TYPE     43     64     36
D1236V2, multiclass
        clus
vv       ZNF41 MUTATED ZNF41 WILD-TYPE
  CLUS_1             0              43
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF41 MUTATED        2      4      3
  ZNF41 WILD-TYPE     40    169    144
D1236V3, multiclass
        clus
vv       ZNF41 MUTATED ZNF41 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4             169
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF41 MUTATED        1      2      3
  ZNF41 WILD-TYPE     61     71     72
D1236V4, multiclass
        clus
vv       ZNF41 MUTATED ZNF41 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF41 MUTATED        0      4      2
  ZNF41 WILD-TYPE     70    116     98
D1236V5, multiclass
        clus
vv       ZNF41 MUTATED ZNF41 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF41 MUTATED        0      1      1      2      0      2      0      0
  ZNF41 WILD-TYPE     41     25     29     27     39     67     20     14
                 vv
clus              CLUS_9
  ZNF41 MUTATED        0
  ZNF41 WILD-TYPE     22
D1236V6, multiclass
        clus
vv       ZNF41 MUTATED ZNF41 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF41 MUTATED        2      3      0      4
  ZNF41 WILD-TYPE     98     69     72    117
D1236V7, multiclass
        clus
vv       ZNF41 MUTATED ZNF41 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             0              72
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF41 MUTATED        0      4      1      4      0
  ZNF41 WILD-TYPE     59     71     73    115     38
D1236V8, multiclass
        clus
vv       ZNF41 MUTATED ZNF41 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             4              71
  CLUS_3             1              73
  CLUS_4             4             115
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF41 MUTATED        3      3      0      1      2
  ZNF41 WILD-TYPE     48     73     61     70     93
D1236V9, multiclass
        clus
vv       ZNF41 MUTATED ZNF41 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF41 MUTATED        3      0      1      1      1      1      0      0
  ZNF41 WILD-TYPE     66     48     38     15     52     19     21     38
                 vv
clus              CLUS_9
  ZNF41 MUTATED        2
  ZNF41 WILD-TYPE     48
D1236V10, multiclass
        clus
vv       ZNF41 MUTATED ZNF41 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF41 MUTATED        1      0      0      0      1      0
  ZNF41 WILD-TYPE     12     16     14     11     10      9
D1236V11, multiclass
[1] "Remove cluster labels:" "ZNF41 MUTATED"         
clus
  ZNF41 MUTATED ZNF41 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF41 MUTATED        0      0      0      1      0      0      0      1
  ZNF41 WILD-TYPE     11      7      7      8      8      7     11      8
                 vv
clus              CLUS_9
  ZNF41 MUTATED        0
  ZNF41 WILD-TYPE      5
D1236V12, multiclass
[1] "Remove cluster labels:" "ZNF41 MUTATED"         
clus
  ZNF41 MUTATED ZNF41 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" "ZNF41 WILD-TYPE" 

Clustering(1237) Variable = CD79A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD79A MUTATED        2      0      0      1      0
  CD79A WILD-TYPE     30     18     46     26     23
D1237V1, multiclass
        clus
vv       CD79A MUTATED CD79A WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD79A MUTATED        3      0      0
  CD79A WILD-TYPE     40     67     36
D1237V2, multiclass
        clus
vv       CD79A MUTATED CD79A WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD79A MUTATED        0      1      5
  CD79A WILD-TYPE     42    172    142
D1237V3, multiclass
        clus
vv       CD79A MUTATED CD79A WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD79A MUTATED        1      0      2
  CD79A WILD-TYPE     61     73     73
D1237V4, multiclass
        clus
vv       CD79A MUTATED CD79A WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD79A MUTATED        0      3      3
  CD79A WILD-TYPE     70    117     97
D1237V5, multiclass
        clus
vv       CD79A MUTATED CD79A WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CD79A MUTATED        1      1      0      1      2      1      0      0
  CD79A WILD-TYPE     40     25     30     28     37     68     20     14
                 vv
clus              CLUS_9
  CD79A MUTATED        0
  CD79A WILD-TYPE     22
D1237V6, multiclass
        clus
vv       CD79A MUTATED CD79A WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD79A MUTATED        0      2      1      3
  CD79A WILD-TYPE    100     70     71    118
D1237V7, multiclass
        clus
vv       CD79A MUTATED CD79A WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD79A MUTATED        1      0      2      0      3
  CD79A WILD-TYPE     58     75     72    119     35
D1237V8, multiclass
        clus
vv       CD79A MUTATED CD79A WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD79A MUTATED        1      2      0      0      3
  CD79A WILD-TYPE     50     74     61     71     92
D1237V9, multiclass
        clus
vv       CD79A MUTATED CD79A WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CD79A MUTATED        1      1      0      1      0      0      0      3
  CD79A WILD-TYPE     68     47     39     15     53     20     21     35
                 vv
clus              CLUS_9
  CD79A MUTATED        0
  CD79A WILD-TYPE     50
D1237V10, multiclass
        clus
vv       CD79A MUTATED CD79A WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CD79A MUTATED        0      0      1      0      0      0
  CD79A WILD-TYPE     13     16     13     11     11      9
D1237V11, multiclass
[1] "Remove cluster labels:" "CD79A MUTATED"         
clus
  CD79A MUTATED CD79A WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-CM-6679      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-G4-6628 
"CD79A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CD79A MUTATED        0      0      0      0      0      0      1      0
  CD79A WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  CD79A MUTATED        0
  CD79A WILD-TYPE      5
D1237V12, multiclass
[1] "Remove cluster labels:" "CD79A MUTATED"         
clus
  CD79A MUTATED CD79A WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-CM-6679      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" "CD79A WILD-TYPE" 
     TCGA-G4-6628 
"CD79A WILD-TYPE" 

Clustering(1238) Variable = TBX4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBX4 MUTATED        1      0      0      3      0
  TBX4 WILD-TYPE     31     18     46     24     23
D1238V1, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TBX4 MUTATED        3      1      0
  TBX4 WILD-TYPE     40     66     36
D1238V2, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TBX4 MUTATED        1      0     10
  TBX4 WILD-TYPE     41    173    137
D1238V3, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TBX4 MUTATED        2      0      5
  TBX4 WILD-TYPE     60     73     70
D1238V4, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TBX4 MUTATED        1      4      5
  TBX4 WILD-TYPE     69    116     95
D1238V5, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TBX4 MUTATED        0      0      1      1      2      4      1      1      0
  TBX4 WILD-TYPE     41     26     29     28     37     65     19     13     22
D1238V6, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TBX4 MUTATED        0      5      2      4
  TBX4 WILD-TYPE    100     67     70    117
D1238V7, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBX4 MUTATED        0      0      7      1      3
  TBX4 WILD-TYPE     59     75     67    118     35
D1238V8, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            7             67
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBX4 MUTATED        1      5      0      0      4
  TBX4 WILD-TYPE     50     71     61     71     91
D1238V9, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TBX4 MUTATED        1      2      0      2      0      2      1      2      0
  TBX4 WILD-TYPE     68     46     39     14     53     18     20     36     50
D1238V10, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TBX4 MUTATED        0      0      0      0      3      0
  TBX4 WILD-TYPE     13     16     14     11      8      9
D1238V11, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TBX4 MUTATED        0      0      0      1      0      0      2      0      0
  TBX4 WILD-TYPE     11      7      7      8      8      7      9      9      5
D1238V12, multiclass
        clus
vv       TBX4 MUTATED TBX4 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1239) Variable = EPSTI1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPSTI1 MUTATED        2      0      0      0      0
  EPSTI1 WILD-TYPE     30     18     46     27     23
D1239V1, multiclass
[1] "Remove cluster labels:" "EPSTI1 MUTATED"        
clus
  EPSTI1 MUTATED EPSTI1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EPSTI1 MUTATED        2      0      0
  EPSTI1 WILD-TYPE     41     67     36
D1239V2, multiclass
[1] "Remove cluster labels:" "EPSTI1 MUTATED"        
clus
  EPSTI1 MUTATED EPSTI1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EPSTI1 MUTATED        1      1      5
  EPSTI1 WILD-TYPE     41    172    142
D1239V3, multiclass
        clus
vv       EPSTI1 MUTATED EPSTI1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EPSTI1 MUTATED        2      1      3
  EPSTI1 WILD-TYPE     60     72     72
D1239V4, multiclass
        clus
vv       EPSTI1 MUTATED EPSTI1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EPSTI1 MUTATED        0      3      3
  EPSTI1 WILD-TYPE     70    117     97
D1239V5, multiclass
        clus
vv       EPSTI1 MUTATED EPSTI1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPSTI1 MUTATED        1      1      0      1      1      2      0      0
  EPSTI1 WILD-TYPE     40     25     30     28     38     67     20     14
                  vv
clus               CLUS_9
  EPSTI1 MUTATED        0
  EPSTI1 WILD-TYPE     22
D1239V6, multiclass
        clus
vv       EPSTI1 MUTATED EPSTI1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPSTI1 MUTATED        1      3      1      2
  EPSTI1 WILD-TYPE     99     69     71    119
D1239V7, multiclass
        clus
vv       EPSTI1 MUTATED EPSTI1 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPSTI1 MUTATED        1      2      1      1      2
  EPSTI1 WILD-TYPE     58     73     73    118     36
D1239V8, multiclass
        clus
vv       EPSTI1 MUTATED EPSTI1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPSTI1 MUTATED        1      1      1      0      4
  EPSTI1 WILD-TYPE     50     75     60     71     91
D1239V9, multiclass
        clus
vv       EPSTI1 MUTATED EPSTI1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPSTI1 MUTATED        0      1      0      1      0      1      0      3
  EPSTI1 WILD-TYPE     69     47     39     15     53     19     21     35
                  vv
clus               CLUS_9
  EPSTI1 MUTATED        1
  EPSTI1 WILD-TYPE     49
D1239V10, multiclass
        clus
vv       EPSTI1 MUTATED EPSTI1 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EPSTI1 MUTATED        1      0      0      0      1      0
  EPSTI1 WILD-TYPE     12     16     14     11     10      9
D1239V11, multiclass
[1] "Remove cluster labels:" "EPSTI1 MUTATED"        
clus
  EPSTI1 MUTATED EPSTI1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPSTI1 MUTATED        0      0      0      1      0      0      0      0
  EPSTI1 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  EPSTI1 MUTATED        1
  EPSTI1 WILD-TYPE      4
D1239V12, multiclass
[1] "Remove cluster labels:" "EPSTI1 MUTATED"        
clus
  EPSTI1 MUTATED EPSTI1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" "EPSTI1 WILD-TYPE" 

Clustering(1240) Variable = TSPAN7 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSPAN7 MUTATED        2      0      0      0      0
  TSPAN7 WILD-TYPE     30     18     46     27     23
D1240V1, multiclass
[1] "Remove cluster labels:" "TSPAN7 MUTATED"        
clus
  TSPAN7 MUTATED TSPAN7 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3846 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3968 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TSPAN7 MUTATED        2      0      0
  TSPAN7 WILD-TYPE     41     67     36
D1240V2, multiclass
[1] "Remove cluster labels:" "TSPAN7 MUTATED"        
clus
  TSPAN7 MUTATED TSPAN7 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3846 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3968 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" "TSPAN7 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TSPAN7 MUTATED        0      2      7
  TSPAN7 WILD-TYPE     42    171    140
D1240V3, multiclass
        clus
vv       TSPAN7 MUTATED TSPAN7 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TSPAN7 MUTATED        3      0      4
  TSPAN7 WILD-TYPE     59     73     71
D1240V4, multiclass
        clus
vv       TSPAN7 MUTATED TSPAN7 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TSPAN7 MUTATED        2      1      4
  TSPAN7 WILD-TYPE     68    119     96
D1240V5, multiclass
        clus
vv       TSPAN7 MUTATED TSPAN7 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1              119
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TSPAN7 MUTATED        1      1      0      0      2      2      1      0
  TSPAN7 WILD-TYPE     40     25     30     29     37     67     19     14
                  vv
clus               CLUS_9
  TSPAN7 MUTATED        0
  TSPAN7 WILD-TYPE     22
D1240V6, multiclass
        clus
vv       TSPAN7 MUTATED TSPAN7 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TSPAN7 MUTATED        1      2      4      2
  TSPAN7 WILD-TYPE     99     70     68    119
D1240V7, multiclass
        clus
vv       TSPAN7 MUTATED TSPAN7 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              4               68
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSPAN7 MUTATED        1      1      5      0      2
  TSPAN7 WILD-TYPE     58     74     69    119     36
D1240V8, multiclass
        clus
vv       TSPAN7 MUTATED TSPAN7 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              5               69
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSPAN7 MUTATED        0      3      3      0      3
  TSPAN7 WILD-TYPE     51     73     58     71     92
D1240V9, multiclass
        clus
vv       TSPAN7 MUTATED TSPAN7 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TSPAN7 MUTATED        0      4      0      1      2      0      0      2
  TSPAN7 WILD-TYPE     69     44     39     15     51     20     21     36
                  vv
clus               CLUS_9
  TSPAN7 MUTATED        0
  TSPAN7 WILD-TYPE     50
D1240V10, multiclass
        clus
vv       TSPAN7 MUTATED TSPAN7 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TSPAN7 MUTATED        0      2      0      0      0      1
  TSPAN7 WILD-TYPE     13     14     14     11     11      8
D1240V11, multiclass
        clus
vv       TSPAN7 MUTATED TSPAN7 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TSPAN7 MUTATED        0      1      0      0      0      1      1      0
  TSPAN7 WILD-TYPE     11      6      7      9      8      6     10      9
                  vv
clus               CLUS_9
  TSPAN7 MUTATED        0
  TSPAN7 WILD-TYPE      5
D1240V12, multiclass
        clus
vv       TSPAN7 MUTATED TSPAN7 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1241) Variable = MED14 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MED14 MUTATED        6      0      1      0      0
  MED14 WILD-TYPE     26     18     45     27     23
D1241V1, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED14 MUTATED        6      1      0
  MED14 WILD-TYPE     37     66     36
D1241V2, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED14 MUTATED        3      2     14
  MED14 WILD-TYPE     39    171    133
D1241V3, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             2             171
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED14 MUTATED        4      3      5
  MED14 WILD-TYPE     58     70     70
D1241V4, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED14 MUTATED        4      2     10
  MED14 WILD-TYPE     66    118     90
D1241V5, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             2             118
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MED14 MUTATED        5      0      0      1      2      6      2      0
  MED14 WILD-TYPE     36     26     30     28     37     63     18     14
                 vv
clus              CLUS_9
  MED14 MUTATED        0
  MED14 WILD-TYPE     22
D1241V6, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             5              36
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MED14 MUTATED        4      4      5      6
  MED14 WILD-TYPE     96     68     67    115
D1241V7, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             4              68
  CLUS_3             5              67
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MED14 MUTATED        4      1      7      2      5
  MED14 WILD-TYPE     55     74     67    117     33
D1241V8, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             1              74
  CLUS_3             7              67
  CLUS_4             2             117
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MED14 MUTATED        0      7      4      1      7
  MED14 WILD-TYPE     51     69     57     70     88
D1241V9, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MED14 MUTATED        3      5      1      3      1      1      1      4
  MED14 WILD-TYPE     66     43     38     13     52     19     20     34
                 vv
clus              CLUS_9
  MED14 MUTATED        0
  MED14 WILD-TYPE     50
D1241V10, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MED14 MUTATED        0      3      0      2      2      1
  MED14 WILD-TYPE     13     13     14      9      9      8
D1241V11, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             3              13
  CLUS_3             0              14
  CLUS_4             2               9
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MED14 MUTATED        1      1      1      1      1      1      2      0
  MED14 WILD-TYPE     10      6      6      8      7      6      9      9
                 vv
clus              CLUS_9
  MED14 MUTATED        0
  MED14 WILD-TYPE      5
D1241V12, multiclass
        clus
vv       MED14 MUTATED MED14 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1242) Variable = DOCK7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK7 MUTATED        3      0      0      2      1
  DOCK7 WILD-TYPE     29     18     46     25     22
D1242V1, multiclass
        clus
vv       DOCK7 MUTATED DOCK7 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK7 MUTATED        4      1      1
  DOCK7 WILD-TYPE     39     66     35
D1242V2, multiclass
        clus
vv       DOCK7 MUTATED DOCK7 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK7 MUTATED        0      3     14
  DOCK7 WILD-TYPE     42    170    133
D1242V3, multiclass
        clus
vv       DOCK7 MUTATED DOCK7 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK7 MUTATED        4      1      6
  DOCK7 WILD-TYPE     58     72     69
D1242V4, multiclass
        clus
vv       DOCK7 MUTATED DOCK7 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK7 MUTATED        2      3      7
  DOCK7 WILD-TYPE     68    117     93
D1242V5, multiclass
        clus
vv       DOCK7 MUTATED DOCK7 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK7 MUTATED        2      1      1      1      1      6      0      0
  DOCK7 WILD-TYPE     39     25     29     28     38     63     20     14
                 vv
clus              CLUS_9
  DOCK7 MUTATED        0
  DOCK7 WILD-TYPE     22
D1242V6, multiclass
        clus
vv       DOCK7 MUTATED DOCK7 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DOCK7 MUTATED        2      5      4      6
  DOCK7 WILD-TYPE     98     67     68    115
D1242V7, multiclass
        clus
vv       DOCK7 MUTATED DOCK7 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK7 MUTATED        1      2      7      3      4
  DOCK7 WILD-TYPE     58     73     67    116     34
D1242V8, multiclass
        clus
vv       DOCK7 MUTATED DOCK7 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK7 MUTATED        1      6      2      1      6
  DOCK7 WILD-TYPE     50     70     59     70     89
D1242V9, multiclass
        clus
vv       DOCK7 MUTATED DOCK7 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK7 MUTATED        3      4      1      1      0      2      1      3
  DOCK7 WILD-TYPE     66     44     38     15     53     18     20     35
                 vv
clus              CLUS_9
  DOCK7 MUTATED        1
  DOCK7 WILD-TYPE     49
D1242V10, multiclass
        clus
vv       DOCK7 MUTATED DOCK7 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DOCK7 MUTATED        0      0      1      0      1      0
  DOCK7 WILD-TYPE     13     16     13     11     10      9
D1242V11, multiclass
[1] "Remove cluster labels:" "DOCK7 MUTATED"         
clus
  DOCK7 MUTATED DOCK7 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK7 MUTATED        0      0      0      0      0      0      2      0
  DOCK7 WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  DOCK7 MUTATED        0
  DOCK7 WILD-TYPE      5
D1242V12, multiclass
[1] "Remove cluster labels:" "DOCK7 MUTATED"         
clus
  DOCK7 MUTATED DOCK7 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" "DOCK7 WILD-TYPE" 

Clustering(1243) Variable = DBF4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DBF4 MUTATED        3      0      0      0      0
  DBF4 WILD-TYPE     29     18     46     27     23
D1243V1, multiclass
        clus
vv       DBF4 MUTATED DBF4 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DBF4 MUTATED        2      0      1
  DBF4 WILD-TYPE     41     67     35
D1243V2, multiclass
        clus
vv       DBF4 MUTATED DBF4 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DBF4 MUTATED        0      0      7
  DBF4 WILD-TYPE     42    173    140
D1243V3, multiclass
        clus
vv       DBF4 MUTATED DBF4 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DBF4 MUTATED        2      0      3
  DBF4 WILD-TYPE     60     73     72
D1243V4, multiclass
        clus
vv       DBF4 MUTATED DBF4 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DBF4 MUTATED        1      1      2
  DBF4 WILD-TYPE     69    119     98
D1243V5, multiclass
        clus
vv       DBF4 MUTATED DBF4 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DBF4 MUTATED        2      0      0      0      1      1      0      0      0
  DBF4 WILD-TYPE     39     26     30     29     38     68     20     14     22
D1243V6, multiclass
        clus
vv       DBF4 MUTATED DBF4 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DBF4 MUTATED        0      1      3      3
  DBF4 WILD-TYPE    100     71     69    118
D1243V7, multiclass
        clus
vv       DBF4 MUTATED DBF4 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DBF4 MUTATED        1      0      3      1      2
  DBF4 WILD-TYPE     58     75     71    118     36
D1243V8, multiclass
        clus
vv       DBF4 MUTATED DBF4 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DBF4 MUTATED        0      3      1      1      2
  DBF4 WILD-TYPE     51     73     60     70     93
D1243V9, multiclass
        clus
vv       DBF4 MUTATED DBF4 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DBF4 MUTATED        0      3      0      1      1      0      0      2      0
  DBF4 WILD-TYPE     69     45     39     15     52     20     21     36     50
D1243V10, multiclass
        clus
vv       DBF4 MUTATED DBF4 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DBF4 MUTATED        0      0      0      0      1      0
  DBF4 WILD-TYPE     13     16     14     11     10      9
D1243V11, multiclass
[1] "Remove cluster labels:" "DBF4 MUTATED"          
clus
  DBF4 MUTATED DBF4 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-G4-6628 
"DBF4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DBF4 MUTATED        0      0      0      0      0      0      1      0      0
  DBF4 WILD-TYPE     11      7      7      9      8      7     10      9      5
D1243V12, multiclass
[1] "Remove cluster labels:" "DBF4 MUTATED"          
clus
  DBF4 MUTATED DBF4 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" "DBF4 WILD-TYPE" 
    TCGA-G4-6628 
"DBF4 WILD-TYPE" 

Clustering(1244) Variable = OR13C5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR13C5 MUTATED        1      0      0      0      1
  OR13C5 WILD-TYPE     31     18     46     27     22
D1244V1, multiclass
[1] "Remove cluster labels:" "OR13C5 MUTATED"        
clus
  OR13C5 MUTATED OR13C5 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR13C5 MUTATED        1      0      1
  OR13C5 WILD-TYPE     42     67     35
D1244V2, multiclass
[1] "Remove cluster labels:" "OR13C5 MUTATED"        
clus
  OR13C5 MUTATED OR13C5 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" "OR13C5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR13C5 MUTATED        3      3      4
  OR13C5 WILD-TYPE     39    170    143
D1244V3, multiclass
        clus
vv       OR13C5 MUTATED OR13C5 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              3              170
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR13C5 MUTATED        5      1      3
  OR13C5 WILD-TYPE     57     72     72
D1244V4, multiclass
        clus
vv       OR13C5 MUTATED OR13C5 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR13C5 MUTATED        0      4      7
  OR13C5 WILD-TYPE     70    116     93
D1244V5, multiclass
        clus
vv       OR13C5 MUTATED OR13C5 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR13C5 MUTATED        2      0      0      1      1      5      2      0
  OR13C5 WILD-TYPE     39     26     30     28     38     64     18     14
                  vv
clus               CLUS_9
  OR13C5 MUTATED        0
  OR13C5 WILD-TYPE     22
D1244V6, multiclass
        clus
vv       OR13C5 MUTATED OR13C5 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              5               64
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR13C5 MUTATED        3      2      3      3
  OR13C5 WILD-TYPE     97     70     69    118
D1244V7, multiclass
        clus
vv       OR13C5 MUTATED OR13C5 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR13C5 MUTATED        2      2      4      2      1
  OR13C5 WILD-TYPE     57     73     70    117     37
D1244V8, multiclass
        clus
vv       OR13C5 MUTATED OR13C5 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR13C5 MUTATED        2      3      3      1      2
  OR13C5 WILD-TYPE     49     73     58     70     93
D1244V9, multiclass
        clus
vv       OR13C5 MUTATED OR13C5 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR13C5 MUTATED        1      3      1      2      2      0      0      1
  OR13C5 WILD-TYPE     68     45     38     14     51     20     21     37
                  vv
clus               CLUS_9
  OR13C5 MUTATED        1
  OR13C5 WILD-TYPE     49
D1244V10, multiclass
        clus
vv       OR13C5 MUTATED OR13C5 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR13C5 MUTATED        1      2      0      0      0      0
  OR13C5 WILD-TYPE     12     14     14     11     11      9
D1244V11, multiclass
        clus
vv       OR13C5 MUTATED OR13C5 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR13C5 MUTATED        0      1      0      0      0      1      0      1
  OR13C5 WILD-TYPE     11      6      7      9      8      6     11      8
                  vv
clus               CLUS_9
  OR13C5 MUTATED        0
  OR13C5 WILD-TYPE      5
D1244V12, multiclass
        clus
vv       OR13C5 MUTATED OR13C5 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1245) Variable = GOLIM4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLIM4 MUTATED        3      1      0      2      0
  GOLIM4 WILD-TYPE     29     17     46     25     23
D1245V1, multiclass
        clus
vv       GOLIM4 MUTATED GOLIM4 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLIM4 MUTATED        4      2      0
  GOLIM4 WILD-TYPE     39     65     36
D1245V2, multiclass
        clus
vv       GOLIM4 MUTATED GOLIM4 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLIM4 MUTATED        0      1      8
  GOLIM4 WILD-TYPE     42    172    139
D1245V3, multiclass
        clus
vv       GOLIM4 MUTATED GOLIM4 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLIM4 MUTATED        2      1      1
  GOLIM4 WILD-TYPE     60     72     74
D1245V4, multiclass
        clus
vv       GOLIM4 MUTATED GOLIM4 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLIM4 MUTATED        2      2      4
  GOLIM4 WILD-TYPE     68    118     96
D1245V5, multiclass
        clus
vv       GOLIM4 MUTATED GOLIM4 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLIM4 MUTATED        1      1      1      0      2      3      0      0
  GOLIM4 WILD-TYPE     40     25     29     29     37     66     20     14
                  vv
clus               CLUS_9
  GOLIM4 MUTATED        0
  GOLIM4 WILD-TYPE     22
D1245V6, multiclass
        clus
vv       GOLIM4 MUTATED GOLIM4 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GOLIM4 MUTATED        0      1      2      6
  GOLIM4 WILD-TYPE    100     71     70    115
D1245V7, multiclass
        clus
vv       GOLIM4 MUTATED GOLIM4 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLIM4 MUTATED        0      0      2      3      4
  GOLIM4 WILD-TYPE     59     75     72    116     34
D1245V8, multiclass
        clus
vv       GOLIM4 MUTATED GOLIM4 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              3              116
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLIM4 MUTATED        0      2      0      1      5
  GOLIM4 WILD-TYPE     51     74     61     70     90
D1245V9, multiclass
        clus
vv       GOLIM4 MUTATED GOLIM4 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLIM4 MUTATED        0      1      0      1      0      1      1      3
  GOLIM4 WILD-TYPE     69     47     39     15     53     19     20     35
                  vv
clus               CLUS_9
  GOLIM4 MUTATED        1
  GOLIM4 WILD-TYPE     49
D1245V10, multiclass
        clus
vv       GOLIM4 MUTATED GOLIM4 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GOLIM4 MUTATED        0      0      0      0      1      0
  GOLIM4 WILD-TYPE     13     16     14     11     10      9
D1245V11, multiclass
[1] "Remove cluster labels:" "GOLIM4 MUTATED"        
clus
  GOLIM4 MUTATED GOLIM4 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-G4-6628 
"GOLIM4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLIM4 MUTATED        0      0      0      0      0      0      1      0
  GOLIM4 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  GOLIM4 MUTATED        0
  GOLIM4 WILD-TYPE      5
D1245V12, multiclass
[1] "Remove cluster labels:" "GOLIM4 MUTATED"        
clus
  GOLIM4 MUTATED GOLIM4 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" "GOLIM4 WILD-TYPE" 
      TCGA-G4-6628 
"GOLIM4 WILD-TYPE" 

Clustering(1246) Variable = IRGQ MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRGQ MUTATED        1      0      0      0      0
  IRGQ WILD-TYPE     31     18     46     27     23
D1246V1, multiclass
[1] "Remove cluster labels:" "IRGQ MUTATED"          
clus
  IRGQ MUTATED IRGQ WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AY-4071 
"IRGQ WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRGQ MUTATED        1      0      0
  IRGQ WILD-TYPE     42     67     36
D1246V2, multiclass
[1] "Remove cluster labels:" "IRGQ MUTATED"          
clus
  IRGQ MUTATED IRGQ WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AY-4071 
"IRGQ WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRGQ MUTATED        0      0      3
  IRGQ WILD-TYPE     42    173    144
D1246V3, multiclass
        clus
vv       IRGQ MUTATED IRGQ WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRGQ MUTATED        0      0      2
  IRGQ WILD-TYPE     62     73     73
D1246V4, multiclass
[1] "Remove cluster labels:" "IRGQ MUTATED"          
clus
  IRGQ MUTATED IRGQ WILD-TYPE 
             2            208 
    TCGA-A6-2671     TCGA-A6-2677     TCGA-A6-3809     TCGA-A6-3810 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-4105     TCGA-A6-5656     TCGA-A6-5657     TCGA-A6-5659 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662     TCGA-A6-5664 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137     TCGA-A6-6138 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648     TCGA-A6-6649 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6654     TCGA-A6-6780 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3492 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3496     TCGA-AA-3502     TCGA-AA-3510     TCGA-AA-3511 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3655     TCGA-AA-3660     TCGA-AA-3662     TCGA-AA-3663 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AA-3697     TCGA-AA-3712     TCGA-AA-3713     TCGA-AD-5900 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6888     TCGA-AD-6889     TCGA-AD-6890 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AD-6895     TCGA-AD-6899     TCGA-AD-6901     TCGA-AD-6963 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AU-3779     TCGA-AU-6004 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197     TCGA-AY-6386 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-4681 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AZ-4682     TCGA-AZ-5403     TCGA-AZ-5407     TCGA-AZ-6598 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AZ-6599     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6606     TCGA-AZ-6607     TCGA-AZ-6608 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CA-5254     TCGA-CA-5255     TCGA-CA-5796     TCGA-CA-5797 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CA-6715     TCGA-CA-6716     TCGA-CA-6717     TCGA-CA-6718 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CA-6719     TCGA-CK-4947     TCGA-CK-4948     TCGA-CK-4950 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CK-4952     TCGA-CK-5912     TCGA-CK-5913     TCGA-CK-5914 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CK-5915     TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CK-6748     TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-4746     TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-5344     TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-5861     TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-5868     TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-6164     TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-6168     TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-6172     TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-D5-5541     TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-D5-6538     TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-D5-6898     TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-D5-6924     TCGA-D5-6926     TCGA-D5-6927     TCGA-D5-6928 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-D5-6929     TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-D5-7000     TCGA-DM-A0X9     TCGA-DM-A0XD     TCGA-DM-A0XF 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-DM-A1HA     TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A285 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-DM-A28C     TCGA-DM-A28E     TCGA-DM-A28F     TCGA-DM-A28G 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-DM-A28H     TCGA-DM-A28K     TCGA-F4-6459     TCGA-F4-6460 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-F4-6809     TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-G4-6293     TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-G4-6315     TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-G4-6586     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRGQ MUTATED        0      0      3
  IRGQ WILD-TYPE     70    120     97
D1246V5, multiclass
        clus
vv       IRGQ MUTATED IRGQ WILD-TYPE
  CLUS_1            0             70
  CLUS_2            0            120
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IRGQ MUTATED        0      0      0      0      0      3      0      0      0
  IRGQ WILD-TYPE     41     26     30     29     39     66     20     14     22
D1246V6, multiclass
        clus
vv       IRGQ MUTATED IRGQ WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IRGQ MUTATED        0      2      0      1
  IRGQ WILD-TYPE    100     70     72    120
D1246V7, multiclass
        clus
vv       IRGQ MUTATED IRGQ WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            0             72
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRGQ MUTATED        0      0      2      1      0
  IRGQ WILD-TYPE     59     75     72    118     38
D1246V8, multiclass
        clus
vv       IRGQ MUTATED IRGQ WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRGQ MUTATED        0      2      0      0      1
  IRGQ WILD-TYPE     51     74     61     71     94
D1246V9, multiclass
        clus
vv       IRGQ MUTATED IRGQ WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IRGQ MUTATED        0      0      0      2      0      0      1      0      0
  IRGQ WILD-TYPE     69     48     39     14     53     20     20     38     50
D1246V10, multiclass
        clus
vv       IRGQ MUTATED IRGQ WILD-TYPE
  CLUS_1            0             69
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IRGQ MUTATED        0      0      0      0      1      0
  IRGQ WILD-TYPE     13     16     14     11     10      9
D1246V11, multiclass
[1] "Remove cluster labels:" "IRGQ MUTATED"          
clus
  IRGQ MUTATED IRGQ WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-G4-6628 
"IRGQ WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IRGQ MUTATED        0      0      0      1      0      0      0      0      0
  IRGQ WILD-TYPE     11      7      7      8      8      7     11      9      5
D1246V12, multiclass
[1] "Remove cluster labels:" "IRGQ MUTATED"          
clus
  IRGQ MUTATED IRGQ WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" "IRGQ WILD-TYPE" 
    TCGA-G4-6628 
"IRGQ WILD-TYPE" 

Clustering(1247) Variable = CYP2C9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP2C9 MUTATED        3      0      1      0      0
  CYP2C9 WILD-TYPE     29     18     45     27     23
D1247V1, multiclass
        clus
vv       CYP2C9 MUTATED CYP2C9 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP2C9 MUTATED        2      0      2
  CYP2C9 WILD-TYPE     41     67     34
D1247V2, multiclass
        clus
vv       CYP2C9 MUTATED CYP2C9 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP2C9 MUTATED        0      4      4
  CYP2C9 WILD-TYPE     42    169    143
D1247V3, multiclass
        clus
vv       CYP2C9 MUTATED CYP2C9 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP2C9 MUTATED        0      3      1
  CYP2C9 WILD-TYPE     62     70     74
D1247V4, multiclass
        clus
vv       CYP2C9 MUTATED CYP2C9 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              3               70
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CYP2C9 MUTATED        0      3      4
  CYP2C9 WILD-TYPE     70    117     96
D1247V5, multiclass
        clus
vv       CYP2C9 MUTATED CYP2C9 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP2C9 MUTATED        0      0      0      1      3      3      0      0
  CYP2C9 WILD-TYPE     41     26     30     28     36     66     20     14
                  vv
clus               CLUS_9
  CYP2C9 MUTATED        0
  CYP2C9 WILD-TYPE     22
D1247V6, multiclass
        clus
vv       CYP2C9 MUTATED CYP2C9 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYP2C9 MUTATED        3      1      0      4
  CYP2C9 WILD-TYPE     97     71     72    117
D1247V7, multiclass
        clus
vv       CYP2C9 MUTATED CYP2C9 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              1               71
  CLUS_3              0               72
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP2C9 MUTATED        0      3      1      2      2
  CYP2C9 WILD-TYPE     59     72     73    117     36
D1247V8, multiclass
        clus
vv       CYP2C9 MUTATED CYP2C9 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              1               73
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYP2C9 MUTATED        1      2      0      2      2
  CYP2C9 WILD-TYPE     50     74     61     69     93
D1247V9, multiclass
        clus
vv       CYP2C9 MUTATED CYP2C9 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP2C9 MUTATED        3      0      0      1      1      0      0      1
  CYP2C9 WILD-TYPE     66     48     39     15     52     20     21     37
                  vv
clus               CLUS_9
  CYP2C9 MUTATED        1
  CYP2C9 WILD-TYPE     49
D1247V10, multiclass
        clus
vv       CYP2C9 MUTATED CYP2C9 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CYP2C9 MUTATED        1      0      0      0      0      0
  CYP2C9 WILD-TYPE     12     16     14     11     11      9
D1247V11, multiclass
[1] "Remove cluster labels:" "CYP2C9 MUTATED"        
clus
  CYP2C9 MUTATED CYP2C9 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6309       TCGA-G4-6625 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-G4-6628 
"CYP2C9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYP2C9 MUTATED        0      0      0      1      0      0      0      0
  CYP2C9 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  CYP2C9 MUTATED        0
  CYP2C9 WILD-TYPE      5
D1247V12, multiclass
[1] "Remove cluster labels:" "CYP2C9 MUTATED"        
clus
  CYP2C9 MUTATED CYP2C9 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6309       TCGA-G4-6625 
"CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" "CYP2C9 WILD-TYPE" 
      TCGA-G4-6628 
"CYP2C9 WILD-TYPE" 

Clustering(1248) Variable = IL6R MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL6R MUTATED        1      0      0      1      0
  IL6R WILD-TYPE     31     18     46     26     23
D1248V1, multiclass
[1] "Remove cluster labels:" "IL6R MUTATED"          
clus
  IL6R MUTATED IL6R WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866     TCGA-AA-3867 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL6R MUTATED        2      0      0
  IL6R WILD-TYPE     41     67     36
D1248V2, multiclass
[1] "Remove cluster labels:" "IL6R MUTATED"          
clus
  IL6R MUTATED IL6R WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866     TCGA-AA-3867 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL6R MUTATED        0      0      7
  IL6R WILD-TYPE     42    173    140
D1248V3, multiclass
        clus
vv       IL6R MUTATED IL6R WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL6R MUTATED        2      1      2
  IL6R WILD-TYPE     60     72     73
D1248V4, multiclass
        clus
vv       IL6R MUTATED IL6R WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL6R MUTATED        0      4      2
  IL6R WILD-TYPE     70    116     98
D1248V5, multiclass
        clus
vv       IL6R MUTATED IL6R WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL6R MUTATED        0      2      0      0      2      2      0      0      0
  IL6R WILD-TYPE     41     24     30     29     37     67     20     14     22
D1248V6, multiclass
        clus
vv       IL6R MUTATED IL6R WILD-TYPE
  CLUS_1            0             41
  CLUS_2            2             24
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL6R MUTATED        1      1      2      3
  IL6R WILD-TYPE     99     71     70    118
D1248V7, multiclass
        clus
vv       IL6R MUTATED IL6R WILD-TYPE
  CLUS_1            1             99
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL6R MUTATED        0      1      3      1      2
  IL6R WILD-TYPE     59     74     71    118     36
D1248V8, multiclass
        clus
vv       IL6R MUTATED IL6R WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL6R MUTATED        0      1      2      1      3
  IL6R WILD-TYPE     51     75     59     70     92
D1248V9, multiclass
        clus
vv       IL6R MUTATED IL6R WILD-TYPE
  CLUS_1            0             51
  CLUS_2            1             75
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL6R MUTATED        0      2      1      1      0      0      0      2      1
  IL6R WILD-TYPE     69     46     38     15     53     20     21     36     49
D1248V10, multiclass
        clus
vv       IL6R MUTATED IL6R WILD-TYPE
  CLUS_1            0             69
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL6R MUTATED        1      0      0      0      0      0
  IL6R WILD-TYPE     12     16     14     11     11      9
D1248V11, multiclass
[1] "Remove cluster labels:" "IL6R MUTATED"          
clus
  IL6R MUTATED IL6R WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-G4-6628 
"IL6R WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL6R MUTATED        0      0      0      0      0      0      0      1      0
  IL6R WILD-TYPE     11      7      7      9      8      7     11      8      5
D1248V12, multiclass
[1] "Remove cluster labels:" "IL6R MUTATED"          
clus
  IL6R MUTATED IL6R WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" "IL6R WILD-TYPE" 
    TCGA-G4-6628 
"IL6R WILD-TYPE" 

Clustering(1249) Variable = ZNF235 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF235 MUTATED        1      0      1      0      1
  ZNF235 WILD-TYPE     31     18     45     27     22
D1249V1, multiclass
        clus
vv       ZNF235 MUTATED ZNF235 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF235 MUTATED        0      2      1
  ZNF235 WILD-TYPE     43     65     35
D1249V2, multiclass
        clus
vv       ZNF235 MUTATED ZNF235 WILD-TYPE
  CLUS_1              0               43
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF235 MUTATED        0      6      3
  ZNF235 WILD-TYPE     42    167    144
D1249V3, multiclass
        clus
vv       ZNF235 MUTATED ZNF235 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              6              167
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF235 MUTATED        3      1      2
  ZNF235 WILD-TYPE     59     72     73
D1249V4, multiclass
        clus
vv       ZNF235 MUTATED ZNF235 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF235 MUTATED        2      3      2
  ZNF235 WILD-TYPE     68    117     98
D1249V5, multiclass
        clus
vv       ZNF235 MUTATED ZNF235 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF235 MUTATED        0      0      0      1      3      1      1      0
  ZNF235 WILD-TYPE     41     26     30     28     36     68     19     14
                  vv
clus               CLUS_9
  ZNF235 MUTATED        1
  ZNF235 WILD-TYPE     21
D1249V6, multiclass
        clus
vv       ZNF235 MUTATED ZNF235 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF235 MUTATED        1      2      3      3
  ZNF235 WILD-TYPE     99     70     69    118
D1249V7, multiclass
        clus
vv       ZNF235 MUTATED ZNF235 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF235 MUTATED        3      1      2      3      0
  ZNF235 WILD-TYPE     56     74     72    116     38
D1249V8, multiclass
        clus
vv       ZNF235 MUTATED ZNF235 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              3              116
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF235 MUTATED        1      3      1      1      3
  ZNF235 WILD-TYPE     50     73     60     70     92
D1249V9, multiclass
        clus
vv       ZNF235 MUTATED ZNF235 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF235 MUTATED        1      2      0      0      4      0      0      1
  ZNF235 WILD-TYPE     68     46     39     16     49     20     21     37
                  vv
clus               CLUS_9
  ZNF235 MUTATED        1
  ZNF235 WILD-TYPE     49
D1249V10, multiclass
        clus
vv       ZNF235 MUTATED ZNF235 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              4               49
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF235 MUTATED        0      1      0      0      0      0
  ZNF235 WILD-TYPE     13     15     14     11     11      9
D1249V11, multiclass
[1] "Remove cluster labels:" "ZNF235 MUTATED"        
clus
  ZNF235 MUTATED ZNF235 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF235 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF235 MUTATED        0      1      0      0      0      0      0      0
  ZNF235 WILD-TYPE     11      6      7      9      8      7     11      9
                  vv
clus               CLUS_9
  ZNF235 MUTATED        0
  ZNF235 WILD-TYPE      5
D1249V12, multiclass
[1] "Remove cluster labels:" "ZNF235 MUTATED"        
clus
  ZNF235 MUTATED ZNF235 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" "ZNF235 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF235 WILD-TYPE" 

Clustering(1250) Variable = C20ORF151 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C20ORF151 MUTATED        0      0      0      0      0
  C20ORF151 WILD-TYPE     32     18     46     27     23
D1250V1, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C20ORF151 MUTATED        0      0      0
  C20ORF151 WILD-TYPE     43     67     36
D1250V2, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C20ORF151 MUTATED        1      2      6
  C20ORF151 WILD-TYPE     41    171    141
D1250V3, multiclass
        clus
vv       C20ORF151 MUTATED C20ORF151 WILD-TYPE
  CLUS_1                 1                  41
  CLUS_2                 2                 171
  CLUS_3                 6                 141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C20ORF151 MUTATED        3      2      2
  C20ORF151 WILD-TYPE     59     71     73
D1250V4, multiclass
        clus
vv       C20ORF151 MUTATED C20ORF151 WILD-TYPE
  CLUS_1                 3                  59
  CLUS_2                 2                  71
  CLUS_3                 2                  73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C20ORF151 MUTATED        4      3      2
  C20ORF151 WILD-TYPE     66    117     98
D1250V5, multiclass
        clus
vv       C20ORF151 MUTATED C20ORF151 WILD-TYPE
  CLUS_1                 4                  66
  CLUS_2                 3                 117
  CLUS_3                 2                  98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C20ORF151 MUTATED        0      2      1      0      1      3      0      1
  C20ORF151 WILD-TYPE     41     24     29     29     38     66     20     13
                     vv
clus                  CLUS_9
  C20ORF151 MUTATED        1
  C20ORF151 WILD-TYPE     21
D1250V6, multiclass
        clus
vv       C20ORF151 MUTATED C20ORF151 WILD-TYPE
  CLUS_1                 0                  41
  CLUS_2                 2                  24
  CLUS_3                 1                  29
  CLUS_4                 0                  29
  CLUS_5                 1                  38
  CLUS_6                 3                  66
  CLUS_7                 0                  20
  CLUS_8                 1                  13
  CLUS_9                 1                  21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C20ORF151 MUTATED        2      2      4      1
  C20ORF151 WILD-TYPE     98     70     68    120
D1250V7, multiclass
        clus
vv       C20ORF151 MUTATED C20ORF151 WILD-TYPE
  CLUS_1                 2                  98
  CLUS_2                 2                  70
  CLUS_3                 4                  68
  CLUS_4                 1                 120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C20ORF151 MUTATED        2      0      5      1      1
  C20ORF151 WILD-TYPE     57     75     69    118     37
D1250V8, multiclass
        clus
vv       C20ORF151 MUTATED C20ORF151 WILD-TYPE
  CLUS_1                 2                  57
  CLUS_2                 0                  75
  CLUS_3                 5                  69
  CLUS_4                 1                 118
  CLUS_5                 1                  37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C20ORF151 MUTATED        0      4      2      2      1
  C20ORF151 WILD-TYPE     51     72     59     69     94
D1250V9, multiclass
        clus
vv       C20ORF151 MUTATED C20ORF151 WILD-TYPE
  CLUS_1                 0                  51
  CLUS_2                 4                  72
  CLUS_3                 2                  59
  CLUS_4                 2                  69
  CLUS_5                 1                  94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C20ORF151 MUTATED        4      2      1      1      0      0      0      1
  C20ORF151 WILD-TYPE     65     46     38     15     53     20     21     37
                     vv
clus                  CLUS_9
  C20ORF151 MUTATED        0
  C20ORF151 WILD-TYPE     50
D1250V10, multiclass
        clus
vv       C20ORF151 MUTATED C20ORF151 WILD-TYPE
  CLUS_1                 4                  65
  CLUS_2                 2                  46
  CLUS_3                 1                  38
  CLUS_4                 1                  15
  CLUS_5                 0                  53
  CLUS_6                 0                  20
  CLUS_7                 0                  21
  CLUS_8                 1                  37
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C20ORF151 MUTATED        0      1      1      1      1      0
  C20ORF151 WILD-TYPE     13     15     13     10     10      9
D1250V11, multiclass
        clus
vv       C20ORF151 MUTATED C20ORF151 WILD-TYPE
  CLUS_1                 0                  13
  CLUS_2                 1                  15
  CLUS_3                 1                  13
  CLUS_4                 1                  10
  CLUS_5                 1                  10
  CLUS_6                 0                   9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C20ORF151 MUTATED        1      0      0      1      0      1      0      1
  C20ORF151 WILD-TYPE     10      7      7      8      8      6     11      8
                     vv
clus                  CLUS_9
  C20ORF151 MUTATED        0
  C20ORF151 WILD-TYPE      5
D1250V12, multiclass
        clus
vv       C20ORF151 MUTATED C20ORF151 WILD-TYPE
  CLUS_1                 1                  10
  CLUS_2                 0                   7
  CLUS_3                 0                   7
  CLUS_4                 1                   8
  CLUS_5                 0                   8
  CLUS_6                 1                   6
  CLUS_7                 0                  11
  CLUS_8                 1                   8
  CLUS_9                 0                   5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1251) Variable = CEPT1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEPT1 MUTATED        1      0      0      0      0
  CEPT1 WILD-TYPE     31     18     46     27     23
D1251V1, multiclass
[1] "Remove cluster labels:" "CEPT1 MUTATED"         
clus
  CEPT1 MUTATED CEPT1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3930      TCGA-AA-3939 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AY-4071 
"CEPT1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CEPT1 MUTATED        1      0      0
  CEPT1 WILD-TYPE     42     67     36
D1251V2, multiclass
[1] "Remove cluster labels:" "CEPT1 MUTATED"         
clus
  CEPT1 MUTATED CEPT1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3930      TCGA-AA-3939 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AY-4071 
"CEPT1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CEPT1 MUTATED        0      1      4
  CEPT1 WILD-TYPE     42    172    143
D1251V3, multiclass
        clus
vv       CEPT1 MUTATED CEPT1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CEPT1 MUTATED        2      0      2
  CEPT1 WILD-TYPE     60     73     73
D1251V4, multiclass
        clus
vv       CEPT1 MUTATED CEPT1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CEPT1 MUTATED        0      1      3
  CEPT1 WILD-TYPE     70    119     97
D1251V5, multiclass
        clus
vv       CEPT1 MUTATED CEPT1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEPT1 MUTATED        1      0      1      0      0      2      0      0
  CEPT1 WILD-TYPE     40     26     29     29     39     67     20     14
                 vv
clus              CLUS_9
  CEPT1 MUTATED        0
  CEPT1 WILD-TYPE     22
D1251V6, multiclass
        clus
vv       CEPT1 MUTATED CEPT1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CEPT1 MUTATED        1      1      2      1
  CEPT1 WILD-TYPE     99     71     70    120
D1251V7, multiclass
        clus
vv       CEPT1 MUTATED CEPT1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEPT1 MUTATED        1      1      2      0      1
  CEPT1 WILD-TYPE     58     74     72    119     37
D1251V8, multiclass
        clus
vv       CEPT1 MUTATED CEPT1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEPT1 MUTATED        0      2      1      1      1
  CEPT1 WILD-TYPE     51     74     60     70     94
D1251V9, multiclass
        clus
vv       CEPT1 MUTATED CEPT1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEPT1 MUTATED        2      2      0      0      0      0      1      0
  CEPT1 WILD-TYPE     67     46     39     16     53     20     20     38
                 vv
clus              CLUS_9
  CEPT1 MUTATED        0
  CEPT1 WILD-TYPE     50
D1251V10, multiclass
        clus
vv       CEPT1 MUTATED CEPT1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CEPT1 MUTATED        1      0      0      0      1      0
  CEPT1 WILD-TYPE     12     16     14     11     10      9
D1251V11, multiclass
[1] "Remove cluster labels:" "CEPT1 MUTATED"         
clus
  CEPT1 MUTATED CEPT1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEPT1 MUTATED        0      0      0      0      0      0      1      1
  CEPT1 WILD-TYPE     11      7      7      9      8      7     10      8
                 vv
clus              CLUS_9
  CEPT1 MUTATED        0
  CEPT1 WILD-TYPE      5
D1251V12, multiclass
[1] "Remove cluster labels:" "CEPT1 MUTATED"         
clus
  CEPT1 MUTATED CEPT1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" "CEPT1 WILD-TYPE" 

Clustering(1252) Variable = GGNBP2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGNBP2 MUTATED        0      0      0      2      0
  GGNBP2 WILD-TYPE     32     18     46     25     23
D1252V1, multiclass
[1] "Remove cluster labels:" "GGNBP2 MUTATED"        
clus
  GGNBP2 MUTATED GGNBP2 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGNBP2 MUTATED        1      1      0
  GGNBP2 WILD-TYPE     42     66     36
D1252V2, multiclass
[1] "Remove cluster labels:" "GGNBP2 MUTATED"        
clus
  GGNBP2 MUTATED GGNBP2 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGNBP2 MUTATED        1      3      7
  GGNBP2 WILD-TYPE     41    170    140
D1252V3, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGNBP2 MUTATED        3      1      5
  GGNBP2 WILD-TYPE     59     72     70
D1252V4, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGNBP2 MUTATED        1      4      5
  GGNBP2 WILD-TYPE     69    116     95
D1252V5, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GGNBP2 MUTATED        2      0      1      2      0      3      2      0
  GGNBP2 WILD-TYPE     39     26     29     27     39     66     18     14
                  vv
clus               CLUS_9
  GGNBP2 MUTATED        0
  GGNBP2 WILD-TYPE     22
D1252V6, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGNBP2 MUTATED        2      3      4      2
  GGNBP2 WILD-TYPE     98     69     68    119
D1252V7, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              4               68
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGNBP2 MUTATED        1      4      4      1      1
  GGNBP2 WILD-TYPE     58     71     70    118     37
D1252V8, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGNBP2 MUTATED        1      5      0      2      2
  GGNBP2 WILD-TYPE     50     71     61     69     93
D1252V9, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GGNBP2 MUTATED        2      2      0      2      2      1      0      0
  GGNBP2 WILD-TYPE     67     46     39     14     51     19     21     38
                  vv
clus               CLUS_9
  GGNBP2 MUTATED        1
  GGNBP2 WILD-TYPE     49
D1252V10, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GGNBP2 MUTATED        0      0      1      0      1      0
  GGNBP2 WILD-TYPE     13     16     13     11     10      9
D1252V11, multiclass
[1] "Remove cluster labels:" "GGNBP2 MUTATED"        
clus
  GGNBP2 MUTATED GGNBP2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6678       TCGA-CM-6679 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GGNBP2 MUTATED        1      0      0      0      1      0      0      0
  GGNBP2 WILD-TYPE     10      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  GGNBP2 MUTATED        0
  GGNBP2 WILD-TYPE      5
D1252V12, multiclass
[1] "Remove cluster labels:" "GGNBP2 MUTATED"        
clus
  GGNBP2 MUTATED GGNBP2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6678       TCGA-CM-6679 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 

Clustering(1253) Variable = CTCFL MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTCFL MUTATED        5      0      0      1      0
  CTCFL WILD-TYPE     27     18     46     26     23
D1253V1, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CTCFL MUTATED        5      0      1
  CTCFL WILD-TYPE     38     67     35
D1253V2, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CTCFL MUTATED        0      2     12
  CTCFL WILD-TYPE     42    171    135
D1253V3, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CTCFL MUTATED        4      1      3
  CTCFL WILD-TYPE     58     72     72
D1253V4, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CTCFL MUTATED        3      2      7
  CTCFL WILD-TYPE     67    118     93
D1253V5, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             3              67
  CLUS_2             2             118
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTCFL MUTATED        1      0      1      0      0      6      1      2
  CTCFL WILD-TYPE     40     26     29     29     39     63     19     12
                 vv
clus              CLUS_9
  CTCFL MUTATED        1
  CTCFL WILD-TYPE     21
D1253V6, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTCFL MUTATED        2      3      3      7
  CTCFL WILD-TYPE     98     69     69    114
D1253V7, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTCFL MUTATED        1      2      5      2      5
  CTCFL WILD-TYPE     58     73     69    117     33
D1253V8, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTCFL MUTATED        2      4      3      1      4
  CTCFL WILD-TYPE     49     72     58     70     91
D1253V9, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTCFL MUTATED        3      2      0      1      2      1      2      3
  CTCFL WILD-TYPE     66     46     39     15     51     19     19     35
                 vv
clus              CLUS_9
  CTCFL MUTATED        0
  CTCFL WILD-TYPE     50
D1253V10, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             2              19
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTCFL MUTATED        1      1      1      0      1      0
  CTCFL WILD-TYPE     12     15     13     11     10      9
D1253V11, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTCFL MUTATED        1      0      0      0      1      0      1      0
  CTCFL WILD-TYPE     10      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  CTCFL MUTATED        1
  CTCFL WILD-TYPE      4
D1253V12, multiclass
        clus
vv       CTCFL MUTATED CTCFL WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1254) Variable = SLC16A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC16A1 MUTATED        2      0      0      0      0
  SLC16A1 WILD-TYPE     30     18     46     27     23
D1254V1, multiclass
[1] "Remove cluster labels:" "SLC16A1 MUTATED"       
clus
  SLC16A1 MUTATED SLC16A1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3968 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC16A1 MUTATED        2      0      0
  SLC16A1 WILD-TYPE     41     67     36
D1254V2, multiclass
[1] "Remove cluster labels:" "SLC16A1 MUTATED"       
clus
  SLC16A1 MUTATED SLC16A1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3968 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC16A1 MUTATED        0      0      7
  SLC16A1 WILD-TYPE     42    173    140
D1254V3, multiclass
        clus
vv       SLC16A1 MUTATED SLC16A1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC16A1 MUTATED        1      0      4
  SLC16A1 WILD-TYPE     61     73     71
D1254V4, multiclass
        clus
vv       SLC16A1 MUTATED SLC16A1 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               0                73
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC16A1 MUTATED        0      3      2
  SLC16A1 WILD-TYPE     70    117     98
D1254V5, multiclass
        clus
vv       SLC16A1 MUTATED SLC16A1 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC16A1 MUTATED        1      0      0      1      1      1      1      0
  SLC16A1 WILD-TYPE     40     26     30     28     38     68     19     14
                   vv
clus                CLUS_9
  SLC16A1 MUTATED        0
  SLC16A1 WILD-TYPE     22
D1254V6, multiclass
        clus
vv       SLC16A1 MUTATED SLC16A1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               1                68
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC16A1 MUTATED        0      3      2      2
  SLC16A1 WILD-TYPE    100     69     70    119
D1254V7, multiclass
        clus
vv       SLC16A1 MUTATED SLC16A1 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               2                70
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC16A1 MUTATED        1      1      3      0      2
  SLC16A1 WILD-TYPE     58     74     71    119     36
D1254V8, multiclass
        clus
vv       SLC16A1 MUTATED SLC16A1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC16A1 MUTATED        1      3      1      0      2
  SLC16A1 WILD-TYPE     50     73     60     71     93
D1254V9, multiclass
        clus
vv       SLC16A1 MUTATED SLC16A1 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC16A1 MUTATED        1      2      0      1      0      1      0      2
  SLC16A1 WILD-TYPE     68     46     39     15     53     19     21     36
                   vv
clus                CLUS_9
  SLC16A1 MUTATED        0
  SLC16A1 WILD-TYPE     50
D1254V10, multiclass
        clus
vv       SLC16A1 MUTATED SLC16A1 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC16A1 MUTATED        0      0      0      0      1      0
  SLC16A1 WILD-TYPE     13     16     14     11     10      9
D1254V11, multiclass
[1] "Remove cluster labels:" "SLC16A1 MUTATED"       
clus
  SLC16A1 MUTATED SLC16A1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-G4-6628 
"SLC16A1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC16A1 MUTATED        0      0      0      0      0      0      1      0
  SLC16A1 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  SLC16A1 MUTATED        0
  SLC16A1 WILD-TYPE      5
D1254V12, multiclass
[1] "Remove cluster labels:" "SLC16A1 MUTATED"       
clus
  SLC16A1 MUTATED SLC16A1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" "SLC16A1 WILD-TYPE" 
       TCGA-G4-6628 
"SLC16A1 WILD-TYPE" 

Clustering(1255) Variable = MAP2K4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP2K4 MUTATED        3      2      0      4      1
  MAP2K4 WILD-TYPE     29     16     46     23     22
D1255V1, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              2               16
  CLUS_3              0               46
  CLUS_4              4               23
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP2K4 MUTATED        5      3      2
  MAP2K4 WILD-TYPE     38     64     34
D1255V2, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              3               64
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP2K4 MUTATED        4      7     18
  MAP2K4 WILD-TYPE     38    166    129
D1255V3, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              4               38
  CLUS_2              7              166
  CLUS_3             18              129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP2K4 MUTATED        6      3     11
  MAP2K4 WILD-TYPE     56     70     64
D1255V4, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              3               70
  CLUS_3             11               64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP2K4 MUTATED        3     12      9
  MAP2K4 WILD-TYPE     67    108     91
D1255V5, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              3               67
  CLUS_2             12              108
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP2K4 MUTATED        0      1      3      4      3      9      1      3
  MAP2K4 WILD-TYPE     41     25     27     25     36     60     19     11
                  vv
clus               CLUS_9
  MAP2K4 MUTATED        0
  MAP2K4 WILD-TYPE     22
D1255V6, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              3               27
  CLUS_4              4               25
  CLUS_5              3               36
  CLUS_6              9               60
  CLUS_7              1               19
  CLUS_8              3               11
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP2K4 MUTATED        3     12      6      9
  MAP2K4 WILD-TYPE     97     60     66    112
D1255V7, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              3               97
  CLUS_2             12               60
  CLUS_3              6               66
  CLUS_4              9              112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP2K4 MUTATED        2      7     11      6      4
  MAP2K4 WILD-TYPE     57     68     63    113     34
D1255V8, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              7               68
  CLUS_3             11               63
  CLUS_4              6              113
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP2K4 MUTATED        3     13      3      2      8
  MAP2K4 WILD-TYPE     48     63     58     69     87
D1255V9, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              3               48
  CLUS_2             13               63
  CLUS_3              3               58
  CLUS_4              2               69
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP2K4 MUTATED        7      2      2      5      4      3      2      3
  MAP2K4 WILD-TYPE     62     46     37     11     49     17     19     35
                  vv
clus               CLUS_9
  MAP2K4 MUTATED        1
  MAP2K4 WILD-TYPE     49
D1255V10, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              7               62
  CLUS_2              2               46
  CLUS_3              2               37
  CLUS_4              5               11
  CLUS_5              4               49
  CLUS_6              3               17
  CLUS_7              2               19
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAP2K4 MUTATED        1      1      2      0      3      1
  MAP2K4 WILD-TYPE     12     15     12     11      8      8
D1255V11, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAP2K4 MUTATED        2      0      1      2      1      0      2      0
  MAP2K4 WILD-TYPE      9      7      6      7      7      7      9      9
                  vv
clus               CLUS_9
  MAP2K4 MUTATED        0
  MAP2K4 WILD-TYPE      5
D1255V12, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1256) Variable = DUSP9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP9 MUTATED        1      0      0      0      0
  DUSP9 WILD-TYPE     31     18     46     27     23
D1256V1, multiclass
[1] "Remove cluster labels:" "DUSP9 MUTATED"         
clus
  DUSP9 MUTATED DUSP9 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AY-4071 
"DUSP9 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP9 MUTATED        1      0      0
  DUSP9 WILD-TYPE     42     67     36
D1256V2, multiclass
[1] "Remove cluster labels:" "DUSP9 MUTATED"         
clus
  DUSP9 MUTATED DUSP9 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" "DUSP9 WILD-TYPE" 
     TCGA-AY-4071 
"DUSP9 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP9 MUTATED        0      3      6
  DUSP9 WILD-TYPE     42    170    141
D1256V3, multiclass
        clus
vv       DUSP9 MUTATED DUSP9 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP9 MUTATED        3      4      1
  DUSP9 WILD-TYPE     59     69     74
D1256V4, multiclass
        clus
vv       DUSP9 MUTATED DUSP9 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP9 MUTATED        2      1      5
  DUSP9 WILD-TYPE     68    119     95
D1256V5, multiclass
        clus
vv       DUSP9 MUTATED DUSP9 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP9 MUTATED        2      0      0      0      1      3      0      0
  DUSP9 WILD-TYPE     39     26     30     29     38     66     20     14
                 vv
clus              CLUS_9
  DUSP9 MUTATED        2
  DUSP9 WILD-TYPE     20
D1256V6, multiclass
        clus
vv       DUSP9 MUTATED DUSP9 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DUSP9 MUTATED        1      3      4      1
  DUSP9 WILD-TYPE     99     69     68    120
D1256V7, multiclass
        clus
vv       DUSP9 MUTATED DUSP9 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP9 MUTATED        3      2      3      0      1
  DUSP9 WILD-TYPE     56     73     71    119     37
D1256V8, multiclass
        clus
vv       DUSP9 MUTATED DUSP9 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP9 MUTATED        0      3      5      1      0
  DUSP9 WILD-TYPE     51     73     56     70     95
D1256V9, multiclass
        clus
vv       DUSP9 MUTATED DUSP9 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             5              56
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP9 MUTATED        3      3      0      2      0      0      0      1
  DUSP9 WILD-TYPE     66     45     39     14     53     20     21     37
                 vv
clus              CLUS_9
  DUSP9 MUTATED        0
  DUSP9 WILD-TYPE     50
D1256V10, multiclass
        clus
vv       DUSP9 MUTATED DUSP9 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DUSP9 MUTATED        0      1      0      1      0      1
  DUSP9 WILD-TYPE     13     15     14     10     11      8
D1256V11, multiclass
        clus
vv       DUSP9 MUTATED DUSP9 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP9 MUTATED        1      0      1      0      0      1      0      0
  DUSP9 WILD-TYPE     10      7      6      9      8      6     11      9
                 vv
clus              CLUS_9
  DUSP9 MUTATED        0
  DUSP9 WILD-TYPE      5
D1256V12, multiclass
        clus
vv       DUSP9 MUTATED DUSP9 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1257) Variable = BRD2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRD2 MUTATED        3      0      0      0      0
  BRD2 WILD-TYPE     29     18     46     27     23
D1257V1, multiclass
        clus
vv       BRD2 MUTATED BRD2 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD2 MUTATED        2      0      1
  BRD2 WILD-TYPE     41     67     35
D1257V2, multiclass
        clus
vv       BRD2 MUTATED BRD2 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD2 MUTATED        2      1      8
  BRD2 WILD-TYPE     40    172    139
D1257V3, multiclass
        clus
vv       BRD2 MUTATED BRD2 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1            172
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD2 MUTATED        1      2      6
  BRD2 WILD-TYPE     61     71     69
D1257V4, multiclass
        clus
vv       BRD2 MUTATED BRD2 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD2 MUTATED        0      5      4
  BRD2 WILD-TYPE     70    115     96
D1257V5, multiclass
        clus
vv       BRD2 MUTATED BRD2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            5            115
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRD2 MUTATED        0      1      0      2      1      3      1      0      1
  BRD2 WILD-TYPE     41     25     30     27     38     66     19     14     21
D1257V6, multiclass
        clus
vv       BRD2 MUTATED BRD2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRD2 MUTATED        1      6      1      3
  BRD2 WILD-TYPE     99     66     71    118
D1257V7, multiclass
        clus
vv       BRD2 MUTATED BRD2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            6             66
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRD2 MUTATED        1      2      4      2      2
  BRD2 WILD-TYPE     58     73     70    117     36
D1257V8, multiclass
        clus
vv       BRD2 MUTATED BRD2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRD2 MUTATED        3      3      0      3      2
  BRD2 WILD-TYPE     48     73     61     68     93
D1257V9, multiclass
        clus
vv       BRD2 MUTATED BRD2 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            3             68
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRD2 MUTATED        1      0      1      3      2      1      0      3      0
  BRD2 WILD-TYPE     68     48     38     13     51     19     21     35     50
D1257V10, multiclass
        clus
vv       BRD2 MUTATED BRD2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            3             13
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRD2 MUTATED        0      0      0      1      0      0
  BRD2 WILD-TYPE     13     16     14     10     11      9
D1257V11, multiclass
[1] "Remove cluster labels:" "BRD2 MUTATED"          
clus
  BRD2 MUTATED BRD2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-DM-A0XD 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-G4-6628 
"BRD2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRD2 MUTATED        0      0      0      0      0      0      0      1      0
  BRD2 WILD-TYPE     11      7      7      9      8      7     11      8      5
D1257V12, multiclass
[1] "Remove cluster labels:" "BRD2 MUTATED"          
clus
  BRD2 MUTATED BRD2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-DM-A0XD 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" "BRD2 WILD-TYPE" 
    TCGA-G4-6628 
"BRD2 WILD-TYPE" 

Clustering(1258) Variable = AP4B1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP4B1 MUTATED        1      0      0      1      0
  AP4B1 WILD-TYPE     31     18     46     26     23
D1258V1, multiclass
[1] "Remove cluster labels:" "AP4B1 MUTATED"         
clus
  AP4B1 MUTATED AP4B1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP4B1 MUTATED        1      1      0
  AP4B1 WILD-TYPE     42     66     36
D1258V2, multiclass
[1] "Remove cluster labels:" "AP4B1 MUTATED"         
clus
  AP4B1 MUTATED AP4B1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP4B1 MUTATED        0      3      9
  AP4B1 WILD-TYPE     42    170    138
D1258V3, multiclass
        clus
vv       AP4B1 MUTATED AP4B1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP4B1 MUTATED        3      2      5
  AP4B1 WILD-TYPE     59     71     70
D1258V4, multiclass
        clus
vv       AP4B1 MUTATED AP4B1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AP4B1 MUTATED        1      6      2
  AP4B1 WILD-TYPE     69    114     98
D1258V5, multiclass
        clus
vv       AP4B1 MUTATED AP4B1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP4B1 MUTATED        0      1      1      2      2      2      0      0
  AP4B1 WILD-TYPE     41     25     29     27     37     67     20     14
                 vv
clus              CLUS_9
  AP4B1 MUTATED        1
  AP4B1 WILD-TYPE     21
D1258V6, multiclass
        clus
vv       AP4B1 MUTATED AP4B1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AP4B1 MUTATED        3      5      1      3
  AP4B1 WILD-TYPE     97     67     71    118
D1258V7, multiclass
        clus
vv       AP4B1 MUTATED AP4B1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP4B1 MUTATED        1      3      5      2      1
  AP4B1 WILD-TYPE     58     72     69    117     37
D1258V8, multiclass
        clus
vv       AP4B1 MUTATED AP4B1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AP4B1 MUTATED        2      5      1      1      3
  AP4B1 WILD-TYPE     49     71     60     70     92
D1258V9, multiclass
        clus
vv       AP4B1 MUTATED AP4B1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP4B1 MUTATED        3      2      0      1      1      3      0      1
  AP4B1 WILD-TYPE     66     46     39     15     52     17     21     37
                 vv
clus              CLUS_9
  AP4B1 MUTATED        1
  AP4B1 WILD-TYPE     49
D1258V10, multiclass
        clus
vv       AP4B1 MUTATED AP4B1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AP4B1 MUTATED        0      0      1      0      0      0
  AP4B1 WILD-TYPE     13     16     13     11     11      9
D1258V11, multiclass
[1] "Remove cluster labels:" "AP4B1 MUTATED"         
clus
  AP4B1 MUTATED AP4B1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-G4-6628 
"AP4B1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AP4B1 MUTATED        0      0      0      0      0      0      0      0
  AP4B1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  AP4B1 MUTATED        1
  AP4B1 WILD-TYPE      4
D1258V12, multiclass
[1] "Remove cluster labels:" "AP4B1 MUTATED"         
clus
  AP4B1 MUTATED AP4B1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" "AP4B1 WILD-TYPE" 
     TCGA-G4-6628 
"AP4B1 WILD-TYPE" 

Clustering(1259) Variable = NTNG1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTNG1 MUTATED        1      1      0      0      0
  NTNG1 WILD-TYPE     31     17     46     27     23
D1259V1, multiclass
[1] "Remove cluster labels:" "NTNG1 MUTATED"         
clus
  NTNG1 MUTATED NTNG1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01Q 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTNG1 MUTATED        1      1      0
  NTNG1 WILD-TYPE     42     66     36
D1259V2, multiclass
[1] "Remove cluster labels:" "NTNG1 MUTATED"         
clus
  NTNG1 MUTATED NTNG1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01Q 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" "NTNG1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTNG1 MUTATED        1      4      9
  NTNG1 WILD-TYPE     41    169    138
D1259V3, multiclass
        clus
vv       NTNG1 MUTATED NTNG1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTNG1 MUTATED        4      1      7
  NTNG1 WILD-TYPE     58     72     68
D1259V4, multiclass
        clus
vv       NTNG1 MUTATED NTNG1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTNG1 MUTATED        1      8      4
  NTNG1 WILD-TYPE     69    112     96
D1259V5, multiclass
        clus
vv       NTNG1 MUTATED NTNG1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             8             112
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTNG1 MUTATED        0      2      0      3      2      2      1      1
  NTNG1 WILD-TYPE     41     24     30     26     37     67     19     13
                 vv
clus              CLUS_9
  NTNG1 MUTATED        2
  NTNG1 WILD-TYPE     20
D1259V6, multiclass
        clus
vv       NTNG1 MUTATED NTNG1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NTNG1 MUTATED        2      7      2      3
  NTNG1 WILD-TYPE     98     65     70    118
D1259V7, multiclass
        clus
vv       NTNG1 MUTATED NTNG1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             7              65
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTNG1 MUTATED        2      2      7      2      1
  NTNG1 WILD-TYPE     57     73     67    117     37
D1259V8, multiclass
        clus
vv       NTNG1 MUTATED NTNG1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             7              67
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTNG1 MUTATED        1      9      1      0      2
  NTNG1 WILD-TYPE     50     67     60     71     93
D1259V9, multiclass
        clus
vv       NTNG1 MUTATED NTNG1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             9              67
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTNG1 MUTATED        3      4      0      4      0      0      0      1
  NTNG1 WILD-TYPE     66     44     39     12     53     20     21     37
                 vv
clus              CLUS_9
  NTNG1 MUTATED        1
  NTNG1 WILD-TYPE     49
D1259V10, multiclass
        clus
vv       NTNG1 MUTATED NTNG1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NTNG1 MUTATED        1      1      0      0      1      0
  NTNG1 WILD-TYPE     12     15     14     11     10      9
D1259V11, multiclass
        clus
vv       NTNG1 MUTATED NTNG1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTNG1 MUTATED        1      0      0      2      0      0      0      0
  NTNG1 WILD-TYPE     10      7      7      7      8      7     11      9
                 vv
clus              CLUS_9
  NTNG1 MUTATED        0
  NTNG1 WILD-TYPE      5
D1259V12, multiclass
        clus
vv       NTNG1 MUTATED NTNG1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1260) Variable = LGALS9C MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LGALS9C MUTATED        0      0      0      0      0
  LGALS9C WILD-TYPE     32     18     46     27     23
D1260V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LGALS9C MUTATED        0      0      0
  LGALS9C WILD-TYPE     43     67     36
D1260V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LGALS9C MUTATED        0      2      3
  LGALS9C WILD-TYPE     42    171    144
D1260V3, multiclass
        clus
vv       LGALS9C MUTATED LGALS9C WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LGALS9C MUTATED        2      1      2
  LGALS9C WILD-TYPE     60     72     73
D1260V4, multiclass
        clus
vv       LGALS9C MUTATED LGALS9C WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LGALS9C MUTATED        0      2      3
  LGALS9C WILD-TYPE     70    118     97
D1260V5, multiclass
        clus
vv       LGALS9C MUTATED LGALS9C WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LGALS9C MUTATED        0      0      0      0      0      3      1      0
  LGALS9C WILD-TYPE     41     26     30     29     39     66     19     14
                   vv
clus                CLUS_9
  LGALS9C MUTATED        1
  LGALS9C WILD-TYPE     21
D1260V6, multiclass
        clus
vv       LGALS9C MUTATED LGALS9C WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LGALS9C MUTATED        2      2      1      0
  LGALS9C WILD-TYPE     98     70     71    121
D1260V7, multiclass
        clus
vv       LGALS9C MUTATED LGALS9C WILD-TYPE
  CLUS_1               2                98
  CLUS_2               2                70
  CLUS_3               1                71
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LGALS9C MUTATED        2      0      3      0      0
  LGALS9C WILD-TYPE     57     75     71    119     38
D1260V8, multiclass
        clus
vv       LGALS9C MUTATED LGALS9C WILD-TYPE
  CLUS_1               2                57
  CLUS_2               0                75
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LGALS9C MUTATED        1      3      0      1      0
  LGALS9C WILD-TYPE     50     73     61     70     95
D1260V9, multiclass
        clus
vv       LGALS9C MUTATED LGALS9C WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LGALS9C MUTATED        2      1      0      0      2      0      0      0
  LGALS9C WILD-TYPE     67     47     39     16     51     20     21     38
                   vv
clus                CLUS_9
  LGALS9C MUTATED        0
  LGALS9C WILD-TYPE     50
D1260V10, multiclass
        clus
vv       LGALS9C MUTATED LGALS9C WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LGALS9C MUTATED        0      0      1      0      0      1
  LGALS9C WILD-TYPE     13     16     13     11     11      8
D1260V11, multiclass
[1] "Remove cluster labels:" "LGALS9C MUTATED"       
clus
  LGALS9C MUTATED LGALS9C WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6676 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LGALS9C MUTATED        0      0      0      0      0      1      0      1
  LGALS9C WILD-TYPE     11      7      7      9      8      6     11      8
                   vv
clus                CLUS_9
  LGALS9C MUTATED        0
  LGALS9C WILD-TYPE      5
D1260V12, multiclass
[1] "Remove cluster labels:" "LGALS9C MUTATED"       
clus
  LGALS9C MUTATED LGALS9C WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6676 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" "LGALS9C WILD-TYPE" 

Clustering(1261) Variable = CHMP4C MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHMP4C MUTATED        0      0      0      0      0
  CHMP4C WILD-TYPE     32     18     46     27     23
D1261V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHMP4C MUTATED        0      0      0
  CHMP4C WILD-TYPE     43     67     36
D1261V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHMP4C MUTATED        0      1      2
  CHMP4C WILD-TYPE     42    172    145
D1261V3, multiclass
        clus
vv       CHMP4C MUTATED CHMP4C WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHMP4C MUTATED        1      0      2
  CHMP4C WILD-TYPE     61     73     73
D1261V4, multiclass
        clus
vv       CHMP4C MUTATED CHMP4C WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHMP4C MUTATED        0      1      1
  CHMP4C WILD-TYPE     70    119     99
D1261V5, multiclass
[1] "Remove cluster labels:" "CHMP4C MUTATED"        
clus
  CHMP4C MUTATED CHMP4C WILD-TYPE 
               2              288 
      TCGA-A6-2671       TCGA-A6-2672       TCGA-A6-2676       TCGA-A6-2677 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-A6-5656       TCGA-A6-5657 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-5659       TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-5664       TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3489       TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3510       TCGA-AA-3511       TCGA-AA-3514       TCGA-AA-3517 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521       TCGA-AA-3522 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3525       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3548       TCGA-AA-3552 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3558 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3655 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3697 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3712       TCGA-AA-3713       TCGA-AA-3715 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3930       TCGA-AA-3947       TCGA-AA-3950 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3982       TCGA-AA-3986 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00E 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A00N       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A01P       TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A01T       TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02K       TCGA-AA-A02O       TCGA-AA-A02W 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A02Y       TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AD-5900 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6899       TCGA-AD-6965 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4682 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AZ-5407       TCGA-AZ-6598       TCGA-AZ-6599       TCGA-AZ-6600 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AZ-6608       TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CA-5797       TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6717 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5914       TCGA-CK-5916 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CK-6746       TCGA-CK-6747       TCGA-CK-6748       TCGA-CK-6751 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-4743       TCGA-CM-4744       TCGA-CM-4746       TCGA-CM-4747 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-4752       TCGA-CM-5341       TCGA-CM-5344       TCGA-CM-5348 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861       TCGA-CM-5862 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868       TCGA-CM-6161 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164       TCGA-CM-6165 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168       TCGA-CM-6169 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172       TCGA-CM-6674 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5538       TCGA-D5-5539 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-5540       TCGA-D5-5541       TCGA-D5-6529       TCGA-D5-6532 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6535       TCGA-D5-6536 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-6537       TCGA-D5-6538       TCGA-D5-6539       TCGA-D5-6540 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-6541       TCGA-D5-6898       TCGA-D5-6920       TCGA-D5-6922 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-6923       TCGA-D5-6924       TCGA-D5-6926       TCGA-D5-6927 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-6928       TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D4 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA       TCGA-DM-A1HB 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A28C       TCGA-DM-A28E       TCGA-DM-A28F 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-DM-A28G       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHMP4C MUTATED        0      0      0      1      0      1      0      0
  CHMP4C WILD-TYPE     41     26     30     28     39     68     20     14
                  vv
clus               CLUS_9
  CHMP4C MUTATED        0
  CHMP4C WILD-TYPE     22
D1261V6, multiclass
[1] "Remove cluster labels:" "CHMP4C MUTATED"        
clus
  CHMP4C MUTATED CHMP4C WILD-TYPE 
               2              288 
      TCGA-A6-2671       TCGA-A6-2672       TCGA-A6-2676       TCGA-A6-2677 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-A6-5656       TCGA-A6-5657 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-5659       TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-5664       TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3489       TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3510       TCGA-AA-3511       TCGA-AA-3514       TCGA-AA-3517 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521       TCGA-AA-3522 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3525       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3548       TCGA-AA-3552 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3558 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3655 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3697 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3712       TCGA-AA-3713       TCGA-AA-3715 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3930       TCGA-AA-3947       TCGA-AA-3950 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3982       TCGA-AA-3986 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00E 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A00N       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A01P       TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A01T       TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02K       TCGA-AA-A02O       TCGA-AA-A02W 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AA-A02Y       TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AD-5900 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6899       TCGA-AD-6965 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4682 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AZ-5407       TCGA-AZ-6598       TCGA-AZ-6599       TCGA-AZ-6600 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-AZ-6608       TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CA-5797       TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6717 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5914       TCGA-CK-5916 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CK-6746       TCGA-CK-6747       TCGA-CK-6748       TCGA-CK-6751 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-4743       TCGA-CM-4744       TCGA-CM-4746       TCGA-CM-4747 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-4752       TCGA-CM-5341       TCGA-CM-5344       TCGA-CM-5348 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861       TCGA-CM-5862 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868       TCGA-CM-6161 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164       TCGA-CM-6165 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168       TCGA-CM-6169 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172       TCGA-CM-6674 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5538       TCGA-D5-5539 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-5540       TCGA-D5-5541       TCGA-D5-6529       TCGA-D5-6532 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6535       TCGA-D5-6536 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-6537       TCGA-D5-6538       TCGA-D5-6539       TCGA-D5-6540 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-6541       TCGA-D5-6898       TCGA-D5-6920       TCGA-D5-6922 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-6923       TCGA-D5-6924       TCGA-D5-6926       TCGA-D5-6927 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-D5-6928       TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D4 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA       TCGA-DM-A1HB 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A28C       TCGA-DM-A28E       TCGA-DM-A28F 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-DM-A28G       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" "CHMP4C WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHMP4C MUTATED        0      2      1      0
  CHMP4C WILD-TYPE    100     70     71    121
D1261V7, multiclass
        clus
vv       CHMP4C MUTATED CHMP4C WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHMP4C MUTATED        0      0      3      0      0
  CHMP4C WILD-TYPE     59     75     71    119     38
D1261V8, multiclass
        clus
vv       CHMP4C MUTATED CHMP4C WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHMP4C MUTATED        1      2      0      0      0
  CHMP4C WILD-TYPE     50     74     61     71     95
D1261V9, multiclass
        clus
vv       CHMP4C MUTATED CHMP4C WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHMP4C MUTATED        0      1      0      1      0      1      0      0
  CHMP4C WILD-TYPE     69     47     39     15     53     19     21     38
                  vv
clus               CLUS_9
  CHMP4C MUTATED        0
  CHMP4C WILD-TYPE     50
D1261V10, multiclass
        clus
vv       CHMP4C MUTATED CHMP4C WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHMP4C MUTATED        0      0      0      0      0      0
  CHMP4C WILD-TYPE     13     16     14     11     11      9
D1261V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHMP4C MUTATED        0      0      0      0      0      0      0      0
  CHMP4C WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  CHMP4C MUTATED        0
  CHMP4C WILD-TYPE      5
D1261V12, multiclass

Clustering(1262) Variable = ZNF630 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF630 MUTATED        2      0      0      0      0
  ZNF630 WILD-TYPE     30     18     46     27     23
D1262V1, multiclass
[1] "Remove cluster labels:" "ZNF630 MUTATED"        
clus
  ZNF630 MUTATED ZNF630 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF630 MUTATED        1      0      1
  ZNF630 WILD-TYPE     42     67     35
D1262V2, multiclass
[1] "Remove cluster labels:" "ZNF630 MUTATED"        
clus
  ZNF630 MUTATED ZNF630 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" "ZNF630 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF630 MUTATED        0      3      4
  ZNF630 WILD-TYPE     42    170    143
D1262V3, multiclass
        clus
vv       ZNF630 MUTATED ZNF630 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF630 MUTATED        2      2      1
  ZNF630 WILD-TYPE     60     71     74
D1262V4, multiclass
        clus
vv       ZNF630 MUTATED ZNF630 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF630 MUTATED        0      2      3
  ZNF630 WILD-TYPE     70    118     97
D1262V5, multiclass
        clus
vv       ZNF630 MUTATED ZNF630 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF630 MUTATED        0      0      0      0      0      2      0      0
  ZNF630 WILD-TYPE     41     26     30     29     39     67     20     14
                  vv
clus               CLUS_9
  ZNF630 MUTATED        3
  ZNF630 WILD-TYPE     19
D1262V6, multiclass
        clus
vv       ZNF630 MUTATED ZNF630 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              3               19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF630 MUTATED        2      2      0      3
  ZNF630 WILD-TYPE     98     70     72    118
D1262V7, multiclass
        clus
vv       ZNF630 MUTATED ZNF630 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              0               72
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF630 MUTATED        2      1      1      2      1
  ZNF630 WILD-TYPE     57     74     73    117     37
D1262V8, multiclass
        clus
vv       ZNF630 MUTATED ZNF630 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              1               73
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF630 MUTATED        1      2      0      1      3
  ZNF630 WILD-TYPE     50     74     61     70     92
D1262V9, multiclass
        clus
vv       ZNF630 MUTATED ZNF630 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF630 MUTATED        0      0      1      1      2      0      0      1
  ZNF630 WILD-TYPE     69     48     38     15     51     20     21     37
                  vv
clus               CLUS_9
  ZNF630 MUTATED        2
  ZNF630 WILD-TYPE     48
D1262V10, multiclass
        clus
vv       ZNF630 MUTATED ZNF630 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF630 MUTATED        0      0      0      0      0      0
  ZNF630 WILD-TYPE     13     16     14     11     11      9
D1262V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF630 MUTATED        0      0      0      0      0      0      0      0
  ZNF630 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  ZNF630 MUTATED        0
  ZNF630 WILD-TYPE      5
D1262V12, multiclass

Clustering(1263) Variable = PTPDC1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPDC1 MUTATED        1      0      1      0      0
  PTPDC1 WILD-TYPE     31     18     45     27     23
D1263V1, multiclass
[1] "Remove cluster labels:" "PTPDC1 MUTATED"        
clus
  PTPDC1 MUTATED PTPDC1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3555       TCGA-AA-3556 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667       TCGA-AA-3672 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679       TCGA-AA-3680 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685       TCGA-AA-3688 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696       TCGA-AA-3710 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3821 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837       TCGA-AA-3842 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846       TCGA-AA-3848 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPDC1 MUTATED        1      0      1
  PTPDC1 WILD-TYPE     42     67     35
D1263V2, multiclass
[1] "Remove cluster labels:" "PTPDC1 MUTATED"        
clus
  PTPDC1 MUTATED PTPDC1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3555       TCGA-AA-3556 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667       TCGA-AA-3672 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679       TCGA-AA-3680 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685       TCGA-AA-3688 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696       TCGA-AA-3710 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3821 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837       TCGA-AA-3842 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846       TCGA-AA-3848 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPDC1 MUTATED        1      1      6
  PTPDC1 WILD-TYPE     41    172    141
D1263V3, multiclass
        clus
vv       PTPDC1 MUTATED PTPDC1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPDC1 MUTATED        2      0      4
  PTPDC1 WILD-TYPE     60     73     71
D1263V4, multiclass
        clus
vv       PTPDC1 MUTATED PTPDC1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPDC1 MUTATED        1      2      4
  PTPDC1 WILD-TYPE     69    118     96
D1263V5, multiclass
        clus
vv       PTPDC1 MUTATED PTPDC1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPDC1 MUTATED        1      0      0      2      0      4      0      0
  PTPDC1 WILD-TYPE     40     26     30     27     39     65     20     14
                  vv
clus               CLUS_9
  PTPDC1 MUTATED        0
  PTPDC1 WILD-TYPE     22
D1263V6, multiclass
        clus
vv       PTPDC1 MUTATED PTPDC1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPDC1 MUTATED        0      4      2      2
  PTPDC1 WILD-TYPE    100     68     70    119
D1263V7, multiclass
        clus
vv       PTPDC1 MUTATED PTPDC1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPDC1 MUTATED        0      0      6      1      1
  PTPDC1 WILD-TYPE     59     75     68    118     37
D1263V8, multiclass
        clus
vv       PTPDC1 MUTATED PTPDC1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPDC1 MUTATED        0      5      1      0      2
  PTPDC1 WILD-TYPE     51     71     60     71     93
D1263V9, multiclass
        clus
vv       PTPDC1 MUTATED PTPDC1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPDC1 MUTATED        1      2      0      3      0      0      0      1
  PTPDC1 WILD-TYPE     68     46     39     13     53     20     21     37
                  vv
clus               CLUS_9
  PTPDC1 MUTATED        1
  PTPDC1 WILD-TYPE     49
D1263V10, multiclass
        clus
vv       PTPDC1 MUTATED PTPDC1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPDC1 MUTATED        1      0      0      0      0      0
  PTPDC1 WILD-TYPE     12     16     14     11     11      9
D1263V11, multiclass
[1] "Remove cluster labels:" "PTPDC1 MUTATED"        
clus
  PTPDC1 MUTATED PTPDC1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1HA       TCGA-DM-A282 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-G4-6628 
"PTPDC1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPDC1 MUTATED        0      0      0      1      0      0      0      0
  PTPDC1 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  PTPDC1 MUTATED        0
  PTPDC1 WILD-TYPE      5
D1263V12, multiclass
[1] "Remove cluster labels:" "PTPDC1 MUTATED"        
clus
  PTPDC1 MUTATED PTPDC1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1HA       TCGA-DM-A282 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" "PTPDC1 WILD-TYPE" 
      TCGA-G4-6628 
"PTPDC1 WILD-TYPE" 

Clustering(1264) Variable = DMXL2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DMXL2 MUTATED        7      1      1      3      0
  DMXL2 WILD-TYPE     25     17     45     24     23
D1264V1, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             7              25
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DMXL2 MUTATED        9      2      1
  DMXL2 WILD-TYPE     34     65     35
D1264V2, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             9              34
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DMXL2 MUTATED        0      8     25
  DMXL2 WILD-TYPE     42    165    122
D1264V3, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             8             165
  CLUS_3            25             122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DMXL2 MUTATED        8      4     10
  DMXL2 WILD-TYPE     54     69     65
D1264V4, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             4              69
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DMXL2 MUTATED        3     14     12
  DMXL2 WILD-TYPE     67    106     88
D1264V5, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2            14             106
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DMXL2 MUTATED        3      1      1      4      3     11      2      1
  DMXL2 WILD-TYPE     38     25     29     25     36     58     18     13
                 vv
clus              CLUS_9
  DMXL2 MUTATED        3
  DMXL2 WILD-TYPE     19
D1264V6, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             3              36
  CLUS_6            11              58
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DMXL2 MUTATED        3      6     11     13
  DMXL2 WILD-TYPE     97     66     61    108
D1264V7, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             6              66
  CLUS_3            11              61
  CLUS_4            13             108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DMXL2 MUTATED        5      4     11      5      8
  DMXL2 WILD-TYPE     54     71     63    114     30
D1264V8, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             4              71
  CLUS_3            11              63
  CLUS_4             5             114
  CLUS_5             8              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DMXL2 MUTATED        3     10      7      3      9
  DMXL2 WILD-TYPE     48     66     54     68     86
D1264V9, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2            10              66
  CLUS_3             7              54
  CLUS_4             3              68
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DMXL2 MUTATED        4      8      1      2      5      2      2      6
  DMXL2 WILD-TYPE     65     40     38     14     48     18     19     32
                 vv
clus              CLUS_9
  DMXL2 MUTATED        2
  DMXL2 WILD-TYPE     48
D1264V10, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             8              40
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             5              48
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             6              32
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DMXL2 MUTATED        0      1      2      2      3      1
  DMXL2 WILD-TYPE     13     15     12      9      8      8
D1264V11, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             2               9
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DMXL2 MUTATED        1      0      1      0      0      1      6      0
  DMXL2 WILD-TYPE     10      7      6      9      8      6      5      9
                 vv
clus              CLUS_9
  DMXL2 MUTATED        0
  DMXL2 WILD-TYPE      5
D1264V12, multiclass
        clus
vv       DMXL2 MUTATED DMXL2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             6               5
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1265) Variable = DIAPH3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DIAPH3 MUTATED        2      0      0      0      0
  DIAPH3 WILD-TYPE     30     18     46     27     23
D1265V1, multiclass
[1] "Remove cluster labels:" "DIAPH3 MUTATED"        
clus
  DIAPH3 MUTATED DIAPH3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DIAPH3 MUTATED        1      0      1
  DIAPH3 WILD-TYPE     42     67     35
D1265V2, multiclass
[1] "Remove cluster labels:" "DIAPH3 MUTATED"        
clus
  DIAPH3 MUTATED DIAPH3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" "DIAPH3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DIAPH3 MUTATED        2      5      9
  DIAPH3 WILD-TYPE     40    168    138
D1265V3, multiclass
        clus
vv       DIAPH3 MUTATED DIAPH3 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              5              168
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DIAPH3 MUTATED        5      3      6
  DIAPH3 WILD-TYPE     57     70     69
D1265V4, multiclass
        clus
vv       DIAPH3 MUTATED DIAPH3 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              3               70
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DIAPH3 MUTATED        2      2      7
  DIAPH3 WILD-TYPE     68    118     93
D1265V5, multiclass
        clus
vv       DIAPH3 MUTATED DIAPH3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DIAPH3 MUTATED        2      1      0      0      1      5      1      0
  DIAPH3 WILD-TYPE     39     25     30     29     38     64     19     14
                  vv
clus               CLUS_9
  DIAPH3 MUTATED        1
  DIAPH3 WILD-TYPE     21
D1265V6, multiclass
        clus
vv       DIAPH3 MUTATED DIAPH3 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DIAPH3 MUTATED        4      5      5      2
  DIAPH3 WILD-TYPE     96     67     67    119
D1265V7, multiclass
        clus
vv       DIAPH3 MUTATED DIAPH3 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              5               67
  CLUS_3              5               67
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DIAPH3 MUTATED        5      5      4      1      1
  DIAPH3 WILD-TYPE     54     70     70    118     37
D1265V8, multiclass
        clus
vv       DIAPH3 MUTATED DIAPH3 WILD-TYPE
  CLUS_1              5               54
  CLUS_2              5               70
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DIAPH3 MUTATED        4      5      4      2      1
  DIAPH3 WILD-TYPE     47     71     57     69     94
D1265V9, multiclass
        clus
vv       DIAPH3 MUTATED DIAPH3 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              5               71
  CLUS_3              4               57
  CLUS_4              2               69
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DIAPH3 MUTATED        3      4      1      3      3      1      0      1
  DIAPH3 WILD-TYPE     66     44     38     13     50     19     21     37
                  vv
clus               CLUS_9
  DIAPH3 MUTATED        0
  DIAPH3 WILD-TYPE     50
D1265V10, multiclass
        clus
vv       DIAPH3 MUTATED DIAPH3 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DIAPH3 MUTATED        1      1      1      0      0      0
  DIAPH3 WILD-TYPE     12     15     13     11     11      9
D1265V11, multiclass
        clus
vv       DIAPH3 MUTATED DIAPH3 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DIAPH3 MUTATED        1      0      0      1      0      1      0      0
  DIAPH3 WILD-TYPE     10      7      7      8      8      6     11      9
                  vv
clus               CLUS_9
  DIAPH3 MUTATED        0
  DIAPH3 WILD-TYPE      5
D1265V12, multiclass
        clus
vv       DIAPH3 MUTATED DIAPH3 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1266) Variable = KLF11 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF11 MUTATED        1      0      0      0      0
  KLF11 WILD-TYPE     31     18     46     27     23
D1266V1, multiclass
[1] "Remove cluster labels:" "KLF11 MUTATED"         
clus
  KLF11 MUTATED KLF11 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3930      TCGA-AA-3939 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AY-4071 
"KLF11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLF11 MUTATED        1      0      0
  KLF11 WILD-TYPE     42     67     36
D1266V2, multiclass
[1] "Remove cluster labels:" "KLF11 MUTATED"         
clus
  KLF11 MUTATED KLF11 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3930      TCGA-AA-3939 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AY-4071 
"KLF11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLF11 MUTATED        0      3      4
  KLF11 WILD-TYPE     42    170    143
D1266V3, multiclass
        clus
vv       KLF11 MUTATED KLF11 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLF11 MUTATED        2      0      4
  KLF11 WILD-TYPE     60     73     71
D1266V4, multiclass
        clus
vv       KLF11 MUTATED KLF11 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLF11 MUTATED        0      2      2
  KLF11 WILD-TYPE     70    118     98
D1266V5, multiclass
        clus
vv       KLF11 MUTATED KLF11 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLF11 MUTATED        1      0      0      2      0      1      0      0
  KLF11 WILD-TYPE     40     26     30     27     39     68     20     14
                 vv
clus              CLUS_9
  KLF11 MUTATED        0
  KLF11 WILD-TYPE     22
D1266V6, multiclass
        clus
vv       KLF11 MUTATED KLF11 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLF11 MUTATED        2      3      1      1
  KLF11 WILD-TYPE     98     69     71    120
D1266V7, multiclass
        clus
vv       KLF11 MUTATED KLF11 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF11 MUTATED        2      1      3      0      1
  KLF11 WILD-TYPE     57     74     71    119     37
D1266V8, multiclass
        clus
vv       KLF11 MUTATED KLF11 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF11 MUTATED        1      2      3      0      1
  KLF11 WILD-TYPE     50     74     58     71     94
D1266V9, multiclass
        clus
vv       KLF11 MUTATED KLF11 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLF11 MUTATED        0      4      0      1      1      0      1      0
  KLF11 WILD-TYPE     69     44     39     15     52     20     20     38
                 vv
clus              CLUS_9
  KLF11 MUTATED        0
  KLF11 WILD-TYPE     50
D1266V10, multiclass
        clus
vv       KLF11 MUTATED KLF11 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLF11 MUTATED        0      1      0      0      0      0
  KLF11 WILD-TYPE     13     15     14     11     11      9
D1266V11, multiclass
[1] "Remove cluster labels:" "KLF11 MUTATED"         
clus
  KLF11 MUTATED KLF11 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-6598 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-G4-6628 
"KLF11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLF11 MUTATED        1      0      0      0      0      0      0      0
  KLF11 WILD-TYPE     10      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  KLF11 MUTATED        0
  KLF11 WILD-TYPE      5
D1266V12, multiclass
[1] "Remove cluster labels:" "KLF11 MUTATED"         
clus
  KLF11 MUTATED KLF11 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-6598 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" "KLF11 WILD-TYPE" 
     TCGA-G4-6628 
"KLF11 WILD-TYPE" 

Clustering(1267) Variable = TAX1BP1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAX1BP1 MUTATED        0      0      0      2      1
  TAX1BP1 WILD-TYPE     32     18     46     25     22
D1267V1, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               0                32
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               1                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TAX1BP1 MUTATED        1      1      1
  TAX1BP1 WILD-TYPE     42     66     35
D1267V2, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TAX1BP1 MUTATED        1      1     10
  TAX1BP1 WILD-TYPE     41    172    137
D1267V3, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3              10               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TAX1BP1 MUTATED        3      0      6
  TAX1BP1 WILD-TYPE     59     73     69
D1267V4, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TAX1BP1 MUTATED        0      4      6
  TAX1BP1 WILD-TYPE     70    116     94
D1267V5, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               4               116
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAX1BP1 MUTATED        0      0      1      2      1      6      0      0
  TAX1BP1 WILD-TYPE     41     26     29     27     38     63     20     14
                   vv
clus                CLUS_9
  TAX1BP1 MUTATED        0
  TAX1BP1 WILD-TYPE     22
D1267V6, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAX1BP1 MUTATED        0      6      3      3
  TAX1BP1 WILD-TYPE    100     66     69    118
D1267V7, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               6                66
  CLUS_3               3                69
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAX1BP1 MUTATED        0      0      9      2      1
  TAX1BP1 WILD-TYPE     59     75     65    117     37
D1267V8, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               9                65
  CLUS_4               2               117
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAX1BP1 MUTATED        0      9      0      1      2
  TAX1BP1 WILD-TYPE     51     67     61     70     93
D1267V9, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               9                67
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAX1BP1 MUTATED        1      3      0      5      0      1      0      1
  TAX1BP1 WILD-TYPE     68     45     39     11     53     19     21     37
                   vv
clus                CLUS_9
  TAX1BP1 MUTATED        1
  TAX1BP1 WILD-TYPE     49
D1267V10, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               5                11
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAX1BP1 MUTATED        0      0      0      0      3      0
  TAX1BP1 WILD-TYPE     13     16     14     11      8      9
D1267V11, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAX1BP1 MUTATED        0      0      0      1      0      0      2      0
  TAX1BP1 WILD-TYPE     11      7      7      8      8      7      9      9
                   vv
clus                CLUS_9
  TAX1BP1 MUTATED        0
  TAX1BP1 WILD-TYPE      5
D1267V12, multiclass
        clus
vv       TAX1BP1 MUTATED TAX1BP1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1268) Variable = MCM9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCM9 MUTATED        0      0      0      2      0
  MCM9 WILD-TYPE     32     18     46     25     23
D1268V1, multiclass
[1] "Remove cluster labels:" "MCM9 MUTATED"          
clus
  MCM9 MUTATED MCM9 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        1      1      0
  MCM9 WILD-TYPE     42     66     36
D1268V2, multiclass
[1] "Remove cluster labels:" "MCM9 MUTATED"          
clus
  MCM9 MUTATED MCM9 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        0      2      5
  MCM9 WILD-TYPE     42    171    142
D1268V3, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        4      0      1
  MCM9 WILD-TYPE     58     73     74
D1268V4, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        0      3      2
  MCM9 WILD-TYPE     70    117     98
D1268V5, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MCM9 MUTATED        1      1      1      0      1      1      0      0      0
  MCM9 WILD-TYPE     40     25     29     29     38     68     20     14     22
D1268V6, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MCM9 MUTATED        2      0      2      3
  MCM9 WILD-TYPE     98     72     70    118
D1268V7, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            0             72
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCM9 MUTATED        2      2      0      2      1
  MCM9 WILD-TYPE     57     73     74    117     37
D1268V8, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            0             74
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCM9 MUTATED        1      1      2      0      3
  MCM9 WILD-TYPE     50     75     59     71     92
D1268V9, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MCM9 MUTATED        1      2      0      0      1      1      0      1      1
  MCM9 WILD-TYPE     68     46     39     16     52     19     21     37     49
D1268V10, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MCM9 MUTATED        0      1      0      0      0      0
  MCM9 WILD-TYPE     13     15     14     11     11      9
D1268V11, multiclass
[1] "Remove cluster labels:" "MCM9 MUTATED"          
clus
  MCM9 MUTATED MCM9 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6598 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-G4-6628 
"MCM9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MCM9 MUTATED        1      0      0      0      0      0      0      0      0
  MCM9 WILD-TYPE     10      7      7      9      8      7     11      9      5
D1268V12, multiclass
[1] "Remove cluster labels:" "MCM9 MUTATED"          
clus
  MCM9 MUTATED MCM9 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6598 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-G4-6628 
"MCM9 WILD-TYPE" 

Clustering(1269) Variable = SBDS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBDS MUTATED        0      0      0      0      0
  SBDS WILD-TYPE     32     18     46     27     23
D1269V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBDS MUTATED        0      0      0
  SBDS WILD-TYPE     43     67     36
D1269V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBDS MUTATED        0      3      0
  SBDS WILD-TYPE     42    170    147
D1269V3, multiclass
        clus
vv       SBDS MUTATED SBDS WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            0            147
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBDS MUTATED        0      3      0
  SBDS WILD-TYPE     62     70     75
D1269V4, multiclass
        clus
vv       SBDS MUTATED SBDS WILD-TYPE
  CLUS_1            0             62
  CLUS_2            3             70
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBDS MUTATED        0      0      2
  SBDS WILD-TYPE     70    120     98
D1269V5, multiclass
[1] "Remove cluster labels:" "SBDS MUTATED"          
clus
  SBDS MUTATED SBDS WILD-TYPE 
             2            288 
    TCGA-A6-2671     TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-A6-5656     TCGA-A6-5657 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-5659     TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-5664     TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3489     TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3510     TCGA-AA-3511     TCGA-AA-3514     TCGA-AA-3517 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521     TCGA-AA-3522 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3525     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3548     TCGA-AA-3552 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555     TCGA-AA-3558 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3655 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3697 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3712     TCGA-AA-3713     TCGA-AA-3715 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3950 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982     TCGA-AA-3986 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00E 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I     TCGA-AA-A01K 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R     TCGA-AA-A01S 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A01T     TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A022 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02K     TCGA-AA-A02O     TCGA-AA-A02W 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A02Y     TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AD-5900 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6899     TCGA-AD-6965 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AU-6004     TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AY-6386     TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AZ-4682     TCGA-AZ-5407     TCGA-AZ-6598     TCGA-AZ-6599 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AZ-6606     TCGA-AZ-6607     TCGA-AZ-6608     TCGA-CA-5254 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CA-5255     TCGA-CA-5796     TCGA-CA-5797     TCGA-CA-6715 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CA-6716     TCGA-CA-6717     TCGA-CA-6718     TCGA-CA-6719 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CK-5914     TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CK-6748     TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-4746     TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-5344     TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-5861     TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-5868     TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6164     TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6168     TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6172     TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6534 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537     TCGA-D5-6538 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541     TCGA-D5-6898 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923     TCGA-D5-6924 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6927     TCGA-D5-6928     TCGA-D5-6930     TCGA-D5-6931 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6932     TCGA-DM-A0X9     TCGA-DM-A0XF     TCGA-DM-A1D0 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A28C     TCGA-DM-A28E 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A28F     TCGA-DM-A28G     TCGA-F4-6459     TCGA-F4-6460 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-F4-6809     TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6293     TCGA-G4-6299     TCGA-G4-6304     TCGA-G4-6306 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SBDS MUTATED        2      0      0      0      0      0      0      0      0
  SBDS WILD-TYPE     39     26     30     29     39     69     20     14     22
D1269V6, multiclass
[1] "Remove cluster labels:" "SBDS MUTATED"          
clus
  SBDS MUTATED SBDS WILD-TYPE 
             2            288 
    TCGA-A6-2671     TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-A6-5656     TCGA-A6-5657 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-5659     TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-5664     TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3489     TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3510     TCGA-AA-3511     TCGA-AA-3514     TCGA-AA-3517 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521     TCGA-AA-3522 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3525     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3548     TCGA-AA-3552 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555     TCGA-AA-3558 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3655 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3697 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3712     TCGA-AA-3713     TCGA-AA-3715 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3950 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982     TCGA-AA-3986 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00E 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I     TCGA-AA-A01K 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R     TCGA-AA-A01S 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A01T     TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A022 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02K     TCGA-AA-A02O     TCGA-AA-A02W 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-A02Y     TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AD-5900 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6899     TCGA-AD-6965 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AU-6004     TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AY-6386     TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AZ-4682     TCGA-AZ-5407     TCGA-AZ-6598     TCGA-AZ-6599 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AZ-6606     TCGA-AZ-6607     TCGA-AZ-6608     TCGA-CA-5254 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CA-5255     TCGA-CA-5796     TCGA-CA-5797     TCGA-CA-6715 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CA-6716     TCGA-CA-6717     TCGA-CA-6718     TCGA-CA-6719 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CK-5914     TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CK-6748     TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-4746     TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-5344     TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-5861     TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-5868     TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6164     TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6168     TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6172     TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6534 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537     TCGA-D5-6538 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541     TCGA-D5-6898 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923     TCGA-D5-6924 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6927     TCGA-D5-6928     TCGA-D5-6930     TCGA-D5-6931 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6932     TCGA-DM-A0X9     TCGA-DM-A0XF     TCGA-DM-A1D0 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A28C     TCGA-DM-A28E 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A28F     TCGA-DM-A28G     TCGA-F4-6459     TCGA-F4-6460 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-F4-6809     TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6293     TCGA-G4-6299     TCGA-G4-6304     TCGA-G4-6306 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SBDS MUTATED        1      0      2      0
  SBDS WILD-TYPE     99     72     70    121
D1269V7, multiclass
        clus
vv       SBDS MUTATED SBDS WILD-TYPE
  CLUS_1            1             99
  CLUS_2            0             72
  CLUS_3            2             70
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBDS MUTATED        2      1      0      0      0
  SBDS WILD-TYPE     57     74     74    119     38
D1269V8, multiclass
        clus
vv       SBDS MUTATED SBDS WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            0             74
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBDS MUTATED        1      0      2      0      0
  SBDS WILD-TYPE     50     76     59     71     95
D1269V9, multiclass
        clus
vv       SBDS MUTATED SBDS WILD-TYPE
  CLUS_1            1             50
  CLUS_2            0             76
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SBDS MUTATED        0      2      0      0      0      1      0      0      0
  SBDS WILD-TYPE     69     46     39     16     53     19     21     38     50
D1269V10, multiclass
        clus
vv       SBDS MUTATED SBDS WILD-TYPE
  CLUS_1            0             69
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SBDS MUTATED        0      0      0      1      0      0
  SBDS WILD-TYPE     13     16     14     10     11      9
D1269V11, multiclass
[1] "Remove cluster labels:" "SBDS MUTATED"          
clus
  SBDS MUTATED SBDS WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6628 
"SBDS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SBDS MUTATED        0      0      1      0      0      0      0      0      0
  SBDS WILD-TYPE     11      7      6      9      8      7     11      9      5
D1269V12, multiclass
[1] "Remove cluster labels:" "SBDS MUTATED"          
clus
  SBDS MUTATED SBDS WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" "SBDS WILD-TYPE" 
    TCGA-G4-6628 
"SBDS WILD-TYPE" 

Clustering(1270) Variable = ANXA11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANXA11 MUTATED        1      0      1      1      0
  ANXA11 WILD-TYPE     31     18     45     26     23
D1270V1, multiclass
        clus
vv       ANXA11 MUTATED ANXA11 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANXA11 MUTATED        1      2      0
  ANXA11 WILD-TYPE     42     65     36
D1270V2, multiclass
        clus
vv       ANXA11 MUTATED ANXA11 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANXA11 MUTATED        0      1      6
  ANXA11 WILD-TYPE     42    172    141
D1270V3, multiclass
        clus
vv       ANXA11 MUTATED ANXA11 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANXA11 MUTATED        1      0      3
  ANXA11 WILD-TYPE     61     73     72
D1270V4, multiclass
        clus
vv       ANXA11 MUTATED ANXA11 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANXA11 MUTATED        1      3      2
  ANXA11 WILD-TYPE     69    117     98
D1270V5, multiclass
        clus
vv       ANXA11 MUTATED ANXA11 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANXA11 MUTATED        0      0      1      1      2      2      0      0
  ANXA11 WILD-TYPE     41     26     29     28     37     67     20     14
                  vv
clus               CLUS_9
  ANXA11 MUTATED        0
  ANXA11 WILD-TYPE     22
D1270V6, multiclass
        clus
vv       ANXA11 MUTATED ANXA11 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANXA11 MUTATED        1      4      0      2
  ANXA11 WILD-TYPE     99     68     72    119
D1270V7, multiclass
        clus
vv       ANXA11 MUTATED ANXA11 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              0               72
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANXA11 MUTATED        0      1      3      2      1
  ANXA11 WILD-TYPE     59     74     71    117     37
D1270V8, multiclass
        clus
vv       ANXA11 MUTATED ANXA11 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANXA11 MUTATED        0      2      0      0      5
  ANXA11 WILD-TYPE     51     74     61     71     90
D1270V9, multiclass
        clus
vv       ANXA11 MUTATED ANXA11 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANXA11 MUTATED        0      1      1      1      0      1      0      2
  ANXA11 WILD-TYPE     69     47     38     15     53     19     21     36
                  vv
clus               CLUS_9
  ANXA11 MUTATED        1
  ANXA11 WILD-TYPE     49
D1270V10, multiclass
        clus
vv       ANXA11 MUTATED ANXA11 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANXA11 MUTATED        0      0      0      0      1      0
  ANXA11 WILD-TYPE     13     16     14     11     10      9
D1270V11, multiclass
[1] "Remove cluster labels:" "ANXA11 MUTATED"        
clus
  ANXA11 MUTATED ANXA11 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-G4-6628 
"ANXA11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANXA11 MUTATED        0      0      0      1      0      0      0      0
  ANXA11 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  ANXA11 MUTATED        0
  ANXA11 WILD-TYPE      5
D1270V12, multiclass
[1] "Remove cluster labels:" "ANXA11 MUTATED"        
clus
  ANXA11 MUTATED ANXA11 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" "ANXA11 WILD-TYPE" 
      TCGA-G4-6628 
"ANXA11 WILD-TYPE" 

Clustering(1271) Variable = OR2A5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2A5 MUTATED        3      0      0      0      0
  OR2A5 WILD-TYPE     29     18     46     27     23
D1271V1, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2A5 MUTATED        2      0      1
  OR2A5 WILD-TYPE     41     67     35
D1271V2, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2A5 MUTATED        1      3      6
  OR2A5 WILD-TYPE     41    170    141
D1271V3, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2A5 MUTATED        4      1      1
  OR2A5 WILD-TYPE     58     72     74
D1271V4, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2A5 MUTATED        2      1      5
  OR2A5 WILD-TYPE     68    119     95
D1271V5, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2A5 MUTATED        1      0      0      0      3      1      1      1
  OR2A5 WILD-TYPE     40     26     30     29     36     68     19     13
                 vv
clus              CLUS_9
  OR2A5 MUTATED        1
  OR2A5 WILD-TYPE     21
D1271V6, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             3              36
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2A5 MUTATED        2      1      3      3
  OR2A5 WILD-TYPE     98     71     69    118
D1271V7, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2A5 MUTATED        3      1      2      1      2
  OR2A5 WILD-TYPE     56     74     72    118     36
D1271V8, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2A5 MUTATED        0      3      1      4      2
  OR2A5 WILD-TYPE     51     73     60     67     93
D1271V9, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             4              67
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2A5 MUTATED        3      2      2      0      1      0      0      2
  OR2A5 WILD-TYPE     66     46     37     16     52     20     21     36
                 vv
clus              CLUS_9
  OR2A5 MUTATED        0
  OR2A5 WILD-TYPE     50
D1271V10, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR2A5 MUTATED        0      0      1      1      0      1
  OR2A5 WILD-TYPE     13     16     13     10     11      8
D1271V11, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2A5 MUTATED        0      0      0      0      0      0      1      2
  OR2A5 WILD-TYPE     11      7      7      9      8      7     10      7
                 vv
clus              CLUS_9
  OR2A5 MUTATED        0
  OR2A5 WILD-TYPE      5
D1271V12, multiclass
        clus
vv       OR2A5 MUTATED OR2A5 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             2               7
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1272) Variable = SLC45A2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC45A2 MUTATED        1      0      1      1      0
  SLC45A2 WILD-TYPE     31     18     45     26     23
D1272V1, multiclass
        clus
vv       SLC45A2 MUTATED SLC45A2 WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC45A2 MUTATED        0      3      0
  SLC45A2 WILD-TYPE     43     64     36
D1272V2, multiclass
        clus
vv       SLC45A2 MUTATED SLC45A2 WILD-TYPE
  CLUS_1               0                43
  CLUS_2               3                64
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC45A2 MUTATED        0      5      4
  SLC45A2 WILD-TYPE     42    168    143
D1272V3, multiclass
        clus
vv       SLC45A2 MUTATED SLC45A2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               5               168
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC45A2 MUTATED        3      0      3
  SLC45A2 WILD-TYPE     59     73     72
D1272V4, multiclass
        clus
vv       SLC45A2 MUTATED SLC45A2 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC45A2 MUTATED        0      1      4
  SLC45A2 WILD-TYPE     70    119     96
D1272V5, multiclass
        clus
vv       SLC45A2 MUTATED SLC45A2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               1               119
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC45A2 MUTATED        0      1      0      0      0      3      1      0
  SLC45A2 WILD-TYPE     41     25     30     29     39     66     19     14
                   vv
clus                CLUS_9
  SLC45A2 MUTATED        0
  SLC45A2 WILD-TYPE     22
D1272V6, multiclass
        clus
vv       SLC45A2 MUTATED SLC45A2 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC45A2 MUTATED        1      2      3      3
  SLC45A2 WILD-TYPE     99     70     69    118
D1272V7, multiclass
        clus
vv       SLC45A2 MUTATED SLC45A2 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC45A2 MUTATED        1      3      2      3      0
  SLC45A2 WILD-TYPE     58     72     72    116     38
D1272V8, multiclass
        clus
vv       SLC45A2 MUTATED SLC45A2 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               3                72
  CLUS_3               2                72
  CLUS_4               3               116
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC45A2 MUTATED        1      5      0      0      3
  SLC45A2 WILD-TYPE     50     71     61     71     92
D1272V9, multiclass
        clus
vv       SLC45A2 MUTATED SLC45A2 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               5                71
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC45A2 MUTATED        2      1      0      2      2      0      0      2
  SLC45A2 WILD-TYPE     67     47     39     14     51     20     21     36
                   vv
clus                CLUS_9
  SLC45A2 MUTATED        0
  SLC45A2 WILD-TYPE     50
D1272V10, multiclass
        clus
vv       SLC45A2 MUTATED SLC45A2 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC45A2 MUTATED        0      0      0      0      0      0
  SLC45A2 WILD-TYPE     13     16     14     11     11      9
D1272V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC45A2 MUTATED        0      0      0      0      0      0      0      0
  SLC45A2 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  SLC45A2 MUTATED        0
  SLC45A2 WILD-TYPE      5
D1272V12, multiclass

Clustering(1273) Variable = SYNJ1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNJ1 MUTATED        5      0      0      1      0
  SYNJ1 WILD-TYPE     27     18     46     26     23
D1273V1, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNJ1 MUTATED        4      1      1
  SYNJ1 WILD-TYPE     39     66     35
D1273V2, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNJ1 MUTATED        3      1     12
  SYNJ1 WILD-TYPE     39    172    135
D1273V3, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             1             172
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNJ1 MUTATED        5      1      4
  SYNJ1 WILD-TYPE     57     72     71
D1273V4, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYNJ1 MUTATED        1      4      8
  SYNJ1 WILD-TYPE     69    116     92
D1273V5, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNJ1 MUTATED        3      0      1      1      2      4      0      1
  SYNJ1 WILD-TYPE     38     26     29     28     37     65     20     13
                 vv
clus              CLUS_9
  SYNJ1 MUTATED        1
  SYNJ1 WILD-TYPE     21
D1273V6, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SYNJ1 MUTATED        1      3      6      6
  SYNJ1 WILD-TYPE     99     69     66    115
D1273V7, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             6              66
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNJ1 MUTATED        3      1      6      3      3
  SYNJ1 WILD-TYPE     56     74     68    116     35
D1273V8, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             6              68
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYNJ1 MUTATED        2      4      3      1      6
  SYNJ1 WILD-TYPE     49     72     58     70     89
D1273V9, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNJ1 MUTATED        3      4      1      1      1      1      1      4
  SYNJ1 WILD-TYPE     66     44     38     15     52     19     20     34
                 vv
clus              CLUS_9
  SYNJ1 MUTATED        0
  SYNJ1 WILD-TYPE     50
D1273V10, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SYNJ1 MUTATED        0      1      1      0      2      1
  SYNJ1 WILD-TYPE     13     15     13     11      9      8
D1273V11, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SYNJ1 MUTATED        2      0      0      1      0      0      2      0
  SYNJ1 WILD-TYPE      9      7      7      8      8      7      9      9
                 vv
clus              CLUS_9
  SYNJ1 MUTATED        0
  SYNJ1 WILD-TYPE      5
D1273V12, multiclass
        clus
vv       SYNJ1 MUTATED SYNJ1 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1274) Variable = SLC9A2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC9A2 MUTATED        2      0      0      0      0
  SLC9A2 WILD-TYPE     30     18     46     27     23
D1274V1, multiclass
[1] "Remove cluster labels:" "SLC9A2 MUTATED"        
clus
  SLC9A2 MUTATED SLC9A2 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950       TCGA-AA-3952 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC9A2 MUTATED        2      0      0
  SLC9A2 WILD-TYPE     41     67     36
D1274V2, multiclass
[1] "Remove cluster labels:" "SLC9A2 MUTATED"        
clus
  SLC9A2 MUTATED SLC9A2 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950       TCGA-AA-3952 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" "SLC9A2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC9A2 MUTATED        1      1      8
  SLC9A2 WILD-TYPE     41    172    139
D1274V3, multiclass
        clus
vv       SLC9A2 MUTATED SLC9A2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC9A2 MUTATED        4      0      4
  SLC9A2 WILD-TYPE     58     73     71
D1274V4, multiclass
        clus
vv       SLC9A2 MUTATED SLC9A2 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC9A2 MUTATED        0      4      3
  SLC9A2 WILD-TYPE     70    116     97
D1274V5, multiclass
        clus
vv       SLC9A2 MUTATED SLC9A2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC9A2 MUTATED        2      1      0      2      0      2      0      0
  SLC9A2 WILD-TYPE     39     25     30     27     39     67     20     14
                  vv
clus               CLUS_9
  SLC9A2 MUTATED        0
  SLC9A2 WILD-TYPE     22
D1274V6, multiclass
        clus
vv       SLC9A2 MUTATED SLC9A2 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC9A2 MUTATED        0      5      3      2
  SLC9A2 WILD-TYPE    100     67     69    119
D1274V7, multiclass
        clus
vv       SLC9A2 MUTATED SLC9A2 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              5               67
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC9A2 MUTATED        2      1      5      0      2
  SLC9A2 WILD-TYPE     57     74     69    119     36
D1274V8, multiclass
        clus
vv       SLC9A2 MUTATED SLC9A2 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              5               69
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC9A2 MUTATED        0      4      3      1      2
  SLC9A2 WILD-TYPE     51     72     58     70     93
D1274V9, multiclass
        clus
vv       SLC9A2 MUTATED SLC9A2 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC9A2 MUTATED        1      3      0      2      1      0      1      1
  SLC9A2 WILD-TYPE     68     45     39     14     52     20     20     37
                  vv
clus               CLUS_9
  SLC9A2 MUTATED        1
  SLC9A2 WILD-TYPE     49
D1274V10, multiclass
        clus
vv       SLC9A2 MUTATED SLC9A2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC9A2 MUTATED        0      2      0      0      1      0
  SLC9A2 WILD-TYPE     13     14     14     11     10      9
D1274V11, multiclass
        clus
vv       SLC9A2 MUTATED SLC9A2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC9A2 MUTATED        0      1      0      1      0      1      0      0
  SLC9A2 WILD-TYPE     11      6      7      8      8      6     11      9
                  vv
clus               CLUS_9
  SLC9A2 MUTATED        0
  SLC9A2 WILD-TYPE      5
D1274V12, multiclass
        clus
vv       SLC9A2 MUTATED SLC9A2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1275) Variable = DUSP7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP7 MUTATED        0      0      0      0      1
  DUSP7 WILD-TYPE     32     18     46     27     22
D1275V1, multiclass
[1] "Remove cluster labels:" "DUSP7 MUTATED"         
clus
  DUSP7 MUTATED DUSP7 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3530      TCGA-AA-3531 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AY-4071 
"DUSP7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP7 MUTATED        0      1      0
  DUSP7 WILD-TYPE     43     66     36
D1275V2, multiclass
[1] "Remove cluster labels:" "DUSP7 MUTATED"         
clus
  DUSP7 MUTATED DUSP7 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3530      TCGA-AA-3531 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" "DUSP7 WILD-TYPE" 
     TCGA-AY-4071 
"DUSP7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP7 MUTATED        0      2      4
  DUSP7 WILD-TYPE     42    171    143
D1275V3, multiclass
        clus
vv       DUSP7 MUTATED DUSP7 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP7 MUTATED        0      2      3
  DUSP7 WILD-TYPE     62     71     72
D1275V4, multiclass
        clus
vv       DUSP7 MUTATED DUSP7 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DUSP7 MUTATED        2      0      3
  DUSP7 WILD-TYPE     68    120     97
D1275V5, multiclass
        clus
vv       DUSP7 MUTATED DUSP7 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             0             120
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP7 MUTATED        1      0      0      0      1      3      0      0
  DUSP7 WILD-TYPE     40     26     30     29     38     66     20     14
                 vv
clus              CLUS_9
  DUSP7 MUTATED        0
  DUSP7 WILD-TYPE     22
D1275V6, multiclass
        clus
vv       DUSP7 MUTATED DUSP7 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DUSP7 MUTATED        1      4      0      1
  DUSP7 WILD-TYPE     99     68     72    120
D1275V7, multiclass
        clus
vv       DUSP7 MUTATED DUSP7 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP7 MUTATED        0      3      2      1      0
  DUSP7 WILD-TYPE     59     72     72    118     38
D1275V8, multiclass
        clus
vv       DUSP7 MUTATED DUSP7 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DUSP7 MUTATED        1      3      1      0      1
  DUSP7 WILD-TYPE     50     73     60     71     94
D1275V9, multiclass
        clus
vv       DUSP7 MUTATED DUSP7 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP7 MUTATED        1      1      0      1      2      1      0      0
  DUSP7 WILD-TYPE     68     47     39     15     51     19     21     38
                 vv
clus              CLUS_9
  DUSP7 MUTATED        0
  DUSP7 WILD-TYPE     50
D1275V10, multiclass
        clus
vv       DUSP7 MUTATED DUSP7 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DUSP7 MUTATED        0      0      0      0      0      0
  DUSP7 WILD-TYPE     13     16     14     11     11      9
D1275V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DUSP7 MUTATED        0      0      0      0      0      0      0      0
  DUSP7 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  DUSP7 MUTATED        0
  DUSP7 WILD-TYPE      5
D1275V12, multiclass

Clustering(1276) Variable = EFCAB4B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFCAB4B MUTATED        1      0      0      0      0
  EFCAB4B WILD-TYPE     31     18     46     27     23
D1276V1, multiclass
[1] "Remove cluster labels:" "EFCAB4B MUTATED"       
clus
  EFCAB4B MUTATED EFCAB4B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AY-4071 
"EFCAB4B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EFCAB4B MUTATED        1      0      0
  EFCAB4B WILD-TYPE     42     67     36
D1276V2, multiclass
[1] "Remove cluster labels:" "EFCAB4B MUTATED"       
clus
  EFCAB4B MUTATED EFCAB4B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AY-4071 
"EFCAB4B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EFCAB4B MUTATED        0      1      4
  EFCAB4B WILD-TYPE     42    172    143
D1276V3, multiclass
        clus
vv       EFCAB4B MUTATED EFCAB4B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EFCAB4B MUTATED        0      1      3
  EFCAB4B WILD-TYPE     62     72     72
D1276V4, multiclass
        clus
vv       EFCAB4B MUTATED EFCAB4B WILD-TYPE
  CLUS_1               0                62
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EFCAB4B MUTATED        2      0      1
  EFCAB4B WILD-TYPE     68    120     99
D1276V5, multiclass
        clus
vv       EFCAB4B MUTATED EFCAB4B WILD-TYPE
  CLUS_1               2                68
  CLUS_2               0               120
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFCAB4B MUTATED        1      1      0      0      0      1      0      0
  EFCAB4B WILD-TYPE     40     25     30     29     39     68     20     14
                   vv
clus                CLUS_9
  EFCAB4B MUTATED        0
  EFCAB4B WILD-TYPE     22
D1276V6, multiclass
        clus
vv       EFCAB4B MUTATED EFCAB4B WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EFCAB4B MUTATED        1      3      0      1
  EFCAB4B WILD-TYPE     99     69     72    120
D1276V7, multiclass
        clus
vv       EFCAB4B MUTATED EFCAB4B WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               0                72
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFCAB4B MUTATED        1      0      3      0      1
  EFCAB4B WILD-TYPE     58     75     71    119     37
D1276V8, multiclass
        clus
vv       EFCAB4B MUTATED EFCAB4B WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFCAB4B MUTATED        0      3      1      1      0
  EFCAB4B WILD-TYPE     51     73     60     70     95
D1276V9, multiclass
        clus
vv       EFCAB4B MUTATED EFCAB4B WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFCAB4B MUTATED        2      1      0      1      0      0      0      1
  EFCAB4B WILD-TYPE     67     47     39     15     53     20     21     37
                   vv
clus                CLUS_9
  EFCAB4B MUTATED        0
  EFCAB4B WILD-TYPE     50
D1276V10, multiclass
        clus
vv       EFCAB4B MUTATED EFCAB4B WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EFCAB4B MUTATED        0      0      0      1      0      0
  EFCAB4B WILD-TYPE     13     16     14     10     11      9
D1276V11, multiclass
[1] "Remove cluster labels:" "EFCAB4B MUTATED"       
clus
  EFCAB4B MUTATED EFCAB4B WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6460 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-G4-6628 
"EFCAB4B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFCAB4B MUTATED        0      0      1      0      0      0      0      0
  EFCAB4B WILD-TYPE     11      7      6      9      8      7     11      9
                   vv
clus                CLUS_9
  EFCAB4B MUTATED        0
  EFCAB4B WILD-TYPE      5
D1276V12, multiclass
[1] "Remove cluster labels:" "EFCAB4B MUTATED"       
clus
  EFCAB4B MUTATED EFCAB4B WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6460 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" "EFCAB4B WILD-TYPE" 
       TCGA-G4-6628 
"EFCAB4B WILD-TYPE" 

Clustering(1277) Variable = PAK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK1 MUTATED        2      0      0      1      0
  PAK1 WILD-TYPE     30     18     46     26     23
D1277V1, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK1 MUTATED        1      1      1
  PAK1 WILD-TYPE     42     66     35
D1277V2, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK1 MUTATED        1      0      9
  PAK1 WILD-TYPE     41    173    138
D1277V3, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK1 MUTATED        4      0      2
  PAK1 WILD-TYPE     58     73     73
D1277V4, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK1 MUTATED        1      1      6
  PAK1 WILD-TYPE     69    119     94
D1277V5, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK1 MUTATED        1      0      2      0      1      4      0      0      0
  PAK1 WILD-TYPE     40     26     28     29     38     65     20     14     22
D1277V6, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAK1 MUTATED        1      3      2      4
  PAK1 WILD-TYPE     99     69     70    117
D1277V7, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK1 MUTATED        1      2      3      2      2
  PAK1 WILD-TYPE     58     73     71    117     36
D1277V8, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK1 MUTATED        0      4      1      1      4
  PAK1 WILD-TYPE     51     72     60     70     91
D1277V9, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK1 MUTATED        2      1      0      1      2      1      0      2      1
  PAK1 WILD-TYPE     67     47     39     15     51     19     21     36     49
D1277V10, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAK1 MUTATED        0      0      1      0      0      0
  PAK1 WILD-TYPE     13     16     13     11     11      9
D1277V11, multiclass
[1] "Remove cluster labels:" "PAK1 MUTATED"          
clus
  PAK1 MUTATED PAK1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-G4-6625 
"PAK1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK1 MUTATED        0      0      0      0      0      0      1      0      0
  PAK1 WILD-TYPE     11      7      7      9      8      7     10      9      5
D1277V12, multiclass
[1] "Remove cluster labels:" "PAK1 MUTATED"          
clus
  PAK1 MUTATED PAK1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309 
"PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" "PAK1 WILD-TYPE" 
    TCGA-G4-6625 
"PAK1 WILD-TYPE" 

Clustering(1278) Variable = OR4N4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4N4 MUTATED        1      0      0      2      0
  OR4N4 WILD-TYPE     31     18     46     25     23
D1278V1, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4N4 MUTATED        2      1      0
  OR4N4 WILD-TYPE     41     66     36
D1278V2, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4N4 MUTATED        0      5      7
  OR4N4 WILD-TYPE     42    168    140
D1278V3, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4N4 MUTATED        3      4      2
  OR4N4 WILD-TYPE     59     69     73
D1278V4, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4N4 MUTATED        1      5      6
  OR4N4 WILD-TYPE     69    115     94
D1278V5, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4N4 MUTATED        1      0      1      0      2      3      1      3
  OR4N4 WILD-TYPE     40     26     29     29     37     66     19     11
                 vv
clus              CLUS_9
  OR4N4 MUTATED        1
  OR4N4 WILD-TYPE     21
D1278V6, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             3              11
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR4N4 MUTATED        4      3      2      3
  OR4N4 WILD-TYPE     96     69     70    118
D1278V7, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4N4 MUTATED        3      3      3      1      2
  OR4N4 WILD-TYPE     56     72     71    118     36
D1278V8, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4N4 MUTATED        1      4      2      2      2
  OR4N4 WILD-TYPE     50     72     59     69     93
D1278V9, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4N4 MUTATED        3      2      2      1      0      2      0      1
  OR4N4 WILD-TYPE     66     46     37     15     53     18     21     37
                 vv
clus              CLUS_9
  OR4N4 MUTATED        0
  OR4N4 WILD-TYPE     50
D1278V10, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR4N4 MUTATED        1      0      0      3      0      1
  OR4N4 WILD-TYPE     12     16     14      8     11      8
D1278V11, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             3               8
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4N4 MUTATED        0      0      1      1      0      0      1      2
  OR4N4 WILD-TYPE     11      7      6      8      8      7     10      7
                 vv
clus              CLUS_9
  OR4N4 MUTATED        0
  OR4N4 WILD-TYPE      5
D1278V12, multiclass
        clus
vv       OR4N4 MUTATED OR4N4 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             2               7
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1279) Variable = IFI44 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFI44 MUTATED        2      0      0      0      0
  IFI44 WILD-TYPE     30     18     46     27     23
D1279V1, multiclass
[1] "Remove cluster labels:" "IFI44 MUTATED"         
clus
  IFI44 MUTATED IFI44 WILD-TYPE 
              2             144 
     TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677      TCGA-A6-2678 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3809 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI44 MUTATED        2      0      0
  IFI44 WILD-TYPE     41     67     36
D1279V2, multiclass
[1] "Remove cluster labels:" "IFI44 MUTATED"         
clus
  IFI44 MUTATED IFI44 WILD-TYPE 
              2             144 
     TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677      TCGA-A6-2678 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3809 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI44 MUTATED        0      2      6
  IFI44 WILD-TYPE     42    171    141
D1279V3, multiclass
        clus
vv       IFI44 MUTATED IFI44 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI44 MUTATED        3      1      2
  IFI44 WILD-TYPE     59     72     73
D1279V4, multiclass
        clus
vv       IFI44 MUTATED IFI44 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI44 MUTATED        0      2      5
  IFI44 WILD-TYPE     70    118     95
D1279V5, multiclass
        clus
vv       IFI44 MUTATED IFI44 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFI44 MUTATED        1      0      0      0      1      3      0      1
  IFI44 WILD-TYPE     40     26     30     29     38     66     20     13
                 vv
clus              CLUS_9
  IFI44 MUTATED        1
  IFI44 WILD-TYPE     21
D1279V6, multiclass
        clus
vv       IFI44 MUTATED IFI44 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFI44 MUTATED        2      3      1      2
  IFI44 WILD-TYPE     98     69     71    119
D1279V7, multiclass
        clus
vv       IFI44 MUTATED IFI44 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFI44 MUTATED        1      3      2      0      2
  IFI44 WILD-TYPE     58     72     72    119     36
D1279V8, multiclass
        clus
vv       IFI44 MUTATED IFI44 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFI44 MUTATED        1      2      1      1      3
  IFI44 WILD-TYPE     50     74     60     70     92
D1279V9, multiclass
        clus
vv       IFI44 MUTATED IFI44 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFI44 MUTATED        1      1      2      0      0      1      0      2
  IFI44 WILD-TYPE     68     47     37     16     53     19     21     36
                 vv
clus              CLUS_9
  IFI44 MUTATED        1
  IFI44 WILD-TYPE     49
D1279V10, multiclass
        clus
vv       IFI44 MUTATED IFI44 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IFI44 MUTATED        1      0      0      0      0      1
  IFI44 WILD-TYPE     12     16     14     11     11      8
D1279V11, multiclass
[1] "Remove cluster labels:" "IFI44 MUTATED"         
clus
  IFI44 MUTATED IFI44 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFI44 MUTATED        0      0      0      0      0      0      0      2
  IFI44 WILD-TYPE     11      7      7      9      8      7     11      7
                 vv
clus              CLUS_9
  IFI44 MUTATED        0
  IFI44 WILD-TYPE      5
D1279V12, multiclass
[1] "Remove cluster labels:" "IFI44 MUTATED"         
clus
  IFI44 MUTATED IFI44 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" "IFI44 WILD-TYPE" 

Clustering(1280) Variable = IPPK MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IPPK MUTATED        0      0      1      1      0
  IPPK WILD-TYPE     32     18     45     26     23
D1280V1, multiclass
[1] "Remove cluster labels:" "IPPK MUTATED"          
clus
  IPPK MUTATED IPPK WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866     TCGA-AA-3867 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IPPK MUTATED        1      0      1
  IPPK WILD-TYPE     42     67     35
D1280V2, multiclass
[1] "Remove cluster labels:" "IPPK MUTATED"          
clus
  IPPK MUTATED IPPK WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866     TCGA-AA-3867 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" "IPPK WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IPPK MUTATED        0      3      6
  IPPK WILD-TYPE     42    170    141
D1280V3, multiclass
        clus
vv       IPPK MUTATED IPPK WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IPPK MUTATED        5      1      1
  IPPK WILD-TYPE     57     72     74
D1280V4, multiclass
        clus
vv       IPPK MUTATED IPPK WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IPPK MUTATED        0      1      7
  IPPK WILD-TYPE     70    119     93
D1280V5, multiclass
        clus
vv       IPPK MUTATED IPPK WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IPPK MUTATED        1      0      0      0      1      4      2      0      0
  IPPK WILD-TYPE     40     26     30     29     38     65     18     14     22
D1280V6, multiclass
        clus
vv       IPPK MUTATED IPPK WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IPPK MUTATED        1      2      4      2
  IPPK WILD-TYPE     99     70     68    119
D1280V7, multiclass
        clus
vv       IPPK MUTATED IPPK WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IPPK MUTATED        2      2      3      1      1
  IPPK WILD-TYPE     57     73     71    118     37
D1280V8, multiclass
        clus
vv       IPPK MUTATED IPPK WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IPPK MUTATED        0      6      1      0      2
  IPPK WILD-TYPE     51     70     60     71     93
D1280V9, multiclass
        clus
vv       IPPK MUTATED IPPK WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IPPK MUTATED        0      4      1      0      2      1      0      1      0
  IPPK WILD-TYPE     69     44     38     16     51     19     21     37     50
D1280V10, multiclass
        clus
vv       IPPK MUTATED IPPK WILD-TYPE
  CLUS_1            0             69
  CLUS_2            4             44
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IPPK MUTATED        1      0      1      0      1      0
  IPPK WILD-TYPE     12     16     13     11     10      9
D1280V11, multiclass
        clus
vv       IPPK MUTATED IPPK WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IPPK MUTATED        0      0      0      0      0      1      1      1      0
  IPPK WILD-TYPE     11      7      7      9      8      6     10      8      5
D1280V12, multiclass
        clus
vv       IPPK MUTATED IPPK WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1281) Variable = SPATA16 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPATA16 MUTATED        4      1      0      2      0
  SPATA16 WILD-TYPE     28     17     46     25     23
D1281V1, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               1                17
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPATA16 MUTATED        5      2      0
  SPATA16 WILD-TYPE     38     65     36
D1281V2, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               5                38
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPATA16 MUTATED        1      2      9
  SPATA16 WILD-TYPE     41    171    138
D1281V3, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPATA16 MUTATED        3      1      1
  SPATA16 WILD-TYPE     59     72     74
D1281V4, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPATA16 MUTATED        0      5      5
  SPATA16 WILD-TYPE     70    115     95
D1281V5, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               5               115
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPATA16 MUTATED        2      1      1      1      1      2      0      1
  SPATA16 WILD-TYPE     39     25     29     28     38     67     20     13
                   vv
clus                CLUS_9
  SPATA16 MUTATED        1
  SPATA16 WILD-TYPE     21
D1281V6, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPATA16 MUTATED        2      2      2      6
  SPATA16 WILD-TYPE     98     70     70    115
D1281V7, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               6               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPATA16 MUTATED        2      1      2      2      5
  SPATA16 WILD-TYPE     57     74     72    117     33
D1281V8, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               2               117
  CLUS_5               5                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPATA16 MUTATED        1      2      2      0      5
  SPATA16 WILD-TYPE     50     74     59     71     90
D1281V9, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPATA16 MUTATED        0      1      1      2      1      2      0      2
  SPATA16 WILD-TYPE     69     47     38     14     52     18     21     36
                   vv
clus                CLUS_9
  SPATA16 MUTATED        1
  SPATA16 WILD-TYPE     49
D1281V10, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPATA16 MUTATED        0      1      0      0      2      0
  SPATA16 WILD-TYPE     13     15     14     11      9      9
D1281V11, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPATA16 MUTATED        0      1      0      2      0      0      0      0
  SPATA16 WILD-TYPE     11      6      7      7      8      7     11      9
                   vv
clus                CLUS_9
  SPATA16 MUTATED        0
  SPATA16 WILD-TYPE      5
D1281V12, multiclass
        clus
vv       SPATA16 MUTATED SPATA16 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1282) Variable = ACAN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACAN MUTATED        5      0      0      4      0
  ACAN WILD-TYPE     27     18     46     23     23
D1282V1, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            4             23
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ACAN MUTATED        6      2      1
  ACAN WILD-TYPE     37     65     35
D1282V2, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            6             37
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ACAN MUTATED        2      3     21
  ACAN WILD-TYPE     40    170    126
D1282V3, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            2             40
  CLUS_2            3            170
  CLUS_3           21            126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ACAN MUTATED        8      1      9
  ACAN WILD-TYPE     54     72     66
D1282V4, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            8             54
  CLUS_2            1             72
  CLUS_3            9             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ACAN MUTATED        5      9     11
  ACAN WILD-TYPE     65    111     89
D1282V5, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            5             65
  CLUS_2            9            111
  CLUS_3           11             89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ACAN MUTATED        3      2      2      3      5      8      2      0      0
  ACAN WILD-TYPE     38     24     28     26     34     61     18     14     22
D1282V6, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            3             38
  CLUS_2            2             24
  CLUS_3            2             28
  CLUS_4            3             26
  CLUS_5            5             34
  CLUS_6            8             61
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACAN MUTATED        2      9      9      7
  ACAN WILD-TYPE     98     63     63    114
D1282V7, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            2             98
  CLUS_2            9             63
  CLUS_3            9             63
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACAN MUTATED        4      3     10      6      4
  ACAN WILD-TYPE     55     72     64    113     34
D1282V8, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            4             55
  CLUS_2            3             72
  CLUS_3           10             64
  CLUS_4            6            113
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACAN MUTATED        1     12      3      2      8
  ACAN WILD-TYPE     50     64     58     69     87
D1282V9, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            1             50
  CLUS_2           12             64
  CLUS_3            3             58
  CLUS_4            2             69
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ACAN MUTATED        5      6      0      2      4      2      1      6      0
  ACAN WILD-TYPE     64     42     39     14     49     18     20     32     50
D1282V10, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            5             64
  CLUS_2            6             42
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            4             49
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            6             32
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACAN MUTATED        1      2      1      1      2      0
  ACAN WILD-TYPE     12     14     13     10      9      9
D1282V11, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            1             12
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ACAN MUTATED        0      0      0      0      1      1      4      0      1
  ACAN WILD-TYPE     11      7      7      9      7      6      7      9      4
D1282V12, multiclass
        clus
vv       ACAN MUTATED ACAN WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            4              7
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1283) Variable = C16ORF88 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C16ORF88 MUTATED        0      0      0      0      1
  C16ORF88 WILD-TYPE     32     18     46     27     22
D1283V1, multiclass
[1] "Remove cluster labels:" "C16ORF88 MUTATED"      
clus
  C16ORF88 MUTATED C16ORF88 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3678         TCGA-AA-3679 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AY-4071 
"C16ORF88 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C16ORF88 MUTATED        0      1      0
  C16ORF88 WILD-TYPE     43     66     36
D1283V2, multiclass
[1] "Remove cluster labels:" "C16ORF88 MUTATED"      
clus
  C16ORF88 MUTATED C16ORF88 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3678         TCGA-AA-3679 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" "C16ORF88 WILD-TYPE" 
        TCGA-AY-4071 
"C16ORF88 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C16ORF88 MUTATED        1      0      6
  C16ORF88 WILD-TYPE     41    173    141
D1283V3, multiclass
        clus
vv       C16ORF88 MUTATED C16ORF88 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                173
  CLUS_3                6                141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C16ORF88 MUTATED        2      0      3
  C16ORF88 WILD-TYPE     60     73     72
D1283V4, multiclass
        clus
vv       C16ORF88 MUTATED C16ORF88 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                0                 73
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C16ORF88 MUTATED        0      3      3
  C16ORF88 WILD-TYPE     70    117     97
D1283V5, multiclass
        clus
vv       C16ORF88 MUTATED C16ORF88 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                3                117
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C16ORF88 MUTATED        0      0      1      2      0      3      0      0
  C16ORF88 WILD-TYPE     41     26     29     27     39     66     20     14
                    vv
clus                 CLUS_9
  C16ORF88 MUTATED        0
  C16ORF88 WILD-TYPE     22
D1283V6, multiclass
        clus
vv       C16ORF88 MUTATED C16ORF88 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                2                 27
  CLUS_5                0                 39
  CLUS_6                3                 66
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C16ORF88 MUTATED        0      5      0      2
  C16ORF88 WILD-TYPE    100     67     72    119
D1283V7, multiclass
        clus
vv       C16ORF88 MUTATED C16ORF88 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                5                 67
  CLUS_3                0                 72
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C16ORF88 MUTATED        0      1      4      1      1
  C16ORF88 WILD-TYPE     59     74     70    118     37
D1283V8, multiclass
        clus
vv       C16ORF88 MUTATED C16ORF88 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                4                 70
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C16ORF88 MUTATED        0      5      0      1      1
  C16ORF88 WILD-TYPE     51     71     61     70     94
D1283V9, multiclass
        clus
vv       C16ORF88 MUTATED C16ORF88 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                5                 71
  CLUS_3                0                 61
  CLUS_4                1                 70
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C16ORF88 MUTATED        2      1      0      1      1      0      0      1
  C16ORF88 WILD-TYPE     67     47     39     15     52     20     21     37
                    vv
clus                 CLUS_9
  C16ORF88 MUTATED        1
  C16ORF88 WILD-TYPE     49
D1283V10, multiclass
        clus
vv       C16ORF88 MUTATED C16ORF88 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C16ORF88 MUTATED        0      0      0      0      0      0
  C16ORF88 WILD-TYPE     13     16     14     11     11      9
D1283V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C16ORF88 MUTATED        0      0      0      0      0      0      0      0
  C16ORF88 WILD-TYPE     11      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  C16ORF88 MUTATED        0
  C16ORF88 WILD-TYPE      5
D1283V12, multiclass

Clustering(1284) Variable = ABCG2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCG2 MUTATED        3      0      1      1      0
  ABCG2 WILD-TYPE     29     18     45     26     23
D1284V1, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCG2 MUTATED        3      2      0
  ABCG2 WILD-TYPE     40     65     36
D1284V2, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCG2 MUTATED        0      5      7
  ABCG2 WILD-TYPE     42    168    140
D1284V3, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCG2 MUTATED        2      3      2
  ABCG2 WILD-TYPE     60     70     73
D1284V4, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCG2 MUTATED        0      3      8
  ABCG2 WILD-TYPE     70    117     92
D1284V5, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCG2 MUTATED        2      0      3      0      0      6      0      0
  ABCG2 WILD-TYPE     39     26     27     29     39     63     20     14
                 vv
clus              CLUS_9
  ABCG2 MUTATED        0
  ABCG2 WILD-TYPE     22
D1284V6, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             3              27
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCG2 MUTATED        4      1      3      4
  ABCG2 WILD-TYPE     96     71     69    117
D1284V7, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCG2 MUTATED        2      3      2      4      1
  ABCG2 WILD-TYPE     57     72     72    115     37
D1284V8, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             4             115
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCG2 MUTATED        2      2      2      2      3
  ABCG2 WILD-TYPE     49     74     59     69     92
D1284V9, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCG2 MUTATED        3      2      1      1      1      1      1      1
  ABCG2 WILD-TYPE     66     46     38     15     52     19     20     37
                 vv
clus              CLUS_9
  ABCG2 MUTATED        0
  ABCG2 WILD-TYPE     50
D1284V10, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABCG2 MUTATED        2      0      1      1      0      0
  ABCG2 WILD-TYPE     11     16     13     10     11      9
D1284V11, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCG2 MUTATED        0      0      1      1      0      0      1      0
  ABCG2 WILD-TYPE     11      7      6      8      8      7     10      9
                 vv
clus              CLUS_9
  ABCG2 MUTATED        1
  ABCG2 WILD-TYPE      4
D1284V12, multiclass
        clus
vv       ABCG2 MUTATED ABCG2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1285) Variable = EPC1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPC1 MUTATED        1      0      0      1      0
  EPC1 WILD-TYPE     31     18     46     26     23
D1285V1, multiclass
[1] "Remove cluster labels:" "EPC1 MUTATED"          
clus
  EPC1 MUTATED EPC1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2677     TCGA-A6-2678 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EPC1 MUTATED        1      1      0
  EPC1 WILD-TYPE     42     66     36
D1285V2, multiclass
[1] "Remove cluster labels:" "EPC1 MUTATED"          
clus
  EPC1 MUTATED EPC1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2677     TCGA-A6-2678 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" "EPC1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EPC1 MUTATED        1      5      7
  EPC1 WILD-TYPE     41    168    140
D1285V3, multiclass
        clus
vv       EPC1 MUTATED EPC1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            5            168
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EPC1 MUTATED        4      2      5
  EPC1 WILD-TYPE     58     71     70
D1285V4, multiclass
        clus
vv       EPC1 MUTATED EPC1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EPC1 MUTATED        1      5      6
  EPC1 WILD-TYPE     69    115     94
D1285V5, multiclass
        clus
vv       EPC1 MUTATED EPC1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EPC1 MUTATED        4      0      2      2      0      2      2      0      0
  EPC1 WILD-TYPE     37     26     28     27     39     67     18     14     22
D1285V6, multiclass
        clus
vv       EPC1 MUTATED EPC1 WILD-TYPE
  CLUS_1            4             37
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPC1 MUTATED        2      3      6      2
  EPC1 WILD-TYPE     98     69     66    119
D1285V7, multiclass
        clus
vv       EPC1 MUTATED EPC1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            6             66
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPC1 MUTATED        5      2      4      1      1
  EPC1 WILD-TYPE     54     73     70    118     37
D1285V8, multiclass
        clus
vv       EPC1 MUTATED EPC1 WILD-TYPE
  CLUS_1            5             54
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPC1 MUTATED        3      5      2      1      2
  EPC1 WILD-TYPE     48     71     59     70     93
D1285V9, multiclass
        clus
vv       EPC1 MUTATED EPC1 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            5             71
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EPC1 MUTATED        4      5      0      1      1      1      0      1      0
  EPC1 WILD-TYPE     65     43     39     15     52     19     21     37     50
D1285V10, multiclass
        clus
vv       EPC1 MUTATED EPC1 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            5             43
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EPC1 MUTATED        0      0      0      1      3      1
  EPC1 WILD-TYPE     13     16     14     10      8      8
D1285V11, multiclass
        clus
vv       EPC1 MUTATED EPC1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            3              8
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EPC1 MUTATED        1      0      1      1      0      1      1      0      0
  EPC1 WILD-TYPE     10      7      6      8      8      6     10      9      5
D1285V12, multiclass
        clus
vv       EPC1 MUTATED EPC1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1286) Variable = PTPN3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN3 MUTATED        2      0      1      2      0
  PTPN3 WILD-TYPE     30     18     45     25     23
D1286V1, multiclass
        clus
vv       PTPN3 MUTATED PTPN3 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPN3 MUTATED        2      1      2
  PTPN3 WILD-TYPE     41     66     34
D1286V2, multiclass
        clus
vv       PTPN3 MUTATED PTPN3 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPN3 MUTATED        2      5      8
  PTPN3 WILD-TYPE     40    168    139
D1286V3, multiclass
        clus
vv       PTPN3 MUTATED PTPN3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPN3 MUTATED        2      4      4
  PTPN3 WILD-TYPE     60     69     71
D1286V4, multiclass
        clus
vv       PTPN3 MUTATED PTPN3 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             4              69
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPN3 MUTATED        2      6      4
  PTPN3 WILD-TYPE     68    114     96
D1286V5, multiclass
        clus
vv       PTPN3 MUTATED PTPN3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN3 MUTATED        3      0      1      3      0      3      2      0
  PTPN3 WILD-TYPE     38     26     29     26     39     66     18     14
                 vv
clus              CLUS_9
  PTPN3 MUTATED        0
  PTPN3 WILD-TYPE     22
D1286V6, multiclass
        clus
vv       PTPN3 MUTATED PTPN3 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPN3 MUTATED        4      4      2      5
  PTPN3 WILD-TYPE     96     68     70    116
D1286V7, multiclass
        clus
vv       PTPN3 MUTATED PTPN3 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN3 MUTATED        0      4      6      3      2
  PTPN3 WILD-TYPE     59     71     68    116     36
D1286V8, multiclass
        clus
vv       PTPN3 MUTATED PTPN3 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             4              71
  CLUS_3             6              68
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN3 MUTATED        2      8      0      1      3
  PTPN3 WILD-TYPE     49     68     61     70     92
D1286V9, multiclass
        clus
vv       PTPN3 MUTATED PTPN3 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             8              68
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN3 MUTATED        2      2      3      2      3      1      0      1
  PTPN3 WILD-TYPE     67     46     36     14     50     19     21     37
                 vv
clus              CLUS_9
  PTPN3 MUTATED        0
  PTPN3 WILD-TYPE     50
D1286V10, multiclass
        clus
vv       PTPN3 MUTATED PTPN3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             3              36
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPN3 MUTATED        0      1      0      0      1      0
  PTPN3 WILD-TYPE     13     15     14     11     10      9
D1286V11, multiclass
[1] "Remove cluster labels:" "PTPN3 MUTATED"         
clus
  PTPN3 MUTATED PTPN3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN3 MUTATED        0      0      0      1      0      0      1      0
  PTPN3 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  PTPN3 MUTATED        0
  PTPN3 WILD-TYPE      5
D1286V12, multiclass
[1] "Remove cluster labels:" "PTPN3 MUTATED"         
clus
  PTPN3 MUTATED PTPN3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" "PTPN3 WILD-TYPE" 

Clustering(1287) Variable = DGKH MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DGKH MUTATED        3      0      0      1      0
  DGKH WILD-TYPE     29     18     46     26     23
D1287V1, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DGKH MUTATED        3      1      0
  DGKH WILD-TYPE     40     66     36
D1287V2, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DGKH MUTATED        2      6      6
  DGKH WILD-TYPE     40    167    141
D1287V3, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            2             40
  CLUS_2            6            167
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DGKH MUTATED        4      4      2
  DGKH WILD-TYPE     58     69     73
D1287V4, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            4             58
  CLUS_2            4             69
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DGKH MUTATED        1      3      8
  DGKH WILD-TYPE     69    117     92
D1287V5, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DGKH MUTATED        1      1      1      1      0      4      3      0      1
  DGKH WILD-TYPE     40     25     29     28     39     65     17     14     21
D1287V6, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DGKH MUTATED        4      3      4      4
  DGKH WILD-TYPE     96     69     68    117
D1287V7, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            4             96
  CLUS_2            3             69
  CLUS_3            4             68
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DGKH MUTATED        3      3      5      1      3
  DGKH WILD-TYPE     56     72     69    118     35
D1287V8, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            3             56
  CLUS_2            3             72
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DGKH MUTATED        2      4      2      2      5
  DGKH WILD-TYPE     49     72     59     69     90
D1287V9, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            2             49
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DGKH MUTATED        4      2      0      0      3      1      1      4      0
  DGKH WILD-TYPE     65     46     39     16     50     19     20     34     50
D1287V10, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            4             65
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DGKH MUTATED        1      2      0      1      0      1
  DGKH WILD-TYPE     12     14     14     10     11      8
D1287V11, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            1             12
  CLUS_2            2             14
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DGKH MUTATED        1      1      0      0      0      0      1      1      1
  DGKH WILD-TYPE     10      6      7      9      8      7     10      8      4
D1287V12, multiclass
        clus
vv       DGKH MUTATED DGKH WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1288) Variable = LEMD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEMD1 MUTATED        0      0      0      0      0
  LEMD1 WILD-TYPE     32     18     46     27     23
D1288V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LEMD1 MUTATED        0      0      0
  LEMD1 WILD-TYPE     43     67     36
D1288V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LEMD1 MUTATED        0      0      3
  LEMD1 WILD-TYPE     42    173    144
D1288V3, multiclass
        clus
vv       LEMD1 MUTATED LEMD1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LEMD1 MUTATED        0      0      3
  LEMD1 WILD-TYPE     62     73     72
D1288V4, multiclass
        clus
vv       LEMD1 MUTATED LEMD1 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LEMD1 MUTATED        0      1      1
  LEMD1 WILD-TYPE     70    119     99
D1288V5, multiclass
[1] "Remove cluster labels:" "LEMD1 MUTATED"         
clus
  LEMD1 MUTATED LEMD1 WILD-TYPE 
              2             288 
     TCGA-A6-2671      TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-A6-5656      TCGA-A6-5657 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-5659      TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-5664      TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502      TCGA-AA-3510 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AA-3514      TCGA-AA-3517      TCGA-AA-3519 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3525 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531      TCGA-AA-3532 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3534      TCGA-AA-3548      TCGA-AA-3552      TCGA-AA-3553 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3558      TCGA-AA-3560 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3655      TCGA-AA-3664 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3681      TCGA-AA-3688 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3695      TCGA-AA-3696      TCGA-AA-3697      TCGA-AA-3710 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3712      TCGA-AA-3713      TCGA-AA-3715      TCGA-AA-3811 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848      TCGA-AA-3850 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856      TCGA-AA-3861 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869      TCGA-AA-3872 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3950      TCGA-AA-3955 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00E      TCGA-AA-A00F 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01P 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S      TCGA-AA-A01T 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022      TCGA-AA-A024 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H      TCGA-AA-A02J 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A02K      TCGA-AA-A02O      TCGA-AA-A02W      TCGA-AA-A02Y 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AD-5900      TCGA-AD-6548 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AD-6889      TCGA-AD-6899      TCGA-AD-6965      TCGA-AU-6004 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197      TCGA-AY-6386 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-4682 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CA-5796      TCGA-CA-5797      TCGA-CA-6715      TCGA-CA-6716 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CA-6717      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5914 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5538 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-5539      TCGA-D5-5540      TCGA-D5-5541      TCGA-D5-6529 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6532      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6535 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6537      TCGA-D5-6538      TCGA-D5-6539 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6540      TCGA-D5-6541      TCGA-D5-6898      TCGA-D5-6920 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6923      TCGA-D5-6924      TCGA-D5-6926 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6927      TCGA-D5-6928      TCGA-D5-6930      TCGA-D5-6931 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6932      TCGA-DM-A0X9      TCGA-DM-A0XF      TCGA-DM-A1D0 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A28C      TCGA-DM-A28E 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-DM-A28G      TCGA-F4-6459      TCGA-F4-6460 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-F4-6809      TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-G4-6293      TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-G4-6315      TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-G4-6586      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LEMD1 MUTATED        0      0      0      1      0      1      0      0
  LEMD1 WILD-TYPE     41     26     30     28     39     68     20     14
                 vv
clus              CLUS_9
  LEMD1 MUTATED        0
  LEMD1 WILD-TYPE     22
D1288V6, multiclass
[1] "Remove cluster labels:" "LEMD1 MUTATED"         
clus
  LEMD1 MUTATED LEMD1 WILD-TYPE 
              2             288 
     TCGA-A6-2671      TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-A6-5656      TCGA-A6-5657 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-5659      TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-5664      TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502      TCGA-AA-3510 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AA-3514      TCGA-AA-3517      TCGA-AA-3519 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3525 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531      TCGA-AA-3532 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3534      TCGA-AA-3548      TCGA-AA-3552      TCGA-AA-3553 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3558      TCGA-AA-3560 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3655      TCGA-AA-3664 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3681      TCGA-AA-3688 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3695      TCGA-AA-3696      TCGA-AA-3697      TCGA-AA-3710 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3712      TCGA-AA-3713      TCGA-AA-3715      TCGA-AA-3811 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848      TCGA-AA-3850 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856      TCGA-AA-3861 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869      TCGA-AA-3872 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3950      TCGA-AA-3955 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00E      TCGA-AA-A00F 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01P 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S      TCGA-AA-A01T 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022      TCGA-AA-A024 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H      TCGA-AA-A02J 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A02K      TCGA-AA-A02O      TCGA-AA-A02W      TCGA-AA-A02Y 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AD-5900      TCGA-AD-6548 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AD-6889      TCGA-AD-6899      TCGA-AD-6965      TCGA-AU-6004 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197      TCGA-AY-6386 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-4682 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CA-5796      TCGA-CA-5797      TCGA-CA-6715      TCGA-CA-6716 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CA-6717      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5914 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5538 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-5539      TCGA-D5-5540      TCGA-D5-5541      TCGA-D5-6529 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6532      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6535 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6537      TCGA-D5-6538      TCGA-D5-6539 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6540      TCGA-D5-6541      TCGA-D5-6898      TCGA-D5-6920 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6923      TCGA-D5-6924      TCGA-D5-6926 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6927      TCGA-D5-6928      TCGA-D5-6930      TCGA-D5-6931 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-D5-6932      TCGA-DM-A0X9      TCGA-DM-A0XF      TCGA-DM-A1D0 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A28C      TCGA-DM-A28E 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-DM-A28G      TCGA-F4-6459      TCGA-F4-6460 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-F4-6809      TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-G4-6293      TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-G4-6315      TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
     TCGA-G4-6586      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" "LEMD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LEMD1 MUTATED        0      2      1      0
  LEMD1 WILD-TYPE    100     70     71    121
D1288V7, multiclass
        clus
vv       LEMD1 MUTATED LEMD1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEMD1 MUTATED        0      0      3      0      0
  LEMD1 WILD-TYPE     59     75     71    119     38
D1288V8, multiclass
        clus
vv       LEMD1 MUTATED LEMD1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEMD1 MUTATED        0      2      1      0      0
  LEMD1 WILD-TYPE     51     74     60     71     95
D1288V9, multiclass
        clus
vv       LEMD1 MUTATED LEMD1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LEMD1 MUTATED        1      1      0      1      0      0      0      0
  LEMD1 WILD-TYPE     68     47     39     15     53     20     21     38
                 vv
clus              CLUS_9
  LEMD1 MUTATED        0
  LEMD1 WILD-TYPE     50
D1288V10, multiclass
        clus
vv       LEMD1 MUTATED LEMD1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LEMD1 MUTATED        0      0      0      0      0      0
  LEMD1 WILD-TYPE     13     16     14     11     11      9
D1288V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LEMD1 MUTATED        0      0      0      0      0      0      0      0
  LEMD1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  LEMD1 MUTATED        0
  LEMD1 WILD-TYPE      5
D1288V12, multiclass

Clustering(1289) Variable = ABCD4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCD4 MUTATED        3      0      0      1      0
  ABCD4 WILD-TYPE     29     18     46     26     23
D1289V1, multiclass
        clus
vv       ABCD4 MUTATED ABCD4 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCD4 MUTATED        4      0      0
  ABCD4 WILD-TYPE     39     67     36
D1289V2, multiclass
        clus
vv       ABCD4 MUTATED ABCD4 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCD4 MUTATED        0      0     10
  ABCD4 WILD-TYPE     42    173    137
D1289V3, multiclass
        clus
vv       ABCD4 MUTATED ABCD4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCD4 MUTATED        2      0      4
  ABCD4 WILD-TYPE     60     73     71
D1289V4, multiclass
        clus
vv       ABCD4 MUTATED ABCD4 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCD4 MUTATED        1      2      4
  ABCD4 WILD-TYPE     69    118     96
D1289V5, multiclass
        clus
vv       ABCD4 MUTATED ABCD4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCD4 MUTATED        0      0      1      0      1      4      1      0
  ABCD4 WILD-TYPE     41     26     29     29     38     65     19     14
                 vv
clus              CLUS_9
  ABCD4 MUTATED        0
  ABCD4 WILD-TYPE     22
D1289V6, multiclass
        clus
vv       ABCD4 MUTATED ABCD4 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCD4 MUTATED        0      3      3      4
  ABCD4 WILD-TYPE    100     69     69    117
D1289V7, multiclass
        clus
vv       ABCD4 MUTATED ABCD4 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCD4 MUTATED        0      0      6      1      3
  ABCD4 WILD-TYPE     59     75     68    118     35
D1289V8, multiclass
        clus
vv       ABCD4 MUTATED ABCD4 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCD4 MUTATED        0      5      1      0      3
  ABCD4 WILD-TYPE     51     71     60     71     92
D1289V9, multiclass
        clus
vv       ABCD4 MUTATED ABCD4 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCD4 MUTATED        2      1      0      3      0      0      2      1
  ABCD4 WILD-TYPE     67     47     39     13     53     20     19     37
                 vv
clus              CLUS_9
  ABCD4 MUTATED        0
  ABCD4 WILD-TYPE     50
D1289V10, multiclass
        clus
vv       ABCD4 MUTATED ABCD4 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             2              19
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABCD4 MUTATED        0      0      1      0      1      0
  ABCD4 WILD-TYPE     13     16     13     11     10      9
D1289V11, multiclass
[1] "Remove cluster labels:" "ABCD4 MUTATED"         
clus
  ABCD4 MUTATED ABCD4 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCD4 MUTATED        0      0      0      0      1      0      1      0
  ABCD4 WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  ABCD4 MUTATED        0
  ABCD4 WILD-TYPE      5
D1289V12, multiclass
[1] "Remove cluster labels:" "ABCD4 MUTATED"         
clus
  ABCD4 MUTATED ABCD4 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" "ABCD4 WILD-TYPE" 

Clustering(1290) Variable = HCLS1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HCLS1 MUTATED        4      0      1      2      0
  HCLS1 WILD-TYPE     28     18     45     25     23
D1290V1, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HCLS1 MUTATED        4      3      0
  HCLS1 WILD-TYPE     39     64     36
D1290V2, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HCLS1 MUTATED        0      2     13
  HCLS1 WILD-TYPE     42    171    134
D1290V3, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HCLS1 MUTATED        4      1      3
  HCLS1 WILD-TYPE     58     72     72
D1290V4, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HCLS1 MUTATED        2      4      5
  HCLS1 WILD-TYPE     68    116     95
D1290V5, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HCLS1 MUTATED        3      0      2      1      0      5      0      0
  HCLS1 WILD-TYPE     38     26     28     28     39     64     20     14
                 vv
clus              CLUS_9
  HCLS1 MUTATED        0
  HCLS1 WILD-TYPE     22
D1290V6, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HCLS1 MUTATED        1      4      3      7
  HCLS1 WILD-TYPE     99     68     69    114
D1290V7, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HCLS1 MUTATED        2      1      5      3      4
  HCLS1 WILD-TYPE     57     74     69    116     34
D1290V8, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HCLS1 MUTATED        0      4      2      1      7
  HCLS1 WILD-TYPE     51     72     59     70     88
D1290V9, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HCLS1 MUTATED        1      4      0      2      0      2      0      4
  HCLS1 WILD-TYPE     68     44     39     14     53     18     21     34
                 vv
clus              CLUS_9
  HCLS1 MUTATED        1
  HCLS1 WILD-TYPE     49
D1290V10, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HCLS1 MUTATED        0      0      0      0      1      1
  HCLS1 WILD-TYPE     13     16     14     11     10      8
D1290V11, multiclass
[1] "Remove cluster labels:" "HCLS1 MUTATED"         
clus
  HCLS1 MUTATED HCLS1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HCLS1 MUTATED        0      0      0      0      0      0      1      1
  HCLS1 WILD-TYPE     11      7      7      9      8      7     10      8
                 vv
clus              CLUS_9
  HCLS1 MUTATED        0
  HCLS1 WILD-TYPE      5
D1290V12, multiclass
[1] "Remove cluster labels:" "HCLS1 MUTATED"         
clus
  HCLS1 MUTATED HCLS1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" "HCLS1 WILD-TYPE" 

Clustering(1291) Variable = SULT1C4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SULT1C4 MUTATED        1      0      0      2      0
  SULT1C4 WILD-TYPE     31     18     46     25     23
D1291V1, multiclass
        clus
vv       SULT1C4 MUTATED SULT1C4 WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SULT1C4 MUTATED        3      0      0
  SULT1C4 WILD-TYPE     40     67     36
D1291V2, multiclass
        clus
vv       SULT1C4 MUTATED SULT1C4 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SULT1C4 MUTATED        0      0      3
  SULT1C4 WILD-TYPE     42    173    144
D1291V3, multiclass
        clus
vv       SULT1C4 MUTATED SULT1C4 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SULT1C4 MUTATED        0      0      0
  SULT1C4 WILD-TYPE     62     73     75
D1291V4, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SULT1C4 MUTATED        0      1      1
  SULT1C4 WILD-TYPE     70    119     99
D1291V5, multiclass
[1] "Remove cluster labels:" "SULT1C4 MUTATED"       
clus
  SULT1C4 MUTATED SULT1C4 WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3525        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3558        TCGA-AA-3560 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655        TCGA-AA-3664 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681        TCGA-AA-3688 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697        TCGA-AA-3710 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715        TCGA-AA-3811 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848        TCGA-AA-3850 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3861 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3955 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E        TCGA-AA-A00F 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00Q 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P        TCGA-AA-A01Q 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T        TCGA-AA-A01V 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024        TCGA-AA-A029 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02K 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y        TCGA-AA-A03F 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AD-6899        TCGA-AD-6965        TCGA-AU-6004        TCGA-AY-5543 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386        TCGA-AZ-4315 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4682        TCGA-AZ-5407 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600        TCGA-AZ-6601 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606        TCGA-AZ-6607 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255        TCGA-CA-5796 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716        TCGA-CA-6717 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5914        TCGA-CK-5916 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748        TCGA-CK-6751 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746        TCGA-CM-4747 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344        TCGA-CM-5348 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5538        TCGA-D5-5539 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529        TCGA-D5-6532 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535        TCGA-D5-6536 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539        TCGA-D5-6540 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920        TCGA-D5-6922 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926        TCGA-D5-6927 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D4 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA        TCGA-DM-A1HB 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SULT1C4 MUTATED        0      0      0      0      0      1      0      0
  SULT1C4 WILD-TYPE     41     26     30     29     39     68     20     14
                   vv
clus                CLUS_9
  SULT1C4 MUTATED        1
  SULT1C4 WILD-TYPE     21
D1291V6, multiclass
[1] "Remove cluster labels:" "SULT1C4 MUTATED"       
clus
  SULT1C4 MUTATED SULT1C4 WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3525        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3558        TCGA-AA-3560 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655        TCGA-AA-3664 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681        TCGA-AA-3688 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697        TCGA-AA-3710 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715        TCGA-AA-3811 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848        TCGA-AA-3850 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3861 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3955 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E        TCGA-AA-A00F 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00Q 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P        TCGA-AA-A01Q 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T        TCGA-AA-A01V 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024        TCGA-AA-A029 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02K 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y        TCGA-AA-A03F 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AD-6899        TCGA-AD-6965        TCGA-AU-6004        TCGA-AY-5543 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386        TCGA-AZ-4315 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4682        TCGA-AZ-5407 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600        TCGA-AZ-6601 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606        TCGA-AZ-6607 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255        TCGA-CA-5796 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716        TCGA-CA-6717 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5914        TCGA-CK-5916 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748        TCGA-CK-6751 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746        TCGA-CM-4747 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344        TCGA-CM-5348 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5538        TCGA-D5-5539 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529        TCGA-D5-6532 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535        TCGA-D5-6536 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539        TCGA-D5-6540 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920        TCGA-D5-6922 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926        TCGA-D5-6927 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D4 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA        TCGA-DM-A1HB 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SULT1C4 MUTATED        1      0      0      2
  SULT1C4 WILD-TYPE     99     72     72    119
D1291V7, multiclass
        clus
vv       SULT1C4 MUTATED SULT1C4 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               0                72
  CLUS_3               0                72
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SULT1C4 MUTATED        0      1      0      0      2
  SULT1C4 WILD-TYPE     59     74     74    119     36
D1291V8, multiclass
        clus
vv       SULT1C4 MUTATED SULT1C4 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               0                74
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SULT1C4 MUTATED        0      0      0      0      2
  SULT1C4 WILD-TYPE     51     76     61     71     93
D1291V9, multiclass
[1] "Remove cluster labels:" "SULT1C4 MUTATED"       
clus
  SULT1C4 MUTATED SULT1C4 WILD-TYPE 
                2               352 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-2677        TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-3808        TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-4105 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659        TCGA-A6-5660 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664        TCGA-A6-5665 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-5666        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649        TCGA-A6-6651 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654        TCGA-A6-6780 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3492 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510        TCGA-AA-3511 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517        TCGA-AA-3518 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3527        TCGA-AA-3529 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3538        TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3548        TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3554        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655        TCGA-AA-3660 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3662        TCGA-AA-3663        TCGA-AA-3664        TCGA-AA-3666 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697        TCGA-AA-3710 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715        TCGA-AA-3811 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A00D 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A010        TCGA-AA-A01D 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01P        TCGA-AA-A01R 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01S        TCGA-AA-A01T        TCGA-AA-A01V        TCGA-AA-A01X 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01Z        TCGA-AA-A022        TCGA-AA-A024        TCGA-AA-A029 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02K 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A02O        TCGA-AA-A02Y        TCGA-AA-A03F        TCGA-AA-A03J 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6888        TCGA-AD-6889 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AD-6890        TCGA-AD-6895        TCGA-AD-6899        TCGA-AD-6901 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AU-3779 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AU-6004        TCGA-AY-4070        TCGA-AY-4071        TCGA-AY-5543 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386        TCGA-AZ-4315 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4681        TCGA-AZ-4682 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-5403        TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-6606        TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CA-5255        TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CK-4947        TCGA-CK-4948        TCGA-CK-4950        TCGA-CK-4952 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CK-5912        TCGA-CK-5913        TCGA-CK-5914        TCGA-CK-5915 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6529        TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6535        TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6539        TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6920        TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6926        TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6929 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932        TCGA-D5-7000 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28C 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G        TCGA-DM-A28H 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A28K        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SULT1C4 MUTATED        0      0      0      0      0      0      0      2
  SULT1C4 WILD-TYPE     69     48     39     16     53     20     21     36
                   vv
clus                CLUS_9
  SULT1C4 MUTATED        0
  SULT1C4 WILD-TYPE     50
D1291V10, multiclass
[1] "Remove cluster labels:" "SULT1C4 MUTATED"       
clus
  SULT1C4 MUTATED SULT1C4 WILD-TYPE 
                2               352 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-2677        TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-3808        TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-4105 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659        TCGA-A6-5660 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664        TCGA-A6-5665 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-5666        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649        TCGA-A6-6651 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654        TCGA-A6-6780 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3492 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510        TCGA-AA-3511 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517        TCGA-AA-3518 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3527        TCGA-AA-3529 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3538        TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3548        TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3554        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655        TCGA-AA-3660 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3662        TCGA-AA-3663        TCGA-AA-3664        TCGA-AA-3666 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697        TCGA-AA-3710 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715        TCGA-AA-3811 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A00D 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A010        TCGA-AA-A01D 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01P        TCGA-AA-A01R 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01S        TCGA-AA-A01T        TCGA-AA-A01V        TCGA-AA-A01X 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A01Z        TCGA-AA-A022        TCGA-AA-A024        TCGA-AA-A029 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02K 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AA-A02O        TCGA-AA-A02Y        TCGA-AA-A03F        TCGA-AA-A03J 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6888        TCGA-AD-6889 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AD-6890        TCGA-AD-6895        TCGA-AD-6899        TCGA-AD-6901 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AU-3779 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AU-6004        TCGA-AY-4070        TCGA-AY-4071        TCGA-AY-5543 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386        TCGA-AZ-4315 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4681        TCGA-AZ-4682 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-5403        TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-AZ-6606        TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CA-5255        TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CK-4947        TCGA-CK-4948        TCGA-CK-4950        TCGA-CK-4952 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CK-5912        TCGA-CK-5913        TCGA-CK-5914        TCGA-CK-5915 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6529        TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6535        TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6539        TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6920        TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6926        TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6929 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932        TCGA-D5-7000 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28C 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G        TCGA-DM-A28H 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-DM-A28K        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" "SULT1C4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SULT1C4 MUTATED        0      0      0      0      0      0
  SULT1C4 WILD-TYPE     13     16     14     11     11      9
D1291V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SULT1C4 MUTATED        0      0      0      0      0      0      0      0
  SULT1C4 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  SULT1C4 MUTATED        0
  SULT1C4 WILD-TYPE      5
D1291V12, multiclass

Clustering(1292) Variable = TRAF2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRAF2 MUTATED        1      0      0      0      0
  TRAF2 WILD-TYPE     31     18     46     27     23
D1292V1, multiclass
[1] "Remove cluster labels:" "TRAF2 MUTATED"         
clus
  TRAF2 MUTATED TRAF2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AY-4071 
"TRAF2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRAF2 MUTATED        1      0      0
  TRAF2 WILD-TYPE     42     67     36
D1292V2, multiclass
[1] "Remove cluster labels:" "TRAF2 MUTATED"         
clus
  TRAF2 MUTATED TRAF2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AY-4071 
"TRAF2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRAF2 MUTATED        0      1      6
  TRAF2 WILD-TYPE     42    172    141
D1292V3, multiclass
        clus
vv       TRAF2 MUTATED TRAF2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRAF2 MUTATED        1      0      5
  TRAF2 WILD-TYPE     61     73     70
D1292V4, multiclass
        clus
vv       TRAF2 MUTATED TRAF2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRAF2 MUTATED        2      2      2
  TRAF2 WILD-TYPE     68    118     98
D1292V5, multiclass
        clus
vv       TRAF2 MUTATED TRAF2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRAF2 MUTATED        1      0      0      0      1      2      0      2
  TRAF2 WILD-TYPE     40     26     30     29     38     67     20     12
                 vv
clus              CLUS_9
  TRAF2 MUTATED        0
  TRAF2 WILD-TYPE     22
D1292V6, multiclass
        clus
vv       TRAF2 MUTATED TRAF2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRAF2 MUTATED        1      4      1      1
  TRAF2 WILD-TYPE     99     68     71    120
D1292V7, multiclass
        clus
vv       TRAF2 MUTATED TRAF2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRAF2 MUTATED        0      2      4      0      1
  TRAF2 WILD-TYPE     59     73     70    119     37
D1292V8, multiclass
        clus
vv       TRAF2 MUTATED TRAF2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRAF2 MUTATED        2      3      0      0      2
  TRAF2 WILD-TYPE     49     73     61     71     93
D1292V9, multiclass
        clus
vv       TRAF2 MUTATED TRAF2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRAF2 MUTATED        1      1      0      1      1      2      0      1
  TRAF2 WILD-TYPE     68     47     39     15     52     18     21     37
                 vv
clus              CLUS_9
  TRAF2 MUTATED        0
  TRAF2 WILD-TYPE     50
D1292V10, multiclass
        clus
vv       TRAF2 MUTATED TRAF2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRAF2 MUTATED        0      0      0      0      1      0
  TRAF2 WILD-TYPE     13     16     14     11     10      9
D1292V11, multiclass
[1] "Remove cluster labels:" "TRAF2 MUTATED"         
clus
  TRAF2 MUTATED TRAF2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-G4-6628 
"TRAF2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRAF2 MUTATED        0      0      0      0      0      0      1      0
  TRAF2 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  TRAF2 MUTATED        0
  TRAF2 WILD-TYPE      5
D1292V12, multiclass
[1] "Remove cluster labels:" "TRAF2 MUTATED"         
clus
  TRAF2 MUTATED TRAF2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" "TRAF2 WILD-TYPE" 
     TCGA-G4-6628 
"TRAF2 WILD-TYPE" 

Clustering(1293) Variable = ZNF564 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF564 MUTATED        1      0      0      3      0
  ZNF564 WILD-TYPE     31     18     46     24     23
D1293V1, multiclass
        clus
vv       ZNF564 MUTATED ZNF564 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              3               24
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF564 MUTATED        2      1      1
  ZNF564 WILD-TYPE     41     66     35
D1293V2, multiclass
        clus
vv       ZNF564 MUTATED ZNF564 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF564 MUTATED        1      1      8
  ZNF564 WILD-TYPE     41    172    139
D1293V3, multiclass
        clus
vv       ZNF564 MUTATED ZNF564 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF564 MUTATED        2      2      2
  ZNF564 WILD-TYPE     60     71     73
D1293V4, multiclass
        clus
vv       ZNF564 MUTATED ZNF564 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF564 MUTATED        0      4      3
  ZNF564 WILD-TYPE     70    116     97
D1293V5, multiclass
        clus
vv       ZNF564 MUTATED ZNF564 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF564 MUTATED        2      0      1      1      1      2      0      0
  ZNF564 WILD-TYPE     39     26     29     28     38     67     20     14
                  vv
clus               CLUS_9
  ZNF564 MUTATED        0
  ZNF564 WILD-TYPE     22
D1293V6, multiclass
        clus
vv       ZNF564 MUTATED ZNF564 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF564 MUTATED        1      3      2      4
  ZNF564 WILD-TYPE     99     69     70    117
D1293V7, multiclass
        clus
vv       ZNF564 MUTATED ZNF564 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF564 MUTATED        1      1      4      2      2
  ZNF564 WILD-TYPE     58     74     70    117     36
D1293V8, multiclass
        clus
vv       ZNF564 MUTATED ZNF564 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF564 MUTATED        1      3      1      2      2
  ZNF564 WILD-TYPE     50     73     60     69     93
D1293V9, multiclass
        clus
vv       ZNF564 MUTATED ZNF564 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF564 MUTATED        1      2      0      2      2      1      0      1
  ZNF564 WILD-TYPE     68     46     39     14     51     19     21     37
                  vv
clus               CLUS_9
  ZNF564 MUTATED        0
  ZNF564 WILD-TYPE     50
D1293V10, multiclass
        clus
vv       ZNF564 MUTATED ZNF564 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF564 MUTATED        0      0      0      0      1      0
  ZNF564 WILD-TYPE     13     16     14     11     10      9
D1293V11, multiclass
[1] "Remove cluster labels:" "ZNF564 MUTATED"        
clus
  ZNF564 MUTATED ZNF564 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF564 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF564 MUTATED        0      0      0      0      0      0      1      0
  ZNF564 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  ZNF564 MUTATED        0
  ZNF564 WILD-TYPE      5
D1293V12, multiclass
[1] "Remove cluster labels:" "ZNF564 MUTATED"        
clus
  ZNF564 MUTATED ZNF564 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" "ZNF564 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF564 WILD-TYPE" 

Clustering(1294) Variable = JMJD1C MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JMJD1C MUTATED        4      2      0      1      0
  JMJD1C WILD-TYPE     28     16     46     26     23
D1294V1, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              4               28
  CLUS_2              2               16
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  JMJD1C MUTATED        3      2      2
  JMJD1C WILD-TYPE     40     65     34
D1294V2, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  JMJD1C MUTATED        1      4     19
  JMJD1C WILD-TYPE     41    169    128
D1294V3, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             19              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  JMJD1C MUTATED        8      1      8
  JMJD1C WILD-TYPE     54     72     67
D1294V4, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              8               54
  CLUS_2              1               72
  CLUS_3              8               67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  JMJD1C MUTATED        2      5     12
  JMJD1C WILD-TYPE     68    115     88
D1294V5, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3             12               88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  JMJD1C MUTATED        3      1      1      1      0      8      2      2
  JMJD1C WILD-TYPE     38     25     29     28     39     61     18     12
                  vv
clus               CLUS_9
  JMJD1C MUTATED        1
  JMJD1C WILD-TYPE     21
D1294V6, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              8               61
  CLUS_7              2               18
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  JMJD1C MUTATED        2      7      7      8
  JMJD1C WILD-TYPE     98     65     65    113
D1294V7, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              2               98
  CLUS_2              7               65
  CLUS_3              7               65
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JMJD1C MUTATED        3      5      8      6      2
  JMJD1C WILD-TYPE     56     70     66    113     36
D1294V8, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              3               56
  CLUS_2              5               70
  CLUS_3              8               66
  CLUS_4              6              113
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JMJD1C MUTATED        3      7      4      2      7
  JMJD1C WILD-TYPE     48     69     57     69     88
D1294V9, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              3               48
  CLUS_2              7               69
  CLUS_3              4               57
  CLUS_4              2               69
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  JMJD1C MUTATED        4      4      1      1      4      2      3      2
  JMJD1C WILD-TYPE     65     44     38     15     49     18     18     36
                  vv
clus               CLUS_9
  JMJD1C MUTATED        2
  JMJD1C WILD-TYPE     48
D1294V10, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              4               65
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              4               49
  CLUS_6              2               18
  CLUS_7              3               18
  CLUS_8              2               36
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  JMJD1C MUTATED        0      0      2      1      1      0
  JMJD1C WILD-TYPE     13     16     12     10     10      9
D1294V11, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  JMJD1C MUTATED        0      0      0      0      1      2      1      0
  JMJD1C WILD-TYPE     11      7      7      9      7      5     10      9
                  vv
clus               CLUS_9
  JMJD1C MUTATED        0
  JMJD1C WILD-TYPE      5
D1294V12, multiclass
        clus
vv       JMJD1C MUTATED JMJD1C WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              2                5
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1295) Variable = CCDC111 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC111 MUTATED        0      0      0      1      0
  CCDC111 WILD-TYPE     32     18     46     26     23
D1295V1, multiclass
[1] "Remove cluster labels:" "CCDC111 MUTATED"       
clus
  CCDC111 MUTATED CCDC111 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AY-4071 
"CCDC111 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC111 MUTATED        0      1      0
  CCDC111 WILD-TYPE     43     66     36
D1295V2, multiclass
[1] "Remove cluster labels:" "CCDC111 MUTATED"       
clus
  CCDC111 MUTATED CCDC111 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AY-4071 
"CCDC111 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC111 MUTATED        0      2      5
  CCDC111 WILD-TYPE     42    171    142
D1295V3, multiclass
        clus
vv       CCDC111 MUTATED CCDC111 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC111 MUTATED        2      1      3
  CCDC111 WILD-TYPE     60     72     72
D1295V4, multiclass
        clus
vv       CCDC111 MUTATED CCDC111 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC111 MUTATED        0      3      2
  CCDC111 WILD-TYPE     70    117     98
D1295V5, multiclass
        clus
vv       CCDC111 MUTATED CCDC111 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC111 MUTATED        0      2      1      0      0      2      0      0
  CCDC111 WILD-TYPE     41     24     29     29     39     67     20     14
                   vv
clus                CLUS_9
  CCDC111 MUTATED        0
  CCDC111 WILD-TYPE     22
D1295V6, multiclass
        clus
vv       CCDC111 MUTATED CCDC111 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               2                24
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC111 MUTATED        1      3      2      1
  CCDC111 WILD-TYPE     99     69     70    120
D1295V7, multiclass
        clus
vv       CCDC111 MUTATED CCDC111 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC111 MUTATED        2      2      2      1      0
  CCDC111 WILD-TYPE     57     73     72    118     38
D1295V8, multiclass
        clus
vv       CCDC111 MUTATED CCDC111 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC111 MUTATED        2      1      1      1      2
  CCDC111 WILD-TYPE     49     75     60     70     93
D1295V9, multiclass
        clus
vv       CCDC111 MUTATED CCDC111 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               1                75
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC111 MUTATED        0      2      0      1      0      3      0      0
  CCDC111 WILD-TYPE     69     46     39     15     53     17     21     38
                   vv
clus                CLUS_9
  CCDC111 MUTATED        1
  CCDC111 WILD-TYPE     49
D1295V10, multiclass
        clus
vv       CCDC111 MUTATED CCDC111 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               3                17
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC111 MUTATED        0      0      1      0      1      0
  CCDC111 WILD-TYPE     13     16     13     11     10      9
D1295V11, multiclass
[1] "Remove cluster labels:" "CCDC111 MUTATED"       
clus
  CCDC111 MUTATED CCDC111 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6901 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XF 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC111 MUTATED        0      0      0      1      0      0      0      0
  CCDC111 WILD-TYPE     11      7      7      8      8      7     11      9
                   vv
clus                CLUS_9
  CCDC111 MUTATED        1
  CCDC111 WILD-TYPE      4
D1295V12, multiclass
[1] "Remove cluster labels:" "CCDC111 MUTATED"       
clus
  CCDC111 MUTATED CCDC111 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6901 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XF 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" "CCDC111 WILD-TYPE" 

Clustering(1296) Variable = PAK2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK2 MUTATED        1      0      0      0      0
  PAK2 WILD-TYPE     31     18     46     27     23
D1296V1, multiclass
[1] "Remove cluster labels:" "PAK2 MUTATED"          
clus
  PAK2 MUTATED PAK2 WILD-TYPE 
             1            145 
    TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AY-4071 
"PAK2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK2 MUTATED        1      0      0
  PAK2 WILD-TYPE     42     67     36
D1296V2, multiclass
[1] "Remove cluster labels:" "PAK2 MUTATED"          
clus
  PAK2 MUTATED PAK2 WILD-TYPE 
             1            145 
    TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AY-4071 
"PAK2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK2 MUTATED        0      3      7
  PAK2 WILD-TYPE     42    170    140
D1296V3, multiclass
        clus
vv       PAK2 MUTATED PAK2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK2 MUTATED        3      1      5
  PAK2 WILD-TYPE     59     72     70
D1296V4, multiclass
        clus
vv       PAK2 MUTATED PAK2 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK2 MUTATED        1      3      5
  PAK2 WILD-TYPE     69    117     95
D1296V5, multiclass
        clus
vv       PAK2 MUTATED PAK2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK2 MUTATED        1      0      0      1      1      4      2      0      0
  PAK2 WILD-TYPE     40     26     30     28     38     65     18     14     22
D1296V6, multiclass
        clus
vv       PAK2 MUTATED PAK2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAK2 MUTATED        2      4      2      2
  PAK2 WILD-TYPE     98     68     70    119
D1296V7, multiclass
        clus
vv       PAK2 MUTATED PAK2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK2 MUTATED        1      2      5      1      1
  PAK2 WILD-TYPE     58     73     69    118     37
D1296V8, multiclass
        clus
vv       PAK2 MUTATED PAK2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK2 MUTATED        2      6      1      0      1
  PAK2 WILD-TYPE     49     70     60     71     94
D1296V9, multiclass
        clus
vv       PAK2 MUTATED PAK2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK2 MUTATED        2      1      0      2      3      1      0      1      0
  PAK2 WILD-TYPE     67     47     39     14     50     19     21     37     50
D1296V10, multiclass
        clus
vv       PAK2 MUTATED PAK2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAK2 MUTATED        0      0      0      0      2      0
  PAK2 WILD-TYPE     13     16     14     11      9      9
D1296V11, multiclass
[1] "Remove cluster labels:" "PAK2 MUTATED"          
clus
  PAK2 MUTATED PAK2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PAK2 MUTATED        0      0      0      0      1      1      0      0      0
  PAK2 WILD-TYPE     11      7      7      9      7      6     11      9      5
D1296V12, multiclass
[1] "Remove cluster labels:" "PAK2 MUTATED"          
clus
  PAK2 MUTATED PAK2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" "PAK2 WILD-TYPE" 

Clustering(1297) Variable = SGOL2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGOL2 MUTATED        1      0      0      1      0
  SGOL2 WILD-TYPE     31     18     46     26     23
D1297V1, multiclass
[1] "Remove cluster labels:" "SGOL2 MUTATED"         
clus
  SGOL2 MUTATED SGOL2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SGOL2 MUTATED        1      1      0
  SGOL2 WILD-TYPE     42     66     36
D1297V2, multiclass
[1] "Remove cluster labels:" "SGOL2 MUTATED"         
clus
  SGOL2 MUTATED SGOL2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SGOL2 MUTATED        0      3      9
  SGOL2 WILD-TYPE     42    170    138
D1297V3, multiclass
        clus
vv       SGOL2 MUTATED SGOL2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SGOL2 MUTATED        4      3      3
  SGOL2 WILD-TYPE     58     70     72
D1297V4, multiclass
        clus
vv       SGOL2 MUTATED SGOL2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SGOL2 MUTATED        1      3      7
  SGOL2 WILD-TYPE     69    117     93
D1297V5, multiclass
        clus
vv       SGOL2 MUTATED SGOL2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SGOL2 MUTATED        2      0      1      1      1      4      1      0
  SGOL2 WILD-TYPE     39     26     29     28     38     65     19     14
                 vv
clus              CLUS_9
  SGOL2 MUTATED        1
  SGOL2 WILD-TYPE     21
D1297V6, multiclass
        clus
vv       SGOL2 MUTATED SGOL2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SGOL2 MUTATED        1      4      5      2
  SGOL2 WILD-TYPE     99     68     67    119
D1297V7, multiclass
        clus
vv       SGOL2 MUTATED SGOL2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             5              67
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGOL2 MUTATED        3      2      5      1      1
  SGOL2 WILD-TYPE     56     73     69    118     37
D1297V8, multiclass
        clus
vv       SGOL2 MUTATED SGOL2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGOL2 MUTATED        2      5      2      0      3
  SGOL2 WILD-TYPE     49     71     59     71     92
D1297V9, multiclass
        clus
vv       SGOL2 MUTATED SGOL2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SGOL2 MUTATED        1      4      0      1      2      2      0      1
  SGOL2 WILD-TYPE     68     44     39     15     51     18     21     37
                 vv
clus              CLUS_9
  SGOL2 MUTATED        1
  SGOL2 WILD-TYPE     49
D1297V10, multiclass
        clus
vv       SGOL2 MUTATED SGOL2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SGOL2 MUTATED        0      0      0      1      1      0
  SGOL2 WILD-TYPE     13     16     14     10     10      9
D1297V11, multiclass
[1] "Remove cluster labels:" "SGOL2 MUTATED"         
clus
  SGOL2 MUTATED SGOL2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SGOL2 MUTATED        0      0      1      0      0      0      1      0
  SGOL2 WILD-TYPE     11      7      6      9      8      7     10      9
                 vv
clus              CLUS_9
  SGOL2 MUTATED        0
  SGOL2 WILD-TYPE      5
D1297V12, multiclass
[1] "Remove cluster labels:" "SGOL2 MUTATED"         
clus
  SGOL2 MUTATED SGOL2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" "SGOL2 WILD-TYPE" 

Clustering(1298) Variable = HECW2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HECW2 MUTATED        4      0      0      3      1
  HECW2 WILD-TYPE     28     18     46     24     22
D1298V1, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HECW2 MUTATED        6      1      1
  HECW2 WILD-TYPE     37     66     35
D1298V2, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HECW2 MUTATED        1      7     20
  HECW2 WILD-TYPE     41    166    127
D1298V3, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             7             166
  CLUS_3            20             127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HECW2 MUTATED        7      7      5
  HECW2 WILD-TYPE     55     66     70
D1298V4, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             7              66
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HECW2 MUTATED        3      7     14
  HECW2 WILD-TYPE     67    113     86
D1298V5, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             7             113
  CLUS_3            14              86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HECW2 MUTATED        4      4      2      1      1     11      0      0
  HECW2 WILD-TYPE     37     22     28     28     38     58     20     14
                 vv
clus              CLUS_9
  HECW2 MUTATED        1
  HECW2 WILD-TYPE     21
D1298V6, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             4              22
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6            11              58
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HECW2 MUTATED        6      5      9      8
  HECW2 WILD-TYPE     94     67     63    113
D1298V7, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             6              94
  CLUS_2             5              67
  CLUS_3             9              63
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HECW2 MUTATED        4      7      8      4      5
  HECW2 WILD-TYPE     55     68     66    115     33
D1298V8, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             7              68
  CLUS_3             8              66
  CLUS_4             4             115
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HECW2 MUTATED        3      9      4      1     10
  HECW2 WILD-TYPE     48     67     57     70     85
D1298V9, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             9              67
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5            10              85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HECW2 MUTATED        2      9      3      2      1      2      1      4
  HECW2 WILD-TYPE     67     39     36     14     52     18     20     34
                 vv
clus              CLUS_9
  HECW2 MUTATED        3
  HECW2 WILD-TYPE     47
D1298V10, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             9              39
  CLUS_3             3              36
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HECW2 MUTATED        0      2      1      2      3      0
  HECW2 WILD-TYPE     13     14     13      9      8      9
D1298V11, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             2               9
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HECW2 MUTATED        1      0      1      1      0      1      3      1
  HECW2 WILD-TYPE     10      7      6      8      8      6      8      8
                 vv
clus              CLUS_9
  HECW2 MUTATED        0
  HECW2 WILD-TYPE      5
D1298V12, multiclass
        clus
vv       HECW2 MUTATED HECW2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             3               8
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1299) Variable = BTNL3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTNL3 MUTATED        0      0      0      0      0
  BTNL3 WILD-TYPE     32     18     46     27     23
D1299V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTNL3 MUTATED        0      0      0
  BTNL3 WILD-TYPE     43     67     36
D1299V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTNL3 MUTATED        0      0      7
  BTNL3 WILD-TYPE     42    173    140
D1299V3, multiclass
        clus
vv       BTNL3 MUTATED BTNL3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTNL3 MUTATED        3      0      4
  BTNL3 WILD-TYPE     59     73     71
D1299V4, multiclass
        clus
vv       BTNL3 MUTATED BTNL3 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTNL3 MUTATED        0      2      5
  BTNL3 WILD-TYPE     70    118     95
D1299V5, multiclass
        clus
vv       BTNL3 MUTATED BTNL3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTNL3 MUTATED        1      0      0      2      0      4      0      0
  BTNL3 WILD-TYPE     40     26     30     27     39     65     20     14
                 vv
clus              CLUS_9
  BTNL3 MUTATED        0
  BTNL3 WILD-TYPE     22
D1299V6, multiclass
        clus
vv       BTNL3 MUTATED BTNL3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BTNL3 MUTATED        0      5      2      0
  BTNL3 WILD-TYPE    100     67     70    121
D1299V7, multiclass
        clus
vv       BTNL3 MUTATED BTNL3 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTNL3 MUTATED        1      0      6      0      0
  BTNL3 WILD-TYPE     58     75     68    119     38
D1299V8, multiclass
        clus
vv       BTNL3 MUTATED BTNL3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             6              68
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTNL3 MUTATED        0      6      1      0      0
  BTNL3 WILD-TYPE     51     70     60     71     95
D1299V9, multiclass
        clus
vv       BTNL3 MUTATED BTNL3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTNL3 MUTATED        3      2      0      2      0      0      0      0
  BTNL3 WILD-TYPE     66     46     39     14     53     20     21     38
                 vv
clus              CLUS_9
  BTNL3 MUTATED        0
  BTNL3 WILD-TYPE     50
D1299V10, multiclass
        clus
vv       BTNL3 MUTATED BTNL3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BTNL3 MUTATED        0      0      0      0      1      0
  BTNL3 WILD-TYPE     13     16     14     11     10      9
D1299V11, multiclass
[1] "Remove cluster labels:" "BTNL3 MUTATED"         
clus
  BTNL3 MUTATED BTNL3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-G4-6628 
"BTNL3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTNL3 MUTATED        0      0      0      0      0      1      0      0
  BTNL3 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  BTNL3 MUTATED        0
  BTNL3 WILD-TYPE      5
D1299V12, multiclass
[1] "Remove cluster labels:" "BTNL3 MUTATED"         
clus
  BTNL3 MUTATED BTNL3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" "BTNL3 WILD-TYPE" 
     TCGA-G4-6628 
"BTNL3 WILD-TYPE" 

Clustering(1300) Variable = ATF2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATF2 MUTATED        0      0      0      0      0
  ATF2 WILD-TYPE     32     18     46     27     23
D1300V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATF2 MUTATED        0      0      0
  ATF2 WILD-TYPE     43     67     36
D1300V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATF2 MUTATED        1      3      1
  ATF2 WILD-TYPE     41    170    146
D1300V3, multiclass
        clus
vv       ATF2 MUTATED ATF2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            1            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATF2 MUTATED        1      2      2
  ATF2 WILD-TYPE     61     71     73
D1300V4, multiclass
        clus
vv       ATF2 MUTATED ATF2 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATF2 MUTATED        1      3      2
  ATF2 WILD-TYPE     69    117     98
D1300V5, multiclass
        clus
vv       ATF2 MUTATED ATF2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATF2 MUTATED        0      0      0      0      0      2      1      1      2
  ATF2 WILD-TYPE     41     26     30     29     39     67     19     13     20
D1300V6, multiclass
        clus
vv       ATF2 MUTATED ATF2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATF2 MUTATED        3      1      2      0
  ATF2 WILD-TYPE     97     71     70    121
D1300V7, multiclass
        clus
vv       ATF2 MUTATED ATF2 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATF2 MUTATED        0      4      2      0      0
  ATF2 WILD-TYPE     59     71     72    119     38
D1300V8, multiclass
        clus
vv       ATF2 MUTATED ATF2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            4             71
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATF2 MUTATED        2      1      2      0      1
  ATF2 WILD-TYPE     49     75     59     71     94
D1300V9, multiclass
        clus
vv       ATF2 MUTATED ATF2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            1             75
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATF2 MUTATED        0      2      1      0      2      1      0      0      0
  ATF2 WILD-TYPE     69     46     38     16     51     19     21     38     50
D1300V10, multiclass
        clus
vv       ATF2 MUTATED ATF2 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATF2 MUTATED        0      0      0      0      1      0
  ATF2 WILD-TYPE     13     16     14     11     10      9
D1300V11, multiclass
[1] "Remove cluster labels:" "ATF2 MUTATED"          
clus
  ATF2 MUTATED ATF2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-G4-6628 
"ATF2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATF2 MUTATED        0      0      0      0      0      0      1      0      0
  ATF2 WILD-TYPE     11      7      7      9      8      7     10      9      5
D1300V12, multiclass
[1] "Remove cluster labels:" "ATF2 MUTATED"          
clus
  ATF2 MUTATED ATF2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" "ATF2 WILD-TYPE" 
    TCGA-G4-6628 
"ATF2 WILD-TYPE" 

Clustering(1301) Variable = STK38L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK38L MUTATED        0      0      0      2      0
  STK38L WILD-TYPE     32     18     46     25     23
D1301V1, multiclass
[1] "Remove cluster labels:" "STK38L MUTATED"        
clus
  STK38L MUTATED STK38L WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STK38L MUTATED        1      1      0
  STK38L WILD-TYPE     42     66     36
D1301V2, multiclass
[1] "Remove cluster labels:" "STK38L MUTATED"        
clus
  STK38L MUTATED STK38L WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STK38L MUTATED        2      1      4
  STK38L WILD-TYPE     40    172    143
D1301V3, multiclass
        clus
vv       STK38L MUTATED STK38L WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1              172
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STK38L MUTATED        3      0      2
  STK38L WILD-TYPE     59     73     73
D1301V4, multiclass
        clus
vv       STK38L MUTATED STK38L WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STK38L MUTATED        3      1      2
  STK38L WILD-TYPE     67    119     98
D1301V5, multiclass
        clus
vv       STK38L MUTATED STK38L WILD-TYPE
  CLUS_1              3               67
  CLUS_2              1              119
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK38L MUTATED        0      0      1      0      1      2      0      2
  STK38L WILD-TYPE     41     26     29     29     38     67     20     12
                  vv
clus               CLUS_9
  STK38L MUTATED        0
  STK38L WILD-TYPE     22
D1301V6, multiclass
        clus
vv       STK38L MUTATED STK38L WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK38L MUTATED        1      3      1      2
  STK38L WILD-TYPE     99     69     71    119
D1301V7, multiclass
        clus
vv       STK38L MUTATED STK38L WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK38L MUTATED        1      2      2      1      1
  STK38L WILD-TYPE     58     73     72    118     37
D1301V8, multiclass
        clus
vv       STK38L MUTATED STK38L WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK38L MUTATED        0      4      1      0      1
  STK38L WILD-TYPE     51     72     60     71     94
D1301V9, multiclass
        clus
vv       STK38L MUTATED STK38L WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK38L MUTATED        3      0      0      0      2      1      0      0
  STK38L WILD-TYPE     66     48     39     16     51     19     21     38
                  vv
clus               CLUS_9
  STK38L MUTATED        0
  STK38L WILD-TYPE     50
D1301V10, multiclass
        clus
vv       STK38L MUTATED STK38L WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK38L MUTATED        0      0      1      0      0      0
  STK38L WILD-TYPE     13     16     13     11     11      9
D1301V11, multiclass
[1] "Remove cluster labels:" "STK38L MUTATED"        
clus
  STK38L MUTATED STK38L WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-G4-6628 
"STK38L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK38L MUTATED        0      0      0      0      1      0      0      0
  STK38L WILD-TYPE     11      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  STK38L MUTATED        0
  STK38L WILD-TYPE      5
D1301V12, multiclass
[1] "Remove cluster labels:" "STK38L MUTATED"        
clus
  STK38L MUTATED STK38L WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" "STK38L WILD-TYPE" 
      TCGA-G4-6628 
"STK38L WILD-TYPE" 

Clustering(1302) Variable = B4GALT6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  B4GALT6 MUTATED        3      0      0      1      0
  B4GALT6 WILD-TYPE     29     18     46     26     23
D1302V1, multiclass
        clus
vv       B4GALT6 MUTATED B4GALT6 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  B4GALT6 MUTATED        3      1      0
  B4GALT6 WILD-TYPE     40     66     36
D1302V2, multiclass
        clus
vv       B4GALT6 MUTATED B4GALT6 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  B4GALT6 MUTATED        1      0      9
  B4GALT6 WILD-TYPE     41    173    138
D1302V3, multiclass
        clus
vv       B4GALT6 MUTATED B4GALT6 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               0               173
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  B4GALT6 MUTATED        4      0      1
  B4GALT6 WILD-TYPE     58     73     74
D1302V4, multiclass
        clus
vv       B4GALT6 MUTATED B4GALT6 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               0                73
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  B4GALT6 MUTATED        2      4      2
  B4GALT6 WILD-TYPE     68    116     98
D1302V5, multiclass
        clus
vv       B4GALT6 MUTATED B4GALT6 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               4               116
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  B4GALT6 MUTATED        3      0      2      1      0      1      1      0
  B4GALT6 WILD-TYPE     38     26     28     28     39     68     19     14
                   vv
clus                CLUS_9
  B4GALT6 MUTATED        0
  B4GALT6 WILD-TYPE     22
D1302V6, multiclass
        clus
vv       B4GALT6 MUTATED B4GALT6 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  B4GALT6 MUTATED        0      2      3      5
  B4GALT6 WILD-TYPE    100     70     69    116
D1302V7, multiclass
        clus
vv       B4GALT6 MUTATED B4GALT6 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  B4GALT6 MUTATED        0      1      4      1      4
  B4GALT6 WILD-TYPE     59     74     70    118     34
D1302V8, multiclass
        clus
vv       B4GALT6 MUTATED B4GALT6 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  B4GALT6 MUTATED        0      1      3      0      6
  B4GALT6 WILD-TYPE     51     75     58     71     89
D1302V9, multiclass
        clus
vv       B4GALT6 MUTATED B4GALT6 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               1                75
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  B4GALT6 MUTATED        0      4      0      0      0      1      0      4
  B4GALT6 WILD-TYPE     69     44     39     16     53     19     21     34
                   vv
clus                CLUS_9
  B4GALT6 MUTATED        1
  B4GALT6 WILD-TYPE     49
D1302V10, multiclass
        clus
vv       B4GALT6 MUTATED B4GALT6 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               4                34
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  B4GALT6 MUTATED        0      1      0      1      0      0
  B4GALT6 WILD-TYPE     13     15     14     10     11      9
D1302V11, multiclass
[1] "Remove cluster labels:" "B4GALT6 MUTATED"       
clus
  B4GALT6 MUTATED B4GALT6 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  B4GALT6 MUTATED        0      0      0      0      0      1      1      0
  B4GALT6 WILD-TYPE     11      7      7      9      8      6     10      9
                   vv
clus                CLUS_9
  B4GALT6 MUTATED        0
  B4GALT6 WILD-TYPE      5
D1302V12, multiclass
[1] "Remove cluster labels:" "B4GALT6 MUTATED"       
clus
  B4GALT6 MUTATED B4GALT6 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" "B4GALT6 WILD-TYPE" 

Clustering(1303) Variable = MFSD4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFSD4 MUTATED        0      1      0      1      0
  MFSD4 WILD-TYPE     32     17     46     26     23
D1303V1, multiclass
[1] "Remove cluster labels:" "MFSD4 MUTATED"         
clus
  MFSD4 MUTATED MFSD4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3521 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00W      TCGA-AA-A00Z 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD4 MUTATED        0      2      0
  MFSD4 WILD-TYPE     43     65     36
D1303V2, multiclass
[1] "Remove cluster labels:" "MFSD4 MUTATED"         
clus
  MFSD4 MUTATED MFSD4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3521 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00W      TCGA-AA-A00Z 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD4 MUTATED        1      2      3
  MFSD4 WILD-TYPE     41    171    144
D1303V3, multiclass
        clus
vv       MFSD4 MUTATED MFSD4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD4 MUTATED        2      0      2
  MFSD4 WILD-TYPE     60     73     73
D1303V4, multiclass
        clus
vv       MFSD4 MUTATED MFSD4 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFSD4 MUTATED        1      3      2
  MFSD4 WILD-TYPE     69    117     98
D1303V5, multiclass
        clus
vv       MFSD4 MUTATED MFSD4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MFSD4 MUTATED        1      1      1      0      0      1      1      1
  MFSD4 WILD-TYPE     40     25     29     29     39     68     19     13
                 vv
clus              CLUS_9
  MFSD4 MUTATED        0
  MFSD4 WILD-TYPE     22
D1303V6, multiclass
        clus
vv       MFSD4 MUTATED MFSD4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MFSD4 MUTATED        1      2      1      2
  MFSD4 WILD-TYPE     99     70     71    119
D1303V7, multiclass
        clus
vv       MFSD4 MUTATED MFSD4 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFSD4 MUTATED        1      2      1      2      0
  MFSD4 WILD-TYPE     58     73     73    117     38
D1303V8, multiclass
        clus
vv       MFSD4 MUTATED MFSD4 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             1              73
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFSD4 MUTATED        0      1      2      1      2
  MFSD4 WILD-TYPE     51     75     59     70     93
D1303V9, multiclass
        clus
vv       MFSD4 MUTATED MFSD4 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MFSD4 MUTATED        0      1      3      1      0      0      0      0
  MFSD4 WILD-TYPE     69     47     36     15     53     20     21     38
                 vv
clus              CLUS_9
  MFSD4 MUTATED        1
  MFSD4 WILD-TYPE     49
D1303V10, multiclass
        clus
vv       MFSD4 MUTATED MFSD4 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             3              36
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MFSD4 MUTATED        0      0      0      0      1      0
  MFSD4 WILD-TYPE     13     16     14     11     10      9
D1303V11, multiclass
[1] "Remove cluster labels:" "MFSD4 MUTATED"         
clus
  MFSD4 MUTATED MFSD4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-G4-6628 
"MFSD4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MFSD4 MUTATED        0      0      0      1      0      0      0      0
  MFSD4 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  MFSD4 MUTATED        0
  MFSD4 WILD-TYPE      5
D1303V12, multiclass
[1] "Remove cluster labels:" "MFSD4 MUTATED"         
clus
  MFSD4 MUTATED MFSD4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" "MFSD4 WILD-TYPE" 
     TCGA-G4-6628 
"MFSD4 WILD-TYPE" 

Clustering(1304) Variable = LRRC6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC6 MUTATED        0      0      0      0      0
  LRRC6 WILD-TYPE     32     18     46     27     23
D1304V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRC6 MUTATED        0      0      0
  LRRC6 WILD-TYPE     43     67     36
D1304V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRC6 MUTATED        1      2      0
  LRRC6 WILD-TYPE     41    171    147
D1304V3, multiclass
        clus
vv       LRRC6 MUTATED LRRC6 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             0             147
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRC6 MUTATED        2      1      0
  LRRC6 WILD-TYPE     60     72     75
D1304V4, multiclass
        clus
vv       LRRC6 MUTATED LRRC6 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRC6 MUTATED        0      1      2
  LRRC6 WILD-TYPE     70    119     98
D1304V5, multiclass
        clus
vv       LRRC6 MUTATED LRRC6 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC6 MUTATED        1      0      0      0      0      2      0      0
  LRRC6 WILD-TYPE     40     26     30     29     39     67     20     14
                 vv
clus              CLUS_9
  LRRC6 MUTATED        0
  LRRC6 WILD-TYPE     22
D1304V6, multiclass
        clus
vv       LRRC6 MUTATED LRRC6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRRC6 MUTATED        1      0      2      0
  LRRC6 WILD-TYPE     99     72     70    121
D1304V7, multiclass
        clus
vv       LRRC6 MUTATED LRRC6 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             0              72
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC6 MUTATED        1      1      1      0      0
  LRRC6 WILD-TYPE     58     74     73    119     38
D1304V8, multiclass
        clus
vv       LRRC6 MUTATED LRRC6 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRC6 MUTATED        1      0      2      0      0
  LRRC6 WILD-TYPE     50     76     59     71     95
D1304V9, multiclass
        clus
vv       LRRC6 MUTATED LRRC6 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             0              76
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC6 MUTATED        0      1      0      0      1      1      0      0
  LRRC6 WILD-TYPE     69     47     39     16     52     19     21     38
                 vv
clus              CLUS_9
  LRRC6 MUTATED        0
  LRRC6 WILD-TYPE     50
D1304V10, multiclass
        clus
vv       LRRC6 MUTATED LRRC6 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LRRC6 MUTATED        1      1      0      1      0      0
  LRRC6 WILD-TYPE     12     15     14     10     11      9
D1304V11, multiclass
        clus
vv       LRRC6 MUTATED LRRC6 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRC6 MUTATED        0      0      0      0      0      2      0      0
  LRRC6 WILD-TYPE     11      7      7      9      8      5     11      9
                 vv
clus              CLUS_9
  LRRC6 MUTATED        1
  LRRC6 WILD-TYPE      4
D1304V12, multiclass
        clus
vv       LRRC6 MUTATED LRRC6 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             2               5
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1305) Variable = MPP7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPP7 MUTATED        1      0      0      0      0
  MPP7 WILD-TYPE     31     18     46     27     23
D1305V1, multiclass
[1] "Remove cluster labels:" "MPP7 MUTATED"          
clus
  MPP7 MUTATED MPP7 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3526 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AY-4071 
"MPP7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MPP7 MUTATED        1      0      0
  MPP7 WILD-TYPE     42     67     36
D1305V2, multiclass
[1] "Remove cluster labels:" "MPP7 MUTATED"          
clus
  MPP7 MUTATED MPP7 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3526 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AY-4071 
"MPP7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MPP7 MUTATED        1      3      1
  MPP7 WILD-TYPE     41    170    146
D1305V3, multiclass
        clus
vv       MPP7 MUTATED MPP7 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            1            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MPP7 MUTATED        1      2      1
  MPP7 WILD-TYPE     61     71     74
D1305V4, multiclass
        clus
vv       MPP7 MUTATED MPP7 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MPP7 MUTATED        1      4      0
  MPP7 WILD-TYPE     69    116    100
D1305V5, multiclass
        clus
vv       MPP7 MUTATED MPP7 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            0            100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MPP7 MUTATED        0      0      2      0      1      1      1      0      0
  MPP7 WILD-TYPE     41     26     28     29     38     68     19     14     22
D1305V6, multiclass
        clus
vv       MPP7 MUTATED MPP7 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MPP7 MUTATED        2      2      1      0
  MPP7 WILD-TYPE     98     70     71    121
D1305V7, multiclass
        clus
vv       MPP7 MUTATED MPP7 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPP7 MUTATED        1      3      0      0      1
  MPP7 WILD-TYPE     58     72     74    119     37
D1305V8, multiclass
        clus
vv       MPP7 MUTATED MPP7 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            0             74
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPP7 MUTATED        0      1      1      2      1
  MPP7 WILD-TYPE     51     75     60     69     94
D1305V9, multiclass
        clus
vv       MPP7 MUTATED MPP7 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MPP7 MUTATED        2      0      0      0      2      0      0      1      0
  MPP7 WILD-TYPE     67     48     39     16     51     20     21     37     50
D1305V10, multiclass
        clus
vv       MPP7 MUTATED MPP7 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MPP7 MUTATED        1      0      0      0      0      0
  MPP7 WILD-TYPE     12     16     14     11     11      9
D1305V11, multiclass
[1] "Remove cluster labels:" "MPP7 MUTATED"          
clus
  MPP7 MUTATED MPP7 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-F4-6459     TCGA-F4-6460 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-G4-6628 
"MPP7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MPP7 MUTATED        0      0      0      1      0      0      0      0      0
  MPP7 WILD-TYPE     11      7      7      8      8      7     11      9      5
D1305V12, multiclass
[1] "Remove cluster labels:" "MPP7 MUTATED"          
clus
  MPP7 MUTATED MPP7 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-F4-6459     TCGA-F4-6460 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-G4-6628 
"MPP7 WILD-TYPE" 

Clustering(1306) Variable = IKBKE MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IKBKE MUTATED        1      0      0      0      0
  IKBKE WILD-TYPE     31     18     46     27     23
D1306V1, multiclass
[1] "Remove cluster labels:" "IKBKE MUTATED"         
clus
  IKBKE MUTATED IKBKE WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AY-4071 
"IKBKE WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKBKE MUTATED        0      0      1
  IKBKE WILD-TYPE     43     67     35
D1306V2, multiclass
[1] "Remove cluster labels:" "IKBKE MUTATED"         
clus
  IKBKE MUTATED IKBKE WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" "IKBKE WILD-TYPE" 
     TCGA-AY-4071 
"IKBKE WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKBKE MUTATED        1      2      4
  IKBKE WILD-TYPE     41    171    143
D1306V3, multiclass
        clus
vv       IKBKE MUTATED IKBKE WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKBKE MUTATED        0      1      4
  IKBKE WILD-TYPE     62     72     71
D1306V4, multiclass
        clus
vv       IKBKE MUTATED IKBKE WILD-TYPE
  CLUS_1             0              62
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IKBKE MUTATED        1      4      1
  IKBKE WILD-TYPE     69    116     99
D1306V5, multiclass
        clus
vv       IKBKE MUTATED IKBKE WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IKBKE MUTATED        1      0      2      1      1      0      1      0
  IKBKE WILD-TYPE     40     26     28     28     38     69     19     14
                 vv
clus              CLUS_9
  IKBKE MUTATED        0
  IKBKE WILD-TYPE     22
D1306V6, multiclass
        clus
vv       IKBKE MUTATED IKBKE WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             0              69
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IKBKE MUTATED        1      3      1      2
  IKBKE WILD-TYPE     99     69     71    119
D1306V7, multiclass
        clus
vv       IKBKE MUTATED IKBKE WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IKBKE MUTATED        1      1      3      1      1
  IKBKE WILD-TYPE     58     74     71    118     37
D1306V8, multiclass
        clus
vv       IKBKE MUTATED IKBKE WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IKBKE MUTATED        0      2      1      2      2
  IKBKE WILD-TYPE     51     74     60     69     93
D1306V9, multiclass
        clus
vv       IKBKE MUTATED IKBKE WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IKBKE MUTATED        1      1      0      1      2      0      0      2
  IKBKE WILD-TYPE     68     47     39     15     51     20     21     36
                 vv
clus              CLUS_9
  IKBKE MUTATED        0
  IKBKE WILD-TYPE     50
D1306V10, multiclass
        clus
vv       IKBKE MUTATED IKBKE WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IKBKE MUTATED        1      0      0      1      1      0
  IKBKE WILD-TYPE     12     16     14     10     10      9
D1306V11, multiclass
        clus
vv       IKBKE MUTATED IKBKE WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IKBKE MUTATED        0      0      1      1      0      0      0      1
  IKBKE WILD-TYPE     11      7      6      8      8      7     11      8
                 vv
clus              CLUS_9
  IKBKE MUTATED        0
  IKBKE WILD-TYPE      5
D1306V12, multiclass
        clus
vv       IKBKE MUTATED IKBKE WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1307) Variable = MRPS22 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPS22 MUTATED        1      0      0      1      0
  MRPS22 WILD-TYPE     31     18     46     26     23
D1307V1, multiclass
[1] "Remove cluster labels:" "MRPS22 MUTATED"        
clus
  MRPS22 MUTATED MRPS22 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPS22 MUTATED        1      1      0
  MRPS22 WILD-TYPE     42     66     36
D1307V2, multiclass
[1] "Remove cluster labels:" "MRPS22 MUTATED"        
clus
  MRPS22 MUTATED MRPS22 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPS22 MUTATED        0      3      7
  MRPS22 WILD-TYPE     42    170    140
D1307V3, multiclass
        clus
vv       MRPS22 MUTATED MRPS22 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPS22 MUTATED        2      3      3
  MRPS22 WILD-TYPE     60     70     72
D1307V4, multiclass
        clus
vv       MRPS22 MUTATED MRPS22 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3               70
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPS22 MUTATED        0      4      5
  MRPS22 WILD-TYPE     70    116     95
D1307V5, multiclass
        clus
vv       MRPS22 MUTATED MRPS22 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPS22 MUTATED        0      0      3      0      0      4      2      0
  MRPS22 WILD-TYPE     41     26     27     29     39     65     18     14
                  vv
clus               CLUS_9
  MRPS22 MUTATED        0
  MRPS22 WILD-TYPE     22
D1307V6, multiclass
        clus
vv       MRPS22 MUTATED MRPS22 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              3               27
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MRPS22 MUTATED        3      4      1      2
  MRPS22 WILD-TYPE     97     68     71    119
D1307V7, multiclass
        clus
vv       MRPS22 MUTATED MRPS22 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              4               68
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPS22 MUTATED        1      3      4      1      1
  MRPS22 WILD-TYPE     58     72     70    118     37
D1307V8, multiclass
        clus
vv       MRPS22 MUTATED MRPS22 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPS22 MUTATED        1      5      1      1      2
  MRPS22 WILD-TYPE     50     71     60     70     93
D1307V9, multiclass
        clus
vv       MRPS22 MUTATED MRPS22 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPS22 MUTATED        3      1      0      3      1      1      0      1
  MRPS22 WILD-TYPE     66     47     39     13     52     19     21     37
                  vv
clus               CLUS_9
  MRPS22 MUTATED        0
  MRPS22 WILD-TYPE     50
D1307V10, multiclass
        clus
vv       MRPS22 MUTATED MRPS22 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MRPS22 MUTATED        1      0      0      0      0      0
  MRPS22 WILD-TYPE     12     16     14     11     11      9
D1307V11, multiclass
[1] "Remove cluster labels:" "MRPS22 MUTATED"        
clus
  MRPS22 MUTATED MRPS22 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6605 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-G4-6628 
"MRPS22 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPS22 MUTATED        0      0      1      0      0      0      0      0
  MRPS22 WILD-TYPE     11      7      6      9      8      7     11      9
                  vv
clus               CLUS_9
  MRPS22 MUTATED        0
  MRPS22 WILD-TYPE      5
D1307V12, multiclass
[1] "Remove cluster labels:" "MRPS22 MUTATED"        
clus
  MRPS22 MUTATED MRPS22 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6605 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" "MRPS22 WILD-TYPE" 
      TCGA-G4-6628 
"MRPS22 WILD-TYPE" 

Clustering(1308) Variable = HEATR4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HEATR4 MUTATED        2      0      0      0      1
  HEATR4 WILD-TYPE     30     18     46     27     22
D1308V1, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HEATR4 MUTATED        2      0      1
  HEATR4 WILD-TYPE     41     67     35
D1308V2, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HEATR4 MUTATED        0      2     12
  HEATR4 WILD-TYPE     42    171    135
D1308V3, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HEATR4 MUTATED        6      0      4
  HEATR4 WILD-TYPE     56     73     71
D1308V4, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HEATR4 MUTATED        2      2      9
  HEATR4 WILD-TYPE     68    118     91
D1308V5, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HEATR4 MUTATED        1      1      1      1      1      4      2      1
  HEATR4 WILD-TYPE     40     25     29     28     38     65     18     13
                  vv
clus               CLUS_9
  HEATR4 MUTATED        1
  HEATR4 WILD-TYPE     21
D1308V6, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HEATR4 MUTATED        1      5      4      4
  HEATR4 WILD-TYPE     99     67     68    117
D1308V7, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              5               67
  CLUS_3              4               68
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HEATR4 MUTATED        1      1      8      3      1
  HEATR4 WILD-TYPE     58     74     66    116     37
D1308V8, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              8               66
  CLUS_4              3              116
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HEATR4 MUTATED        0      5      2      3      3
  HEATR4 WILD-TYPE     51     71     59     68     92
D1308V9, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              3               68
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HEATR4 MUTATED        1      2      2      2      2      1      1      2
  HEATR4 WILD-TYPE     68     46     37     14     51     19     20     36
                  vv
clus               CLUS_9
  HEATR4 MUTATED        0
  HEATR4 WILD-TYPE     50
D1308V10, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              2               37
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HEATR4 MUTATED        0      0      2      0      1      1
  HEATR4 WILD-TYPE     13     16     12     11     10      8
D1308V11, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HEATR4 MUTATED        0      0      0      0      2      0      1      1
  HEATR4 WILD-TYPE     11      7      7      9      6      7     10      8
                  vv
clus               CLUS_9
  HEATR4 MUTATED        0
  HEATR4 WILD-TYPE      5
D1308V12, multiclass
        clus
vv       HEATR4 MUTATED HEATR4 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1309) Variable = PSMD11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMD11 MUTATED        0      0      0      2      0
  PSMD11 WILD-TYPE     32     18     46     25     23
D1309V1, multiclass
[1] "Remove cluster labels:" "PSMD11 MUTATED"        
clus
  PSMD11 MUTATED PSMD11 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PSMD11 MUTATED        1      1      0
  PSMD11 WILD-TYPE     42     66     36
D1309V2, multiclass
[1] "Remove cluster labels:" "PSMD11 MUTATED"        
clus
  PSMD11 MUTATED PSMD11 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PSMD11 MUTATED        2      1      5
  PSMD11 WILD-TYPE     40    172    142
D1309V3, multiclass
        clus
vv       PSMD11 MUTATED PSMD11 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1              172
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PSMD11 MUTATED        1      2      2
  PSMD11 WILD-TYPE     61     71     73
D1309V4, multiclass
        clus
vv       PSMD11 MUTATED PSMD11 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PSMD11 MUTATED        1      5      2
  PSMD11 WILD-TYPE     69    115     98
D1309V5, multiclass
        clus
vv       PSMD11 MUTATED PSMD11 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PSMD11 MUTATED        1      0      3      0      0      1      2      1
  PSMD11 WILD-TYPE     40     26     27     29     39     68     18     13
                  vv
clus               CLUS_9
  PSMD11 MUTATED        0
  PSMD11 WILD-TYPE     22
D1309V6, multiclass
        clus
vv       PSMD11 MUTATED PSMD11 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              3               27
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PSMD11 MUTATED        2      1      2      3
  PSMD11 WILD-TYPE     98     71     70    118
D1309V7, multiclass
        clus
vv       PSMD11 MUTATED PSMD11 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMD11 MUTATED        0      3      2      1      2
  PSMD11 WILD-TYPE     59     72     72    118     36
D1309V8, multiclass
        clus
vv       PSMD11 MUTATED PSMD11 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMD11 MUTATED        2      2      0      1      2
  PSMD11 WILD-TYPE     49     74     61     70     93
D1309V9, multiclass
        clus
vv       PSMD11 MUTATED PSMD11 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PSMD11 MUTATED        1      2      1      0      0      2      0      1
  PSMD11 WILD-TYPE     68     46     38     16     53     18     21     37
                  vv
clus               CLUS_9
  PSMD11 MUTATED        0
  PSMD11 WILD-TYPE     50
D1309V10, multiclass
        clus
vv       PSMD11 MUTATED PSMD11 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PSMD11 MUTATED        1      1      0      0      0      0
  PSMD11 WILD-TYPE     12     15     14     11     11      9
D1309V11, multiclass
[1] "Remove cluster labels:" "PSMD11 MUTATED"        
clus
  PSMD11 MUTATED PSMD11 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D9 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PSMD11 MUTATED        0      0      0      0      0      0      1      1
  PSMD11 WILD-TYPE     11      7      7      9      8      7     10      8
                  vv
clus               CLUS_9
  PSMD11 MUTATED        0
  PSMD11 WILD-TYPE      5
D1309V12, multiclass
[1] "Remove cluster labels:" "PSMD11 MUTATED"        
clus
  PSMD11 MUTATED PSMD11 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D9 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" "PSMD11 WILD-TYPE" 

Clustering(1310) Variable = KRTAP12-3 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP12-3 MUTATED        0      0      0      0      0
  KRTAP12-3 WILD-TYPE     32     18     46     27     23
D1310V1, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KRTAP12-3 MUTATED        0      0      0
  KRTAP12-3 WILD-TYPE     43     67     36
D1310V2, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KRTAP12-3 MUTATED        0      0      3
  KRTAP12-3 WILD-TYPE     42    173    144
D1310V3, multiclass
        clus
vv       KRTAP12-3 MUTATED KRTAP12-3 WILD-TYPE
  CLUS_1                 0                  42
  CLUS_2                 0                 173
  CLUS_3                 3                 144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KRTAP12-3 MUTATED        0      0      3
  KRTAP12-3 WILD-TYPE     62     73     72
D1310V4, multiclass
        clus
vv       KRTAP12-3 MUTATED KRTAP12-3 WILD-TYPE
  CLUS_1                 0                  62
  CLUS_2                 0                  73
  CLUS_3                 3                  72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KRTAP12-3 MUTATED        0      2      1
  KRTAP12-3 WILD-TYPE     70    118     99
D1310V5, multiclass
        clus
vv       KRTAP12-3 MUTATED KRTAP12-3 WILD-TYPE
  CLUS_1                 0                  70
  CLUS_2                 2                 118
  CLUS_3                 1                  99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRTAP12-3 MUTATED        0      0      0      1      0      1      1      0
  KRTAP12-3 WILD-TYPE     41     26     30     28     39     68     19     14
                     vv
clus                  CLUS_9
  KRTAP12-3 MUTATED        0
  KRTAP12-3 WILD-TYPE     22
D1310V6, multiclass
        clus
vv       KRTAP12-3 MUTATED KRTAP12-3 WILD-TYPE
  CLUS_1                 0                  41
  CLUS_2                 0                  26
  CLUS_3                 0                  30
  CLUS_4                 1                  28
  CLUS_5                 0                  39
  CLUS_6                 1                  68
  CLUS_7                 1                  19
  CLUS_8                 0                  14
  CLUS_9                 0                  22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP12-3 MUTATED        0      3      0      0
  KRTAP12-3 WILD-TYPE    100     69     72    121
D1310V7, multiclass
        clus
vv       KRTAP12-3 MUTATED KRTAP12-3 WILD-TYPE
  CLUS_1                 0                 100
  CLUS_2                 3                  69
  CLUS_3                 0                  72
  CLUS_4                 0                 121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP12-3 MUTATED        0      0      3      0      0
  KRTAP12-3 WILD-TYPE     59     75     71    119     38
D1310V8, multiclass
        clus
vv       KRTAP12-3 MUTATED KRTAP12-3 WILD-TYPE
  CLUS_1                 0                  59
  CLUS_2                 0                  75
  CLUS_3                 3                  71
  CLUS_4                 0                 119
  CLUS_5                 0                  38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP12-3 MUTATED        1      2      0      0      0
  KRTAP12-3 WILD-TYPE     50     74     61     71     95
D1310V9, multiclass
        clus
vv       KRTAP12-3 MUTATED KRTAP12-3 WILD-TYPE
  CLUS_1                 1                  50
  CLUS_2                 2                  74
  CLUS_3                 0                  61
  CLUS_4                 0                  71
  CLUS_5                 0                  95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRTAP12-3 MUTATED        1      0      0      0      2      0      0      0
  KRTAP12-3 WILD-TYPE     68     48     39     16     51     20     21     38
                     vv
clus                  CLUS_9
  KRTAP12-3 MUTATED        0
  KRTAP12-3 WILD-TYPE     50
D1310V10, multiclass
        clus
vv       KRTAP12-3 MUTATED KRTAP12-3 WILD-TYPE
  CLUS_1                 1                  68
  CLUS_2                 0                  48
  CLUS_3                 0                  39
  CLUS_4                 0                  16
  CLUS_5                 2                  51
  CLUS_6                 0                  20
  CLUS_7                 0                  21
  CLUS_8                 0                  38
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRTAP12-3 MUTATED        0      0      0      0      0      0
  KRTAP12-3 WILD-TYPE     13     16     14     11     11      9
D1310V11, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRTAP12-3 MUTATED        0      0      0      0      0      0      0      0
  KRTAP12-3 WILD-TYPE     11      7      7      9      8      7     11      9
                     vv
clus                  CLUS_9
  KRTAP12-3 MUTATED        0
  KRTAP12-3 WILD-TYPE      5
D1310V12, multiclass

Clustering(1311) Variable = FLNB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLNB MUTATED        5      0      0      3      0
  FLNB WILD-TYPE     27     18     46     24     23
D1311V1, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLNB MUTATED        7      1      0
  FLNB WILD-TYPE     36     66     36
D1311V2, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            7             36
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLNB MUTATED        0      3     25
  FLNB WILD-TYPE     42    170    122
D1311V3, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3           25            122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLNB MUTATED        4      0     13
  FLNB WILD-TYPE     58     73     62
D1311V4, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3           13             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLNB MUTATED        5      9     11
  FLNB WILD-TYPE     65    111     89
D1311V5, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            5             65
  CLUS_2            9            111
  CLUS_3           11             89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLNB MUTATED        3      4      3      1      3      9      2      0      0
  FLNB WILD-TYPE     38     22     27     28     36     60     18     14     22
D1311V6, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            3             38
  CLUS_2            4             22
  CLUS_3            3             27
  CLUS_4            1             28
  CLUS_5            3             36
  CLUS_6            9             60
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLNB MUTATED        1     11      5     11
  FLNB WILD-TYPE     99     61     67    110
D1311V7, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            1             99
  CLUS_2           11             61
  CLUS_3            5             67
  CLUS_4           11            110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLNB MUTATED        2      2     12      4      8
  FLNB WILD-TYPE     57     73     62    115     30
D1311V8, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3           12             62
  CLUS_4            4            115
  CLUS_5            8             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLNB MUTATED        0     12      2      2      9
  FLNB WILD-TYPE     51     64     59     69     86
D1311V9, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            0             51
  CLUS_2           12             64
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            9             86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLNB MUTATED        5      3      0      5      2      1      1      7      1
  FLNB WILD-TYPE     64     45     39     11     51     19     20     31     49
D1311V10, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            5             64
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            5             11
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            7             31
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FLNB MUTATED        0      0      1      0      4      0
  FLNB WILD-TYPE     13     16     13     11      7      9
D1311V11, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLNB MUTATED        0      0      0      2      1      1      1      0      0
  FLNB WILD-TYPE     11      7      7      7      7      6     10      9      5
D1311V12, multiclass
        clus
vv       FLNB MUTATED FLNB WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1312) Variable = PALLD MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PALLD MUTATED        1      0      0      1      0
  PALLD WILD-TYPE     31     18     46     26     23
D1312V1, multiclass
[1] "Remove cluster labels:" "PALLD MUTATED"         
clus
  PALLD MUTATED PALLD WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3968 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PALLD MUTATED        1      1      0
  PALLD WILD-TYPE     42     66     36
D1312V2, multiclass
[1] "Remove cluster labels:" "PALLD MUTATED"         
clus
  PALLD MUTATED PALLD WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3968 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PALLD MUTATED        1      2      6
  PALLD WILD-TYPE     41    171    141
D1312V3, multiclass
        clus
vv       PALLD MUTATED PALLD WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PALLD MUTATED        2      2      3
  PALLD WILD-TYPE     60     71     72
D1312V4, multiclass
        clus
vv       PALLD MUTATED PALLD WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PALLD MUTATED        1      0      5
  PALLD WILD-TYPE     69    120     95
D1312V5, multiclass
        clus
vv       PALLD MUTATED PALLD WILD-TYPE
  CLUS_1             1              69
  CLUS_2             0             120
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PALLD MUTATED        0      0      0      0      0      5      0      0
  PALLD WILD-TYPE     41     26     30     29     39     64     20     14
                 vv
clus              CLUS_9
  PALLD MUTATED        1
  PALLD WILD-TYPE     21
D1312V6, multiclass
        clus
vv       PALLD MUTATED PALLD WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PALLD MUTATED        3      3      2      1
  PALLD WILD-TYPE     97     69     70    120
D1312V7, multiclass
        clus
vv       PALLD MUTATED PALLD WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PALLD MUTATED        1      2      4      1      1
  PALLD WILD-TYPE     58     73     70    118     37
D1312V8, multiclass
        clus
vv       PALLD MUTATED PALLD WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PALLD MUTATED        1      5      1      0      2
  PALLD WILD-TYPE     50     71     60     71     93
D1312V9, multiclass
        clus
vv       PALLD MUTATED PALLD WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PALLD MUTATED        0      2      1      2      1      1      0      1
  PALLD WILD-TYPE     69     46     38     14     52     19     21     37
                 vv
clus              CLUS_9
  PALLD MUTATED        1
  PALLD WILD-TYPE     49
D1312V10, multiclass
        clus
vv       PALLD MUTATED PALLD WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PALLD MUTATED        1      0      0      0      1      0
  PALLD WILD-TYPE     12     16     14     11     10      9
D1312V11, multiclass
[1] "Remove cluster labels:" "PALLD MUTATED"         
clus
  PALLD MUTATED PALLD WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PALLD MUTATED        0      0      0      0      0      0      1      1
  PALLD WILD-TYPE     11      7      7      9      8      7     10      8
                 vv
clus              CLUS_9
  PALLD MUTATED        0
  PALLD WILD-TYPE      5
D1312V12, multiclass
[1] "Remove cluster labels:" "PALLD MUTATED"         
clus
  PALLD MUTATED PALLD WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" "PALLD WILD-TYPE" 

Clustering(1313) Variable = GATA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATA1 MUTATED        4      0      0      0      0
  GATA1 WILD-TYPE     28     18     46     27     23
D1313V1, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA1 MUTATED        3      0      1
  GATA1 WILD-TYPE     40     67     35
D1313V2, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA1 MUTATED        0      5     11
  GATA1 WILD-TYPE     42    168    136
D1313V3, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA1 MUTATED        2      5      4
  GATA1 WILD-TYPE     60     68     71
D1313V4, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             5              68
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA1 MUTATED        3      4      4
  GATA1 WILD-TYPE     67    116     96
D1313V5, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             116
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATA1 MUTATED        2      0      2      1      2      3      0      0
  GATA1 WILD-TYPE     39     26     28     28     37     66     20     14
                 vv
clus              CLUS_9
  GATA1 MUTATED        1
  GATA1 WILD-TYPE     21
D1313V6, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GATA1 MUTATED        4      4      3      5
  GATA1 WILD-TYPE     96     68     69    116
D1313V7, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATA1 MUTATED        2      4      5      1      4
  GATA1 WILD-TYPE     57     71     69    118     34
D1313V8, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATA1 MUTATED        2      7      1      1      5
  GATA1 WILD-TYPE     49     69     60     70     90
D1313V9, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATA1 MUTATED        2      2      1      2      2      2      0      5
  GATA1 WILD-TYPE     67     46     38     14     51     18     21     33
                 vv
clus              CLUS_9
  GATA1 MUTATED        0
  GATA1 WILD-TYPE     50
D1313V10, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             5              33
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GATA1 MUTATED        0      2      0      1      0      0
  GATA1 WILD-TYPE     13     14     14     10     11      9
D1313V11, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              14
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATA1 MUTATED        1      0      1      0      0      0      1      0
  GATA1 WILD-TYPE     10      7      6      9      8      7     10      9
                 vv
clus              CLUS_9
  GATA1 MUTATED        0
  GATA1 WILD-TYPE      5
D1313V12, multiclass
        clus
vv       GATA1 MUTATED GATA1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1314) Variable = TRIP12 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIP12 MUTATED        6      1      0      2      0
  TRIP12 WILD-TYPE     26     17     46     25     23
D1314V1, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              6               26
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP12 MUTATED        7      1      1
  TRIP12 WILD-TYPE     36     66     35
D1314V2, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              7               36
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP12 MUTATED        1      3     23
  TRIP12 WILD-TYPE     41    170    124
D1314V3, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3             23              124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP12 MUTATED        6      1     11
  TRIP12 WILD-TYPE     56     72     64
D1314V4, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              1               72
  CLUS_3             11               64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP12 MUTATED        3      6     11
  TRIP12 WILD-TYPE     67    114     89
D1314V5, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              6              114
  CLUS_3             11               89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIP12 MUTATED        1      2      2      1      2      9      2      1
  TRIP12 WILD-TYPE     40     24     28     28     37     60     18     13
                  vv
clus               CLUS_9
  TRIP12 MUTATED        0
  TRIP12 WILD-TYPE     22
D1314V6, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              9               60
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIP12 MUTATED        3     10      6      9
  TRIP12 WILD-TYPE     97     62     66    112
D1314V7, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              3               97
  CLUS_2             10               62
  CLUS_3              6               66
  CLUS_4              9              112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIP12 MUTATED        1      4     13      2      8
  TRIP12 WILD-TYPE     58     71     61    117     30
D1314V8, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3             13               61
  CLUS_4              2              117
  CLUS_5              8               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIP12 MUTATED        2      8      5      3      9
  TRIP12 WILD-TYPE     49     68     56     68     86
D1314V9, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              8               68
  CLUS_3              5               56
  CLUS_4              3               68
  CLUS_5              9               86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIP12 MUTATED        5      4      1      5      2      2      2      5
  TRIP12 WILD-TYPE     64     44     38     11     51     18     19     33
                  vv
clus               CLUS_9
  TRIP12 MUTATED        1
  TRIP12 WILD-TYPE     49
D1314V10, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              5               11
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              2               19
  CLUS_8              5               33
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIP12 MUTATED        1      1      2      0      2      0
  TRIP12 WILD-TYPE     12     15     12     11      9      9
D1314V11, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIP12 MUTATED        0      1      0      1      1      1      0      1
  TRIP12 WILD-TYPE     11      6      7      8      7      6     11      8
                  vv
clus               CLUS_9
  TRIP12 MUTATED        1
  TRIP12 WILD-TYPE      4
D1314V12, multiclass
        clus
vv       TRIP12 MUTATED TRIP12 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              1                8
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1315) Variable = ZFP91 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFP91 MUTATED        0      0      2      0      0
  ZFP91 WILD-TYPE     32     18     44     27     23
D1315V1, multiclass
[1] "Remove cluster labels:" "ZFP91 MUTATED"         
clus
  ZFP91 MUTATED ZFP91 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFP91 MUTATED        0      1      1
  ZFP91 WILD-TYPE     43     66     35
D1315V2, multiclass
[1] "Remove cluster labels:" "ZFP91 MUTATED"         
clus
  ZFP91 MUTATED ZFP91 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFP91 MUTATED        0      3      4
  ZFP91 WILD-TYPE     42    170    143
D1315V3, multiclass
        clus
vv       ZFP91 MUTATED ZFP91 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFP91 MUTATED        1      1      2
  ZFP91 WILD-TYPE     61     72     73
D1315V4, multiclass
        clus
vv       ZFP91 MUTATED ZFP91 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFP91 MUTATED        1      2      3
  ZFP91 WILD-TYPE     69    118     97
D1315V5, multiclass
        clus
vv       ZFP91 MUTATED ZFP91 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFP91 MUTATED        1      2      1      0      0      0      2      0
  ZFP91 WILD-TYPE     40     24     29     29     39     69     18     14
                 vv
clus              CLUS_9
  ZFP91 MUTATED        0
  ZFP91 WILD-TYPE     22
D1315V6, multiclass
        clus
vv       ZFP91 MUTATED ZFP91 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             0              69
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFP91 MUTATED        2      1      2      2
  ZFP91 WILD-TYPE     98     71     70    119
D1315V7, multiclass
        clus
vv       ZFP91 MUTATED ZFP91 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFP91 MUTATED        1      1      2      2      1
  ZFP91 WILD-TYPE     58     74     72    117     37
D1315V8, multiclass
        clus
vv       ZFP91 MUTATED ZFP91 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFP91 MUTATED        1      2      1      2      1
  ZFP91 WILD-TYPE     50     74     60     69     94
D1315V9, multiclass
        clus
vv       ZFP91 MUTATED ZFP91 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFP91 MUTATED        0      2      2      1      0      0      0      1
  ZFP91 WILD-TYPE     69     46     37     15     53     20     21     37
                 vv
clus              CLUS_9
  ZFP91 MUTATED        1
  ZFP91 WILD-TYPE     49
D1315V10, multiclass
        clus
vv       ZFP91 MUTATED ZFP91 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZFP91 MUTATED        0      0      0      1      0      0
  ZFP91 WILD-TYPE     13     16     14     10     11      9
D1315V11, multiclass
[1] "Remove cluster labels:" "ZFP91 MUTATED"         
clus
  ZFP91 MUTATED ZFP91 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-G4-6628 
"ZFP91 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZFP91 MUTATED        0      0      1      0      0      0      0      0
  ZFP91 WILD-TYPE     11      7      6      9      8      7     11      9
                 vv
clus              CLUS_9
  ZFP91 MUTATED        0
  ZFP91 WILD-TYPE      5
D1315V12, multiclass
[1] "Remove cluster labels:" "ZFP91 MUTATED"         
clus
  ZFP91 MUTATED ZFP91 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" "ZFP91 WILD-TYPE" 
     TCGA-G4-6628 
"ZFP91 WILD-TYPE" 

Clustering(1316) Variable = OR9Q2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR9Q2 MUTATED        2      0      0      1      0
  OR9Q2 WILD-TYPE     30     18     46     26     23
D1316V1, multiclass
        clus
vv       OR9Q2 MUTATED OR9Q2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9Q2 MUTATED        1      1      1
  OR9Q2 WILD-TYPE     42     66     35
D1316V2, multiclass
        clus
vv       OR9Q2 MUTATED OR9Q2 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9Q2 MUTATED        0      5      9
  OR9Q2 WILD-TYPE     42    168    138
D1316V3, multiclass
        clus
vv       OR9Q2 MUTATED OR9Q2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9Q2 MUTATED        1      4      6
  OR9Q2 WILD-TYPE     61     69     69
D1316V4, multiclass
        clus
vv       OR9Q2 MUTATED OR9Q2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             4              69
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9Q2 MUTATED        1      7      4
  OR9Q2 WILD-TYPE     69    113     96
D1316V5, multiclass
        clus
vv       OR9Q2 MUTATED OR9Q2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             7             113
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR9Q2 MUTATED        2      2      1      1      1      3      1      0
  OR9Q2 WILD-TYPE     39     24     29     28     38     66     19     14
                 vv
clus              CLUS_9
  OR9Q2 MUTATED        1
  OR9Q2 WILD-TYPE     21
D1316V6, multiclass
        clus
vv       OR9Q2 MUTATED OR9Q2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR9Q2 MUTATED        4      5      1      4
  OR9Q2 WILD-TYPE     96     67     71    117
D1316V7, multiclass
        clus
vv       OR9Q2 MUTATED OR9Q2 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR9Q2 MUTATED        3      2      5      3      1
  OR9Q2 WILD-TYPE     56     73     69    116     37
D1316V8, multiclass
        clus
vv       OR9Q2 MUTATED OR9Q2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR9Q2 MUTATED        3      5      2      1      3
  OR9Q2 WILD-TYPE     48     71     59     70     92
D1316V9, multiclass
        clus
vv       OR9Q2 MUTATED OR9Q2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR9Q2 MUTATED        2      2      0      1      4      3      0      1
  OR9Q2 WILD-TYPE     67     46     39     15     49     17     21     37
                 vv
clus              CLUS_9
  OR9Q2 MUTATED        1
  OR9Q2 WILD-TYPE     49
D1316V10, multiclass
        clus
vv       OR9Q2 MUTATED OR9Q2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             4              49
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR9Q2 MUTATED        0      0      1      1      0      0
  OR9Q2 WILD-TYPE     13     16     13     10     11      9
D1316V11, multiclass
[1] "Remove cluster labels:" "OR9Q2 MUTATED"         
clus
  OR9Q2 MUTATED OR9Q2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR9Q2 MUTATED        0      0      1      0      0      0      1      0
  OR9Q2 WILD-TYPE     11      7      6      9      8      7     10      9
                 vv
clus              CLUS_9
  OR9Q2 MUTATED        0
  OR9Q2 WILD-TYPE      5
D1316V12, multiclass
[1] "Remove cluster labels:" "OR9Q2 MUTATED"         
clus
  OR9Q2 MUTATED OR9Q2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" "OR9Q2 WILD-TYPE" 

Clustering(1317) Variable = HIST1H2BC MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H2BC MUTATED        0      0      0      1      0
  HIST1H2BC WILD-TYPE     32     18     46     26     23
D1317V1, multiclass
[1] "Remove cluster labels:" "HIST1H2BC MUTATED"     
clus
  HIST1H2BC MUTATED HIST1H2BC WILD-TYPE 
                  1                 145 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3984          TCGA-AA-3986          TCGA-AA-3989 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3994          TCGA-AA-A004          TCGA-AA-A00A 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A00D          TCGA-AA-A00E          TCGA-AA-A00F 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A00J          TCGA-AA-A00K          TCGA-AA-A00L 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A00N          TCGA-AA-A00O          TCGA-AA-A00Q 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A00R          TCGA-AA-A00U          TCGA-AA-A00W 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A00Z          TCGA-AA-A017          TCGA-AA-A01D 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A01F          TCGA-AA-A01G          TCGA-AA-A01I 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A01K          TCGA-AA-A01Q          TCGA-AA-A024 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A029          TCGA-AA-A02F          TCGA-AA-A02H 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A02J          TCGA-AA-A02W          TCGA-AY-4070 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AY-4071 
"HIST1H2BC WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  HIST1H2BC MUTATED        0      1      0
  HIST1H2BC WILD-TYPE     43     66     36
D1317V2, multiclass
[1] "Remove cluster labels:" "HIST1H2BC MUTATED"     
clus
  HIST1H2BC MUTATED HIST1H2BC WILD-TYPE 
                  1                 145 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3984          TCGA-AA-3986          TCGA-AA-3989 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3994          TCGA-AA-A004          TCGA-AA-A00A 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A00D          TCGA-AA-A00E          TCGA-AA-A00F 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A00J          TCGA-AA-A00K          TCGA-AA-A00L 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A00N          TCGA-AA-A00O          TCGA-AA-A00Q 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A00R          TCGA-AA-A00U          TCGA-AA-A00W 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A00Z          TCGA-AA-A017          TCGA-AA-A01D 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A01F          TCGA-AA-A01G          TCGA-AA-A01I 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A01K          TCGA-AA-A01Q          TCGA-AA-A024 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A029          TCGA-AA-A02F          TCGA-AA-A02H 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-A02J          TCGA-AA-A02W          TCGA-AY-4070 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AY-4071 
"HIST1H2BC WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  HIST1H2BC MUTATED        0      0      4
  HIST1H2BC WILD-TYPE     42    173    143
D1317V3, multiclass
        clus
vv       HIST1H2BC MUTATED HIST1H2BC WILD-TYPE
  CLUS_1                 0                  42
  CLUS_2                 0                 173
  CLUS_3                 4                 143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  HIST1H2BC MUTATED        1      0      2
  HIST1H2BC WILD-TYPE     61     73     73
D1317V4, multiclass
        clus
vv       HIST1H2BC MUTATED HIST1H2BC WILD-TYPE
  CLUS_1                 1                  61
  CLUS_2                 0                  73
  CLUS_3                 2                  73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  HIST1H2BC MUTATED        0      3      1
  HIST1H2BC WILD-TYPE     70    117     99
D1317V5, multiclass
        clus
vv       HIST1H2BC MUTATED HIST1H2BC WILD-TYPE
  CLUS_1                 0                  70
  CLUS_2                 3                 117
  CLUS_3                 1                  99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H2BC MUTATED        0      1      1      2      0      0      0      0
  HIST1H2BC WILD-TYPE     41     25     29     27     39     69     20     14
                     vv
clus                  CLUS_9
  HIST1H2BC MUTATED        0
  HIST1H2BC WILD-TYPE     22
D1317V6, multiclass
        clus
vv       HIST1H2BC MUTATED HIST1H2BC WILD-TYPE
  CLUS_1                 0                  41
  CLUS_2                 1                  25
  CLUS_3                 1                  29
  CLUS_4                 2                  27
  CLUS_5                 0                  39
  CLUS_6                 0                  69
  CLUS_7                 0                  20
  CLUS_8                 0                  14
  CLUS_9                 0                  22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST1H2BC MUTATED        0      1      1      2
  HIST1H2BC WILD-TYPE    100     71     71    119
D1317V7, multiclass
        clus
vv       HIST1H2BC MUTATED HIST1H2BC WILD-TYPE
  CLUS_1                 0                 100
  CLUS_2                 1                  71
  CLUS_3                 1                  71
  CLUS_4                 2                 119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H2BC MUTATED        0      0      2      2      0
  HIST1H2BC WILD-TYPE     59     75     72    117     38
D1317V8, multiclass
        clus
vv       HIST1H2BC MUTATED HIST1H2BC WILD-TYPE
  CLUS_1                 0                  59
  CLUS_2                 0                  75
  CLUS_3                 2                  72
  CLUS_4                 2                 117
  CLUS_5                 0                  38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H2BC MUTATED        0      1      0      1      2
  HIST1H2BC WILD-TYPE     51     75     61     70     93
D1317V9, multiclass
        clus
vv       HIST1H2BC MUTATED HIST1H2BC WILD-TYPE
  CLUS_1                 0                  51
  CLUS_2                 1                  75
  CLUS_3                 0                  61
  CLUS_4                 1                  70
  CLUS_5                 2                  93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H2BC MUTATED        1      0      0      0      1      1      0      0
  HIST1H2BC WILD-TYPE     68     48     39     16     52     19     21     38
                     vv
clus                  CLUS_9
  HIST1H2BC MUTATED        1
  HIST1H2BC WILD-TYPE     49
D1317V10, multiclass
        clus
vv       HIST1H2BC MUTATED HIST1H2BC WILD-TYPE
  CLUS_1                 1                  68
  CLUS_2                 0                  48
  CLUS_3                 0                  39
  CLUS_4                 0                  16
  CLUS_5                 1                  52
  CLUS_6                 1                  19
  CLUS_7                 0                  21
  CLUS_8                 0                  38
  CLUS_9                 1                  49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIST1H2BC MUTATED        0      0      1      0      0      0
  HIST1H2BC WILD-TYPE     13     16     13     11     11      9
D1317V11, multiclass
[1] "Remove cluster labels:" "HIST1H2BC MUTATED"     
clus
  HIST1H2BC MUTATED HIST1H2BC WILD-TYPE 
                  1                  73 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6963 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AD-6964          TCGA-AD-6965          TCGA-AY-6196 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-5403 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AZ-6598          TCGA-AZ-6600          TCGA-AZ-6601 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AZ-6603          TCGA-AZ-6605          TCGA-AZ-6607 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-CA-6718          TCGA-CA-6719          TCGA-CK-5916 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-CK-6748          TCGA-CM-5860          TCGA-CM-6167 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-CM-6674          TCGA-CM-6676          TCGA-CM-6677 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-CM-6678          TCGA-CM-6679          TCGA-CM-6680 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-D5-5537          TCGA-D5-6533          TCGA-D5-6534 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-D5-6536          TCGA-D5-6922          TCGA-D5-6924 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-DM-A0XD          TCGA-DM-A0XF          TCGA-DM-A1D0 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-DM-A1D7          TCGA-DM-A1D8          TCGA-DM-A1D9 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-DM-A1DA          TCGA-DM-A1HA          TCGA-DM-A282 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-DM-A285          TCGA-DM-A28F          TCGA-F4-6459 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-F4-6460          TCGA-F4-6569          TCGA-F4-6570 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-F4-6704          TCGA-F4-6805          TCGA-F4-6807 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-F4-6808          TCGA-F4-6809          TCGA-G4-6303 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-G4-6306          TCGA-G4-6309          TCGA-G4-6625 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-G4-6628 
"HIST1H2BC WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H2BC MUTATED        0      0      0      0      1      0      0      0
  HIST1H2BC WILD-TYPE     11      7      7      9      7      7     11      9
                     vv
clus                  CLUS_9
  HIST1H2BC MUTATED        0
  HIST1H2BC WILD-TYPE      5
D1317V12, multiclass
[1] "Remove cluster labels:" "HIST1H2BC MUTATED"     
clus
  HIST1H2BC MUTATED HIST1H2BC WILD-TYPE 
                  1                  73 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6963 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AD-6964          TCGA-AD-6965          TCGA-AY-6196 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-5403 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AZ-6598          TCGA-AZ-6600          TCGA-AZ-6601 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-AZ-6603          TCGA-AZ-6605          TCGA-AZ-6607 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-CA-6718          TCGA-CA-6719          TCGA-CK-5916 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-CK-6748          TCGA-CM-5860          TCGA-CM-6167 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-CM-6674          TCGA-CM-6676          TCGA-CM-6677 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-CM-6678          TCGA-CM-6679          TCGA-CM-6680 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-D5-5537          TCGA-D5-6533          TCGA-D5-6534 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-D5-6536          TCGA-D5-6922          TCGA-D5-6924 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-DM-A0XD          TCGA-DM-A0XF          TCGA-DM-A1D0 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-DM-A1D7          TCGA-DM-A1D8          TCGA-DM-A1D9 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-DM-A1DA          TCGA-DM-A1HA          TCGA-DM-A282 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-DM-A285          TCGA-DM-A28F          TCGA-F4-6459 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-F4-6460          TCGA-F4-6569          TCGA-F4-6570 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-F4-6704          TCGA-F4-6805          TCGA-F4-6807 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-F4-6808          TCGA-F4-6809          TCGA-G4-6303 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-G4-6306          TCGA-G4-6309          TCGA-G4-6625 
"HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" "HIST1H2BC WILD-TYPE" 
         TCGA-G4-6628 
"HIST1H2BC WILD-TYPE" 

Clustering(1318) Variable = CLK4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLK4 MUTATED        2      0      0      0      0
  CLK4 WILD-TYPE     30     18     46     27     23
D1318V1, multiclass
[1] "Remove cluster labels:" "CLK4 MUTATED"          
clus
  CLK4 MUTATED CLK4 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3556 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667     TCGA-AA-3672 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679     TCGA-AA-3680 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685     TCGA-AA-3688 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696     TCGA-AA-3710 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3867 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CLK4 MUTATED        2      0      0
  CLK4 WILD-TYPE     41     67     36
D1318V2, multiclass
[1] "Remove cluster labels:" "CLK4 MUTATED"          
clus
  CLK4 MUTATED CLK4 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3556 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667     TCGA-AA-3672 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679     TCGA-AA-3680 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685     TCGA-AA-3688 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696     TCGA-AA-3710 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3867 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" "CLK4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CLK4 MUTATED        1      3      5
  CLK4 WILD-TYPE     41    170    142
D1318V3, multiclass
        clus
vv       CLK4 MUTATED CLK4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CLK4 MUTATED        3      1      3
  CLK4 WILD-TYPE     59     72     72
D1318V4, multiclass
        clus
vv       CLK4 MUTATED CLK4 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CLK4 MUTATED        1      5      2
  CLK4 WILD-TYPE     69    115     98
D1318V5, multiclass
        clus
vv       CLK4 MUTATED CLK4 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CLK4 MUTATED        0      0      1      0      0      3      1      2      1
  CLK4 WILD-TYPE     41     26     29     29     39     66     19     12     21
D1318V6, multiclass
        clus
vv       CLK4 MUTATED CLK4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLK4 MUTATED        4      1      2      2
  CLK4 WILD-TYPE     96     71     70    119
D1318V7, multiclass
        clus
vv       CLK4 MUTATED CLK4 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLK4 MUTATED        2      2      3      0      2
  CLK4 WILD-TYPE     57     73     71    119     36
D1318V8, multiclass
        clus
vv       CLK4 MUTATED CLK4 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLK4 MUTATED        0      3      2      2      2
  CLK4 WILD-TYPE     51     73     59     69     93
D1318V9, multiclass
        clus
vv       CLK4 MUTATED CLK4 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CLK4 MUTATED        3      2      1      1      0      1      0      1      0
  CLK4 WILD-TYPE     66     46     38     15     53     19     21     37     50
D1318V10, multiclass
        clus
vv       CLK4 MUTATED CLK4 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLK4 MUTATED        2      1      0      1      1      0
  CLK4 WILD-TYPE     11     15     14     10     10      9
D1318V11, multiclass
        clus
vv       CLK4 MUTATED CLK4 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CLK4 MUTATED        1      0      0      0      0      0      2      2      0
  CLK4 WILD-TYPE     10      7      7      9      8      7      9      7      5
D1318V12, multiclass
        clus
vv       CLK4 MUTATED CLK4 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            2              7
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1319) Variable = LPGAT1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPGAT1 MUTATED        0      0      0      0      0
  LPGAT1 WILD-TYPE     32     18     46     27     23
D1319V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LPGAT1 MUTATED        0      0      0
  LPGAT1 WILD-TYPE     43     67     36
D1319V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LPGAT1 MUTATED        0      2      1
  LPGAT1 WILD-TYPE     42    171    146
D1319V3, multiclass
        clus
vv       LPGAT1 MUTATED LPGAT1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              1              146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LPGAT1 MUTATED        1      2      0
  LPGAT1 WILD-TYPE     61     71     75
D1319V4, multiclass
        clus
vv       LPGAT1 MUTATED LPGAT1 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LPGAT1 MUTATED        0      1      2
  LPGAT1 WILD-TYPE     70    119     98
D1319V5, multiclass
        clus
vv       LPGAT1 MUTATED LPGAT1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPGAT1 MUTATED        0      0      0      0      0      2      0      0
  LPGAT1 WILD-TYPE     41     26     30     29     39     67     20     14
                  vv
clus               CLUS_9
  LPGAT1 MUTATED        1
  LPGAT1 WILD-TYPE     21
D1319V6, multiclass
        clus
vv       LPGAT1 MUTATED LPGAT1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LPGAT1 MUTATED        2      0      1      0
  LPGAT1 WILD-TYPE     98     72     71    121
D1319V7, multiclass
        clus
vv       LPGAT1 MUTATED LPGAT1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              0               72
  CLUS_3              1               71
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPGAT1 MUTATED        1      1      1      0      0
  LPGAT1 WILD-TYPE     58     74     73    119     38
D1319V8, multiclass
        clus
vv       LPGAT1 MUTATED LPGAT1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPGAT1 MUTATED        1      2      0      0      0
  LPGAT1 WILD-TYPE     50     74     61     71     95
D1319V9, multiclass
        clus
vv       LPGAT1 MUTATED LPGAT1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPGAT1 MUTATED        1      0      2      0      0      0      0      0
  LPGAT1 WILD-TYPE     68     48     37     16     53     20     21     38
                  vv
clus               CLUS_9
  LPGAT1 MUTATED        0
  LPGAT1 WILD-TYPE     50
D1319V10, multiclass
        clus
vv       LPGAT1 MUTATED LPGAT1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              2               37
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LPGAT1 MUTATED        1      0      1      0      0      0
  LPGAT1 WILD-TYPE     12     16     13     11     11      9
D1319V11, multiclass
[1] "Remove cluster labels:" "LPGAT1 MUTATED"        
clus
  LPGAT1 MUTATED LPGAT1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6534 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPGAT1 MUTATED        0      0      0      0      0      0      1      1
  LPGAT1 WILD-TYPE     11      7      7      9      8      7     10      8
                  vv
clus               CLUS_9
  LPGAT1 MUTATED        0
  LPGAT1 WILD-TYPE      5
D1319V12, multiclass
[1] "Remove cluster labels:" "LPGAT1 MUTATED"        
clus
  LPGAT1 MUTATED LPGAT1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6534 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" "LPGAT1 WILD-TYPE" 

Clustering(1320) Variable = C1ORF85 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF85 MUTATED        0      0      0      0      0
  C1ORF85 WILD-TYPE     32     18     46     27     23
D1320V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF85 MUTATED        0      0      0
  C1ORF85 WILD-TYPE     43     67     36
D1320V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF85 MUTATED        0      1      6
  C1ORF85 WILD-TYPE     42    172    141
D1320V3, multiclass
        clus
vv       C1ORF85 MUTATED C1ORF85 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF85 MUTATED        3      1      3
  C1ORF85 WILD-TYPE     59     72     72
D1320V4, multiclass
        clus
vv       C1ORF85 MUTATED C1ORF85 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF85 MUTATED        1      1      5
  C1ORF85 WILD-TYPE     69    119     95
D1320V5, multiclass
        clus
vv       C1ORF85 MUTATED C1ORF85 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF85 MUTATED        3      1      0      0      0      3      0      0
  C1ORF85 WILD-TYPE     38     25     30     29     39     66     20     14
                   vv
clus                CLUS_9
  C1ORF85 MUTATED        0
  C1ORF85 WILD-TYPE     22
D1320V6, multiclass
        clus
vv       C1ORF85 MUTATED C1ORF85 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF85 MUTATED        1      2      4      0
  C1ORF85 WILD-TYPE     99     70     68    121
D1320V7, multiclass
        clus
vv       C1ORF85 MUTATED C1ORF85 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               2                70
  CLUS_3               4                68
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF85 MUTATED        2      2      3      0      0
  C1ORF85 WILD-TYPE     57     73     71    119     38
D1320V8, multiclass
        clus
vv       C1ORF85 MUTATED C1ORF85 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF85 MUTATED        1      3      1      1      1
  C1ORF85 WILD-TYPE     50     73     60     70     94
D1320V9, multiclass
        clus
vv       C1ORF85 MUTATED C1ORF85 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF85 MUTATED        2      2      1      1      0      0      0      0
  C1ORF85 WILD-TYPE     67     46     38     15     53     20     21     38
                   vv
clus                CLUS_9
  C1ORF85 MUTATED        1
  C1ORF85 WILD-TYPE     49
D1320V10, multiclass
        clus
vv       C1ORF85 MUTATED C1ORF85 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C1ORF85 MUTATED        1      1      1      0      0      1
  C1ORF85 WILD-TYPE     12     15     13     11     11      8
D1320V11, multiclass
        clus
vv       C1ORF85 MUTATED C1ORF85 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               0                11
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF85 MUTATED        1      0      0      0      0      0      2      1
  C1ORF85 WILD-TYPE     10      7      7      9      8      7      9      8
                   vv
clus                CLUS_9
  C1ORF85 MUTATED        0
  C1ORF85 WILD-TYPE      5
D1320V12, multiclass
        clus
vv       C1ORF85 MUTATED C1ORF85 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1321) Variable = UGT2A1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT2A1 MUTATED        2      1      0      2      0
  UGT2A1 WILD-TYPE     30     17     46     25     23
D1321V1, multiclass
        clus
vv       UGT2A1 MUTATED UGT2A1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT2A1 MUTATED        3      2      0
  UGT2A1 WILD-TYPE     40     65     36
D1321V2, multiclass
        clus
vv       UGT2A1 MUTATED UGT2A1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT2A1 MUTATED        0      0     10
  UGT2A1 WILD-TYPE     42    173    137
D1321V3, multiclass
        clus
vv       UGT2A1 MUTATED UGT2A1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT2A1 MUTATED        1      0      2
  UGT2A1 WILD-TYPE     61     73     73
D1321V4, multiclass
        clus
vv       UGT2A1 MUTATED UGT2A1 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT2A1 MUTATED        2      4      1
  UGT2A1 WILD-TYPE     68    116     99
D1321V5, multiclass
        clus
vv       UGT2A1 MUTATED UGT2A1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT2A1 MUTATED        1      0      3      0      1      0      2      0
  UGT2A1 WILD-TYPE     40     26     27     29     38     69     18     14
                  vv
clus               CLUS_9
  UGT2A1 MUTATED        0
  UGT2A1 WILD-TYPE     22
D1321V6, multiclass
        clus
vv       UGT2A1 MUTATED UGT2A1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              3               27
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              0               69
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UGT2A1 MUTATED        0      1      2      7
  UGT2A1 WILD-TYPE    100     71     70    114
D1321V7, multiclass
        clus
vv       UGT2A1 MUTATED UGT2A1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT2A1 MUTATED        1      1      1      2      5
  UGT2A1 WILD-TYPE     58     74     73    117     33
D1321V8, multiclass
        clus
vv       UGT2A1 MUTATED UGT2A1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              1               73
  CLUS_4              2              117
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT2A1 MUTATED        1      1      1      2      5
  UGT2A1 WILD-TYPE     50     75     60     69     90
D1321V9, multiclass
        clus
vv       UGT2A1 MUTATED UGT2A1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT2A1 MUTATED        0      1      0      1      0      2      0      5
  UGT2A1 WILD-TYPE     69     47     39     15     53     18     21     33
                  vv
clus               CLUS_9
  UGT2A1 MUTATED        1
  UGT2A1 WILD-TYPE     49
D1321V10, multiclass
        clus
vv       UGT2A1 MUTATED UGT2A1 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              5               33
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UGT2A1 MUTATED        0      0      0      0      1      0
  UGT2A1 WILD-TYPE     13     16     14     11     10      9
D1321V11, multiclass
[1] "Remove cluster labels:" "UGT2A1 MUTATED"        
clus
  UGT2A1 MUTATED UGT2A1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-G4-6628 
"UGT2A1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT2A1 MUTATED        0      0      0      0      1      0      0      0
  UGT2A1 WILD-TYPE     11      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  UGT2A1 MUTATED        0
  UGT2A1 WILD-TYPE      5
D1321V12, multiclass
[1] "Remove cluster labels:" "UGT2A1 MUTATED"        
clus
  UGT2A1 MUTATED UGT2A1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" "UGT2A1 WILD-TYPE" 
      TCGA-G4-6628 
"UGT2A1 WILD-TYPE" 

Clustering(1322) Variable = TMEM229B MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM229B MUTATED        0      0      0      0      0
  TMEM229B WILD-TYPE     32     18     46     27     23
D1322V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMEM229B MUTATED        0      0      0
  TMEM229B WILD-TYPE     43     67     36
D1322V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMEM229B MUTATED        0      1      3
  TMEM229B WILD-TYPE     42    172    144
D1322V3, multiclass
        clus
vv       TMEM229B MUTATED TMEM229B WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                1                172
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMEM229B MUTATED        1      1      2
  TMEM229B WILD-TYPE     61     72     73
D1322V4, multiclass
        clus
vv       TMEM229B MUTATED TMEM229B WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                1                 72
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMEM229B MUTATED        0      2      0
  TMEM229B WILD-TYPE     70    118    100
D1322V5, multiclass
[1] "Remove cluster labels:" "TMEM229B MUTATED"      
clus
  TMEM229B MUTATED TMEM229B WILD-TYPE 
                 2                288 
        TCGA-A6-2671         TCGA-A6-2672         TCGA-A6-2676 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-3810         TCGA-A6-5656         TCGA-A6-5657 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-5659         TCGA-A6-5660         TCGA-A6-5661 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-5662         TCGA-A6-5664         TCGA-A6-5665 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-5666         TCGA-A6-6137         TCGA-A6-6138 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6648 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-6649         TCGA-A6-6651         TCGA-A6-6652 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6780 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3492         TCGA-AA-3496         TCGA-AA-3502 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3510         TCGA-AA-3511         TCGA-AA-3514 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3519         TCGA-AA-3520 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3525 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3548 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3558         TCGA-AA-3560 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3655 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3672         TCGA-AA-3678 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3681         TCGA-AA-3688         TCGA-AA-3695 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3696         TCGA-AA-3697         TCGA-AA-3710 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3712         TCGA-AA-3713         TCGA-AA-3715 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3811         TCGA-AA-3812         TCGA-AA-3814 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3815         TCGA-AA-3818         TCGA-AA-3819 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3848 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3850         TCGA-AA-3852         TCGA-AA-3854 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3861         TCGA-AA-3864 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3869         TCGA-AA-3872 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3947         TCGA-AA-3950 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3955         TCGA-AA-3968         TCGA-AA-3971 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3986         TCGA-AA-3989 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00E 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00Q 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A010         TCGA-AA-A017 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A01D         TCGA-AA-A01F         TCGA-AA-A01I 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01P         TCGA-AA-A01Q 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A01R         TCGA-AA-A01S         TCGA-AA-A01T 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A01V         TCGA-AA-A01X         TCGA-AA-A022 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A024         TCGA-AA-A029         TCGA-AA-A02F 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A02H         TCGA-AA-A02J         TCGA-AA-A02K 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A02O         TCGA-AA-A02W         TCGA-AA-A02Y 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A03F         TCGA-AA-A03J         TCGA-AD-5900 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AD-6548         TCGA-AD-6889         TCGA-AD-6899 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AD-6965         TCGA-AU-6004         TCGA-AY-5543 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AY-6196         TCGA-AY-6197         TCGA-AY-6386 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AZ-4315         TCGA-AZ-4323         TCGA-AZ-4616 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AZ-4682         TCGA-AZ-5407         TCGA-AZ-6598 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AZ-6599         TCGA-AZ-6600         TCGA-AZ-6601 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6606 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AZ-6607         TCGA-AZ-6608         TCGA-CA-5254 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CA-5255         TCGA-CA-5796         TCGA-CA-5797 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CA-6715         TCGA-CA-6716         TCGA-CA-6717 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5914 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6746         TCGA-CK-6747 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CK-6748         TCGA-CK-6751         TCGA-CM-4743 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-4744         TCGA-CM-4747         TCGA-CM-4752 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-5341         TCGA-CM-5348         TCGA-CM-5349 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-5861         TCGA-CM-5862 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-5863         TCGA-CM-5864         TCGA-CM-5868 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6161         TCGA-CM-6162         TCGA-CM-6163 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6164         TCGA-CM-6165         TCGA-CM-6166 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6168         TCGA-CM-6169 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6170         TCGA-CM-6171         TCGA-CM-6172 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6675         TCGA-CM-6676 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5538         TCGA-D5-5539 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-5540         TCGA-D5-5541         TCGA-D5-6529 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6532         TCGA-D5-6533         TCGA-D5-6534 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6535         TCGA-D5-6536         TCGA-D5-6537 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6538         TCGA-D5-6539         TCGA-D5-6540 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6541         TCGA-D5-6898         TCGA-D5-6920 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6923         TCGA-D5-6924 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6926         TCGA-D5-6927         TCGA-D5-6928 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6930         TCGA-D5-6931         TCGA-D5-6932 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A0X9         TCGA-DM-A0XF         TCGA-DM-A1D0 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A1D4         TCGA-DM-A1D6         TCGA-DM-A1D7 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A1DB         TCGA-DM-A1HA         TCGA-DM-A1HB 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A28C         TCGA-DM-A28E 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A28F         TCGA-DM-A28G         TCGA-F4-6459 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6570 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-F4-6703         TCGA-F4-6704         TCGA-F4-6805 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-F4-6806         TCGA-F4-6807         TCGA-F4-6808 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-F4-6809         TCGA-F4-6854         TCGA-F4-6855 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-F4-6856         TCGA-G4-6293         TCGA-G4-6299 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-G4-6303         TCGA-G4-6304         TCGA-G4-6306 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-G4-6307         TCGA-G4-6309         TCGA-G4-6310 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-G4-6315         TCGA-G4-6317         TCGA-G4-6321 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-G4-6323         TCGA-G4-6586         TCGA-G4-6588 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-G4-6625         TCGA-G4-6626         TCGA-G4-6628 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM229B MUTATED        0      1      0      0      1      0      0      0
  TMEM229B WILD-TYPE     41     25     30     29     38     69     20     14
                    vv
clus                 CLUS_9
  TMEM229B MUTATED        0
  TMEM229B WILD-TYPE     22
D1322V6, multiclass
[1] "Remove cluster labels:" "TMEM229B MUTATED"      
clus
  TMEM229B MUTATED TMEM229B WILD-TYPE 
                 2                288 
        TCGA-A6-2671         TCGA-A6-2672         TCGA-A6-2676 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-3810         TCGA-A6-5656         TCGA-A6-5657 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-5659         TCGA-A6-5660         TCGA-A6-5661 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-5662         TCGA-A6-5664         TCGA-A6-5665 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-5666         TCGA-A6-6137         TCGA-A6-6138 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6648 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-6649         TCGA-A6-6651         TCGA-A6-6652 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6780 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3492         TCGA-AA-3496         TCGA-AA-3502 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3510         TCGA-AA-3511         TCGA-AA-3514 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3519         TCGA-AA-3520 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3525 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3548 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3558         TCGA-AA-3560 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3655 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3672         TCGA-AA-3678 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3681         TCGA-AA-3688         TCGA-AA-3695 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3696         TCGA-AA-3697         TCGA-AA-3710 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3712         TCGA-AA-3713         TCGA-AA-3715 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3811         TCGA-AA-3812         TCGA-AA-3814 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3815         TCGA-AA-3818         TCGA-AA-3819 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3848 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3850         TCGA-AA-3852         TCGA-AA-3854 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3861         TCGA-AA-3864 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3869         TCGA-AA-3872 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3947         TCGA-AA-3950 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3955         TCGA-AA-3968         TCGA-AA-3971 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3986         TCGA-AA-3989 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00E 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00Q 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A010         TCGA-AA-A017 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A01D         TCGA-AA-A01F         TCGA-AA-A01I 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01P         TCGA-AA-A01Q 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A01R         TCGA-AA-A01S         TCGA-AA-A01T 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A01V         TCGA-AA-A01X         TCGA-AA-A022 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A024         TCGA-AA-A029         TCGA-AA-A02F 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A02H         TCGA-AA-A02J         TCGA-AA-A02K 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A02O         TCGA-AA-A02W         TCGA-AA-A02Y 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AA-A03F         TCGA-AA-A03J         TCGA-AD-5900 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AD-6548         TCGA-AD-6889         TCGA-AD-6899 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AD-6965         TCGA-AU-6004         TCGA-AY-5543 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AY-6196         TCGA-AY-6197         TCGA-AY-6386 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AZ-4315         TCGA-AZ-4323         TCGA-AZ-4616 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AZ-4682         TCGA-AZ-5407         TCGA-AZ-6598 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AZ-6599         TCGA-AZ-6600         TCGA-AZ-6601 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6606 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-AZ-6607         TCGA-AZ-6608         TCGA-CA-5254 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CA-5255         TCGA-CA-5796         TCGA-CA-5797 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CA-6715         TCGA-CA-6716         TCGA-CA-6717 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5914 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6746         TCGA-CK-6747 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CK-6748         TCGA-CK-6751         TCGA-CM-4743 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-4744         TCGA-CM-4747         TCGA-CM-4752 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-5341         TCGA-CM-5348         TCGA-CM-5349 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-5861         TCGA-CM-5862 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-5863         TCGA-CM-5864         TCGA-CM-5868 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6161         TCGA-CM-6162         TCGA-CM-6163 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6164         TCGA-CM-6165         TCGA-CM-6166 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6168         TCGA-CM-6169 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6170         TCGA-CM-6171         TCGA-CM-6172 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6675         TCGA-CM-6676 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5538         TCGA-D5-5539 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-5540         TCGA-D5-5541         TCGA-D5-6529 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6532         TCGA-D5-6533         TCGA-D5-6534 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6535         TCGA-D5-6536         TCGA-D5-6537 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6538         TCGA-D5-6539         TCGA-D5-6540 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6541         TCGA-D5-6898         TCGA-D5-6920 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6923         TCGA-D5-6924 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6926         TCGA-D5-6927         TCGA-D5-6928 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-D5-6930         TCGA-D5-6931         TCGA-D5-6932 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A0X9         TCGA-DM-A0XF         TCGA-DM-A1D0 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A1D4         TCGA-DM-A1D6         TCGA-DM-A1D7 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A1DB         TCGA-DM-A1HA         TCGA-DM-A1HB 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A28C         TCGA-DM-A28E 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-DM-A28F         TCGA-DM-A28G         TCGA-F4-6459 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6570 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-F4-6703         TCGA-F4-6704         TCGA-F4-6805 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-F4-6806         TCGA-F4-6807         TCGA-F4-6808 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-F4-6809         TCGA-F4-6854         TCGA-F4-6855 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-F4-6856         TCGA-G4-6293         TCGA-G4-6299 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-G4-6303         TCGA-G4-6304         TCGA-G4-6306 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-G4-6307         TCGA-G4-6309         TCGA-G4-6310 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-G4-6315         TCGA-G4-6317         TCGA-G4-6321 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-G4-6323         TCGA-G4-6586         TCGA-G4-6588 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
        TCGA-G4-6625         TCGA-G4-6626         TCGA-G4-6628 
"TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" "TMEM229B WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM229B MUTATED        2      1      1      0
  TMEM229B WILD-TYPE     98     71     71    121
D1322V7, multiclass
        clus
vv       TMEM229B MUTATED TMEM229B WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                1                 71
  CLUS_3                1                 71
  CLUS_4                0                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM229B MUTATED        1      1      1      1      0
  TMEM229B WILD-TYPE     58     74     73    118     38
D1322V8, multiclass
        clus
vv       TMEM229B MUTATED TMEM229B WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                1                 74
  CLUS_3                1                 73
  CLUS_4                1                118
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM229B MUTATED        1      1      1      0      1
  TMEM229B WILD-TYPE     50     75     60     71     94
D1322V9, multiclass
        clus
vv       TMEM229B MUTATED TMEM229B WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                1                 75
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM229B MUTATED        1      2      0      0      0      0      0      1
  TMEM229B WILD-TYPE     68     46     39     16     53     20     21     37
                    vv
clus                 CLUS_9
  TMEM229B MUTATED        0
  TMEM229B WILD-TYPE     50
D1322V10, multiclass
        clus
vv       TMEM229B MUTATED TMEM229B WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM229B MUTATED        0      0      0      0      0      0
  TMEM229B WILD-TYPE     13     16     14     11     11      9
D1322V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM229B MUTATED        0      0      0      0      0      0      0      0
  TMEM229B WILD-TYPE     11      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  TMEM229B MUTATED        0
  TMEM229B WILD-TYPE      5
D1322V12, multiclass

Clustering(1323) Variable = FSHR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FSHR MUTATED        3      0      0      2      1
  FSHR WILD-TYPE     29     18     46     25     22
D1323V1, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FSHR MUTATED        3      1      2
  FSHR WILD-TYPE     40     66     34
D1323V2, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FSHR MUTATED        0      5     10
  FSHR WILD-TYPE     42    168    137
D1323V3, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            0             42
  CLUS_2            5            168
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FSHR MUTATED        5      2      2
  FSHR WILD-TYPE     57     71     73
D1323V4, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            5             57
  CLUS_2            2             71
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FSHR MUTATED        2      3      7
  FSHR WILD-TYPE     68    117     93
D1323V5, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FSHR MUTATED        3      0      1      1      1      4      0      1      1
  FSHR WILD-TYPE     38     26     29     28     38     65     20     13     21
D1323V6, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FSHR MUTATED        3      3      3      6
  FSHR WILD-TYPE     97     69     69    115
D1323V7, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            3             97
  CLUS_2            3             69
  CLUS_3            3             69
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FSHR MUTATED        4      3      2      3      3
  FSHR WILD-TYPE     55     72     72    116     35
D1323V8, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            4             55
  CLUS_2            3             72
  CLUS_3            2             72
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FSHR MUTATED        3      2      4      2      3
  FSHR WILD-TYPE     48     74     57     69     92
D1323V9, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            3             48
  CLUS_2            2             74
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FSHR MUTATED        0      3      0      1      5      2      0      2      1
  FSHR WILD-TYPE     69     45     39     15     48     18     21     36     49
D1323V10, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            0             69
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            5             48
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FSHR MUTATED        0      1      1      1      0      0
  FSHR WILD-TYPE     13     15     13     10     11      9
D1323V11, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FSHR MUTATED        0      1      0      0      0      0      2      0      0
  FSHR WILD-TYPE     11      6      7      9      8      7      9      9      5
D1323V12, multiclass
        clus
vv       FSHR MUTATED FSHR WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1324) Variable = VEPH1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VEPH1 MUTATED        5      0      0      1      0
  VEPH1 WILD-TYPE     27     18     46     26     23
D1324V1, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VEPH1 MUTATED        5      1      0
  VEPH1 WILD-TYPE     38     66     36
D1324V2, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VEPH1 MUTATED        1      1     14
  VEPH1 WILD-TYPE     41    172    133
D1324V3, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VEPH1 MUTATED        6      3      2
  VEPH1 WILD-TYPE     56     70     73
D1324V4, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VEPH1 MUTATED        0      5     11
  VEPH1 WILD-TYPE     70    115     89
D1324V5, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3            11              89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VEPH1 MUTATED        1      0      1      1      2      8      1      1
  VEPH1 WILD-TYPE     40     26     29     28     37     61     19     13
                 vv
clus              CLUS_9
  VEPH1 MUTATED        1
  VEPH1 WILD-TYPE     21
D1324V6, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             8              61
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VEPH1 MUTATED        3      4      4      6
  VEPH1 WILD-TYPE     97     68     68    115
D1324V7, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VEPH1 MUTATED        1      4      6      1      5
  VEPH1 WILD-TYPE     58     71     68    118     33
D1324V8, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VEPH1 MUTATED        1      7      2      1      6
  VEPH1 WILD-TYPE     50     69     59     70     89
D1324V9, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             7              69
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VEPH1 MUTATED        1      4      2      3      2      1      0      4
  VEPH1 WILD-TYPE     68     44     37     13     51     19     21     34
                 vv
clus              CLUS_9
  VEPH1 MUTATED        0
  VEPH1 WILD-TYPE     50
D1324V10, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             2              37
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VEPH1 MUTATED        1      0      1      0      3      0
  VEPH1 WILD-TYPE     12     16     13     11      8      9
D1324V11, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VEPH1 MUTATED        0      0      0      2      0      1      1      1
  VEPH1 WILD-TYPE     11      7      7      7      8      6     10      8
                 vv
clus              CLUS_9
  VEPH1 MUTATED        0
  VEPH1 WILD-TYPE      5
D1324V12, multiclass
        clus
vv       VEPH1 MUTATED VEPH1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1325) Variable = IFITM5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFITM5 MUTATED        0      0      0      0      0
  IFITM5 WILD-TYPE     32     18     46     27     23
D1325V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFITM5 MUTATED        0      0      0
  IFITM5 WILD-TYPE     43     67     36
D1325V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFITM5 MUTATED        0      1      2
  IFITM5 WILD-TYPE     42    172    145
D1325V3, multiclass
        clus
vv       IFITM5 MUTATED IFITM5 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFITM5 MUTATED        0      1      2
  IFITM5 WILD-TYPE     62     72     73
D1325V4, multiclass
        clus
vv       IFITM5 MUTATED IFITM5 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFITM5 MUTATED        1      0      2
  IFITM5 WILD-TYPE     69    120     98
D1325V5, multiclass
        clus
vv       IFITM5 MUTATED IFITM5 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              0              120
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFITM5 MUTATED        1      0      0      0      1      1      0      0
  IFITM5 WILD-TYPE     40     26     30     29     38     68     20     14
                  vv
clus               CLUS_9
  IFITM5 MUTATED        0
  IFITM5 WILD-TYPE     22
D1325V6, multiclass
        clus
vv       IFITM5 MUTATED IFITM5 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFITM5 MUTATED        0      2      1      0
  IFITM5 WILD-TYPE    100     70     71    121
D1325V7, multiclass
        clus
vv       IFITM5 MUTATED IFITM5 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFITM5 MUTATED        1      0      2      0      0
  IFITM5 WILD-TYPE     58     75     72    119     38
D1325V8, multiclass
        clus
vv       IFITM5 MUTATED IFITM5 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFITM5 MUTATED        0      1      1      0      1
  IFITM5 WILD-TYPE     51     75     60     71     94
D1325V9, multiclass
        clus
vv       IFITM5 MUTATED IFITM5 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFITM5 MUTATED        0      1      0      1      0      0      0      1
  IFITM5 WILD-TYPE     69     47     39     15     53     20     21     37
                  vv
clus               CLUS_9
  IFITM5 MUTATED        0
  IFITM5 WILD-TYPE     50
D1325V10, multiclass
        clus
vv       IFITM5 MUTATED IFITM5 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IFITM5 MUTATED        0      0      0      1      1      0
  IFITM5 WILD-TYPE     13     16     14     10     10      9
D1325V11, multiclass
[1] "Remove cluster labels:" "IFITM5 MUTATED"        
clus
  IFITM5 MUTATED IFITM5 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFITM5 MUTATED        0      0      1      1      0      0      0      0
  IFITM5 WILD-TYPE     11      7      6      8      8      7     11      9
                  vv
clus               CLUS_9
  IFITM5 MUTATED        0
  IFITM5 WILD-TYPE      5
D1325V12, multiclass
[1] "Remove cluster labels:" "IFITM5 MUTATED"        
clus
  IFITM5 MUTATED IFITM5 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" "IFITM5 WILD-TYPE" 

Clustering(1326) Variable = SBSN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBSN MUTATED        4      0      0      0      0
  SBSN WILD-TYPE     28     18     46     27     23
D1326V1, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBSN MUTATED        4      0      0
  SBSN WILD-TYPE     39     67     36
D1326V2, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBSN MUTATED        1      1      8
  SBSN WILD-TYPE     41    172    139
D1326V3, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBSN MUTATED        1      2      3
  SBSN WILD-TYPE     61     71     72
D1326V4, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBSN MUTATED        2      2      4
  SBSN WILD-TYPE     68    118     96
D1326V5, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            2             68
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SBSN MUTATED        2      0      1      0      1      4      0      0      0
  SBSN WILD-TYPE     39     26     29     29     38     65     20     14     22
D1326V6, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SBSN MUTATED        1      3      2      4
  SBSN WILD-TYPE     99     69     70    117
D1326V7, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBSN MUTATED        0      2      4      1      3
  SBSN WILD-TYPE     59     73     70    118     35
D1326V8, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBSN MUTATED        0      4      1      1      2
  SBSN WILD-TYPE     51     72     60     70     93
D1326V9, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SBSN MUTATED        2      2      0      1      1      0      0      2      0
  SBSN WILD-TYPE     67     46     39     15     52     20     21     36     50
D1326V10, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SBSN MUTATED        1      2      0      0      0      0
  SBSN WILD-TYPE     12     14     14     11     11      9
D1326V11, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            1             12
  CLUS_2            2             14
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SBSN MUTATED        1      0      0      1      0      0      1      0      0
  SBSN WILD-TYPE     10      7      7      8      8      7     10      9      5
D1326V12, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1327) Variable = RUSC2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUSC2 MUTATED        2      0      0      2      1
  RUSC2 WILD-TYPE     30     18     46     25     22
D1327V1, multiclass
        clus
vv       RUSC2 MUTATED RUSC2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUSC2 MUTATED        3      1      1
  RUSC2 WILD-TYPE     40     66     35
D1327V2, multiclass
        clus
vv       RUSC2 MUTATED RUSC2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUSC2 MUTATED        0      2     10
  RUSC2 WILD-TYPE     42    171    137
D1327V3, multiclass
        clus
vv       RUSC2 MUTATED RUSC2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUSC2 MUTATED        1      1      5
  RUSC2 WILD-TYPE     61     72     70
D1327V4, multiclass
        clus
vv       RUSC2 MUTATED RUSC2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUSC2 MUTATED        3      5      3
  RUSC2 WILD-TYPE     67    115     97
D1327V5, multiclass
        clus
vv       RUSC2 MUTATED RUSC2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUSC2 MUTATED        2      1      1      1      2      3      0      1
  RUSC2 WILD-TYPE     39     25     29     28     37     66     20     13
                 vv
clus              CLUS_9
  RUSC2 MUTATED        0
  RUSC2 WILD-TYPE     22
D1327V6, multiclass
        clus
vv       RUSC2 MUTATED RUSC2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RUSC2 MUTATED        1      4      2      5
  RUSC2 WILD-TYPE     99     68     70    116
D1327V7, multiclass
        clus
vv       RUSC2 MUTATED RUSC2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUSC2 MUTATED        0      1      5      3      3
  RUSC2 WILD-TYPE     59     74     69    116     35
D1327V8, multiclass
        clus
vv       RUSC2 MUTATED RUSC2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUSC2 MUTATED        0      6      0      1      5
  RUSC2 WILD-TYPE     51     70     61     70     90
D1327V9, multiclass
        clus
vv       RUSC2 MUTATED RUSC2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUSC2 MUTATED        2      2      1      2      0      1      0      4
  RUSC2 WILD-TYPE     67     46     38     14     53     19     21     34
                 vv
clus              CLUS_9
  RUSC2 MUTATED        0
  RUSC2 WILD-TYPE     50
D1327V10, multiclass
        clus
vv       RUSC2 MUTATED RUSC2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RUSC2 MUTATED        0      1      1      0      0      0
  RUSC2 WILD-TYPE     13     15     13     11     11      9
D1327V11, multiclass
[1] "Remove cluster labels:" "RUSC2 MUTATED"         
clus
  RUSC2 MUTATED RUSC2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6676 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RUSC2 MUTATED        0      0      0      0      0      1      1      0
  RUSC2 WILD-TYPE     11      7      7      9      8      6     10      9
                 vv
clus              CLUS_9
  RUSC2 MUTATED        0
  RUSC2 WILD-TYPE      5
D1327V12, multiclass
[1] "Remove cluster labels:" "RUSC2 MUTATED"         
clus
  RUSC2 MUTATED RUSC2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6676 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" "RUSC2 WILD-TYPE" 

Clustering(1328) Variable = CLVS1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLVS1 MUTATED        1      0      0      1      0
  CLVS1 WILD-TYPE     31     18     46     26     23
D1328V1, multiclass
[1] "Remove cluster labels:" "CLVS1 MUTATED"         
clus
  CLVS1 MUTATED CLVS1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866      TCGA-AA-3867 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLVS1 MUTATED        2      0      0
  CLVS1 WILD-TYPE     41     67     36
D1328V2, multiclass
[1] "Remove cluster labels:" "CLVS1 MUTATED"         
clus
  CLVS1 MUTATED CLVS1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866      TCGA-AA-3867 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLVS1 MUTATED        1      4      5
  CLVS1 WILD-TYPE     41    169    142
D1328V3, multiclass
        clus
vv       CLVS1 MUTATED CLVS1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLVS1 MUTATED        3      3      1
  CLVS1 WILD-TYPE     59     70     74
D1328V4, multiclass
        clus
vv       CLVS1 MUTATED CLVS1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLVS1 MUTATED        0      6      2
  CLVS1 WILD-TYPE     70    114     98
D1328V5, multiclass
        clus
vv       CLVS1 MUTATED CLVS1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             6             114
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLVS1 MUTATED        1      1      0      2      1      1      1      1
  CLVS1 WILD-TYPE     40     25     30     27     38     68     19     13
                 vv
clus              CLUS_9
  CLVS1 MUTATED        0
  CLVS1 WILD-TYPE     22
D1328V6, multiclass
        clus
vv       CLVS1 MUTATED CLVS1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLVS1 MUTATED        4      1      2      3
  CLVS1 WILD-TYPE     96     71     70    118
D1328V7, multiclass
        clus
vv       CLVS1 MUTATED CLVS1 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLVS1 MUTATED        3      4      0      1      2
  CLVS1 WILD-TYPE     56     71     74    118     36
D1328V8, multiclass
        clus
vv       CLVS1 MUTATED CLVS1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             4              71
  CLUS_3             0              74
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLVS1 MUTATED        2      0      2      3      3
  CLVS1 WILD-TYPE     49     76     59     68     92
D1328V9, multiclass
        clus
vv       CLVS1 MUTATED CLVS1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             0              76
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLVS1 MUTATED        4      2      0      0      1      0      0      2
  CLVS1 WILD-TYPE     65     46     39     16     52     20     21     36
                 vv
clus              CLUS_9
  CLVS1 MUTATED        1
  CLVS1 WILD-TYPE     49
D1328V10, multiclass
        clus
vv       CLVS1 MUTATED CLVS1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLVS1 MUTATED        1      0      0      1      0      0
  CLVS1 WILD-TYPE     12     16     14     10     11      9
D1328V11, multiclass
[1] "Remove cluster labels:" "CLVS1 MUTATED"         
clus
  CLVS1 MUTATED CLVS1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D9 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLVS1 MUTATED        0      0      0      0      0      0      0      2
  CLVS1 WILD-TYPE     11      7      7      9      8      7     11      7
                 vv
clus              CLUS_9
  CLVS1 MUTATED        0
  CLVS1 WILD-TYPE      5
D1328V12, multiclass
[1] "Remove cluster labels:" "CLVS1 MUTATED"         
clus
  CLVS1 MUTATED CLVS1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D9 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" "CLVS1 WILD-TYPE" 

Clustering(1329) Variable = FOXA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOXA2 MUTATED        0      0      1      0      0
  FOXA2 WILD-TYPE     32     18     45     27     23
D1329V1, multiclass
[1] "Remove cluster labels:" "FOXA2 MUTATED"         
clus
  FOXA2 MUTATED FOXA2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3845      TCGA-AA-3846 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AY-4071 
"FOXA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXA2 MUTATED        0      1      0
  FOXA2 WILD-TYPE     43     66     36
D1329V2, multiclass
[1] "Remove cluster labels:" "FOXA2 MUTATED"         
clus
  FOXA2 MUTATED FOXA2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3845      TCGA-AA-3846 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AY-4071 
"FOXA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXA2 MUTATED        0      3      3
  FOXA2 WILD-TYPE     42    170    144
D1329V3, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXA2 MUTATED        0      2      3
  FOXA2 WILD-TYPE     62     71     72
D1329V4, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXA2 MUTATED        0      3      1
  FOXA2 WILD-TYPE     70    117     99
D1329V5, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOXA2 MUTATED        0      1      0      2      0      1      0      0
  FOXA2 WILD-TYPE     41     25     30     27     39     68     20     14
                 vv
clus              CLUS_9
  FOXA2 MUTATED        0
  FOXA2 WILD-TYPE     22
D1329V6, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FOXA2 MUTATED        2      3      0      1
  FOXA2 WILD-TYPE     98     69     72    120
D1329V7, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOXA2 MUTATED        0      2      3      1      0
  FOXA2 WILD-TYPE     59     73     71    118     38
D1329V8, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOXA2 MUTATED        1      2      1      1      1
  FOXA2 WILD-TYPE     50     74     60     70     94
D1329V9, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOXA2 MUTATED        0      1      1      2      0      1      0      0
  FOXA2 WILD-TYPE     69     47     38     14     53     19     21     38
                 vv
clus              CLUS_9
  FOXA2 MUTATED        1
  FOXA2 WILD-TYPE     49
D1329V10, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FOXA2 MUTATED        1      0      0      0      0      0
  FOXA2 WILD-TYPE     12     16     14     11     11      9
D1329V11, multiclass
[1] "Remove cluster labels:" "FOXA2 MUTATED"         
clus
  FOXA2 MUTATED FOXA2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-G4-6628 
"FOXA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOXA2 MUTATED        0      0      0      0      0      0      0      1
  FOXA2 WILD-TYPE     11      7      7      9      8      7     11      8
                 vv
clus              CLUS_9
  FOXA2 MUTATED        0
  FOXA2 WILD-TYPE      5
D1329V12, multiclass
[1] "Remove cluster labels:" "FOXA2 MUTATED"         
clus
  FOXA2 MUTATED FOXA2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-G4-6628 
"FOXA2 WILD-TYPE" 

Clustering(1330) Variable = FAM70A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM70A MUTATED        0      0      0      1      0
  FAM70A WILD-TYPE     32     18     46     26     23
D1330V1, multiclass
[1] "Remove cluster labels:" "FAM70A MUTATED"        
clus
  FAM70A MUTATED FAM70A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AY-4071 
"FAM70A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM70A MUTATED        1      0      0
  FAM70A WILD-TYPE     42     67     36
D1330V2, multiclass
[1] "Remove cluster labels:" "FAM70A MUTATED"        
clus
  FAM70A MUTATED FAM70A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AY-4071 
"FAM70A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM70A MUTATED        0      2      5
  FAM70A WILD-TYPE     42    171    142
D1330V3, multiclass
        clus
vv       FAM70A MUTATED FAM70A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM70A MUTATED        2      3      1
  FAM70A WILD-TYPE     60     70     74
D1330V4, multiclass
        clus
vv       FAM70A MUTATED FAM70A WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3               70
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM70A MUTATED        0      2      4
  FAM70A WILD-TYPE     70    118     96
D1330V5, multiclass
        clus
vv       FAM70A MUTATED FAM70A WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM70A MUTATED        1      1      0      0      0      4      0      0
  FAM70A WILD-TYPE     40     25     30     29     39     65     20     14
                  vv
clus               CLUS_9
  FAM70A MUTATED        0
  FAM70A WILD-TYPE     22
D1330V6, multiclass
        clus
vv       FAM70A MUTATED FAM70A WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM70A MUTATED        3      2      1      1
  FAM70A WILD-TYPE     97     70     71    120
D1330V7, multiclass
        clus
vv       FAM70A MUTATED FAM70A WILD-TYPE
  CLUS_1              3               97
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM70A MUTATED        1      4      1      0      1
  FAM70A WILD-TYPE     58     71     73    119     37
D1330V8, multiclass
        clus
vv       FAM70A MUTATED FAM70A WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM70A MUTATED        2      2      1      0      1
  FAM70A WILD-TYPE     49     74     60     71     94
D1330V9, multiclass
        clus
vv       FAM70A MUTATED FAM70A WILD-TYPE
  CLUS_1              2               49
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM70A MUTATED        2      1      0      1      0      1      0      0
  FAM70A WILD-TYPE     67     47     39     15     53     19     21     38
                  vv
clus               CLUS_9
  FAM70A MUTATED        1
  FAM70A WILD-TYPE     49
D1330V10, multiclass
        clus
vv       FAM70A MUTATED FAM70A WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM70A MUTATED        0      0      0      0      1      0
  FAM70A WILD-TYPE     13     16     14     11     10      9
D1330V11, multiclass
[1] "Remove cluster labels:" "FAM70A MUTATED"        
clus
  FAM70A MUTATED FAM70A WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-G4-6628 
"FAM70A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM70A MUTATED        0      0      0      1      0      0      0      0
  FAM70A WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  FAM70A MUTATED        0
  FAM70A WILD-TYPE      5
D1330V12, multiclass
[1] "Remove cluster labels:" "FAM70A MUTATED"        
clus
  FAM70A MUTATED FAM70A WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" "FAM70A WILD-TYPE" 
      TCGA-G4-6628 
"FAM70A WILD-TYPE" 

Clustering(1331) Variable = MAOB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAOB MUTATED        1      0      0      0      0
  MAOB WILD-TYPE     31     18     46     27     23
D1331V1, multiclass
[1] "Remove cluster labels:" "MAOB MUTATED"          
clus
  MAOB MUTATED MAOB WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AY-4071 
"MAOB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAOB MUTATED        1      0      0
  MAOB WILD-TYPE     42     67     36
D1331V2, multiclass
[1] "Remove cluster labels:" "MAOB MUTATED"          
clus
  MAOB MUTATED MAOB WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AY-4071 
"MAOB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAOB MUTATED        1      0      5
  MAOB WILD-TYPE     41    173    142
D1331V3, multiclass
        clus
vv       MAOB MUTATED MAOB WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAOB MUTATED        1      1      3
  MAOB WILD-TYPE     61     72     72
D1331V4, multiclass
        clus
vv       MAOB MUTATED MAOB WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAOB MUTATED        0      2      4
  MAOB WILD-TYPE     70    118     96
D1331V5, multiclass
        clus
vv       MAOB MUTATED MAOB WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAOB MUTATED        1      0      0      1      0      3      1      0      0
  MAOB WILD-TYPE     40     26     30     28     39     66     19     14     22
D1331V6, multiclass
        clus
vv       MAOB MUTATED MAOB WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAOB MUTATED        1      3      1      1
  MAOB WILD-TYPE     99     69     71    120
D1331V7, multiclass
        clus
vv       MAOB MUTATED MAOB WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAOB MUTATED        1      1      3      0      1
  MAOB WILD-TYPE     58     74     71    119     37
D1331V8, multiclass
        clus
vv       MAOB MUTATED MAOB WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAOB MUTATED        0      3      0      2      1
  MAOB WILD-TYPE     51     73     61     69     94
D1331V9, multiclass
        clus
vv       MAOB MUTATED MAOB WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAOB MUTATED        2      1      0      1      1      0      0      1      0
  MAOB WILD-TYPE     67     47     39     15     52     20     21     37     50
D1331V10, multiclass
        clus
vv       MAOB MUTATED MAOB WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAOB MUTATED        0      0      1      1      0      0
  MAOB WILD-TYPE     13     16     13     10     11      9
D1331V11, multiclass
[1] "Remove cluster labels:" "MAOB MUTATED"          
clus
  MAOB MUTATED MAOB WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6679     TCGA-CM-6680 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAOB MUTATED        1      0      0      0      0      0      1      0      0
  MAOB WILD-TYPE     10      7      7      9      8      7     10      9      5
D1331V12, multiclass
[1] "Remove cluster labels:" "MAOB MUTATED"          
clus
  MAOB MUTATED MAOB WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6679     TCGA-CM-6680 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" "MAOB WILD-TYPE" 

Clustering(1332) Variable = CCDC6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC6 MUTATED        1      1      0      0      0
  CCDC6 WILD-TYPE     31     17     46     27     23
D1332V1, multiclass
[1] "Remove cluster labels:" "CCDC6 MUTATED"         
clus
  CCDC6 MUTATED CCDC6 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3516      TCGA-AA-3517 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCDC6 MUTATED        2      0      0
  CCDC6 WILD-TYPE     41     67     36
D1332V2, multiclass
[1] "Remove cluster labels:" "CCDC6 MUTATED"         
clus
  CCDC6 MUTATED CCDC6 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3516      TCGA-AA-3517 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCDC6 MUTATED        0      2      9
  CCDC6 WILD-TYPE     42    171    138
D1332V3, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCDC6 MUTATED        5      0      4
  CCDC6 WILD-TYPE     57     73     71
D1332V4, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCDC6 MUTATED        2      3      6
  CCDC6 WILD-TYPE     68    117     94
D1332V5, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC6 MUTATED        2      1      0      1      1      4      1      1
  CCDC6 WILD-TYPE     39     25     30     28     38     65     19     13
                 vv
clus              CLUS_9
  CCDC6 MUTATED        0
  CCDC6 WILD-TYPE     22
D1332V6, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC6 MUTATED        1      4      3      3
  CCDC6 WILD-TYPE     99     68     69    118
D1332V7, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC6 MUTATED        2      2      4      2      1
  CCDC6 WILD-TYPE     57     73     70    117     37
D1332V8, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC6 MUTATED        1      5      3      0      2
  CCDC6 WILD-TYPE     50     71     58     71     93
D1332V9, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC6 MUTATED        3      2      1      1      0      1      1      1
  CCDC6 WILD-TYPE     66     46     38     15     53     19     20     37
                 vv
clus              CLUS_9
  CCDC6 MUTATED        1
  CCDC6 WILD-TYPE     49
D1332V10, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC6 MUTATED        0      0      2      0      0      0
  CCDC6 WILD-TYPE     13     16     12     11     11      9
D1332V11, multiclass
[1] "Remove cluster labels:" "CCDC6 MUTATED"         
clus
  CCDC6 MUTATED CCDC6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6141      TCGA-A6-6142 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6676 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC6 MUTATED        0      0      0      0      1      1      0      0
  CCDC6 WILD-TYPE     11      7      7      9      7      6     11      9
                 vv
clus              CLUS_9
  CCDC6 MUTATED        0
  CCDC6 WILD-TYPE      5
D1332V12, multiclass
[1] "Remove cluster labels:" "CCDC6 MUTATED"         
clus
  CCDC6 MUTATED CCDC6 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6141      TCGA-A6-6142 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6676 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" "CCDC6 WILD-TYPE" 

Clustering(1333) Variable = WNK4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNK4 MUTATED        2      0      0      1      0
  WNK4 WILD-TYPE     30     18     46     26     23
D1333V1, multiclass
        clus
vv       WNK4 MUTATED WNK4 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK4 MUTATED        3      0      0
  WNK4 WILD-TYPE     40     67     36
D1333V2, multiclass
        clus
vv       WNK4 MUTATED WNK4 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK4 MUTATED        0      0     11
  WNK4 WILD-TYPE     42    173    136
D1333V3, multiclass
        clus
vv       WNK4 MUTATED WNK4 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK4 MUTATED        4      0      4
  WNK4 WILD-TYPE     58     73     71
D1333V4, multiclass
        clus
vv       WNK4 MUTATED WNK4 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WNK4 MUTATED        1      2      6
  WNK4 WILD-TYPE     69    118     94
D1333V5, multiclass
        clus
vv       WNK4 MUTATED WNK4 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNK4 MUTATED        0      1      0      0      2      6      0      0      0
  WNK4 WILD-TYPE     41     25     30     29     37     63     20     14     22
D1333V6, multiclass
        clus
vv       WNK4 MUTATED WNK4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WNK4 MUTATED        0      5      3      3
  WNK4 WILD-TYPE    100     67     69    118
D1333V7, multiclass
        clus
vv       WNK4 MUTATED WNK4 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            5             67
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNK4 MUTATED        0      2      6      0      3
  WNK4 WILD-TYPE     59     73     68    119     35
D1333V8, multiclass
        clus
vv       WNK4 MUTATED WNK4 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            6             68
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNK4 MUTATED        1      3      2      0      5
  WNK4 WILD-TYPE     50     73     59     71     90
D1333V9, multiclass
        clus
vv       WNK4 MUTATED WNK4 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNK4 MUTATED        1      3      0      2      0      0      1      3      1
  WNK4 WILD-TYPE     68     45     39     14     53     20     20     35     49
D1333V10, multiclass
        clus
vv       WNK4 MUTATED WNK4 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WNK4 MUTATED        0      0      0      0      1      0
  WNK4 WILD-TYPE     13     16     14     11     10      9
D1333V11, multiclass
[1] "Remove cluster labels:" "WNK4 MUTATED"          
clus
  WNK4 MUTATED WNK4 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-G4-6628 
"WNK4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  WNK4 MUTATED        0      0      0      1      0      0      0      0      0
  WNK4 WILD-TYPE     11      7      7      8      8      7     11      9      5
D1333V12, multiclass
[1] "Remove cluster labels:" "WNK4 MUTATED"          
clus
  WNK4 MUTATED WNK4 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" "WNK4 WILD-TYPE" 
    TCGA-G4-6628 
"WNK4 WILD-TYPE" 

Clustering(1334) Variable = METT5D1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  METT5D1 MUTATED        1      0      0      0      0
  METT5D1 WILD-TYPE     31     18     46     27     23
D1334V1, multiclass
[1] "Remove cluster labels:" "METT5D1 MUTATED"       
clus
  METT5D1 MUTATED METT5D1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AY-4071 
"METT5D1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  METT5D1 MUTATED        1      0      0
  METT5D1 WILD-TYPE     42     67     36
D1334V2, multiclass
[1] "Remove cluster labels:" "METT5D1 MUTATED"       
clus
  METT5D1 MUTATED METT5D1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" "METT5D1 WILD-TYPE" 
       TCGA-AY-4071 
"METT5D1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  METT5D1 MUTATED        0      1      5
  METT5D1 WILD-TYPE     42    172    142
D1334V3, multiclass
        clus
vv       METT5D1 MUTATED METT5D1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  METT5D1 MUTATED        0      2      3
  METT5D1 WILD-TYPE     62     71     72
D1334V4, multiclass
        clus
vv       METT5D1 MUTATED METT5D1 WILD-TYPE
  CLUS_1               0                62
  CLUS_2               2                71
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  METT5D1 MUTATED        0      2      3
  METT5D1 WILD-TYPE     70    118     97
D1334V5, multiclass
        clus
vv       METT5D1 MUTATED METT5D1 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  METT5D1 MUTATED        0      1      0      1      0      2      1      0
  METT5D1 WILD-TYPE     41     25     30     28     39     67     19     14
                   vv
clus                CLUS_9
  METT5D1 MUTATED        0
  METT5D1 WILD-TYPE     22
D1334V6, multiclass
        clus
vv       METT5D1 MUTATED METT5D1 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  METT5D1 MUTATED        2      2      1      1
  METT5D1 WILD-TYPE     98     70     71    120
D1334V7, multiclass
        clus
vv       METT5D1 MUTATED METT5D1 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               2                70
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  METT5D1 MUTATED        0      2      3      0      1
  METT5D1 WILD-TYPE     59     73     71    119     37
D1334V8, multiclass
        clus
vv       METT5D1 MUTATED METT5D1 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  METT5D1 MUTATED        0      2      0      3      1
  METT5D1 WILD-TYPE     51     74     61     68     94
D1334V9, multiclass
        clus
vv       METT5D1 MUTATED METT5D1 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               3                68
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  METT5D1 MUTATED        1      0      1      1      2      0      0      1
  METT5D1 WILD-TYPE     68     48     38     15     51     20     21     37
                   vv
clus                CLUS_9
  METT5D1 MUTATED        0
  METT5D1 WILD-TYPE     50
D1334V10, multiclass
        clus
vv       METT5D1 MUTATED METT5D1 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               0                48
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  METT5D1 MUTATED        2      0      1      0      0      0
  METT5D1 WILD-TYPE     11     16     13     11     11      9
D1334V11, multiclass
        clus
vv       METT5D1 MUTATED METT5D1 WILD-TYPE
  CLUS_1               2                11
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  METT5D1 MUTATED        0      0      0      1      1      0      0      1
  METT5D1 WILD-TYPE     11      7      7      8      7      7     11      8
                   vv
clus                CLUS_9
  METT5D1 MUTATED        0
  METT5D1 WILD-TYPE      5
D1334V12, multiclass
        clus
vv       METT5D1 MUTATED METT5D1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1335) Variable = SCYL2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCYL2 MUTATED        2      0      0      0      0
  SCYL2 WILD-TYPE     30     18     46     27     23
D1335V1, multiclass
[1] "Remove cluster labels:" "SCYL2 MUTATED"         
clus
  SCYL2 MUTATED SCYL2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCYL2 MUTATED        1      0      1
  SCYL2 WILD-TYPE     42     67     35
D1335V2, multiclass
[1] "Remove cluster labels:" "SCYL2 MUTATED"         
clus
  SCYL2 MUTATED SCYL2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCYL2 MUTATED        1      2     12
  SCYL2 WILD-TYPE     41    171    135
D1335V3, multiclass
        clus
vv       SCYL2 MUTATED SCYL2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCYL2 MUTATED        4      1      8
  SCYL2 WILD-TYPE     58     72     67
D1335V4, multiclass
        clus
vv       SCYL2 MUTATED SCYL2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCYL2 MUTATED        3      4      5
  SCYL2 WILD-TYPE     67    116     95
D1335V5, multiclass
        clus
vv       SCYL2 MUTATED SCYL2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCYL2 MUTATED        2      1      0      2      0      3      3      0
  SCYL2 WILD-TYPE     39     25     30     27     39     66     17     14
                 vv
clus              CLUS_9
  SCYL2 MUTATED        1
  SCYL2 WILD-TYPE     21
D1335V6, multiclass
        clus
vv       SCYL2 MUTATED SCYL2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SCYL2 MUTATED        3      8      3      2
  SCYL2 WILD-TYPE     97     64     69    119
D1335V7, multiclass
        clus
vv       SCYL2 MUTATED SCYL2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             8              64
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCYL2 MUTATED        1      4      9      1      1
  SCYL2 WILD-TYPE     58     71     65    118     37
D1335V8, multiclass
        clus
vv       SCYL2 MUTATED SCYL2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             9              65
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCYL2 MUTATED        2      8      1      1      4
  SCYL2 WILD-TYPE     49     68     60     70     91
D1335V9, multiclass
        clus
vv       SCYL2 MUTATED SCYL2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             8              68
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCYL2 MUTATED        2      3      2      2      4      0      0      2
  SCYL2 WILD-TYPE     67     45     37     14     49     20     21     36
                 vv
clus              CLUS_9
  SCYL2 MUTATED        1
  SCYL2 WILD-TYPE     49
D1335V10, multiclass
        clus
vv       SCYL2 MUTATED SCYL2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             2              37
  CLUS_4             2              14
  CLUS_5             4              49
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SCYL2 MUTATED        0      1      0      0      1      0
  SCYL2 WILD-TYPE     13     15     14     11     10      9
D1335V11, multiclass
[1] "Remove cluster labels:" "SCYL2 MUTATED"         
clus
  SCYL2 MUTATED SCYL2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCYL2 MUTATED        0      0      0      0      0      0      2      0
  SCYL2 WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  SCYL2 MUTATED        0
  SCYL2 WILD-TYPE      5
D1335V12, multiclass
[1] "Remove cluster labels:" "SCYL2 MUTATED"         
clus
  SCYL2 MUTATED SCYL2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" "SCYL2 WILD-TYPE" 

Clustering(1336) Variable = RBM15B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM15B MUTATED        0      0      0      2      0
  RBM15B WILD-TYPE     32     18     46     25     23
D1336V1, multiclass
[1] "Remove cluster labels:" "RBM15B MUTATED"        
clus
  RBM15B MUTATED RBM15B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RBM15B MUTATED        1      1      0
  RBM15B WILD-TYPE     42     66     36
D1336V2, multiclass
[1] "Remove cluster labels:" "RBM15B MUTATED"        
clus
  RBM15B MUTATED RBM15B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" "RBM15B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RBM15B MUTATED        0      0      8
  RBM15B WILD-TYPE     42    173    139
D1336V3, multiclass
        clus
vv       RBM15B MUTATED RBM15B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RBM15B MUTATED        1      1      4
  RBM15B WILD-TYPE     61     72     71
D1336V4, multiclass
        clus
vv       RBM15B MUTATED RBM15B WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RBM15B MUTATED        3      1      4
  RBM15B WILD-TYPE     67    119     96
D1336V5, multiclass
        clus
vv       RBM15B MUTATED RBM15B WILD-TYPE
  CLUS_1              3               67
  CLUS_2              1              119
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM15B MUTATED        2      0      0      0      2      3      1      0
  RBM15B WILD-TYPE     39     26     30     29     37     66     19     14
                  vv
clus               CLUS_9
  RBM15B MUTATED        0
  RBM15B WILD-TYPE     22
D1336V6, multiclass
        clus
vv       RBM15B MUTATED RBM15B WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM15B MUTATED        1      3      2      2
  RBM15B WILD-TYPE     99     69     70    119
D1336V7, multiclass
        clus
vv       RBM15B MUTATED RBM15B WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM15B MUTATED        1      0      5      1      1
  RBM15B WILD-TYPE     58     75     69    118     37
D1336V8, multiclass
        clus
vv       RBM15B MUTATED RBM15B WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM15B MUTATED        0      4      0      1      2
  RBM15B WILD-TYPE     51     72     61     70     93
D1336V9, multiclass
        clus
vv       RBM15B MUTATED RBM15B WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM15B MUTATED        1      2      0      2      0      0      0      2
  RBM15B WILD-TYPE     68     46     39     14     53     20     21     36
                  vv
clus               CLUS_9
  RBM15B MUTATED        0
  RBM15B WILD-TYPE     50
D1336V10, multiclass
        clus
vv       RBM15B MUTATED RBM15B WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBM15B MUTATED        0      1      0      1      2      0
  RBM15B WILD-TYPE     13     15     14     10      9      9
D1336V11, multiclass
        clus
vv       RBM15B MUTATED RBM15B WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM15B MUTATED        0      0      0      1      0      0      3      0
  RBM15B WILD-TYPE     11      7      7      8      8      7      8      9
                  vv
clus               CLUS_9
  RBM15B MUTATED        0
  RBM15B WILD-TYPE      5
D1336V12, multiclass
        clus
vv       RBM15B MUTATED RBM15B WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              3                8
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1337) Variable = DHX36 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHX36 MUTATED        1      0      0      0      0
  DHX36 WILD-TYPE     31     18     46     27     23
D1337V1, multiclass
[1] "Remove cluster labels:" "DHX36 MUTATED"         
clus
  DHX36 MUTATED DHX36 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AY-4071 
"DHX36 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX36 MUTATED        1      0      0
  DHX36 WILD-TYPE     42     67     36
D1337V2, multiclass
[1] "Remove cluster labels:" "DHX36 MUTATED"         
clus
  DHX36 MUTATED DHX36 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3517 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" "DHX36 WILD-TYPE" 
     TCGA-AY-4071 
"DHX36 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX36 MUTATED        1      3      8
  DHX36 WILD-TYPE     41    170    139
D1337V3, multiclass
        clus
vv       DHX36 MUTATED DHX36 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX36 MUTATED        7      1      3
  DHX36 WILD-TYPE     55     72     72
D1337V4, multiclass
        clus
vv       DHX36 MUTATED DHX36 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DHX36 MUTATED        1      1      7
  DHX36 WILD-TYPE     69    119     93
D1337V5, multiclass
        clus
vv       DHX36 MUTATED DHX36 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHX36 MUTATED        1      0      0      1      0      6      0      0
  DHX36 WILD-TYPE     40     26     30     28     39     63     20     14
                 vv
clus              CLUS_9
  DHX36 MUTATED        1
  DHX36 WILD-TYPE     21
D1337V6, multiclass
        clus
vv       DHX36 MUTATED DHX36 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DHX36 MUTATED        2      4      5      1
  DHX36 WILD-TYPE     98     68     67    120
D1337V7, multiclass
        clus
vv       DHX36 MUTATED DHX36 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             5              67
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHX36 MUTATED        1      3      7      0      1
  DHX36 WILD-TYPE     58     72     67    119     37
D1337V8, multiclass
        clus
vv       DHX36 MUTATED DHX36 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             7              67
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DHX36 MUTATED        0      6      2      2      2
  DHX36 WILD-TYPE     51     70     59     69     93
D1337V9, multiclass
        clus
vv       DHX36 MUTATED DHX36 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHX36 MUTATED        2      2      1      3      2      0      0      1
  DHX36 WILD-TYPE     67     46     38     13     51     20     21     37
                 vv
clus              CLUS_9
  DHX36 MUTATED        1
  DHX36 WILD-TYPE     49
D1337V10, multiclass
        clus
vv       DHX36 MUTATED DHX36 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DHX36 MUTATED        0      0      4      0      1      1
  DHX36 WILD-TYPE     13     16     10     11     10      8
D1337V11, multiclass
        clus
vv       DHX36 MUTATED DHX36 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             4              10
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DHX36 MUTATED        0      0      0      1      2      1      1      1
  DHX36 WILD-TYPE     11      7      7      8      6      6     10      8
                 vv
clus              CLUS_9
  DHX36 MUTATED        0
  DHX36 WILD-TYPE      5
D1337V12, multiclass
        clus
vv       DHX36 MUTATED DHX36 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             2               6
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1338) Variable = GFRAL MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GFRAL MUTATED        0      0      0      0      0
  GFRAL WILD-TYPE     32     18     46     27     23
D1338V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GFRAL MUTATED        0      0      0
  GFRAL WILD-TYPE     43     67     36
D1338V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GFRAL MUTATED        1      0      3
  GFRAL WILD-TYPE     41    173    144
D1338V3, multiclass
        clus
vv       GFRAL MUTATED GFRAL WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GFRAL MUTATED        3      0      1
  GFRAL WILD-TYPE     59     73     74
D1338V4, multiclass
        clus
vv       GFRAL MUTATED GFRAL WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GFRAL MUTATED        0      1      2
  GFRAL WILD-TYPE     70    119     98
D1338V5, multiclass
        clus
vv       GFRAL MUTATED GFRAL WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GFRAL MUTATED        1      1      0      0      0      1      0      0
  GFRAL WILD-TYPE     40     25     30     29     39     68     20     14
                 vv
clus              CLUS_9
  GFRAL MUTATED        0
  GFRAL WILD-TYPE     22
D1338V6, multiclass
        clus
vv       GFRAL MUTATED GFRAL WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GFRAL MUTATED        0      2      1      1
  GFRAL WILD-TYPE    100     70     71    120
D1338V7, multiclass
        clus
vv       GFRAL MUTATED GFRAL WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GFRAL MUTATED        0      1      2      1      0
  GFRAL WILD-TYPE     59     74     72    118     38
D1338V8, multiclass
        clus
vv       GFRAL MUTATED GFRAL WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GFRAL MUTATED        0      3      0      0      1
  GFRAL WILD-TYPE     51     73     61     71     94
D1338V9, multiclass
        clus
vv       GFRAL MUTATED GFRAL WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GFRAL MUTATED        2      0      0      1      0      0      0      0
  GFRAL WILD-TYPE     67     48     39     15     53     20     21     38
                 vv
clus              CLUS_9
  GFRAL MUTATED        1
  GFRAL WILD-TYPE     49
D1338V10, multiclass
        clus
vv       GFRAL MUTATED GFRAL WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GFRAL MUTATED        0      1      0      0      0      0
  GFRAL WILD-TYPE     13     15     14     11     11      9
D1338V11, multiclass
[1] "Remove cluster labels:" "GFRAL MUTATED"         
clus
  GFRAL MUTATED GFRAL WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-G4-6628 
"GFRAL WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GFRAL MUTATED        1      0      0      0      0      0      0      0
  GFRAL WILD-TYPE     10      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  GFRAL MUTATED        0
  GFRAL WILD-TYPE      5
D1338V12, multiclass
[1] "Remove cluster labels:" "GFRAL MUTATED"         
clus
  GFRAL MUTATED GFRAL WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" "GFRAL WILD-TYPE" 
     TCGA-G4-6628 
"GFRAL WILD-TYPE" 

Clustering(1339) Variable = TAB3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAB3 MUTATED        1      0      0      1      0
  TAB3 WILD-TYPE     31     18     46     26     23
D1339V1, multiclass
[1] "Remove cluster labels:" "TAB3 MUTATED"          
clus
  TAB3 MUTATED TAB3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAB3 MUTATED        2      0      0
  TAB3 WILD-TYPE     41     67     36
D1339V2, multiclass
[1] "Remove cluster labels:" "TAB3 MUTATED"          
clus
  TAB3 MUTATED TAB3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" "TAB3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAB3 MUTATED        1      4      5
  TAB3 WILD-TYPE     41    169    142
D1339V3, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAB3 MUTATED        5      2      0
  TAB3 WILD-TYPE     57     71     75
D1339V4, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            2             71
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAB3 MUTATED        1      3      4
  TAB3 WILD-TYPE     69    117     96
D1339V5, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAB3 MUTATED        0      1      1      0      1      4      0      1      0
  TAB3 WILD-TYPE     41     25     29     29     38     65     20     13     22
D1339V6, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAB3 MUTATED        3      0      4      3
  TAB3 WILD-TYPE     97     72     68    118
D1339V7, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            0             72
  CLUS_3            4             68
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAB3 MUTATED        4      1      2      0      3
  TAB3 WILD-TYPE     55     74     72    119     35
D1339V8, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            1             74
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAB3 MUTATED        0      3      4      0      2
  TAB3 WILD-TYPE     51     73     57     71     93
D1339V9, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            4             57
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAB3 MUTATED        1      3      0      0      2      1      0      2      0
  TAB3 WILD-TYPE     68     45     39     16     51     19     21     36     50
D1339V10, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAB3 MUTATED        0      2      1      0      1      0
  TAB3 WILD-TYPE     13     14     13     11     10      9
D1339V11, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAB3 MUTATED        1      1      0      0      0      0      2      0      0
  TAB3 WILD-TYPE     10      6      7      9      8      7      9      9      5
D1339V12, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1340) Variable = NXPH1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NXPH1 MUTATED        0      0      0      3      0
  NXPH1 WILD-TYPE     32     18     46     24     23
D1340V1, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             0              32
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NXPH1 MUTATED        1      2      0
  NXPH1 WILD-TYPE     42     65     36
D1340V2, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NXPH1 MUTATED        0      0      7
  NXPH1 WILD-TYPE     42    173    140
D1340V3, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NXPH1 MUTATED        5      0      0
  NXPH1 WILD-TYPE     57     73     75
D1340V4, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NXPH1 MUTATED        2      3      3
  NXPH1 WILD-TYPE     68    117     97
D1340V5, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NXPH1 MUTATED        1      0      1      0      0      3      1      2
  NXPH1 WILD-TYPE     40     26     29     29     39     66     19     12
                 vv
clus              CLUS_9
  NXPH1 MUTATED        0
  NXPH1 WILD-TYPE     22
D1340V6, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NXPH1 MUTATED        0      4      2      2
  NXPH1 WILD-TYPE    100     68     70    119
D1340V7, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NXPH1 MUTATED        0      1      4      2      1
  NXPH1 WILD-TYPE     59     74     70    117     37
D1340V8, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NXPH1 MUTATED        0      3      2      0      2
  NXPH1 WILD-TYPE     51     73     59     71     93
D1340V9, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NXPH1 MUTATED        3      1      0      1      0      2      0      0
  NXPH1 WILD-TYPE     66     47     39     15     53     18     21     38
                 vv
clus              CLUS_9
  NXPH1 MUTATED        0
  NXPH1 WILD-TYPE     50
D1340V10, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NXPH1 MUTATED        0      0      2      1      1      0
  NXPH1 WILD-TYPE     13     16     12     10     10      9
D1340V11, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NXPH1 MUTATED        0      0      0      1      1      0      2      0
  NXPH1 WILD-TYPE     11      7      7      8      7      7      9      9
                 vv
clus              CLUS_9
  NXPH1 MUTATED        0
  NXPH1 WILD-TYPE      5
D1340V12, multiclass
        clus
vv       NXPH1 MUTATED NXPH1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1341) Variable = KCNN4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNN4 MUTATED        0      0      0      0      0
  KCNN4 WILD-TYPE     32     18     46     27     23
D1341V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNN4 MUTATED        0      0      0
  KCNN4 WILD-TYPE     43     67     36
D1341V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNN4 MUTATED        0      4      3
  KCNN4 WILD-TYPE     42    169    144
D1341V3, multiclass
        clus
vv       KCNN4 MUTATED KCNN4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNN4 MUTATED        3      1      3
  KCNN4 WILD-TYPE     59     72     72
D1341V4, multiclass
        clus
vv       KCNN4 MUTATED KCNN4 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNN4 MUTATED        0      2      3
  KCNN4 WILD-TYPE     70    118     97
D1341V5, multiclass
        clus
vv       KCNN4 MUTATED KCNN4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNN4 MUTATED        1      0      0      0      1      1      1      1
  KCNN4 WILD-TYPE     40     26     30     29     38     68     19     13
                 vv
clus              CLUS_9
  KCNN4 MUTATED        0
  KCNN4 WILD-TYPE     22
D1341V6, multiclass
        clus
vv       KCNN4 MUTATED KCNN4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCNN4 MUTATED        1      3      2      1
  KCNN4 WILD-TYPE     99     69     70    120
D1341V7, multiclass
        clus
vv       KCNN4 MUTATED KCNN4 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNN4 MUTATED        3      0      3      1      0
  KCNN4 WILD-TYPE     56     75     71    118     38
D1341V8, multiclass
        clus
vv       KCNN4 MUTATED KCNN4 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNN4 MUTATED        3      3      1      0      0
  KCNN4 WILD-TYPE     48     73     60     71     95
D1341V9, multiclass
        clus
vv       KCNN4 MUTATED KCNN4 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNN4 MUTATED        3      1      0      0      1      2      0      0
  KCNN4 WILD-TYPE     66     47     39     16     52     18     21     38
                 vv
clus              CLUS_9
  KCNN4 MUTATED        0
  KCNN4 WILD-TYPE     50
D1341V10, multiclass
        clus
vv       KCNN4 MUTATED KCNN4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KCNN4 MUTATED        0      0      0      0      0      2
  KCNN4 WILD-TYPE     13     16     14     11     11      7
D1341V11, multiclass
[1] "Remove cluster labels:" "KCNN4 MUTATED"         
clus
  KCNN4 MUTATED KCNN4 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNN4 MUTATED        2      0      0      0      0      0      0      0
  KCNN4 WILD-TYPE      9      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  KCNN4 MUTATED        0
  KCNN4 WILD-TYPE      5
D1341V12, multiclass
[1] "Remove cluster labels:" "KCNN4 MUTATED"         
clus
  KCNN4 MUTATED KCNN4 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" "KCNN4 WILD-TYPE" 

Clustering(1342) Variable = SLC9A9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC9A9 MUTATED        7      0      0      2      0
  SLC9A9 WILD-TYPE     25     18     46     25     23
D1342V1, multiclass
        clus
vv       SLC9A9 MUTATED SLC9A9 WILD-TYPE
  CLUS_1              7               25
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC9A9 MUTATED        7      1      1
  SLC9A9 WILD-TYPE     36     66     35
D1342V2, multiclass
        clus
vv       SLC9A9 MUTATED SLC9A9 WILD-TYPE
  CLUS_1              7               36
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC9A9 MUTATED        1      6     14
  SLC9A9 WILD-TYPE     41    167    133
D1342V3, multiclass
        clus
vv       SLC9A9 MUTATED SLC9A9 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              6              167
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC9A9 MUTATED        4      3      4
  SLC9A9 WILD-TYPE     58     70     71
D1342V4, multiclass
        clus
vv       SLC9A9 MUTATED SLC9A9 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              3               70
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC9A9 MUTATED        3      7      6
  SLC9A9 WILD-TYPE     67    113     94
D1342V5, multiclass
        clus
vv       SLC9A9 MUTATED SLC9A9 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              7              113
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC9A9 MUTATED        2      3      3      1      0      4      0      0
  SLC9A9 WILD-TYPE     39     23     27     28     39     65     20     14
                  vv
clus               CLUS_9
  SLC9A9 MUTATED        3
  SLC9A9 WILD-TYPE     19
D1342V6, multiclass
        clus
vv       SLC9A9 MUTATED SLC9A9 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              3               23
  CLUS_3              3               27
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              3               19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC9A9 MUTATED        4      3      4     10
  SLC9A9 WILD-TYPE     96     69     68    111
D1342V7, multiclass
        clus
vv       SLC9A9 MUTATED SLC9A9 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              3               69
  CLUS_3              4               68
  CLUS_4             10              111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC9A9 MUTATED        4      4      3      2      8
  SLC9A9 WILD-TYPE     55     71     71    117     30
D1342V8, multiclass
        clus
vv       SLC9A9 MUTATED SLC9A9 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              4               71
  CLUS_3              3               71
  CLUS_4              2              117
  CLUS_5              8               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC9A9 MUTATED        2      6      3      1      7
  SLC9A9 WILD-TYPE     49     70     58     70     88
D1342V9, multiclass
        clus
vv       SLC9A9 MUTATED SLC9A9 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              6               70
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC9A9 MUTATED        2      4      1      1      3      2      1      5
  SLC9A9 WILD-TYPE     67     44     38     15     50     18     20     33
                  vv
clus               CLUS_9
  SLC9A9 MUTATED        0
  SLC9A9 WILD-TYPE     50
D1342V10, multiclass
        clus
vv       SLC9A9 MUTATED SLC9A9 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              5               33
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC9A9 MUTATED        0      1      0      0      1      0
  SLC9A9 WILD-TYPE     13     15     14     11     10      9
D1342V11, multiclass
[1] "Remove cluster labels:" "SLC9A9 MUTATED"        
clus
  SLC9A9 MUTATED SLC9A9 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC9A9 MUTATED        0      1      0      0      0      0      1      0
  SLC9A9 WILD-TYPE     11      6      7      9      8      7     10      9
                  vv
clus               CLUS_9
  SLC9A9 MUTATED        0
  SLC9A9 WILD-TYPE      5
D1342V12, multiclass
[1] "Remove cluster labels:" "SLC9A9 MUTATED"        
clus
  SLC9A9 MUTATED SLC9A9 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" "SLC9A9 WILD-TYPE" 

Clustering(1343) Variable = ATP6V0A4 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP6V0A4 MUTATED        2      0      0      2      0
  ATP6V0A4 WILD-TYPE     30     18     46     25     23
D1343V1, multiclass
        clus
vv       ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ATP6V0A4 MUTATED        2      1      1
  ATP6V0A4 WILD-TYPE     41     66     35
D1343V2, multiclass
        clus
vv       ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ATP6V0A4 MUTATED        0      0     11
  ATP6V0A4 WILD-TYPE     42    173    136
D1343V3, multiclass
        clus
vv       ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3               11                136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ATP6V0A4 MUTATED        3      0      4
  ATP6V0A4 WILD-TYPE     59     73     71
D1343V4, multiclass
        clus
vv       ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                0                 73
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ATP6V0A4 MUTATED        0      4      4
  ATP6V0A4 WILD-TYPE     70    116     96
D1343V5, multiclass
        clus
vv       ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                4                116
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP6V0A4 MUTATED        1      0      1      1      1      3      1      0
  ATP6V0A4 WILD-TYPE     40     26     29     28     38     66     19     14
                    vv
clus                 CLUS_9
  ATP6V0A4 MUTATED        0
  ATP6V0A4 WILD-TYPE     22
D1343V6, multiclass
        clus
vv       ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                1                 38
  CLUS_6                3                 66
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP6V0A4 MUTATED        0      3      4      4
  ATP6V0A4 WILD-TYPE    100     69     68    117
D1343V7, multiclass
        clus
vv       ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                3                 69
  CLUS_3                4                 68
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP6V0A4 MUTATED        1      0      6      2      2
  ATP6V0A4 WILD-TYPE     58     75     68    117     36
D1343V8, multiclass
        clus
vv       ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                0                 75
  CLUS_3                6                 68
  CLUS_4                2                117
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP6V0A4 MUTATED        0      6      1      1      2
  ATP6V0A4 WILD-TYPE     51     70     60     70     93
D1343V9, multiclass
        clus
vv       ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                6                 70
  CLUS_3                1                 60
  CLUS_4                1                 70
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP6V0A4 MUTATED        1      4      0      1      2      1      0      1
  ATP6V0A4 WILD-TYPE     68     44     39     15     51     19     21     37
                    vv
clus                 CLUS_9
  ATP6V0A4 MUTATED        0
  ATP6V0A4 WILD-TYPE     50
D1343V10, multiclass
        clus
vv       ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                4                 44
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP6V0A4 MUTATED        0      0      0      0      1      0
  ATP6V0A4 WILD-TYPE     13     16     14     11     10      9
D1343V11, multiclass
[1] "Remove cluster labels:" "ATP6V0A4 MUTATED"      
clus
  ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-G4-6628 
"ATP6V0A4 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP6V0A4 MUTATED        0      0      0      0      0      0      1      0
  ATP6V0A4 WILD-TYPE     11      7      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  ATP6V0A4 MUTATED        0
  ATP6V0A4 WILD-TYPE      5
D1343V12, multiclass
[1] "Remove cluster labels:" "ATP6V0A4 MUTATED"      
clus
  ATP6V0A4 MUTATED ATP6V0A4 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" "ATP6V0A4 WILD-TYPE" 
        TCGA-G4-6628 
"ATP6V0A4 WILD-TYPE" 

Clustering(1344) Variable = ATG10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATG10 MUTATED        1      0      0      1      0
  ATG10 WILD-TYPE     31     18     46     26     23
D1344V1, multiclass
[1] "Remove cluster labels:" "ATG10 MUTATED"         
clus
  ATG10 MUTATED ATG10 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATG10 MUTATED        1      1      0
  ATG10 WILD-TYPE     42     66     36
D1344V2, multiclass
[1] "Remove cluster labels:" "ATG10 MUTATED"         
clus
  ATG10 MUTATED ATG10 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATG10 MUTATED        0      0      4
  ATG10 WILD-TYPE     42    173    143
D1344V3, multiclass
        clus
vv       ATG10 MUTATED ATG10 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATG10 MUTATED        1      0      1
  ATG10 WILD-TYPE     61     73     74
D1344V4, multiclass
[1] "Remove cluster labels:" "ATG10 MUTATED"         
clus
  ATG10 MUTATED ATG10 WILD-TYPE 
              2             208 
     TCGA-A6-2671      TCGA-A6-2677      TCGA-A6-3809      TCGA-A6-3810 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-A6-4105      TCGA-A6-5656      TCGA-A6-5657      TCGA-A6-5659 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662      TCGA-A6-5664 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502      TCGA-AA-3510 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AA-3655      TCGA-AA-3660      TCGA-AA-3662 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AA-3663      TCGA-AA-3697      TCGA-AA-3712      TCGA-AA-3713 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6888      TCGA-AD-6889 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AD-6890      TCGA-AD-6895      TCGA-AD-6899      TCGA-AD-6901 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AU-3779 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AZ-4681      TCGA-AZ-4682      TCGA-AZ-5403      TCGA-AZ-5407 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600      TCGA-AZ-6601 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606      TCGA-AZ-6607 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255      TCGA-CA-5796 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CA-5797      TCGA-CA-6715      TCGA-CA-6716      TCGA-CA-6717 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-4947      TCGA-CK-4948 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CK-4950      TCGA-CK-4952      TCGA-CK-5912      TCGA-CK-5913 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CK-5914      TCGA-CK-5915      TCGA-CK-5916      TCGA-CK-6746 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CK-6747      TCGA-CK-6748      TCGA-CK-6751      TCGA-CM-4743 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CM-4744      TCGA-CM-4746      TCGA-CM-4747      TCGA-CM-4752 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CM-5341      TCGA-CM-5344      TCGA-CM-5348      TCGA-CM-5349 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CM-5868      TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CM-6164      TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CM-6168      TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CM-6172      TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-5538      TCGA-D5-5539      TCGA-D5-5540 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-D5-5541      TCGA-D5-6529      TCGA-D5-6532      TCGA-D5-6533 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6535      TCGA-D5-6536      TCGA-D5-6537 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-D5-6538      TCGA-D5-6539      TCGA-D5-6540      TCGA-D5-6541 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-D5-6898      TCGA-D5-6920      TCGA-D5-6922      TCGA-D5-6923 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-D5-6924      TCGA-D5-6926      TCGA-D5-6928      TCGA-D5-6929 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932      TCGA-D5-7000 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-DM-A0X9      TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28C 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-DM-A28E      TCGA-DM-A28F      TCGA-DM-A28G      TCGA-DM-A28H 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-DM-A28K      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704      TCGA-F4-6805 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856      TCGA-G4-6293 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304      TCGA-G4-6306 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310      TCGA-G4-6315 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323      TCGA-G4-6586 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" "ATG10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATG10 MUTATED        0      2      2
  ATG10 WILD-TYPE     70    118     98
D1344V5, multiclass
        clus
vv       ATG10 MUTATED ATG10 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATG10 MUTATED        0      0      1      1      0      2      0      0
  ATG10 WILD-TYPE     41     26     29     28     39     67     20     14
                 vv
clus              CLUS_9
  ATG10 MUTATED        0
  ATG10 WILD-TYPE     22
D1344V6, multiclass
        clus
vv       ATG10 MUTATED ATG10 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATG10 MUTATED        0      1      1      2
  ATG10 WILD-TYPE    100     71     71    119
D1344V7, multiclass
        clus
vv       ATG10 MUTATED ATG10 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATG10 MUTATED        0      0      2      1      1
  ATG10 WILD-TYPE     59     75     72    118     37
D1344V8, multiclass
        clus
vv       ATG10 MUTATED ATG10 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATG10 MUTATED        0      2      0      0      2
  ATG10 WILD-TYPE     51     74     61     71     93
D1344V9, multiclass
        clus
vv       ATG10 MUTATED ATG10 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATG10 MUTATED        0      2      0      0      0      1      0      1
  ATG10 WILD-TYPE     69     46     39     16     53     19     21     37
                 vv
clus              CLUS_9
  ATG10 MUTATED        0
  ATG10 WILD-TYPE     50
D1344V10, multiclass
        clus
vv       ATG10 MUTATED ATG10 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATG10 MUTATED        0      0      0      0      0      0
  ATG10 WILD-TYPE     13     16     14     11     11      9
D1344V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATG10 MUTATED        0      0      0      0      0      0      0      0
  ATG10 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  ATG10 MUTATED        0
  ATG10 WILD-TYPE      5
D1344V12, multiclass

Clustering(1345) Variable = MORC2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MORC2 MUTATED        2      0      1      0      0
  MORC2 WILD-TYPE     30     18     45     27     23
D1345V1, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC2 MUTATED        2      0      1
  MORC2 WILD-TYPE     41     67     35
D1345V2, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC2 MUTATED        2      3      7
  MORC2 WILD-TYPE     40    170    140
D1345V3, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC2 MUTATED        5      2      2
  MORC2 WILD-TYPE     57     71     73
D1345V4, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC2 MUTATED        1      6      4
  MORC2 WILD-TYPE     69    114     96
D1345V5, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MORC2 MUTATED        0      1      0      3      1      5      0      1
  MORC2 WILD-TYPE     41     25     30     26     38     64     20     13
                 vv
clus              CLUS_9
  MORC2 MUTATED        0
  MORC2 WILD-TYPE     22
D1345V6, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MORC2 MUTATED        2      3      3      4
  MORC2 WILD-TYPE     98     69     69    117
D1345V7, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MORC2 MUTATED        0      3      5      2      2
  MORC2 WILD-TYPE     59     72     69    117     36
D1345V8, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MORC2 MUTATED        2      5      0      1      3
  MORC2 WILD-TYPE     49     71     61     70     92
D1345V9, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MORC2 MUTATED        2      2      0      2      2      1      0      0
  MORC2 WILD-TYPE     67     46     39     14     51     19     21     38
                 vv
clus              CLUS_9
  MORC2 MUTATED        2
  MORC2 WILD-TYPE     48
D1345V10, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MORC2 MUTATED        1      1      0      0      2      0
  MORC2 WILD-TYPE     12     15     14     11      9      9
D1345V11, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MORC2 MUTATED        1      0      0      2      0      0      1      0
  MORC2 WILD-TYPE     10      7      7      7      8      7     10      9
                 vv
clus              CLUS_9
  MORC2 MUTATED        0
  MORC2 WILD-TYPE      5
D1345V12, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1346) Variable = GRIN2B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRIN2B MUTATED        3      0      0      2      0
  GRIN2B WILD-TYPE     29     18     46     25     23
D1346V1, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GRIN2B MUTATED        4      1      0
  GRIN2B WILD-TYPE     39     66     36
D1346V2, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GRIN2B MUTATED        1      6     19
  GRIN2B WILD-TYPE     41    167    128
D1346V3, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              1               41
  CLUS_2              6              167
  CLUS_3             19              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GRIN2B MUTATED        5      5     10
  GRIN2B WILD-TYPE     57     68     65
D1346V4, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              5               57
  CLUS_2              5               68
  CLUS_3             10               65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GRIN2B MUTATED        2      7     10
  GRIN2B WILD-TYPE     68    113     90
D1346V5, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              2               68
  CLUS_2              7              113
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRIN2B MUTATED        2      2      2      3      1      8      1      0
  GRIN2B WILD-TYPE     39     24     28     26     38     61     19     14
                  vv
clus               CLUS_9
  GRIN2B MUTATED        0
  GRIN2B WILD-TYPE     22
D1346V6, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              1               38
  CLUS_6              8               61
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRIN2B MUTATED        5      9      6      6
  GRIN2B WILD-TYPE     95     63     66    115
D1346V7, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              5               95
  CLUS_2              9               63
  CLUS_3              6               66
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRIN2B MUTATED        4      4     12      1      5
  GRIN2B WILD-TYPE     55     71     62    118     33
D1346V8, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              4               55
  CLUS_2              4               71
  CLUS_3             12               62
  CLUS_4              1              118
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRIN2B MUTATED        3     10      5      2      4
  GRIN2B WILD-TYPE     48     66     56     69     91
D1346V9, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              3               48
  CLUS_2             10               66
  CLUS_3              5               56
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRIN2B MUTATED        7      4      1      4      2      2      1      3
  GRIN2B WILD-TYPE     62     44     38     12     51     18     20     35
                  vv
clus               CLUS_9
  GRIN2B MUTATED        0
  GRIN2B WILD-TYPE     50
D1346V10, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              7               62
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              4               12
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GRIN2B MUTATED        0      0      1      1      3      2
  GRIN2B WILD-TYPE     13     16     13     10      8      7
D1346V11, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              3                8
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRIN2B MUTATED        1      0      1      1      1      0      2      1
  GRIN2B WILD-TYPE     10      7      6      8      7      7      9      8
                  vv
clus               CLUS_9
  GRIN2B MUTATED        0
  GRIN2B WILD-TYPE      5
D1346V12, multiclass
        clus
vv       GRIN2B MUTATED GRIN2B WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1347) Variable = FSCB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FSCB MUTATED        3      0      1      2      0
  FSCB WILD-TYPE     29     18     45     25     23
D1347V1, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FSCB MUTATED        4      1      1
  FSCB WILD-TYPE     39     66     35
D1347V2, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FSCB MUTATED        3      5     12
  FSCB WILD-TYPE     39    168    135
D1347V3, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            3             39
  CLUS_2            5            168
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FSCB MUTATED        5      4      5
  FSCB WILD-TYPE     57     69     70
D1347V4, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            5             57
  CLUS_2            4             69
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FSCB MUTATED        1      6     10
  FSCB WILD-TYPE     69    114     90
D1347V5, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            1             69
  CLUS_2            6            114
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FSCB MUTATED        2      0      2      2      2      6      1      1      1
  FSCB WILD-TYPE     39     26     28     27     37     63     19     13     21
D1347V6, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            6             63
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FSCB MUTATED        3      4      6      7
  FSCB WILD-TYPE     97     68     66    114
D1347V7, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            3             97
  CLUS_2            4             68
  CLUS_3            6             66
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FSCB MUTATED        3      3      7      3      4
  FSCB WILD-TYPE     56     72     67    116     34
D1347V8, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            3             56
  CLUS_2            3             72
  CLUS_3            7             67
  CLUS_4            3            116
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FSCB MUTATED        4      5      4      2      4
  FSCB WILD-TYPE     47     71     57     69     91
D1347V9, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            4             47
  CLUS_2            5             71
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FSCB MUTATED        1      3      2      3      4      2      0      3      1
  FSCB WILD-TYPE     68     45     37     13     49     18     21     35     49
D1347V10, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            2             37
  CLUS_4            3             13
  CLUS_5            4             49
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FSCB MUTATED        0      0      3      0      1      0
  FSCB WILD-TYPE     13     16     11     11     10      9
D1347V11, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            3             11
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FSCB MUTATED        0      0      0      0      3      0      1      0      0
  FSCB WILD-TYPE     11      7      7      9      5      7     10      9      5
D1347V12, multiclass
        clus
vv       FSCB MUTATED FSCB WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            3              5
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1348) Variable = DLGAP5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DLGAP5 MUTATED        1      0      0      0      0
  DLGAP5 WILD-TYPE     31     18     46     27     23
D1348V1, multiclass
[1] "Remove cluster labels:" "DLGAP5 MUTATED"        
clus
  DLGAP5 MUTATED DLGAP5 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AY-4071 
"DLGAP5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DLGAP5 MUTATED        1      0      0
  DLGAP5 WILD-TYPE     42     67     36
D1348V2, multiclass
[1] "Remove cluster labels:" "DLGAP5 MUTATED"        
clus
  DLGAP5 MUTATED DLGAP5 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AY-4071 
"DLGAP5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DLGAP5 MUTATED        0      4      4
  DLGAP5 WILD-TYPE     42    169    143
D1348V3, multiclass
        clus
vv       DLGAP5 MUTATED DLGAP5 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DLGAP5 MUTATED        3      4      0
  DLGAP5 WILD-TYPE     59     69     75
D1348V4, multiclass
        clus
vv       DLGAP5 MUTATED DLGAP5 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              4               69
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DLGAP5 MUTATED        0      5      3
  DLGAP5 WILD-TYPE     70    115     97
D1348V5, multiclass
        clus
vv       DLGAP5 MUTATED DLGAP5 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              115
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DLGAP5 MUTATED        1      0      1      2      1      3      0      0
  DLGAP5 WILD-TYPE     40     26     29     27     38     66     20     14
                  vv
clus               CLUS_9
  DLGAP5 MUTATED        0
  DLGAP5 WILD-TYPE     22
D1348V6, multiclass
        clus
vv       DLGAP5 MUTATED DLGAP5 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DLGAP5 MUTATED        4      1      1      2
  DLGAP5 WILD-TYPE     96     71     71    119
D1348V7, multiclass
        clus
vv       DLGAP5 MUTATED DLGAP5 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              1               71
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DLGAP5 MUTATED        2      4      0      1      1
  DLGAP5 WILD-TYPE     57     71     74    118     37
D1348V8, multiclass
        clus
vv       DLGAP5 MUTATED DLGAP5 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              0               74
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DLGAP5 MUTATED        1      3      2      0      2
  DLGAP5 WILD-TYPE     50     73     59     71     93
D1348V9, multiclass
        clus
vv       DLGAP5 MUTATED DLGAP5 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DLGAP5 MUTATED        1      2      2      0      1      0      0      1
  DLGAP5 WILD-TYPE     68     46     37     16     52     20     21     37
                  vv
clus               CLUS_9
  DLGAP5 MUTATED        1
  DLGAP5 WILD-TYPE     49
D1348V10, multiclass
        clus
vv       DLGAP5 MUTATED DLGAP5 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              2               37
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DLGAP5 MUTATED        1      0      0      0      0      0
  DLGAP5 WILD-TYPE     12     16     14     11     11      9
D1348V11, multiclass
[1] "Remove cluster labels:" "DLGAP5 MUTATED"        
clus
  DLGAP5 MUTATED DLGAP5 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6605 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-G4-6628 
"DLGAP5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DLGAP5 MUTATED        0      0      1      0      0      0      0      0
  DLGAP5 WILD-TYPE     11      7      6      9      8      7     11      9
                  vv
clus               CLUS_9
  DLGAP5 MUTATED        0
  DLGAP5 WILD-TYPE      5
D1348V12, multiclass
[1] "Remove cluster labels:" "DLGAP5 MUTATED"        
clus
  DLGAP5 MUTATED DLGAP5 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6605 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" "DLGAP5 WILD-TYPE" 
      TCGA-G4-6628 
"DLGAP5 WILD-TYPE" 

Clustering(1349) Variable = ACCN5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACCN5 MUTATED        1      0      0      3      0
  ACCN5 WILD-TYPE     31     18     46     24     23
D1349V1, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACCN5 MUTATED        1      2      1
  ACCN5 WILD-TYPE     42     65     35
D1349V2, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACCN5 MUTATED        0      7      6
  ACCN5 WILD-TYPE     42    166    141
D1349V3, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             7             166
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACCN5 MUTATED        3      4      2
  ACCN5 WILD-TYPE     59     69     73
D1349V4, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACCN5 MUTATED        0      3      6
  ACCN5 WILD-TYPE     70    117     94
D1349V5, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACCN5 MUTATED        0      1      1      1      0      4      2      0
  ACCN5 WILD-TYPE     41     25     29     28     39     65     18     14
                 vv
clus              CLUS_9
  ACCN5 MUTATED        0
  ACCN5 WILD-TYPE     22
D1349V6, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACCN5 MUTATED        5      1      2      5
  ACCN5 WILD-TYPE     95     71     70    116
D1349V7, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACCN5 MUTATED        1      5      2      3      2
  ACCN5 WILD-TYPE     58     70     72    116     36
D1349V8, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             5              70
  CLUS_3             2              72
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACCN5 MUTATED        2      3      1      3      3
  ACCN5 WILD-TYPE     49     73     60     68     92
D1349V9, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             3              68
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACCN5 MUTATED        4      2      0      1      2      1      0      1
  ACCN5 WILD-TYPE     65     46     39     15     51     19     21     37
                 vv
clus              CLUS_9
  ACCN5 MUTATED        1
  ACCN5 WILD-TYPE     49
D1349V10, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACCN5 MUTATED        1      0      0      1      0      1
  ACCN5 WILD-TYPE     12     16     14     10     11      8
D1349V11, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACCN5 MUTATED        0      0      0      1      0      1      1      0
  ACCN5 WILD-TYPE     11      7      7      8      8      6     10      9
                 vv
clus              CLUS_9
  ACCN5 MUTATED        0
  ACCN5 WILD-TYPE      5
D1349V12, multiclass
        clus
vv       ACCN5 MUTATED ACCN5 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1350) Variable = DLGAP3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DLGAP3 MUTATED        3      0      0      1      0
  DLGAP3 WILD-TYPE     29     18     46     26     23
D1350V1, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DLGAP3 MUTATED        2      1      1
  DLGAP3 WILD-TYPE     41     66     35
D1350V2, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DLGAP3 MUTATED        1      0     14
  DLGAP3 WILD-TYPE     41    173    133
D1350V3, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DLGAP3 MUTATED        5      0      7
  DLGAP3 WILD-TYPE     57     73     68
D1350V4, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              0               73
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DLGAP3 MUTATED        0      6      6
  DLGAP3 WILD-TYPE     70    114     94
D1350V5, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              6              114
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DLGAP3 MUTATED        1      2      1      3      0      4      1      0
  DLGAP3 WILD-TYPE     40     24     29     26     39     65     19     14
                  vv
clus               CLUS_9
  DLGAP3 MUTATED        0
  DLGAP3 WILD-TYPE     22
D1350V6, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DLGAP3 MUTATED        0      7      4      5
  DLGAP3 WILD-TYPE    100     65     68    116
D1350V7, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              7               65
  CLUS_3              4               68
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DLGAP3 MUTATED        1      1      9      3      2
  DLGAP3 WILD-TYPE     58     74     65    116     36
D1350V8, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              9               65
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DLGAP3 MUTATED        0      9      2      1      3
  DLGAP3 WILD-TYPE     51     67     59     70     92
D1350V9, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              9               67
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DLGAP3 MUTATED        2      4      0      5      1      1      0      1
  DLGAP3 WILD-TYPE     67     44     39     11     52     19     21     37
                  vv
clus               CLUS_9
  DLGAP3 MUTATED        1
  DLGAP3 WILD-TYPE     49
D1350V10, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              5               11
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DLGAP3 MUTATED        0      0      0      0      3      0
  DLGAP3 WILD-TYPE     13     16     14     11      8      9
D1350V11, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DLGAP3 MUTATED        0      0      0      2      0      0      1      0
  DLGAP3 WILD-TYPE     11      7      7      7      8      7     10      9
                  vv
clus               CLUS_9
  DLGAP3 MUTATED        0
  DLGAP3 WILD-TYPE      5
D1350V12, multiclass
        clus
vv       DLGAP3 MUTATED DLGAP3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1351) Variable = HSPBAP1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSPBAP1 MUTATED        0      0      0      1      0
  HSPBAP1 WILD-TYPE     32     18     46     26     23
D1351V1, multiclass
[1] "Remove cluster labels:" "HSPBAP1 MUTATED"       
clus
  HSPBAP1 MUTATED HSPBAP1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AY-4071 
"HSPBAP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HSPBAP1 MUTATED        1      0      0
  HSPBAP1 WILD-TYPE     42     67     36
D1351V2, multiclass
[1] "Remove cluster labels:" "HSPBAP1 MUTATED"       
clus
  HSPBAP1 MUTATED HSPBAP1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" "HSPBAP1 WILD-TYPE" 
       TCGA-AY-4071 
"HSPBAP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HSPBAP1 MUTATED        1      2      4
  HSPBAP1 WILD-TYPE     41    171    143
D1351V3, multiclass
        clus
vv       HSPBAP1 MUTATED HSPBAP1 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HSPBAP1 MUTATED        1      1      4
  HSPBAP1 WILD-TYPE     61     72     71
D1351V4, multiclass
        clus
vv       HSPBAP1 MUTATED HSPBAP1 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HSPBAP1 MUTATED        1      2      3
  HSPBAP1 WILD-TYPE     69    118     97
D1351V5, multiclass
        clus
vv       HSPBAP1 MUTATED HSPBAP1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HSPBAP1 MUTATED        1      1      0      1      0      3      0      0
  HSPBAP1 WILD-TYPE     40     25     30     28     39     66     20     14
                   vv
clus                CLUS_9
  HSPBAP1 MUTATED        0
  HSPBAP1 WILD-TYPE     22
D1351V6, multiclass
        clus
vv       HSPBAP1 MUTATED HSPBAP1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HSPBAP1 MUTATED        1      4      1      1
  HSPBAP1 WILD-TYPE     99     68     71    120
D1351V7, multiclass
        clus
vv       HSPBAP1 MUTATED HSPBAP1 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSPBAP1 MUTATED        2      0      4      0      1
  HSPBAP1 WILD-TYPE     57     75     70    119     37
D1351V8, multiclass
        clus
vv       HSPBAP1 MUTATED HSPBAP1 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               0                75
  CLUS_3               4                70
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSPBAP1 MUTATED        0      4      2      0      0
  HSPBAP1 WILD-TYPE     51     72     59     71     95
D1351V9, multiclass
        clus
vv       HSPBAP1 MUTATED HSPBAP1 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HSPBAP1 MUTATED        0      1      0      4      1      0      0      0
  HSPBAP1 WILD-TYPE     69     47     39     12     52     20     21     38
                   vv
clus                CLUS_9
  HSPBAP1 MUTATED        0
  HSPBAP1 WILD-TYPE     50
D1351V10, multiclass
        clus
vv       HSPBAP1 MUTATED HSPBAP1 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               4                12
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HSPBAP1 MUTATED        0      0      0      2      2      0
  HSPBAP1 WILD-TYPE     13     16     14      9      9      9
D1351V11, multiclass
        clus
vv       HSPBAP1 MUTATED HSPBAP1 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               2                 9
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HSPBAP1 MUTATED        0      0      1      2      0      1      0      0
  HSPBAP1 WILD-TYPE     11      7      6      7      8      6     11      9
                   vv
clus                CLUS_9
  HSPBAP1 MUTATED        0
  HSPBAP1 WILD-TYPE      5
D1351V12, multiclass
        clus
vv       HSPBAP1 MUTATED HSPBAP1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1352) Variable = COLEC12 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COLEC12 MUTATED        4      0      0      1      1
  COLEC12 WILD-TYPE     28     18     46     26     22
D1352V1, multiclass
        clus
vv       COLEC12 MUTATED COLEC12 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               1                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COLEC12 MUTATED        4      1      1
  COLEC12 WILD-TYPE     39     66     35
D1352V2, multiclass
        clus
vv       COLEC12 MUTATED COLEC12 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COLEC12 MUTATED        0      2     15
  COLEC12 WILD-TYPE     42    171    132
D1352V3, multiclass
        clus
vv       COLEC12 MUTATED COLEC12 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3              15               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COLEC12 MUTATED        5      2      5
  COLEC12 WILD-TYPE     57     71     70
D1352V4, multiclass
        clus
vv       COLEC12 MUTATED COLEC12 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               2                71
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COLEC12 MUTATED        0      3      9
  COLEC12 WILD-TYPE     70    117     91
D1352V5, multiclass
        clus
vv       COLEC12 MUTATED COLEC12 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COLEC12 MUTATED        1      0      1      0      3      6      1      0
  COLEC12 WILD-TYPE     40     26     29     29     36     63     19     14
                   vv
clus                CLUS_9
  COLEC12 MUTATED        0
  COLEC12 WILD-TYPE     22
D1352V6, multiclass
        clus
vv       COLEC12 MUTATED COLEC12 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               3                36
  CLUS_6               6                63
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COLEC12 MUTATED        2      6      3      6
  COLEC12 WILD-TYPE     98     66     69    115
D1352V7, multiclass
        clus
vv       COLEC12 MUTATED COLEC12 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               6                66
  CLUS_3               3                69
  CLUS_4               6               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COLEC12 MUTATED        2      2      7      2      4
  COLEC12 WILD-TYPE     57     73     67    117     34
D1352V8, multiclass
        clus
vv       COLEC12 MUTATED COLEC12 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               7                67
  CLUS_4               2               117
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COLEC12 MUTATED        1      6      2      2      6
  COLEC12 WILD-TYPE     50     70     59     69     89
D1352V9, multiclass
        clus
vv       COLEC12 MUTATED COLEC12 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               6                70
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COLEC12 MUTATED        2      3      1      4      1      1      1      3
  COLEC12 WILD-TYPE     67     45     38     12     52     19     20     35
                   vv
clus                CLUS_9
  COLEC12 MUTATED        1
  COLEC12 WILD-TYPE     49
D1352V10, multiclass
        clus
vv       COLEC12 MUTATED COLEC12 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               1                38
  CLUS_4               4                12
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  COLEC12 MUTATED        0      0      0      0      0      0
  COLEC12 WILD-TYPE     13     16     14     11     11      9
D1352V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COLEC12 MUTATED        0      0      0      0      0      0      0      0
  COLEC12 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  COLEC12 MUTATED        0
  COLEC12 WILD-TYPE      5
D1352V12, multiclass

Clustering(1353) Variable = KIFC2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIFC2 MUTATED        0      0      0      0      0
  KIFC2 WILD-TYPE     32     18     46     27     23
D1353V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIFC2 MUTATED        0      0      0
  KIFC2 WILD-TYPE     43     67     36
D1353V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIFC2 MUTATED        0      2      4
  KIFC2 WILD-TYPE     42    171    143
D1353V3, multiclass
        clus
vv       KIFC2 MUTATED KIFC2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIFC2 MUTATED        1      2      3
  KIFC2 WILD-TYPE     61     71     72
D1353V4, multiclass
        clus
vv       KIFC2 MUTATED KIFC2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIFC2 MUTATED        1      2      2
  KIFC2 WILD-TYPE     69    118     98
D1353V5, multiclass
        clus
vv       KIFC2 MUTATED KIFC2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIFC2 MUTATED        0      0      0      1      1      2      0      1
  KIFC2 WILD-TYPE     41     26     30     28     38     67     20     13
                 vv
clus              CLUS_9
  KIFC2 MUTATED        0
  KIFC2 WILD-TYPE     22
D1353V6, multiclass
        clus
vv       KIFC2 MUTATED KIFC2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIFC2 MUTATED        2      3      1      0
  KIFC2 WILD-TYPE     98     69     71    121
D1353V7, multiclass
        clus
vv       KIFC2 MUTATED KIFC2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIFC2 MUTATED        0      3      3      0      0
  KIFC2 WILD-TYPE     59     72     71    119     38
D1353V8, multiclass
        clus
vv       KIFC2 MUTATED KIFC2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIFC2 MUTATED        1      5      0      0      0
  KIFC2 WILD-TYPE     50     71     61     71     95
D1353V9, multiclass
        clus
vv       KIFC2 MUTATED KIFC2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIFC2 MUTATED        4      1      0      1      0      0      0      0
  KIFC2 WILD-TYPE     65     47     39     15     53     20     21     38
                 vv
clus              CLUS_9
  KIFC2 MUTATED        0
  KIFC2 WILD-TYPE     50
D1353V10, multiclass
        clus
vv       KIFC2 MUTATED KIFC2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIFC2 MUTATED        0      0      0      0      0      0
  KIFC2 WILD-TYPE     13     16     14     11     11      9
D1353V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIFC2 MUTATED        0      0      0      0      0      0      0      0
  KIFC2 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  KIFC2 MUTATED        0
  KIFC2 WILD-TYPE      5
D1353V12, multiclass

Clustering(1354) Variable = PPYR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPYR1 MUTATED        1      0      0      0      0
  PPYR1 WILD-TYPE     31     18     46     27     23
D1354V1, multiclass
[1] "Remove cluster labels:" "PPYR1 MUTATED"         
clus
  PPYR1 MUTATED PPYR1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AY-4071 
"PPYR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPYR1 MUTATED        0      0      1
  PPYR1 WILD-TYPE     43     67     35
D1354V2, multiclass
[1] "Remove cluster labels:" "PPYR1 MUTATED"         
clus
  PPYR1 MUTATED PPYR1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AY-4071 
"PPYR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPYR1 MUTATED        1      0      4
  PPYR1 WILD-TYPE     41    173    143
D1354V3, multiclass
        clus
vv       PPYR1 MUTATED PPYR1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPYR1 MUTATED        2      1      1
  PPYR1 WILD-TYPE     60     72     74
D1354V4, multiclass
        clus
vv       PPYR1 MUTATED PPYR1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPYR1 MUTATED        0      0      4
  PPYR1 WILD-TYPE     70    120     96
D1354V5, multiclass
        clus
vv       PPYR1 MUTATED PPYR1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             0             120
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPYR1 MUTATED        0      0      0      0      0      4      0      0
  PPYR1 WILD-TYPE     41     26     30     29     39     65     20     14
                 vv
clus              CLUS_9
  PPYR1 MUTATED        0
  PPYR1 WILD-TYPE     22
D1354V6, multiclass
        clus
vv       PPYR1 MUTATED PPYR1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPYR1 MUTATED        1      1      2      1
  PPYR1 WILD-TYPE     99     71     70    120
D1354V7, multiclass
        clus
vv       PPYR1 MUTATED PPYR1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPYR1 MUTATED        0      1      3      1      0
  PPYR1 WILD-TYPE     59     74     71    118     38
D1354V8, multiclass
        clus
vv       PPYR1 MUTATED PPYR1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPYR1 MUTATED        0      3      0      2      0
  PPYR1 WILD-TYPE     51     73     61     69     95
D1354V9, multiclass
        clus
vv       PPYR1 MUTATED PPYR1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPYR1 MUTATED        2      2      0      0      1      0      0      0
  PPYR1 WILD-TYPE     67     46     39     16     52     20     21     38
                 vv
clus              CLUS_9
  PPYR1 MUTATED        0
  PPYR1 WILD-TYPE     50
D1354V10, multiclass
        clus
vv       PPYR1 MUTATED PPYR1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPYR1 MUTATED        0      0      1      0      0      0
  PPYR1 WILD-TYPE     13     16     13     11     11      9
D1354V11, multiclass
[1] "Remove cluster labels:" "PPYR1 MUTATED"         
clus
  PPYR1 MUTATED PPYR1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-G4-6628 
"PPYR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPYR1 MUTATED        0      0      0      0      0      1      0      0
  PPYR1 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  PPYR1 MUTATED        0
  PPYR1 WILD-TYPE      5
D1354V12, multiclass
[1] "Remove cluster labels:" "PPYR1 MUTATED"         
clus
  PPYR1 MUTATED PPYR1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" "PPYR1 WILD-TYPE" 
     TCGA-G4-6628 
"PPYR1 WILD-TYPE" 

Clustering(1355) Variable = CASP10 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP10 MUTATED        0      0      1      1      0
  CASP10 WILD-TYPE     32     18     45     26     23
D1355V1, multiclass
[1] "Remove cluster labels:" "CASP10 MUTATED"        
clus
  CASP10 MUTATED CASP10 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CASP10 MUTATED        0      1      1
  CASP10 WILD-TYPE     43     66     35
D1355V2, multiclass
[1] "Remove cluster labels:" "CASP10 MUTATED"        
clus
  CASP10 MUTATED CASP10 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CASP10 MUTATED        0      2      5
  CASP10 WILD-TYPE     42    171    142
D1355V3, multiclass
        clus
vv       CASP10 MUTATED CASP10 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CASP10 MUTATED        2      1      2
  CASP10 WILD-TYPE     60     72     73
D1355V4, multiclass
        clus
vv       CASP10 MUTATED CASP10 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CASP10 MUTATED        0      5      2
  CASP10 WILD-TYPE     70    115     98
D1355V5, multiclass
        clus
vv       CASP10 MUTATED CASP10 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              115
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP10 MUTATED        1      1      1      1      1      1      1      0
  CASP10 WILD-TYPE     40     25     29     28     38     68     19     14
                  vv
clus               CLUS_9
  CASP10 MUTATED        0
  CASP10 WILD-TYPE     22
D1355V6, multiclass
        clus
vv       CASP10 MUTATED CASP10 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP10 MUTATED        2      2      2      1
  CASP10 WILD-TYPE     98     70     70    120
D1355V7, multiclass
        clus
vv       CASP10 MUTATED CASP10 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP10 MUTATED        2      2      1      2      0
  CASP10 WILD-TYPE     57     73     73    117     38
D1355V8, multiclass
        clus
vv       CASP10 MUTATED CASP10 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              1               73
  CLUS_4              2              117
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP10 MUTATED        1      2      2      0      2
  CASP10 WILD-TYPE     50     74     59     71     93
D1355V9, multiclass
        clus
vv       CASP10 MUTATED CASP10 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP10 MUTATED        0      3      0      0      1      3      0      0
  CASP10 WILD-TYPE     69     45     39     16     52     17     21     38
                  vv
clus               CLUS_9
  CASP10 MUTATED        0
  CASP10 WILD-TYPE     50
D1355V10, multiclass
        clus
vv       CASP10 MUTATED CASP10 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              3               17
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CASP10 MUTATED        0      1      0      0      0      0
  CASP10 WILD-TYPE     13     15     14     11     11      9
D1355V11, multiclass
[1] "Remove cluster labels:" "CASP10 MUTATED"        
clus
  CASP10 MUTATED CASP10 WILD-TYPE 
               1               73 
      TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-G4-6628 
"CASP10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP10 MUTATED        0      1      0      0      0      0      0      0
  CASP10 WILD-TYPE     11      6      7      9      8      7     11      9
                  vv
clus               CLUS_9
  CASP10 MUTATED        0
  CASP10 WILD-TYPE      5
D1355V12, multiclass
[1] "Remove cluster labels:" "CASP10 MUTATED"        
clus
  CASP10 MUTATED CASP10 WILD-TYPE 
               1               73 
      TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" "CASP10 WILD-TYPE" 
      TCGA-G4-6628 
"CASP10 WILD-TYPE" 

Clustering(1356) Variable = STAU1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAU1 MUTATED        0      0      0      0      0
  STAU1 WILD-TYPE     32     18     46     27     23
D1356V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAU1 MUTATED        0      0      0
  STAU1 WILD-TYPE     43     67     36
D1356V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAU1 MUTATED        0      4      3
  STAU1 WILD-TYPE     42    169    144
D1356V3, multiclass
        clus
vv       STAU1 MUTATED STAU1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAU1 MUTATED        2      2      3
  STAU1 WILD-TYPE     60     71     72
D1356V4, multiclass
        clus
vv       STAU1 MUTATED STAU1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STAU1 MUTATED        3      2      2
  STAU1 WILD-TYPE     67    118     98
D1356V5, multiclass
        clus
vv       STAU1 MUTATED STAU1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAU1 MUTATED        0      1      1      0      1      1      1      1
  STAU1 WILD-TYPE     41     25     29     29     38     68     19     13
                 vv
clus              CLUS_9
  STAU1 MUTATED        1
  STAU1 WILD-TYPE     21
D1356V6, multiclass
        clus
vv       STAU1 MUTATED STAU1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STAU1 MUTATED        2      2      3      0
  STAU1 WILD-TYPE     98     70     69    121
D1356V7, multiclass
        clus
vv       STAU1 MUTATED STAU1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAU1 MUTATED        2      3      2      0      0
  STAU1 WILD-TYPE     57     72     72    119     38
D1356V8, multiclass
        clus
vv       STAU1 MUTATED STAU1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STAU1 MUTATED        1      5      1      0      0
  STAU1 WILD-TYPE     50     71     60     71     95
D1356V9, multiclass
        clus
vv       STAU1 MUTATED STAU1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAU1 MUTATED        2      3      0      0      1      1      0      0
  STAU1 WILD-TYPE     67     45     39     16     52     19     21     38
                 vv
clus              CLUS_9
  STAU1 MUTATED        0
  STAU1 WILD-TYPE     50
D1356V10, multiclass
        clus
vv       STAU1 MUTATED STAU1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STAU1 MUTATED        1      0      0      1      1      0
  STAU1 WILD-TYPE     12     16     14     10     10      9
D1356V11, multiclass
        clus
vv       STAU1 MUTATED STAU1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STAU1 MUTATED        0      0      1      0      0      0      2      0
  STAU1 WILD-TYPE     11      7      6      9      8      7      9      9
                 vv
clus              CLUS_9
  STAU1 MUTATED        0
  STAU1 WILD-TYPE      5
D1356V12, multiclass
        clus
vv       STAU1 MUTATED STAU1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1357) Variable = EFNB3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFNB3 MUTATED        1      0      0      0      1
  EFNB3 WILD-TYPE     31     18     46     27     22
D1357V1, multiclass
[1] "Remove cluster labels:" "EFNB3 MUTATED"         
clus
  EFNB3 MUTATED EFNB3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3852 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3952 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFNB3 MUTATED        1      1      0
  EFNB3 WILD-TYPE     42     66     36
D1357V2, multiclass
[1] "Remove cluster labels:" "EFNB3 MUTATED"         
clus
  EFNB3 MUTATED EFNB3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3852 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3952 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFNB3 MUTATED        3      1      4
  EFNB3 WILD-TYPE     39    172    143
D1357V3, multiclass
        clus
vv       EFNB3 MUTATED EFNB3 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             1             172
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFNB3 MUTATED        1      0      4
  EFNB3 WILD-TYPE     61     73     71
D1357V4, multiclass
        clus
vv       EFNB3 MUTATED EFNB3 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EFNB3 MUTATED        1      4      2
  EFNB3 WILD-TYPE     69    116     98
D1357V5, multiclass
        clus
vv       EFNB3 MUTATED EFNB3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFNB3 MUTATED        0      0      1      2      1      2      1      0
  EFNB3 WILD-TYPE     41     26     29     27     38     67     19     14
                 vv
clus              CLUS_9
  EFNB3 MUTATED        0
  EFNB3 WILD-TYPE     22
D1357V6, multiclass
        clus
vv       EFNB3 MUTATED EFNB3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EFNB3 MUTATED        1      5      0      2
  EFNB3 WILD-TYPE     99     67     72    119
D1357V7, multiclass
        clus
vv       EFNB3 MUTATED EFNB3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFNB3 MUTATED        0      2      3      2      1
  EFNB3 WILD-TYPE     59     73     71    117     37
D1357V8, multiclass
        clus
vv       EFNB3 MUTATED EFNB3 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EFNB3 MUTATED        0      3      0      2      3
  EFNB3 WILD-TYPE     51     73     61     69     92
D1357V9, multiclass
        clus
vv       EFNB3 MUTATED EFNB3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFNB3 MUTATED        2      1      0      1      0      0      0      1
  EFNB3 WILD-TYPE     67     47     39     15     53     20     21     37
                 vv
clus              CLUS_9
  EFNB3 MUTATED        3
  EFNB3 WILD-TYPE     47
D1357V10, multiclass
        clus
vv       EFNB3 MUTATED EFNB3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EFNB3 MUTATED        1      0      0      0      1      0
  EFNB3 WILD-TYPE     12     16     14     11     10      9
D1357V11, multiclass
[1] "Remove cluster labels:" "EFNB3 MUTATED"         
clus
  EFNB3 MUTATED EFNB3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D9 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EFNB3 MUTATED        0      0      0      1      0      0      0      1
  EFNB3 WILD-TYPE     11      7      7      8      8      7     11      8
                 vv
clus              CLUS_9
  EFNB3 MUTATED        0
  EFNB3 WILD-TYPE      5
D1357V12, multiclass
[1] "Remove cluster labels:" "EFNB3 MUTATED"         
clus
  EFNB3 MUTATED EFNB3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D9 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" "EFNB3 WILD-TYPE" 

Clustering(1358) Variable = ICAM5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ICAM5 MUTATED        1      0      0      0      0
  ICAM5 WILD-TYPE     31     18     46     27     23
D1358V1, multiclass
[1] "Remove cluster labels:" "ICAM5 MUTATED"         
clus
  ICAM5 MUTATED ICAM5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AY-4071 
"ICAM5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ICAM5 MUTATED        0      0      1
  ICAM5 WILD-TYPE     43     67     35
D1358V2, multiclass
[1] "Remove cluster labels:" "ICAM5 MUTATED"         
clus
  ICAM5 MUTATED ICAM5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AY-4071 
"ICAM5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ICAM5 MUTATED        1      1      8
  ICAM5 WILD-TYPE     41    172    139
D1358V3, multiclass
        clus
vv       ICAM5 MUTATED ICAM5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ICAM5 MUTATED        1      1      7
  ICAM5 WILD-TYPE     61     72     68
D1358V4, multiclass
        clus
vv       ICAM5 MUTATED ICAM5 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ICAM5 MUTATED        3      2      4
  ICAM5 WILD-TYPE     67    118     96
D1358V5, multiclass
        clus
vv       ICAM5 MUTATED ICAM5 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             2             118
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ICAM5 MUTATED        2      1      0      1      2      3      0      0
  ICAM5 WILD-TYPE     39     25     30     28     37     66     20     14
                 vv
clus              CLUS_9
  ICAM5 MUTATED        0
  ICAM5 WILD-TYPE     22
D1358V6, multiclass
        clus
vv       ICAM5 MUTATED ICAM5 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ICAM5 MUTATED        1      8      0      1
  ICAM5 WILD-TYPE     99     64     72    120
D1358V7, multiclass
        clus
vv       ICAM5 MUTATED ICAM5 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             8              64
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ICAM5 MUTATED        1      0      7      2      0
  ICAM5 WILD-TYPE     58     75     67    117     38
D1358V8, multiclass
        clus
vv       ICAM5 MUTATED ICAM5 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             7              67
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ICAM5 MUTATED        0      6      1      1      2
  ICAM5 WILD-TYPE     51     70     60     70     93
D1358V9, multiclass
        clus
vv       ICAM5 MUTATED ICAM5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ICAM5 MUTATED        4      1      0      2      1      0      0      2
  ICAM5 WILD-TYPE     65     47     39     14     52     20     21     36
                 vv
clus              CLUS_9
  ICAM5 MUTATED        0
  ICAM5 WILD-TYPE     50
D1358V10, multiclass
        clus
vv       ICAM5 MUTATED ICAM5 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ICAM5 MUTATED        0      1      0      0      0      0
  ICAM5 WILD-TYPE     13     15     14     11     11      9
D1358V11, multiclass
[1] "Remove cluster labels:" "ICAM5 MUTATED"         
clus
  ICAM5 MUTATED ICAM5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-G4-6628 
"ICAM5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ICAM5 MUTATED        1      0      0      0      0      0      0      0
  ICAM5 WILD-TYPE     10      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  ICAM5 MUTATED        0
  ICAM5 WILD-TYPE      5
D1358V12, multiclass
[1] "Remove cluster labels:" "ICAM5 MUTATED"         
clus
  ICAM5 MUTATED ICAM5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" "ICAM5 WILD-TYPE" 
     TCGA-G4-6628 
"ICAM5 WILD-TYPE" 

Clustering(1359) Variable = ZP2 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZP2 MUTATED        3      0      0      2      0
  ZP2 WILD-TYPE     29     18     46     25     23
D1359V1, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           3            29
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZP2 MUTATED        4      1      0
  ZP2 WILD-TYPE     39     66     36
D1359V2, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           4            39
  CLUS_2           1            66
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZP2 MUTATED        1      3      8
  ZP2 WILD-TYPE     41    170    139
D1359V3, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           1            41
  CLUS_2           3           170
  CLUS_3           8           139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZP2 MUTATED        3      3      2
  ZP2 WILD-TYPE     59     70     73
D1359V4, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           3            59
  CLUS_2           3            70
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZP2 MUTATED        1      5      4
  ZP2 WILD-TYPE     69    115     96
D1359V5, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           1            69
  CLUS_2           5           115
  CLUS_3           4            96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZP2 MUTATED        1      0      1      1      3      3      0      1      0
  ZP2 WILD-TYPE     40     26     29     28     36     66     20     13     22
D1359V6, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           1            29
  CLUS_4           1            28
  CLUS_5           3            36
  CLUS_6           3            66
  CLUS_7           0            20
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZP2 MUTATED        4      1      2      5
  ZP2 WILD-TYPE     96     71     70    116
D1359V7, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           4            96
  CLUS_2           1            71
  CLUS_3           2            70
  CLUS_4           5           116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZP2 MUTATED        1      4      2      1      4
  ZP2 WILD-TYPE     58     71     72    118     34
D1359V8, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           1            58
  CLUS_2           4            71
  CLUS_3           2            72
  CLUS_4           1           118
  CLUS_5           4            34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZP2 MUTATED        2      2      2      1      5
  ZP2 WILD-TYPE     49     74     59     70     90
D1359V9, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           2            49
  CLUS_2           2            74
  CLUS_3           2            59
  CLUS_4           1            70
  CLUS_5           5            90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZP2 MUTATED        1      2      1      1      2      1      0      4      0
  ZP2 WILD-TYPE     68     46     38     15     51     19     21     34     50
D1359V10, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           1            68
  CLUS_2           2            46
  CLUS_3           1            38
  CLUS_4           1            15
  CLUS_5           2            51
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           4            34
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZP2 MUTATED        1      1      0      0      1      0
  ZP2 WILD-TYPE     12     15     14     11     10      9
D1359V11, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           1            12
  CLUS_2           1            15
  CLUS_3           0            14
  CLUS_4           0            11
  CLUS_5           1            10
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZP2 MUTATED        0      1      0      2      0      0      0      0      0
  ZP2 WILD-TYPE     11      6      7      7      8      7     11      9      5
D1359V12, multiclass
        clus
vv       ZP2 MUTATED ZP2 WILD-TYPE
  CLUS_1           0            11
  CLUS_2           1             6
  CLUS_3           0             7
  CLUS_4           2             7
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           0            11
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1360) Variable = RXRA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RXRA MUTATED        1      0      0      0      0
  RXRA WILD-TYPE     31     18     46     27     23
D1360V1, multiclass
[1] "Remove cluster labels:" "RXRA MUTATED"          
clus
  RXRA MUTATED RXRA WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AY-4071 
"RXRA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RXRA MUTATED        1      0      0
  RXRA WILD-TYPE     42     67     36
D1360V2, multiclass
[1] "Remove cluster labels:" "RXRA MUTATED"          
clus
  RXRA MUTATED RXRA WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AY-4071 
"RXRA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RXRA MUTATED        1      0      7
  RXRA WILD-TYPE     41    173    140
D1360V3, multiclass
        clus
vv       RXRA MUTATED RXRA WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RXRA MUTATED        4      0      3
  RXRA WILD-TYPE     58     73     72
D1360V4, multiclass
        clus
vv       RXRA MUTATED RXRA WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RXRA MUTATED        1      1      5
  RXRA WILD-TYPE     69    119     95
D1360V5, multiclass
        clus
vv       RXRA MUTATED RXRA WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RXRA MUTATED        0      0      0      1      1      5      0      0      0
  RXRA WILD-TYPE     41     26     30     28     38     64     20     14     22
D1360V6, multiclass
        clus
vv       RXRA MUTATED RXRA WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RXRA MUTATED        0      6      1      1
  RXRA WILD-TYPE    100     66     71    120
D1360V7, multiclass
        clus
vv       RXRA MUTATED RXRA WILD-TYPE
  CLUS_1            0            100
  CLUS_2            6             66
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RXRA MUTATED        0      1      6      0      1
  RXRA WILD-TYPE     59     74     68    119     37
D1360V8, multiclass
        clus
vv       RXRA MUTATED RXRA WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            6             68
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RXRA MUTATED        0      4      1      0      3
  RXRA WILD-TYPE     51     72     60     71     92
D1360V9, multiclass
        clus
vv       RXRA MUTATED RXRA WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RXRA MUTATED        1      1      0      3      0      0      0      2      1
  RXRA WILD-TYPE     68     47     39     13     53     20     21     36     49
D1360V10, multiclass
        clus
vv       RXRA MUTATED RXRA WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RXRA MUTATED        0      0      0      0      1      0
  RXRA WILD-TYPE     13     16     14     11     10      9
D1360V11, multiclass
[1] "Remove cluster labels:" "RXRA MUTATED"          
clus
  RXRA MUTATED RXRA WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-G4-6628 
"RXRA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RXRA MUTATED        0      0      0      1      0      0      0      0      0
  RXRA WILD-TYPE     11      7      7      8      8      7     11      9      5
D1360V12, multiclass
[1] "Remove cluster labels:" "RXRA MUTATED"          
clus
  RXRA MUTATED RXRA WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" "RXRA WILD-TYPE" 
    TCGA-G4-6628 
"RXRA WILD-TYPE" 

Clustering(1361) Variable = CCT5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCT5 MUTATED        1      0      0      2      0
  CCT5 WILD-TYPE     31     18     46     25     23
D1361V1, multiclass
        clus
vv       CCT5 MUTATED CCT5 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCT5 MUTATED        1      2      0
  CCT5 WILD-TYPE     42     65     36
D1361V2, multiclass
        clus
vv       CCT5 MUTATED CCT5 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCT5 MUTATED        0      2      6
  CCT5 WILD-TYPE     42    171    141
D1361V3, multiclass
        clus
vv       CCT5 MUTATED CCT5 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCT5 MUTATED        1      1      3
  CCT5 WILD-TYPE     61     72     72
D1361V4, multiclass
        clus
vv       CCT5 MUTATED CCT5 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCT5 MUTATED        0      3      3
  CCT5 WILD-TYPE     70    117     97
D1361V5, multiclass
        clus
vv       CCT5 MUTATED CCT5 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCT5 MUTATED        0      1      1      1      0      2      1      0      0
  CCT5 WILD-TYPE     41     25     29     28     39     67     19     14     22
D1361V6, multiclass
        clus
vv       CCT5 MUTATED CCT5 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCT5 MUTATED        1      3      1      3
  CCT5 WILD-TYPE     99     69     71    118
D1361V7, multiclass
        clus
vv       CCT5 MUTATED CCT5 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCT5 MUTATED        0      1      4      2      1
  CCT5 WILD-TYPE     59     74     70    117     37
D1361V8, multiclass
        clus
vv       CCT5 MUTATED CCT5 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCT5 MUTATED        0      4      1      0      3
  CCT5 WILD-TYPE     51     72     60     71     92
D1361V9, multiclass
        clus
vv       CCT5 MUTATED CCT5 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCT5 MUTATED        1      2      0      1      0      2      1      1      0
  CCT5 WILD-TYPE     68     46     39     15     53     18     20     37     50
D1361V10, multiclass
        clus
vv       CCT5 MUTATED CCT5 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCT5 MUTATED        0      0      0      0      0      0
  CCT5 WILD-TYPE     13     16     14     11     11      9
D1361V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCT5 MUTATED        0      0      0      0      0      0      0      0      0
  CCT5 WILD-TYPE     11      7      7      9      8      7     11      9      5
D1361V12, multiclass

Clustering(1362) Variable = DOCK8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK8 MUTATED        2      1      1      1      0
  DOCK8 WILD-TYPE     30     17     45     26     23
D1362V1, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK8 MUTATED        2      2      1
  DOCK8 WILD-TYPE     41     65     35
D1362V2, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK8 MUTATED        1      4     14
  DOCK8 WILD-TYPE     41    169    133
D1362V3, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK8 MUTATED        7      2      6
  DOCK8 WILD-TYPE     55     71     69
D1362V4, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             2              71
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOCK8 MUTATED        3      4      6
  DOCK8 WILD-TYPE     67    116     94
D1362V5, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             116
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK8 MUTATED        2      0      1      1      0      5      3      1
  DOCK8 WILD-TYPE     39     26     29     28     39     64     17     13
                 vv
clus              CLUS_9
  DOCK8 MUTATED        0
  DOCK8 WILD-TYPE     22
D1362V6, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DOCK8 MUTATED        3      5      7      5
  DOCK8 WILD-TYPE     97     67     65    116
D1362V7, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             7              65
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK8 MUTATED        2      3     10      4      1
  DOCK8 WILD-TYPE     57     72     64    115     37
D1362V8, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3            10              64
  CLUS_4             4             115
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOCK8 MUTATED        3     10      2      3      2
  DOCK8 WILD-TYPE     48     66     59     68     93
D1362V9, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             3              48
  CLUS_2            10              66
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK8 MUTATED        4      4      0      5      2      2      1      1
  DOCK8 WILD-TYPE     65     44     39     11     51     18     20     37
                 vv
clus              CLUS_9
  DOCK8 MUTATED        1
  DOCK8 WILD-TYPE     49
D1362V10, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             5              11
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DOCK8 MUTATED        1      2      1      0      4      0
  DOCK8 WILD-TYPE     12     14     13     11      7      9
D1362V11, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DOCK8 MUTATED        1      1      0      2      1      0      2      0
  DOCK8 WILD-TYPE     10      6      7      7      7      7      9      9
                 vv
clus              CLUS_9
  DOCK8 MUTATED        1
  DOCK8 WILD-TYPE      4
D1362V12, multiclass
        clus
vv       DOCK8 MUTATED DOCK8 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1363) Variable = ZNF512 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF512 MUTATED        0      0      0      0      0
  ZNF512 WILD-TYPE     32     18     46     27     23
D1363V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF512 MUTATED        0      0      0
  ZNF512 WILD-TYPE     43     67     36
D1363V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF512 MUTATED        1      2      0
  ZNF512 WILD-TYPE     41    171    147
D1363V3, multiclass
        clus
vv       ZNF512 MUTATED ZNF512 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              0              147
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF512 MUTATED        2      1      0
  ZNF512 WILD-TYPE     60     72     75
D1363V4, multiclass
        clus
vv       ZNF512 MUTATED ZNF512 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF512 MUTATED        0      1      1
  ZNF512 WILD-TYPE     70    119     99
D1363V5, multiclass
[1] "Remove cluster labels:" "ZNF512 MUTATED"        
clus
  ZNF512 MUTATED ZNF512 WILD-TYPE 
               2              288 
      TCGA-A6-2671       TCGA-A6-2672       TCGA-A6-2676       TCGA-A6-2677 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-A6-5656       TCGA-A6-5657 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-5659       TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-5664       TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3489       TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3510       TCGA-AA-3511       TCGA-AA-3514       TCGA-AA-3517 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521       TCGA-AA-3522 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3525       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3548       TCGA-AA-3552 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3558 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3655 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3697 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3712       TCGA-AA-3713       TCGA-AA-3715 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3930       TCGA-AA-3947       TCGA-AA-3950 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3982       TCGA-AA-3986 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00E 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A00N       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A01P       TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A01T       TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02K       TCGA-AA-A02O       TCGA-AA-A02W 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A02Y       TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AD-5900 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6899       TCGA-AD-6965 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AU-6004       TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AY-6386       TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AZ-4682       TCGA-AZ-5407       TCGA-AZ-6598       TCGA-AZ-6599 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6606 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-AZ-6608       TCGA-CA-5254       TCGA-CA-5255 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CA-5796       TCGA-CA-5797       TCGA-CA-6715       TCGA-CA-6716 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CA-6717       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5914 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747       TCGA-CK-6748 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744       TCGA-CM-4746 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341       TCGA-CM-5344 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5538 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541       TCGA-D5-6529 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6535 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538       TCGA-D5-6539 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898       TCGA-D5-6920 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924       TCGA-D5-6926 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6927       TCGA-D5-6928       TCGA-D5-6930       TCGA-D5-6931 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6932       TCGA-DM-A0X9       TCGA-DM-A0XF       TCGA-DM-A1D0 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A1D4       TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A1HB       TCGA-DM-A282       TCGA-DM-A28C       TCGA-DM-A28E 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-DM-A28G       TCGA-F4-6459       TCGA-F4-6460 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-F4-6809       TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-G4-6293       TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF512 MUTATED        1      0      0      1      0      0      0      0
  ZNF512 WILD-TYPE     40     26     30     28     39     69     20     14
                  vv
clus               CLUS_9
  ZNF512 MUTATED        0
  ZNF512 WILD-TYPE     22
D1363V6, multiclass
[1] "Remove cluster labels:" "ZNF512 MUTATED"        
clus
  ZNF512 MUTATED ZNF512 WILD-TYPE 
               2              288 
      TCGA-A6-2671       TCGA-A6-2672       TCGA-A6-2676       TCGA-A6-2677 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-A6-5656       TCGA-A6-5657 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-5659       TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-5664       TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-6138       TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3489       TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3510       TCGA-AA-3511       TCGA-AA-3514       TCGA-AA-3517 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521       TCGA-AA-3522 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3525       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3548       TCGA-AA-3552 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3558 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3655 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3697 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3712       TCGA-AA-3713       TCGA-AA-3715 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3930       TCGA-AA-3947       TCGA-AA-3950 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3982       TCGA-AA-3986 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00E 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A00N       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A01P       TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A01T       TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02K       TCGA-AA-A02O       TCGA-AA-A02W 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-A02Y       TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AD-5900 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6899       TCGA-AD-6965 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AU-6004       TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AY-6386       TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AZ-4682       TCGA-AZ-5407       TCGA-AZ-6598       TCGA-AZ-6599 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6606 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-AZ-6608       TCGA-CA-5254       TCGA-CA-5255 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CA-5796       TCGA-CA-5797       TCGA-CA-6715       TCGA-CA-6716 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CA-6717       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5914 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747       TCGA-CK-6748 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744       TCGA-CM-4746 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341       TCGA-CM-5344 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5538 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541       TCGA-D5-6529 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6535 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538       TCGA-D5-6539 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898       TCGA-D5-6920 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924       TCGA-D5-6926 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6927       TCGA-D5-6928       TCGA-D5-6930       TCGA-D5-6931 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6932       TCGA-DM-A0X9       TCGA-DM-A0XF       TCGA-DM-A1D0 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A1D4       TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A1HB       TCGA-DM-A282       TCGA-DM-A28C       TCGA-DM-A28E 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-DM-A28G       TCGA-F4-6459       TCGA-F4-6460 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-F4-6809       TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-G4-6293       TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF512 MUTATED        2      1      0      0
  ZNF512 WILD-TYPE     98     71     72    121
D1363V7, multiclass
        clus
vv       ZNF512 MUTATED ZNF512 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              0               72
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF512 MUTATED        0      2      1      0      0
  ZNF512 WILD-TYPE     59     73     73    119     38
D1363V8, multiclass
        clus
vv       ZNF512 MUTATED ZNF512 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF512 MUTATED        0      3      0      0      0
  ZNF512 WILD-TYPE     51     73     61     71     95
D1363V9, multiclass
        clus
vv       ZNF512 MUTATED ZNF512 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF512 MUTATED        2      0      1      0      0      0      0      0
  ZNF512 WILD-TYPE     67     48     38     16     53     20     21     38
                  vv
clus               CLUS_9
  ZNF512 MUTATED        0
  ZNF512 WILD-TYPE     50
D1363V10, multiclass
        clus
vv       ZNF512 MUTATED ZNF512 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF512 MUTATED        0      1      1      0      0      0
  ZNF512 WILD-TYPE     13     15     13     11     11      9
D1363V11, multiclass
[1] "Remove cluster labels:" "ZNF512 MUTATED"        
clus
  ZNF512 MUTATED ZNF512 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF512 MUTATED        1      0      0      0      1      0      0      0
  ZNF512 WILD-TYPE     10      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  ZNF512 MUTATED        0
  ZNF512 WILD-TYPE      5
D1363V12, multiclass
[1] "Remove cluster labels:" "ZNF512 MUTATED"        
clus
  ZNF512 MUTATED ZNF512 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" "ZNF512 WILD-TYPE" 

Clustering(1364) Variable = TBCA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBCA MUTATED        1      0      0      1      0
  TBCA WILD-TYPE     31     18     46     26     23
D1364V1, multiclass
[1] "Remove cluster labels:" "TBCA MUTATED"          
clus
  TBCA MUTATED TBCA WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TBCA MUTATED        1      1      0
  TBCA WILD-TYPE     42     66     36
D1364V2, multiclass
[1] "Remove cluster labels:" "TBCA MUTATED"          
clus
  TBCA MUTATED TBCA WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TBCA MUTATED        0      1      3
  TBCA WILD-TYPE     42    172    144
D1364V3, multiclass
        clus
vv       TBCA MUTATED TBCA WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TBCA MUTATED        2      0      0
  TBCA WILD-TYPE     60     73     75
D1364V4, multiclass
[1] "Remove cluster labels:" "TBCA MUTATED"          
clus
  TBCA MUTATED TBCA WILD-TYPE 
             2            208 
    TCGA-A6-2671     TCGA-A6-2677     TCGA-A6-3809     TCGA-A6-3810 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-4105     TCGA-A6-5656     TCGA-A6-5657     TCGA-A6-5659 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662     TCGA-A6-5664 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137     TCGA-A6-6138 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648     TCGA-A6-6649 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653     TCGA-A6-6654 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502     TCGA-AA-3510 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3511     TCGA-AA-3655     TCGA-AA-3660     TCGA-AA-3662 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3663     TCGA-AA-3697     TCGA-AA-3712     TCGA-AA-3713 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6888     TCGA-AD-6889 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AD-6890     TCGA-AD-6895     TCGA-AD-6899     TCGA-AD-6901 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AU-3779 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AU-6004     TCGA-AY-5543     TCGA-AY-6197     TCGA-AY-6386 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-4681 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AZ-4682     TCGA-AZ-5403     TCGA-AZ-5407     TCGA-AZ-6598 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AZ-6599     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6606     TCGA-AZ-6607     TCGA-AZ-6608 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CA-5254     TCGA-CA-5255     TCGA-CA-5796     TCGA-CA-5797 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CA-6715     TCGA-CA-6716     TCGA-CA-6717     TCGA-CA-6718 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CA-6719     TCGA-CK-4947     TCGA-CK-4948     TCGA-CK-4950 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CK-4952     TCGA-CK-5912     TCGA-CK-5913     TCGA-CK-5914 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CK-5915     TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CK-6748     TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-4746     TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-5344     TCGA-CM-5348     TCGA-CM-5860     TCGA-CM-5861 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864     TCGA-CM-5868 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163     TCGA-CM-6164 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167     TCGA-CM-6168 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171     TCGA-CM-6172 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6534 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537     TCGA-D5-6538 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541     TCGA-D5-6898 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923     TCGA-D5-6924 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-D5-6926     TCGA-D5-6927     TCGA-D5-6928     TCGA-D5-6929 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932     TCGA-D5-7000 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28C 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A28E     TCGA-DM-A28F     TCGA-DM-A28G     TCGA-DM-A28H 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A28K     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TBCA MUTATED        1      1      2
  TBCA WILD-TYPE     69    119     98
D1364V5, multiclass
        clus
vv       TBCA MUTATED TBCA WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TBCA MUTATED        0      0      1      0      1      1      1      0      0
  TBCA WILD-TYPE     41     26     29     29     38     68     19     14     22
D1364V6, multiclass
        clus
vv       TBCA MUTATED TBCA WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TBCA MUTATED        0      0      2      2
  TBCA WILD-TYPE    100     72     70    119
D1364V7, multiclass
        clus
vv       TBCA MUTATED TBCA WILD-TYPE
  CLUS_1            0            100
  CLUS_2            0             72
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBCA MUTATED        1      0      1      1      1
  TBCA WILD-TYPE     58     75     73    118     37
D1364V8, multiclass
        clus
vv       TBCA MUTATED TBCA WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            1             73
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBCA MUTATED        0      2      0      0      2
  TBCA WILD-TYPE     51     74     61     71     93
D1364V9, multiclass
        clus
vv       TBCA MUTATED TBCA WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TBCA MUTATED        1      1      0      0      0      1      0      1      0
  TBCA WILD-TYPE     68     47     39     16     53     19     21     37     50
D1364V10, multiclass
        clus
vv       TBCA MUTATED TBCA WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TBCA MUTATED        0      1      0      0      0      0
  TBCA WILD-TYPE     13     15     14     11     11      9
D1364V11, multiclass
[1] "Remove cluster labels:" "TBCA MUTATED"          
clus
  TBCA MUTATED TBCA WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-G4-6628 
"TBCA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TBCA MUTATED        1      0      0      0      0      0      0      0      0
  TBCA WILD-TYPE     10      7      7      9      8      7     11      9      5
D1364V12, multiclass
[1] "Remove cluster labels:" "TBCA MUTATED"          
clus
  TBCA MUTATED TBCA WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" "TBCA WILD-TYPE" 
    TCGA-G4-6628 
"TBCA WILD-TYPE" 

Clustering(1365) Variable = EPHA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA2 MUTATED        4      0      0      0      0
  EPHA2 WILD-TYPE     28     18     46     27     23
D1365V1, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA2 MUTATED        4      0      0
  EPHA2 WILD-TYPE     39     67     36
D1365V2, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA2 MUTATED        2      0      9
  EPHA2 WILD-TYPE     40    173    138
D1365V3, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0             173
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA2 MUTATED        3      0      4
  EPHA2 WILD-TYPE     59     73     71
D1365V4, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA2 MUTATED        0      4      5
  EPHA2 WILD-TYPE     70    116     95
D1365V5, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA2 MUTATED        0      1      0      2      1      4      1      0
  EPHA2 WILD-TYPE     41     25     30     27     38     65     19     14
                 vv
clus              CLUS_9
  EPHA2 MUTATED        0
  EPHA2 WILD-TYPE     22
D1365V6, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPHA2 MUTATED        0      5      2      4
  EPHA2 WILD-TYPE    100     67     70    117
D1365V7, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA2 MUTATED        0      0      6      2      3
  EPHA2 WILD-TYPE     59     75     68    117     35
D1365V8, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA2 MUTATED        0      6      0      1      3
  EPHA2 WILD-TYPE     51     70     61     70     92
D1365V9, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA2 MUTATED        1      1      0      4      0      0      0      4
  EPHA2 WILD-TYPE     68     47     39     12     53     20     21     34
                 vv
clus              CLUS_9
  EPHA2 MUTATED        0
  EPHA2 WILD-TYPE     50
D1365V10, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EPHA2 MUTATED        1      0      0      0      2      0
  EPHA2 WILD-TYPE     12     16     14     11      9      9
D1365V11, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA2 MUTATED        0      0      0      2      0      1      0      0
  EPHA2 WILD-TYPE     11      7      7      7      8      6     11      9
                 vv
clus              CLUS_9
  EPHA2 MUTATED        0
  EPHA2 WILD-TYPE      5
D1365V12, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1366) Variable = OR6K2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6K2 MUTATED        2      0      1      1      0
  OR6K2 WILD-TYPE     30     18     45     26     23
D1366V1, multiclass
        clus
vv       OR6K2 MUTATED OR6K2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6K2 MUTATED        3      1      0
  OR6K2 WILD-TYPE     40     66     36
D1366V2, multiclass
        clus
vv       OR6K2 MUTATED OR6K2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6K2 MUTATED        1      1     12
  OR6K2 WILD-TYPE     41    172    135
D1366V3, multiclass
        clus
vv       OR6K2 MUTATED OR6K2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6K2 MUTATED        4      0      7
  OR6K2 WILD-TYPE     58     73     68
D1366V4, multiclass
        clus
vv       OR6K2 MUTATED OR6K2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6K2 MUTATED        1      5      7
  OR6K2 WILD-TYPE     69    115     93
D1366V5, multiclass
        clus
vv       OR6K2 MUTATED OR6K2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6K2 MUTATED        1      1      1      1      1      7      1      0
  OR6K2 WILD-TYPE     40     25     29     28     38     62     19     14
                 vv
clus              CLUS_9
  OR6K2 MUTATED        0
  OR6K2 WILD-TYPE     22
D1366V6, multiclass
        clus
vv       OR6K2 MUTATED OR6K2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR6K2 MUTATED        0      8      2      4
  OR6K2 WILD-TYPE    100     64     70    117
D1366V7, multiclass
        clus
vv       OR6K2 MUTATED OR6K2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             8              64
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6K2 MUTATED        0      2      8      1      3
  OR6K2 WILD-TYPE     59     73     66    118     35
D1366V8, multiclass
        clus
vv       OR6K2 MUTATED OR6K2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             8              66
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6K2 MUTATED        1      8      0      0      4
  OR6K2 WILD-TYPE     50     68     61     71     91
D1366V9, multiclass
        clus
vv       OR6K2 MUTATED OR6K2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             8              68
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6K2 MUTATED        3      2      1      2      1      1      0      2
  OR6K2 WILD-TYPE     66     46     38     14     52     19     21     36
                 vv
clus              CLUS_9
  OR6K2 MUTATED        1
  OR6K2 WILD-TYPE     49
D1366V10, multiclass
        clus
vv       OR6K2 MUTATED OR6K2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR6K2 MUTATED        0      1      0      0      1      0
  OR6K2 WILD-TYPE     13     15     14     11     10      9
D1366V11, multiclass
[1] "Remove cluster labels:" "OR6K2 MUTATED"         
clus
  OR6K2 MUTATED OR6K2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6K2 MUTATED        0      0      0      0      0      0      2      0
  OR6K2 WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  OR6K2 MUTATED        0
  OR6K2 WILD-TYPE      5
D1366V12, multiclass
[1] "Remove cluster labels:" "OR6K2 MUTATED"         
clus
  OR6K2 MUTATED OR6K2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" "OR6K2 WILD-TYPE" 

Clustering(1367) Variable = CTR9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTR9 MUTATED        1      0      0      3      1
  CTR9 WILD-TYPE     31     18     46     24     22
D1367V1, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTR9 MUTATED        3      1      1
  CTR9 WILD-TYPE     40     66     35
D1367V2, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTR9 MUTATED        1      4     12
  CTR9 WILD-TYPE     41    169    135
D1367V3, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTR9 MUTATED        6      1      5
  CTR9 WILD-TYPE     56     72     70
D1367V4, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            1             72
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTR9 MUTATED        0      7      8
  CTR9 WILD-TYPE     70    113     92
D1367V5, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            7            113
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTR9 MUTATED        2      0      1      3      2      6      0      1      0
  CTR9 WILD-TYPE     39     26     29     26     37     63     20     13     22
D1367V6, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            2             37
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTR9 MUTATED        2      4      6      5
  CTR9 WILD-TYPE     98     68     66    116
D1367V7, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            6             66
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTR9 MUTATED        3      3      6      2      3
  CTR9 WILD-TYPE     56     72     68    117     35
D1367V8, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            3             72
  CLUS_3            6             68
  CLUS_4            2            117
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTR9 MUTATED        2      6      2      2      4
  CTR9 WILD-TYPE     49     70     59     69     91
D1367V9, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTR9 MUTATED        4      5      0      1      0      2      0      2      2
  CTR9 WILD-TYPE     65     43     39     15     53     18     21     36     48
D1367V10, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            5             43
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTR9 MUTATED        1      1      1      0      2      0
  CTR9 WILD-TYPE     12     15     13     11      9      9
D1367V11, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CTR9 MUTATED        0      0      1      1      0      0      3      0      0
  CTR9 WILD-TYPE     11      7      6      8      8      7      8      9      5
D1367V12, multiclass
        clus
vv       CTR9 MUTATED CTR9 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            3              8
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1368) Variable = RWDD4A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RWDD4A MUTATED        0      1      0      0      0
  RWDD4A WILD-TYPE     32     17     46     27     23
D1368V1, multiclass
[1] "Remove cluster labels:" "RWDD4A MUTATED"        
clus
  RWDD4A MUTATED RWDD4A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3521 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AY-4071 
"RWDD4A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RWDD4A MUTATED        0      1      0
  RWDD4A WILD-TYPE     43     66     36
D1368V2, multiclass
[1] "Remove cluster labels:" "RWDD4A MUTATED"        
clus
  RWDD4A MUTATED RWDD4A WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3521 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" "RWDD4A WILD-TYPE" 
      TCGA-AY-4071 
"RWDD4A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RWDD4A MUTATED        0      2      3
  RWDD4A WILD-TYPE     42    171    144
D1368V3, multiclass
        clus
vv       RWDD4A MUTATED RWDD4A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RWDD4A MUTATED        2      2      0
  RWDD4A WILD-TYPE     60     71     75
D1368V4, multiclass
        clus
vv       RWDD4A MUTATED RWDD4A WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RWDD4A MUTATED        1      2      1
  RWDD4A WILD-TYPE     69    118     99
D1368V5, multiclass
        clus
vv       RWDD4A MUTATED RWDD4A WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RWDD4A MUTATED        0      2      0      0      0      1      1      0
  RWDD4A WILD-TYPE     41     24     30     29     39     68     19     14
                  vv
clus               CLUS_9
  RWDD4A MUTATED        0
  RWDD4A WILD-TYPE     22
D1368V6, multiclass
        clus
vv       RWDD4A MUTATED RWDD4A WILD-TYPE
  CLUS_1              0               41
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RWDD4A MUTATED        3      0      0      2
  RWDD4A WILD-TYPE     97     72     72    119
D1368V7, multiclass
        clus
vv       RWDD4A MUTATED RWDD4A WILD-TYPE
  CLUS_1              3               97
  CLUS_2              0               72
  CLUS_3              0               72
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RWDD4A MUTATED        1      2      0      2      0
  RWDD4A WILD-TYPE     58     73     74    117     38
D1368V8, multiclass
        clus
vv       RWDD4A MUTATED RWDD4A WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              0               74
  CLUS_4              2              117
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RWDD4A MUTATED        0      1      0      2      2
  RWDD4A WILD-TYPE     51     75     61     69     93
D1368V9, multiclass
        clus
vv       RWDD4A MUTATED RWDD4A WILD-TYPE
  CLUS_1              0               51
  CLUS_2              1               75
  CLUS_3              0               61
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RWDD4A MUTATED        2      0      2      0      0      0      0      0
  RWDD4A WILD-TYPE     67     48     37     16     53     20     21     38
                  vv
clus               CLUS_9
  RWDD4A MUTATED        1
  RWDD4A WILD-TYPE     49
D1368V10, multiclass
        clus
vv       RWDD4A MUTATED RWDD4A WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              2               37
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RWDD4A MUTATED        1      0      1      1      0      0
  RWDD4A WILD-TYPE     12     16     13     10     11      9
D1368V11, multiclass
        clus
vv       RWDD4A MUTATED RWDD4A WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RWDD4A MUTATED        0      0      0      0      1      0      1      1
  RWDD4A WILD-TYPE     11      7      7      9      7      7     10      8
                  vv
clus               CLUS_9
  RWDD4A MUTATED        0
  RWDD4A WILD-TYPE      5
D1368V12, multiclass
        clus
vv       RWDD4A MUTATED RWDD4A WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1369) Variable = STK40 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK40 MUTATED        2      0      0      1      0
  STK40 WILD-TYPE     30     18     46     26     23
D1369V1, multiclass
        clus
vv       STK40 MUTATED STK40 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK40 MUTATED        3      0      0
  STK40 WILD-TYPE     40     67     36
D1369V2, multiclass
        clus
vv       STK40 MUTATED STK40 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK40 MUTATED        0      1      6
  STK40 WILD-TYPE     42    172    141
D1369V3, multiclass
        clus
vv       STK40 MUTATED STK40 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK40 MUTATED        1      1      2
  STK40 WILD-TYPE     61     72     73
D1369V4, multiclass
        clus
vv       STK40 MUTATED STK40 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK40 MUTATED        0      2      3
  STK40 WILD-TYPE     70    118     97
D1369V5, multiclass
        clus
vv       STK40 MUTATED STK40 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK40 MUTATED        0      0      0      0      1      3      1      0
  STK40 WILD-TYPE     41     26     30     29     38     66     19     14
                 vv
clus              CLUS_9
  STK40 MUTATED        0
  STK40 WILD-TYPE     22
D1369V6, multiclass
        clus
vv       STK40 MUTATED STK40 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK40 MUTATED        1      3      1      2
  STK40 WILD-TYPE     99     69     71    119
D1369V7, multiclass
        clus
vv       STK40 MUTATED STK40 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK40 MUTATED        0      2      2      0      3
  STK40 WILD-TYPE     59     73     72    119     35
D1369V8, multiclass
        clus
vv       STK40 MUTATED STK40 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK40 MUTATED        0      3      1      0      3
  STK40 WILD-TYPE     51     73     60     71     92
D1369V9, multiclass
        clus
vv       STK40 MUTATED STK40 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK40 MUTATED        2      1      1      0      0      0      1      2
  STK40 WILD-TYPE     67     47     38     16     53     20     20     36
                 vv
clus              CLUS_9
  STK40 MUTATED        0
  STK40 WILD-TYPE     50
D1369V10, multiclass
        clus
vv       STK40 MUTATED STK40 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK40 MUTATED        1      1      0      0      0      0
  STK40 WILD-TYPE     12     15     14     11     11      9
D1369V11, multiclass
[1] "Remove cluster labels:" "STK40 MUTATED"         
clus
  STK40 MUTATED STK40 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK40 MUTATED        1      0      0      0      0      0      0      1
  STK40 WILD-TYPE     10      7      7      9      8      7     11      8
                 vv
clus              CLUS_9
  STK40 MUTATED        0
  STK40 WILD-TYPE      5
D1369V12, multiclass
[1] "Remove cluster labels:" "STK40 MUTATED"         
clus
  STK40 MUTATED STK40 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" "STK40 WILD-TYPE" 

Clustering(1370) Variable = SLC44A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC44A1 MUTATED        2      0      1      0      0
  SLC44A1 WILD-TYPE     30     18     45     27     23
D1370V1, multiclass
        clus
vv       SLC44A1 MUTATED SLC44A1 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A1 MUTATED        1      1      1
  SLC44A1 WILD-TYPE     42     66     35
D1370V2, multiclass
        clus
vv       SLC44A1 MUTATED SLC44A1 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A1 MUTATED        0      2      7
  SLC44A1 WILD-TYPE     42    171    140
D1370V3, multiclass
        clus
vv       SLC44A1 MUTATED SLC44A1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A1 MUTATED        3      0      3
  SLC44A1 WILD-TYPE     59     73     72
D1370V4, multiclass
        clus
vv       SLC44A1 MUTATED SLC44A1 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A1 MUTATED        2      2      2
  SLC44A1 WILD-TYPE     68    118     98
D1370V5, multiclass
        clus
vv       SLC44A1 MUTATED SLC44A1 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               2               118
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC44A1 MUTATED        1      0      1      1      0      1      0      2
  SLC44A1 WILD-TYPE     40     26     29     28     39     68     20     12
                   vv
clus                CLUS_9
  SLC44A1 MUTATED        0
  SLC44A1 WILD-TYPE     22
D1370V6, multiclass
        clus
vv       SLC44A1 MUTATED SLC44A1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               2                12
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC44A1 MUTATED        0      4      2      3
  SLC44A1 WILD-TYPE    100     68     70    118
D1370V7, multiclass
        clus
vv       SLC44A1 MUTATED SLC44A1 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               4                68
  CLUS_3               2                70
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC44A1 MUTATED        1      2      3      2      1
  SLC44A1 WILD-TYPE     58     73     71    117     37
D1370V8, multiclass
        clus
vv       SLC44A1 MUTATED SLC44A1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               3                71
  CLUS_4               2               117
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC44A1 MUTATED        0      4      2      2      1
  SLC44A1 WILD-TYPE     51     72     59     69     94
D1370V9, multiclass
        clus
vv       SLC44A1 MUTATED SLC44A1 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC44A1 MUTATED        2      1      0      1      3      0      0      1
  SLC44A1 WILD-TYPE     67     47     39     15     50     20     21     37
                   vv
clus                CLUS_9
  SLC44A1 MUTATED        1
  SLC44A1 WILD-TYPE     49
D1370V10, multiclass
        clus
vv       SLC44A1 MUTATED SLC44A1 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               3                50
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC44A1 MUTATED        0      0      1      0      0      0
  SLC44A1 WILD-TYPE     13     16     13     11     11      9
D1370V11, multiclass
[1] "Remove cluster labels:" "SLC44A1 MUTATED"       
clus
  SLC44A1 MUTATED SLC44A1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-G4-6628 
"SLC44A1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC44A1 MUTATED        0      0      0      0      1      0      0      0
  SLC44A1 WILD-TYPE     11      7      7      9      7      7     11      9
                   vv
clus                CLUS_9
  SLC44A1 MUTATED        0
  SLC44A1 WILD-TYPE      5
D1370V12, multiclass
[1] "Remove cluster labels:" "SLC44A1 MUTATED"       
clus
  SLC44A1 MUTATED SLC44A1 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" "SLC44A1 WILD-TYPE" 
       TCGA-G4-6628 
"SLC44A1 WILD-TYPE" 

Clustering(1371) Variable = LPIN2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPIN2 MUTATED        1      0      1      1      0
  LPIN2 WILD-TYPE     31     18     45     26     23
D1371V1, multiclass
        clus
vv       LPIN2 MUTATED LPIN2 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LPIN2 MUTATED        0      2      1
  LPIN2 WILD-TYPE     43     65     35
D1371V2, multiclass
        clus
vv       LPIN2 MUTATED LPIN2 WILD-TYPE
  CLUS_1             0              43
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LPIN2 MUTATED        0      3      6
  LPIN2 WILD-TYPE     42    170    141
D1371V3, multiclass
        clus
vv       LPIN2 MUTATED LPIN2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LPIN2 MUTATED        4      1      1
  LPIN2 WILD-TYPE     58     72     74
D1371V4, multiclass
        clus
vv       LPIN2 MUTATED LPIN2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LPIN2 MUTATED        0      2      5
  LPIN2 WILD-TYPE     70    118     95
D1371V5, multiclass
        clus
vv       LPIN2 MUTATED LPIN2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPIN2 MUTATED        1      0      2      0      0      4      0      0
  LPIN2 WILD-TYPE     40     26     28     29     39     65     20     14
                 vv
clus              CLUS_9
  LPIN2 MUTATED        0
  LPIN2 WILD-TYPE     22
D1371V6, multiclass
        clus
vv       LPIN2 MUTATED LPIN2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LPIN2 MUTATED        2      3      2      2
  LPIN2 WILD-TYPE     98     69     70    119
D1371V7, multiclass
        clus
vv       LPIN2 MUTATED LPIN2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPIN2 MUTATED        1      2      3      3      0
  LPIN2 WILD-TYPE     58     73     71    116     38
D1371V8, multiclass
        clus
vv       LPIN2 MUTATED LPIN2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             3             116
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LPIN2 MUTATED        0      3      2      2      2
  LPIN2 WILD-TYPE     51     73     59     69     93
D1371V9, multiclass
        clus
vv       LPIN2 MUTATED LPIN2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPIN2 MUTATED        2      2      1      0      2      1      0      0
  LPIN2 WILD-TYPE     67     46     38     16     51     19     21     38
                 vv
clus              CLUS_9
  LPIN2 MUTATED        1
  LPIN2 WILD-TYPE     49
D1371V10, multiclass
        clus
vv       LPIN2 MUTATED LPIN2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LPIN2 MUTATED        0      0      0      1      0      0
  LPIN2 WILD-TYPE     13     16     14     10     11      9
D1371V11, multiclass
[1] "Remove cluster labels:" "LPIN2 MUTATED"         
clus
  LPIN2 MUTATED LPIN2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6924      TCGA-DM-A0XD 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-G4-6628 
"LPIN2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LPIN2 MUTATED        0      0      1      0      0      0      0      0
  LPIN2 WILD-TYPE     11      7      6      9      8      7     11      9
                 vv
clus              CLUS_9
  LPIN2 MUTATED        0
  LPIN2 WILD-TYPE      5
D1371V12, multiclass
[1] "Remove cluster labels:" "LPIN2 MUTATED"         
clus
  LPIN2 MUTATED LPIN2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6924      TCGA-DM-A0XD 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" "LPIN2 WILD-TYPE" 
     TCGA-G4-6628 
"LPIN2 WILD-TYPE" 

Clustering(1372) Variable = BLM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BLM MUTATED        4      0      1      2      0
  BLM WILD-TYPE     28     18     45     25     23
D1372V1, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           4            28
  CLUS_2           0            18
  CLUS_3           1            45
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BLM MUTATED        5      2      0
  BLM WILD-TYPE     38     65     36
D1372V2, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           5            38
  CLUS_2           2            65
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BLM MUTATED        1      1     15
  BLM WILD-TYPE     41    172    132
D1372V3, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           1            41
  CLUS_2           1           172
  CLUS_3          15           132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BLM MUTATED        4      2      4
  BLM WILD-TYPE     58     71     71
D1372V4, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           4            58
  CLUS_2           2            71
  CLUS_3           4            71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BLM MUTATED        1      4      8
  BLM WILD-TYPE     69    116     92
D1372V5, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           1            69
  CLUS_2           4           116
  CLUS_3           8            92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BLM MUTATED        2      0      2      1      1      7      0      0      0
  BLM WILD-TYPE     39     26     28     28     38     62     20     14     22
D1372V6, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           2            39
  CLUS_2           0            26
  CLUS_3           2            28
  CLUS_4           1            28
  CLUS_5           1            38
  CLUS_6           7            62
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BLM MUTATED        1      5      4      7
  BLM WILD-TYPE     99     67     68    114
D1372V7, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           1            99
  CLUS_2           5            67
  CLUS_3           4            68
  CLUS_4           7           114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BLM MUTATED        2      2      6      2      5
  BLM WILD-TYPE     57     73     68    117     33
D1372V8, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           2            57
  CLUS_2           2            73
  CLUS_3           6            68
  CLUS_4           2           117
  CLUS_5           5            33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BLM MUTATED        1      4      2      1      8
  BLM WILD-TYPE     50     72     59     70     87
D1372V9, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           1            50
  CLUS_2           4            72
  CLUS_3           2            59
  CLUS_4           1            70
  CLUS_5           8            87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BLM MUTATED        3      3      0      1      0      3      1      4      1
  BLM WILD-TYPE     66     45     39     15     53     17     20     34     49
D1372V10, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           3            66
  CLUS_2           3            45
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           0            53
  CLUS_6           3            17
  CLUS_7           1            20
  CLUS_8           4            34
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BLM MUTATED        0      1      1      1      1      0
  BLM WILD-TYPE     13     15     13     10     10      9
D1372V11, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           0            13
  CLUS_2           1            15
  CLUS_3           1            13
  CLUS_4           1            10
  CLUS_5           1            10
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BLM MUTATED        0      0      0      0      0      1      3      0      0
  BLM WILD-TYPE     11      7      7      9      8      6      8      9      5
D1372V12, multiclass
        clus
vv       BLM MUTATED BLM WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           0             9
  CLUS_5           0             8
  CLUS_6           1             6
  CLUS_7           3             8
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1373) Variable = C4ORF29 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C4ORF29 MUTATED        1      0      0      0      0
  C4ORF29 WILD-TYPE     31     18     46     27     23
D1373V1, multiclass
[1] "Remove cluster labels:" "C4ORF29 MUTATED"       
clus
  C4ORF29 MUTATED C4ORF29 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3812 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AY-4071 
"C4ORF29 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C4ORF29 MUTATED        1      0      0
  C4ORF29 WILD-TYPE     42     67     36
D1373V2, multiclass
[1] "Remove cluster labels:" "C4ORF29 MUTATED"       
clus
  C4ORF29 MUTATED C4ORF29 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3812 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AY-4071 
"C4ORF29 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C4ORF29 MUTATED        1      0      4
  C4ORF29 WILD-TYPE     41    173    143
D1373V3, multiclass
        clus
vv       C4ORF29 MUTATED C4ORF29 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               0               173
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C4ORF29 MUTATED        3      0      1
  C4ORF29 WILD-TYPE     59     73     74
D1373V4, multiclass
        clus
vv       C4ORF29 MUTATED C4ORF29 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C4ORF29 MUTATED        0      3      2
  C4ORF29 WILD-TYPE     70    117     98
D1373V5, multiclass
        clus
vv       C4ORF29 MUTATED C4ORF29 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C4ORF29 MUTATED        0      1      0      1      1      2      0      0
  C4ORF29 WILD-TYPE     41     25     30     28     38     67     20     14
                   vv
clus                CLUS_9
  C4ORF29 MUTATED        0
  C4ORF29 WILD-TYPE     22
D1373V6, multiclass
        clus
vv       C4ORF29 MUTATED C4ORF29 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C4ORF29 MUTATED        0      1      2      2
  C4ORF29 WILD-TYPE    100     71     70    119
D1373V7, multiclass
        clus
vv       C4ORF29 MUTATED C4ORF29 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               1                71
  CLUS_3               2                70
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C4ORF29 MUTATED        0      0      3      1      1
  C4ORF29 WILD-TYPE     59     75     71    118     37
D1373V8, multiclass
        clus
vv       C4ORF29 MUTATED C4ORF29 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               3                71
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C4ORF29 MUTATED        0      3      0      1      1
  C4ORF29 WILD-TYPE     51     73     61     70     94
D1373V9, multiclass
        clus
vv       C4ORF29 MUTATED C4ORF29 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C4ORF29 MUTATED        3      0      0      0      1      0      0      0
  C4ORF29 WILD-TYPE     66     48     39     16     52     20     21     38
                   vv
clus                CLUS_9
  C4ORF29 MUTATED        1
  C4ORF29 WILD-TYPE     49
D1373V10, multiclass
        clus
vv       C4ORF29 MUTATED C4ORF29 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C4ORF29 MUTATED        0      0      1      0      1      0
  C4ORF29 WILD-TYPE     13     16     13     11     10      9
D1373V11, multiclass
[1] "Remove cluster labels:" "C4ORF29 MUTATED"       
clus
  C4ORF29 MUTATED C4ORF29 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C4ORF29 MUTATED        0      0      0      0      0      1      1      0
  C4ORF29 WILD-TYPE     11      7      7      9      8      6     10      9
                   vv
clus                CLUS_9
  C4ORF29 MUTATED        0
  C4ORF29 WILD-TYPE      5
D1373V12, multiclass
[1] "Remove cluster labels:" "C4ORF29 MUTATED"       
clus
  C4ORF29 MUTATED C4ORF29 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" "C4ORF29 WILD-TYPE" 

Clustering(1374) Variable = GPR161 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR161 MUTATED        2      0      0      1      0
  GPR161 WILD-TYPE     30     18     46     26     23
D1374V1, multiclass
        clus
vv       GPR161 MUTATED GPR161 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR161 MUTATED        2      1      0
  GPR161 WILD-TYPE     41     66     36
D1374V2, multiclass
        clus
vv       GPR161 MUTATED GPR161 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR161 MUTATED        0      0      9
  GPR161 WILD-TYPE     42    173    138
D1374V3, multiclass
        clus
vv       GPR161 MUTATED GPR161 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR161 MUTATED        3      0      1
  GPR161 WILD-TYPE     59     73     74
D1374V4, multiclass
        clus
vv       GPR161 MUTATED GPR161 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR161 MUTATED        2      2      5
  GPR161 WILD-TYPE     68    118     95
D1374V5, multiclass
        clus
vv       GPR161 MUTATED GPR161 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR161 MUTATED        1      0      3      0      1      3      1      0
  GPR161 WILD-TYPE     40     26     27     29     38     66     19     14
                  vv
clus               CLUS_9
  GPR161 MUTATED        0
  GPR161 WILD-TYPE     22
D1374V6, multiclass
        clus
vv       GPR161 MUTATED GPR161 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              3               27
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR161 MUTATED        0      0      4      5
  GPR161 WILD-TYPE    100     72     68    116
D1374V7, multiclass
        clus
vv       GPR161 MUTATED GPR161 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              0               72
  CLUS_3              4               68
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR161 MUTATED        1      0      3      2      3
  GPR161 WILD-TYPE     58     75     71    117     35
D1374V8, multiclass
        clus
vv       GPR161 MUTATED GPR161 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR161 MUTATED        0      2      2      0      5
  GPR161 WILD-TYPE     51     74     59     71     90
D1374V9, multiclass
        clus
vv       GPR161 MUTATED GPR161 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR161 MUTATED        0      3      0      1      0      1      1      3
  GPR161 WILD-TYPE     69     45     39     15     53     19     20     35
                  vv
clus               CLUS_9
  GPR161 MUTATED        0
  GPR161 WILD-TYPE     50
D1374V10, multiclass
        clus
vv       GPR161 MUTATED GPR161 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR161 MUTATED        0      0      0      0      2      0
  GPR161 WILD-TYPE     13     16     14     11      9      9
D1374V11, multiclass
[1] "Remove cluster labels:" "GPR161 MUTATED"        
clus
  GPR161 MUTATED GPR161 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR161 MUTATED        0      0      0      0      1      0      1      0
  GPR161 WILD-TYPE     11      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  GPR161 MUTATED        0
  GPR161 WILD-TYPE      5
D1374V12, multiclass
[1] "Remove cluster labels:" "GPR161 MUTATED"        
clus
  GPR161 MUTATED GPR161 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" "GPR161 WILD-TYPE" 

Clustering(1375) Variable = HAUS1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAUS1 MUTATED        2      0      0      0      0
  HAUS1 WILD-TYPE     30     18     46     27     23
D1375V1, multiclass
[1] "Remove cluster labels:" "HAUS1 MUTATED"         
clus
  HAUS1 MUTATED HAUS1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS1 MUTATED        2      0      0
  HAUS1 WILD-TYPE     41     67     36
D1375V2, multiclass
[1] "Remove cluster labels:" "HAUS1 MUTATED"         
clus
  HAUS1 MUTATED HAUS1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS1 MUTATED        1      1      4
  HAUS1 WILD-TYPE     41    172    143
D1375V3, multiclass
        clus
vv       HAUS1 MUTATED HAUS1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS1 MUTATED        2      2      0
  HAUS1 WILD-TYPE     60     71     75
D1375V4, multiclass
        clus
vv       HAUS1 MUTATED HAUS1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS1 MUTATED        1      2      3
  HAUS1 WILD-TYPE     69    118     97
D1375V5, multiclass
        clus
vv       HAUS1 MUTATED HAUS1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HAUS1 MUTATED        0      0      0      0      1      3      0      2
  HAUS1 WILD-TYPE     41     26     30     29     38     66     20     12
                 vv
clus              CLUS_9
  HAUS1 MUTATED        0
  HAUS1 WILD-TYPE     22
D1375V6, multiclass
        clus
vv       HAUS1 MUTATED HAUS1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HAUS1 MUTATED        2      1      1      2
  HAUS1 WILD-TYPE     98     71     71    119
D1375V7, multiclass
        clus
vv       HAUS1 MUTATED HAUS1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAUS1 MUTATED        1      2      1      0      2
  HAUS1 WILD-TYPE     58     73     73    119     36
D1375V8, multiclass
        clus
vv       HAUS1 MUTATED HAUS1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAUS1 MUTATED        1      1      2      0      1
  HAUS1 WILD-TYPE     50     75     59     71     94
D1375V9, multiclass
        clus
vv       HAUS1 MUTATED HAUS1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HAUS1 MUTATED        1      0      1      0      2      0      0      1
  HAUS1 WILD-TYPE     68     48     38     16     51     20     21     37
                 vv
clus              CLUS_9
  HAUS1 MUTATED        0
  HAUS1 WILD-TYPE     50
D1375V10, multiclass
        clus
vv       HAUS1 MUTATED HAUS1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HAUS1 MUTATED        0      0      2      0      0      0
  HAUS1 WILD-TYPE     13     16     12     11     11      9
D1375V11, multiclass
[1] "Remove cluster labels:" "HAUS1 MUTATED"         
clus
  HAUS1 MUTATED HAUS1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HAUS1 MUTATED        0      0      0      0      1      0      1      0
  HAUS1 WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  HAUS1 MUTATED        0
  HAUS1 WILD-TYPE      5
D1375V12, multiclass
[1] "Remove cluster labels:" "HAUS1 MUTATED"         
clus
  HAUS1 MUTATED HAUS1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6142 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" "HAUS1 WILD-TYPE" 

Clustering(1376) Variable = BTBD3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTBD3 MUTATED        0      0      0      1      0
  BTBD3 WILD-TYPE     32     18     46     26     23
D1376V1, multiclass
[1] "Remove cluster labels:" "BTBD3 MUTATED"         
clus
  BTBD3 MUTATED BTBD3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AY-4071 
"BTBD3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTBD3 MUTATED        1      0      0
  BTBD3 WILD-TYPE     42     67     36
D1376V2, multiclass
[1] "Remove cluster labels:" "BTBD3 MUTATED"         
clus
  BTBD3 MUTATED BTBD3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AY-4071 
"BTBD3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTBD3 MUTATED        1      3      9
  BTBD3 WILD-TYPE     41    170    138
D1376V3, multiclass
        clus
vv       BTBD3 MUTATED BTBD3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTBD3 MUTATED        4      2      5
  BTBD3 WILD-TYPE     58     71     70
D1376V4, multiclass
        clus
vv       BTBD3 MUTATED BTBD3 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTBD3 MUTATED        1      3      7
  BTBD3 WILD-TYPE     69    117     93
D1376V5, multiclass
        clus
vv       BTBD3 MUTATED BTBD3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTBD3 MUTATED        0      0      1      2      0      5      2      1
  BTBD3 WILD-TYPE     41     26     29     27     39     64     18     13
                 vv
clus              CLUS_9
  BTBD3 MUTATED        0
  BTBD3 WILD-TYPE     22
D1376V6, multiclass
        clus
vv       BTBD3 MUTATED BTBD3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BTBD3 MUTATED        3      5      3      2
  BTBD3 WILD-TYPE     97     67     69    119
D1376V7, multiclass
        clus
vv       BTBD3 MUTATED BTBD3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTBD3 MUTATED        0      5      6      0      2
  BTBD3 WILD-TYPE     59     70     68    119     36
D1376V8, multiclass
        clus
vv       BTBD3 MUTATED BTBD3 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             5              70
  CLUS_3             6              68
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTBD3 MUTATED        2      8      0      0      2
  BTBD3 WILD-TYPE     49     68     61     71     93
D1376V9, multiclass
        clus
vv       BTBD3 MUTATED BTBD3 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             8              68
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTBD3 MUTATED        2      2      1      3      1      1      0      1
  BTBD3 WILD-TYPE     67     46     38     13     52     19     21     37
                 vv
clus              CLUS_9
  BTBD3 MUTATED        1
  BTBD3 WILD-TYPE     49
D1376V10, multiclass
        clus
vv       BTBD3 MUTATED BTBD3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BTBD3 MUTATED        1      0      0      0      1      0
  BTBD3 WILD-TYPE     12     16     14     11     10      9
D1376V11, multiclass
[1] "Remove cluster labels:" "BTBD3 MUTATED"         
clus
  BTBD3 MUTATED BTBD3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTBD3 MUTATED        0      0      0      2      0      0      0      0
  BTBD3 WILD-TYPE     11      7      7      7      8      7     11      9
                 vv
clus              CLUS_9
  BTBD3 MUTATED        0
  BTBD3 WILD-TYPE      5
D1376V12, multiclass
[1] "Remove cluster labels:" "BTBD3 MUTATED"         
clus
  BTBD3 MUTATED BTBD3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" "BTBD3 WILD-TYPE" 

Clustering(1377) Variable = KLKB1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLKB1 MUTATED        4      0      0      1      0
  KLKB1 WILD-TYPE     28     18     46     26     23
D1377V1, multiclass
        clus
vv       KLKB1 MUTATED KLKB1 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLKB1 MUTATED        5      0      0
  KLKB1 WILD-TYPE     38     67     36
D1377V2, multiclass
        clus
vv       KLKB1 MUTATED KLKB1 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLKB1 MUTATED        0      1     12
  KLKB1 WILD-TYPE     42    172    135
D1377V3, multiclass
        clus
vv       KLKB1 MUTATED KLKB1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLKB1 MUTATED        2      1      5
  KLKB1 WILD-TYPE     60     72     70
D1377V4, multiclass
        clus
vv       KLKB1 MUTATED KLKB1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLKB1 MUTATED        2      4      7
  KLKB1 WILD-TYPE     68    116     93
D1377V5, multiclass
        clus
vv       KLKB1 MUTATED KLKB1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLKB1 MUTATED        2      0      0      3      0      6      2      0
  KLKB1 WILD-TYPE     39     26     30     26     39     63     18     14
                 vv
clus              CLUS_9
  KLKB1 MUTATED        0
  KLKB1 WILD-TYPE     22
D1377V6, multiclass
        clus
vv       KLKB1 MUTATED KLKB1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLKB1 MUTATED        1      6      2      4
  KLKB1 WILD-TYPE     99     66     70    117
D1377V7, multiclass
        clus
vv       KLKB1 MUTATED KLKB1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLKB1 MUTATED        0      1      7      0      5
  KLKB1 WILD-TYPE     59     74     67    119     33
D1377V8, multiclass
        clus
vv       KLKB1 MUTATED KLKB1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             7              67
  CLUS_4             0             119
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLKB1 MUTATED        0      8      0      0      4
  KLKB1 WILD-TYPE     51     68     61     71     91
D1377V9, multiclass
        clus
vv       KLKB1 MUTATED KLKB1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             8              68
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLKB1 MUTATED        1      2      1      4      0      0      0      4
  KLKB1 WILD-TYPE     68     46     38     12     53     20     21     34
                 vv
clus              CLUS_9
  KLKB1 MUTATED        0
  KLKB1 WILD-TYPE     50
D1377V10, multiclass
        clus
vv       KLKB1 MUTATED KLKB1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLKB1 MUTATED        0      1      0      0      0      0
  KLKB1 WILD-TYPE     13     15     14     11     11      9
D1377V11, multiclass
[1] "Remove cluster labels:" "KLKB1 MUTATED"         
clus
  KLKB1 MUTATED KLKB1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-G4-6628 
"KLKB1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLKB1 MUTATED        0      0      0      0      0      0      1      0
  KLKB1 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  KLKB1 MUTATED        0
  KLKB1 WILD-TYPE      5
D1377V12, multiclass
[1] "Remove cluster labels:" "KLKB1 MUTATED"         
clus
  KLKB1 MUTATED KLKB1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" "KLKB1 WILD-TYPE" 
     TCGA-G4-6628 
"KLKB1 WILD-TYPE" 

Clustering(1378) Variable = SENP8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SENP8 MUTATED        0      0      0      0      0
  SENP8 WILD-TYPE     32     18     46     27     23
D1378V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SENP8 MUTATED        0      0      0
  SENP8 WILD-TYPE     43     67     36
D1378V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SENP8 MUTATED        0      0      4
  SENP8 WILD-TYPE     42    173    143
D1378V3, multiclass
        clus
vv       SENP8 MUTATED SENP8 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SENP8 MUTATED        2      0      2
  SENP8 WILD-TYPE     60     73     73
D1378V4, multiclass
        clus
vv       SENP8 MUTATED SENP8 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SENP8 MUTATED        0      1      3
  SENP8 WILD-TYPE     70    119     97
D1378V5, multiclass
        clus
vv       SENP8 MUTATED SENP8 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SENP8 MUTATED        0      0      0      1      0      3      0      0
  SENP8 WILD-TYPE     41     26     30     28     39     66     20     14
                 vv
clus              CLUS_9
  SENP8 MUTATED        0
  SENP8 WILD-TYPE     22
D1378V6, multiclass
        clus
vv       SENP8 MUTATED SENP8 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SENP8 MUTATED        0      2      2      0
  SENP8 WILD-TYPE    100     70     70    121
D1378V7, multiclass
        clus
vv       SENP8 MUTATED SENP8 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SENP8 MUTATED        0      1      3      0      0
  SENP8 WILD-TYPE     59     74     71    119     38
D1378V8, multiclass
        clus
vv       SENP8 MUTATED SENP8 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SENP8 MUTATED        0      4      0      0      0
  SENP8 WILD-TYPE     51     72     61     71     95
D1378V9, multiclass
        clus
vv       SENP8 MUTATED SENP8 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SENP8 MUTATED        1      1      0      1      1      0      0      0
  SENP8 WILD-TYPE     68     47     39     15     52     20     21     38
                 vv
clus              CLUS_9
  SENP8 MUTATED        0
  SENP8 WILD-TYPE     50
D1378V10, multiclass
        clus
vv       SENP8 MUTATED SENP8 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SENP8 MUTATED        0      0      1      0      1      0
  SENP8 WILD-TYPE     13     16     13     11     10      9
D1378V11, multiclass
[1] "Remove cluster labels:" "SENP8 MUTATED"         
clus
  SENP8 MUTATED SENP8 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6676 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SENP8 MUTATED        0      0      0      0      0      2      0      0
  SENP8 WILD-TYPE     11      7      7      9      8      5     11      9
                 vv
clus              CLUS_9
  SENP8 MUTATED        0
  SENP8 WILD-TYPE      5
D1378V12, multiclass
[1] "Remove cluster labels:" "SENP8 MUTATED"         
clus
  SENP8 MUTATED SENP8 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6676 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" "SENP8 WILD-TYPE" 

Clustering(1379) Variable = DPP8 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPP8 MUTATED        4      0      0      2      0
  DPP8 WILD-TYPE     28     18     46     25     23
D1379V1, multiclass
        clus
vv       DPP8 MUTATED DPP8 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DPP8 MUTATED        4      1      1
  DPP8 WILD-TYPE     39     66     35
D1379V2, multiclass
        clus
vv       DPP8 MUTATED DPP8 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DPP8 MUTATED        1      2     10
  DPP8 WILD-TYPE     41    171    137
D1379V3, multiclass
        clus
vv       DPP8 MUTATED DPP8 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DPP8 MUTATED        3      0      2
  DPP8 WILD-TYPE     59     73     73
D1379V4, multiclass
        clus
vv       DPP8 MUTATED DPP8 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DPP8 MUTATED        2      6      2
  DPP8 WILD-TYPE     68    114     98
D1379V5, multiclass
        clus
vv       DPP8 MUTATED DPP8 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            114
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DPP8 MUTATED        1      2      2      1      2      0      2      0      0
  DPP8 WILD-TYPE     40     24     28     28     37     69     18     14     22
D1379V6, multiclass
        clus
vv       DPP8 MUTATED DPP8 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            0             69
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DPP8 MUTATED        1      2      2      8
  DPP8 WILD-TYPE     99     70     70    113
D1379V7, multiclass
        clus
vv       DPP8 MUTATED DPP8 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPP8 MUTATED        0      0      4      5      4
  DPP8 WILD-TYPE     59     75     70    114     34
D1379V8, multiclass
        clus
vv       DPP8 MUTATED DPP8 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            4             70
  CLUS_4            5            114
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPP8 MUTATED        0      4      0      3      6
  DPP8 WILD-TYPE     51     72     61     68     89
D1379V9, multiclass
        clus
vv       DPP8 MUTATED DPP8 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            3             68
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DPP8 MUTATED        0      2      1      1      1      2      1      3      2
  DPP8 WILD-TYPE     69     46     38     15     52     18     20     35     48
D1379V10, multiclass
        clus
vv       DPP8 MUTATED DPP8 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DPP8 MUTATED        0      1      0      0      1      0
  DPP8 WILD-TYPE     13     15     14     11     10      9
D1379V11, multiclass
[1] "Remove cluster labels:" "DPP8 MUTATED"          
clus
  DPP8 MUTATED DPP8 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DPP8 MUTATED        0      0      0      1      0      0      1      0      0
  DPP8 WILD-TYPE     11      7      7      8      8      7     10      9      5
D1379V12, multiclass
[1] "Remove cluster labels:" "DPP8 MUTATED"          
clus
  DPP8 MUTATED DPP8 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" "DPP8 WILD-TYPE" 

Clustering(1380) Variable = SLC22A10 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A10 MUTATED        2      1      0      1      0
  SLC22A10 WILD-TYPE     30     17     46     26     23
D1380V1, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                1                 17
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC22A10 MUTATED        2      1      1
  SLC22A10 WILD-TYPE     41     66     35
D1380V2, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC22A10 MUTATED        4      0     11
  SLC22A10 WILD-TYPE     38    173    136
D1380V3, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                4                 38
  CLUS_2                0                173
  CLUS_3               11                136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC22A10 MUTATED        5      2      4
  SLC22A10 WILD-TYPE     57     71     71
D1380V4, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                5                 57
  CLUS_2                2                 71
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC22A10 MUTATED        3      3      7
  SLC22A10 WILD-TYPE     67    117     93
D1380V5, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                3                117
  CLUS_3                7                 93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A10 MUTATED        2      1      1      0      1      5      1      1
  SLC22A10 WILD-TYPE     39     25     29     29     38     64     19     13
                    vv
clus                 CLUS_9
  SLC22A10 MUTATED        1
  SLC22A10 WILD-TYPE     21
D1380V6, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                5                 64
  CLUS_7                1                 19
  CLUS_8                1                 13
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC22A10 MUTATED        1      4      6      4
  SLC22A10 WILD-TYPE     99     68     66    117
D1380V7, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                4                 68
  CLUS_3                6                 66
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A10 MUTATED        3      1      7      2      2
  SLC22A10 WILD-TYPE     56     74     67    117     36
D1380V8, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                1                 74
  CLUS_3                7                 67
  CLUS_4                2                117
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC22A10 MUTATED        1      6      3      1      4
  SLC22A10 WILD-TYPE     50     70     58     70     91
D1380V9, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                6                 70
  CLUS_3                3                 58
  CLUS_4                1                 70
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A10 MUTATED        2      4      1      2      2      1      1      2
  SLC22A10 WILD-TYPE     67     44     38     14     51     19     20     36
                    vv
clus                 CLUS_9
  SLC22A10 MUTATED        0
  SLC22A10 WILD-TYPE     50
D1380V10, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                4                 44
  CLUS_3                1                 38
  CLUS_4                2                 14
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC22A10 MUTATED        0      1      0      0      2      0
  SLC22A10 WILD-TYPE     13     15     14     11      9      9
D1380V11, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC22A10 MUTATED        1      0      0      2      0      0      0      0
  SLC22A10 WILD-TYPE     10      7      7      7      8      7     11      9
                    vv
clus                 CLUS_9
  SLC22A10 MUTATED        0
  SLC22A10 WILD-TYPE      5
D1380V12, multiclass
        clus
vv       SLC22A10 MUTATED SLC22A10 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                2                  7
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                0                 11
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1381) Variable = FANCD2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FANCD2 MUTATED        5      0      1      1      0
  FANCD2 WILD-TYPE     27     18     45     26     23
D1381V1, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FANCD2 MUTATED        5      1      1
  FANCD2 WILD-TYPE     38     66     35
D1381V2, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FANCD2 MUTATED        1      2     12
  FANCD2 WILD-TYPE     41    171    135
D1381V3, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FANCD2 MUTATED        2      1      5
  FANCD2 WILD-TYPE     60     72     70
D1381V4, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FANCD2 MUTATED        1      4      6
  FANCD2 WILD-TYPE     69    116     94
D1381V5, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FANCD2 MUTATED        2      0      1      3      3      2      0      0
  FANCD2 WILD-TYPE     39     26     29     26     36     67     20     14
                  vv
clus               CLUS_9
  FANCD2 MUTATED        0
  FANCD2 WILD-TYPE     22
D1381V6, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              3               36
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FANCD2 MUTATED        2      5      2      6
  FANCD2 WILD-TYPE     98     67     70    115
D1381V7, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              5               67
  CLUS_3              2               70
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FANCD2 MUTATED        0      1      7      2      5
  FANCD2 WILD-TYPE     59     74     67    117     33
D1381V8, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              7               67
  CLUS_4              2              117
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FANCD2 MUTATED        1      5      1      3      4
  FANCD2 WILD-TYPE     50     71     60     68     91
D1381V9, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FANCD2 MUTATED        3      0      0      3      4      0      0      3
  FANCD2 WILD-TYPE     66     48     39     13     49     20     21     35
                  vv
clus               CLUS_9
  FANCD2 MUTATED        1
  FANCD2 WILD-TYPE     49
D1381V10, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              4               49
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FANCD2 MUTATED        0      1      2      0      0      0
  FANCD2 WILD-TYPE     13     15     12     11     11      9
D1381V11, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FANCD2 MUTATED        1      0      0      0      2      0      0      0
  FANCD2 WILD-TYPE     10      7      7      9      6      7     11      9
                  vv
clus               CLUS_9
  FANCD2 MUTATED        0
  FANCD2 WILD-TYPE      5
D1381V12, multiclass
        clus
vv       FANCD2 MUTATED FANCD2 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1382) Variable = CDS2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDS2 MUTATED        3      0      0      1      0
  CDS2 WILD-TYPE     29     18     46     26     23
D1382V1, multiclass
        clus
vv       CDS2 MUTATED CDS2 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDS2 MUTATED        3      1      0
  CDS2 WILD-TYPE     40     66     36
D1382V2, multiclass
        clus
vv       CDS2 MUTATED CDS2 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDS2 MUTATED        0      1      8
  CDS2 WILD-TYPE     42    172    139
D1382V3, multiclass
        clus
vv       CDS2 MUTATED CDS2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDS2 MUTATED        1      1      3
  CDS2 WILD-TYPE     61     72     72
D1382V4, multiclass
        clus
vv       CDS2 MUTATED CDS2 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDS2 MUTATED        1      5      3
  CDS2 WILD-TYPE     69    115     97
D1382V5, multiclass
        clus
vv       CDS2 MUTATED CDS2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDS2 MUTATED        1      0      1      2      2      1      1      0      1
  CDS2 WILD-TYPE     40     26     29     27     37     68     19     14     21
D1382V6, multiclass
        clus
vv       CDS2 MUTATED CDS2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDS2 MUTATED        1      4      1      3
  CDS2 WILD-TYPE     99     68     71    118
D1382V7, multiclass
        clus
vv       CDS2 MUTATED CDS2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDS2 MUTATED        1      0      4      1      3
  CDS2 WILD-TYPE     58     75     70    118     35
D1382V8, multiclass
        clus
vv       CDS2 MUTATED CDS2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDS2 MUTATED        0      3      1      0      5
  CDS2 WILD-TYPE     51     73     60     71     90
D1382V9, multiclass
        clus
vv       CDS2 MUTATED CDS2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDS2 MUTATED        1      2      0      1      0      1      0      4      0
  CDS2 WILD-TYPE     68     46     39     15     53     19     21     34     50
D1382V10, multiclass
        clus
vv       CDS2 MUTATED CDS2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            4             34
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDS2 MUTATED        0      0      1      0      0      0
  CDS2 WILD-TYPE     13     16     13     11     11      9
D1382V11, multiclass
[1] "Remove cluster labels:" "CDS2 MUTATED"          
clus
  CDS2 MUTATED CDS2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-G4-6625 
"CDS2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDS2 MUTATED        0      0      0      0      0      0      1      0      0
  CDS2 WILD-TYPE     11      7      7      9      8      7     10      9      5
D1382V12, multiclass
[1] "Remove cluster labels:" "CDS2 MUTATED"          
clus
  CDS2 MUTATED CDS2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309 
"CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" "CDS2 WILD-TYPE" 
    TCGA-G4-6625 
"CDS2 WILD-TYPE" 

Clustering(1383) Variable = CCDC66 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC66 MUTATED        1      0      0      0      0
  CCDC66 WILD-TYPE     31     18     46     27     23
D1383V1, multiclass
[1] "Remove cluster labels:" "CCDC66 MUTATED"        
clus
  CCDC66 MUTATED CCDC66 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AY-4071 
"CCDC66 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC66 MUTATED        1      0      0
  CCDC66 WILD-TYPE     42     67     36
D1383V2, multiclass
[1] "Remove cluster labels:" "CCDC66 MUTATED"        
clus
  CCDC66 MUTATED CCDC66 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" "CCDC66 WILD-TYPE" 
      TCGA-AY-4071 
"CCDC66 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC66 MUTATED        0      0      8
  CCDC66 WILD-TYPE     42    173    139
D1383V3, multiclass
        clus
vv       CCDC66 MUTATED CCDC66 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC66 MUTATED        3      0      4
  CCDC66 WILD-TYPE     59     73     71
D1383V4, multiclass
        clus
vv       CCDC66 MUTATED CCDC66 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC66 MUTATED        2      1      3
  CCDC66 WILD-TYPE     68    119     97
D1383V5, multiclass
        clus
vv       CCDC66 MUTATED CCDC66 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC66 MUTATED        1      0      0      1      0      2      2      0
  CCDC66 WILD-TYPE     40     26     30     28     39     67     18     14
                  vv
clus               CLUS_9
  CCDC66 MUTATED        0
  CCDC66 WILD-TYPE     22
D1383V6, multiclass
        clus
vv       CCDC66 MUTATED CCDC66 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC66 MUTATED        1      3      4      1
  CCDC66 WILD-TYPE     99     69     68    120
D1383V7, multiclass
        clus
vv       CCDC66 MUTATED CCDC66 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              4               68
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC66 MUTATED        1      1      6      0      1
  CCDC66 WILD-TYPE     58     74     68    119     37
D1383V8, multiclass
        clus
vv       CCDC66 MUTATED CCDC66 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              6               68
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC66 MUTATED        0      5      2      0      2
  CCDC66 WILD-TYPE     51     71     59     71     93
D1383V9, multiclass
        clus
vv       CCDC66 MUTATED CCDC66 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC66 MUTATED        1      2      0      3      2      0      1      0
  CCDC66 WILD-TYPE     68     46     39     13     51     20     20     38
                  vv
clus               CLUS_9
  CCDC66 MUTATED        0
  CCDC66 WILD-TYPE     50
D1383V10, multiclass
        clus
vv       CCDC66 MUTATED CCDC66 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC66 MUTATED        0      0      1      0      2      0
  CCDC66 WILD-TYPE     13     16     13     11      9      9
D1383V11, multiclass
        clus
vv       CCDC66 MUTATED CCDC66 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC66 MUTATED        0      0      0      0      2      0      1      0
  CCDC66 WILD-TYPE     11      7      7      9      6      7     10      9
                  vv
clus               CLUS_9
  CCDC66 MUTATED        0
  CCDC66 WILD-TYPE      5
D1383V12, multiclass
        clus
vv       CCDC66 MUTATED CCDC66 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1384) Variable = TTC13 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTC13 MUTATED        2      0      0      1      0
  TTC13 WILD-TYPE     30     18     46     26     23
D1384V1, multiclass
        clus
vv       TTC13 MUTATED TTC13 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TTC13 MUTATED        3      0      0
  TTC13 WILD-TYPE     40     67     36
D1384V2, multiclass
        clus
vv       TTC13 MUTATED TTC13 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TTC13 MUTATED        2      0      7
  TTC13 WILD-TYPE     40    173    140
D1384V3, multiclass
        clus
vv       TTC13 MUTATED TTC13 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TTC13 MUTATED        2      0      3
  TTC13 WILD-TYPE     60     73     72
D1384V4, multiclass
        clus
vv       TTC13 MUTATED TTC13 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TTC13 MUTATED        0      5      3
  TTC13 WILD-TYPE     70    115     97
D1384V5, multiclass
        clus
vv       TTC13 MUTATED TTC13 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TTC13 MUTATED        0      0      1      0      2      3      1      0
  TTC13 WILD-TYPE     41     26     29     29     37     66     19     14
                 vv
clus              CLUS_9
  TTC13 MUTATED        1
  TTC13 WILD-TYPE     21
D1384V6, multiclass
        clus
vv       TTC13 MUTATED TTC13 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TTC13 MUTATED        0      4      1      4
  TTC13 WILD-TYPE    100     68     71    117
D1384V7, multiclass
        clus
vv       TTC13 MUTATED TTC13 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTC13 MUTATED        0      0      5      0      4
  TTC13 WILD-TYPE     59     75     69    119     34
D1384V8, multiclass
        clus
vv       TTC13 MUTATED TTC13 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTC13 MUTATED        1      3      0      1      3
  TTC13 WILD-TYPE     50     73     61     70     92
D1384V9, multiclass
        clus
vv       TTC13 MUTATED TTC13 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TTC13 MUTATED        2      0      0      1      2      0      0      3
  TTC13 WILD-TYPE     67     48     39     15     51     20     21     35
                 vv
clus              CLUS_9
  TTC13 MUTATED        0
  TTC13 WILD-TYPE     50
D1384V10, multiclass
        clus
vv       TTC13 MUTATED TTC13 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TTC13 MUTATED        0      0      1      0      0      0
  TTC13 WILD-TYPE     13     16     13     11     11      9
D1384V11, multiclass
[1] "Remove cluster labels:" "TTC13 MUTATED"         
clus
  TTC13 MUTATED TTC13 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-G4-6625 
"TTC13 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TTC13 MUTATED        0      0      0      0      0      0      1      0
  TTC13 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  TTC13 MUTATED        0
  TTC13 WILD-TYPE      5
D1384V12, multiclass
[1] "Remove cluster labels:" "TTC13 MUTATED"         
clus
  TTC13 MUTATED TTC13 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309 
"TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" "TTC13 WILD-TYPE" 
     TCGA-G4-6625 
"TTC13 WILD-TYPE" 

Clustering(1385) Variable = GLT8D1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLT8D1 MUTATED        1      0      0      1      0
  GLT8D1 WILD-TYPE     31     18     46     26     23
D1385V1, multiclass
[1] "Remove cluster labels:" "GLT8D1 MUTATED"        
clus
  GLT8D1 MUTATED GLT8D1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GLT8D1 MUTATED        0      1      1
  GLT8D1 WILD-TYPE     43     66     35
D1385V2, multiclass
[1] "Remove cluster labels:" "GLT8D1 MUTATED"        
clus
  GLT8D1 MUTATED GLT8D1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GLT8D1 MUTATED        0      0      8
  GLT8D1 WILD-TYPE     42    173    139
D1385V3, multiclass
        clus
vv       GLT8D1 MUTATED GLT8D1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GLT8D1 MUTATED        2      0      4
  GLT8D1 WILD-TYPE     60     73     71
D1385V4, multiclass
        clus
vv       GLT8D1 MUTATED GLT8D1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GLT8D1 MUTATED        1      1      3
  GLT8D1 WILD-TYPE     69    119     97
D1385V5, multiclass
        clus
vv       GLT8D1 MUTATED GLT8D1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GLT8D1 MUTATED        1      0      1      0      0      3      0      0
  GLT8D1 WILD-TYPE     40     26     29     29     39     66     20     14
                  vv
clus               CLUS_9
  GLT8D1 MUTATED        0
  GLT8D1 WILD-TYPE     22
D1385V6, multiclass
        clus
vv       GLT8D1 MUTATED GLT8D1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GLT8D1 MUTATED        0      3      3      2
  GLT8D1 WILD-TYPE    100     69     69    119
D1385V7, multiclass
        clus
vv       GLT8D1 MUTATED GLT8D1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLT8D1 MUTATED        0      2      4      2      0
  GLT8D1 WILD-TYPE     59     73     70    117     38
D1385V8, multiclass
        clus
vv       GLT8D1 MUTATED GLT8D1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLT8D1 MUTATED        0      3      2      1      2
  GLT8D1 WILD-TYPE     51     73     59     70     93
D1385V9, multiclass
        clus
vv       GLT8D1 MUTATED GLT8D1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GLT8D1 MUTATED        0      3      0      1      2      1      0      0
  GLT8D1 WILD-TYPE     69     45     39     15     51     19     21     38
                  vv
clus               CLUS_9
  GLT8D1 MUTATED        1
  GLT8D1 WILD-TYPE     49
D1385V10, multiclass
        clus
vv       GLT8D1 MUTATED GLT8D1 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GLT8D1 MUTATED        0      1      0      0      0      0
  GLT8D1 WILD-TYPE     13     15     14     11     11      9
D1385V11, multiclass
[1] "Remove cluster labels:" "GLT8D1 MUTATED"        
clus
  GLT8D1 MUTATED GLT8D1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-G4-6628 
"GLT8D1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GLT8D1 MUTATED        0      0      0      0      0      0      1      0
  GLT8D1 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  GLT8D1 MUTATED        0
  GLT8D1 WILD-TYPE      5
D1385V12, multiclass
[1] "Remove cluster labels:" "GLT8D1 MUTATED"        
clus
  GLT8D1 MUTATED GLT8D1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" "GLT8D1 WILD-TYPE" 
      TCGA-G4-6628 
"GLT8D1 WILD-TYPE" 

Clustering(1386) Variable = UBC MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBC MUTATED        0      0      0      0      0
  UBC WILD-TYPE     32     18     46     27     23
D1386V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  UBC MUTATED        0      0      0
  UBC WILD-TYPE     43     67     36
D1386V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  UBC MUTATED        0      3      1
  UBC WILD-TYPE     42    170    146
D1386V3, multiclass
        clus
vv       UBC MUTATED UBC WILD-TYPE
  CLUS_1           0            42
  CLUS_2           3           170
  CLUS_3           1           146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  UBC MUTATED        2      2      0
  UBC WILD-TYPE     60     71     75
D1386V4, multiclass
        clus
vv       UBC MUTATED UBC WILD-TYPE
  CLUS_1           2            60
  CLUS_2           2            71
  CLUS_3           0            75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  UBC MUTATED        0      2      2
  UBC WILD-TYPE     70    118     98
D1386V5, multiclass
        clus
vv       UBC MUTATED UBC WILD-TYPE
  CLUS_1           0            70
  CLUS_2           2           118
  CLUS_3           2            98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBC MUTATED        0      0      0      1      0      0      2      0      1
  UBC WILD-TYPE     41     26     30     28     39     69     18     14     21
D1386V6, multiclass
        clus
vv       UBC MUTATED UBC WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           1            28
  CLUS_5           0            39
  CLUS_6           0            69
  CLUS_7           2            18
  CLUS_8           0            14
  CLUS_9           1            21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UBC MUTATED        2      0      2      0
  UBC WILD-TYPE     98     72     70    121
D1386V7, multiclass
        clus
vv       UBC MUTATED UBC WILD-TYPE
  CLUS_1           2            98
  CLUS_2           0            72
  CLUS_3           2            70
  CLUS_4           0           121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBC MUTATED        1      2      1      0      0
  UBC WILD-TYPE     58     73     73    119     38
D1386V8, multiclass
        clus
vv       UBC MUTATED UBC WILD-TYPE
  CLUS_1           1            58
  CLUS_2           2            73
  CLUS_3           1            73
  CLUS_4           0           119
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBC MUTATED        0      3      1      0      0
  UBC WILD-TYPE     51     73     60     71     95
D1386V9, multiclass
        clus
vv       UBC MUTATED UBC WILD-TYPE
  CLUS_1           0            51
  CLUS_2           3            73
  CLUS_3           1            60
  CLUS_4           0            71
  CLUS_5           0            95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBC MUTATED        1      2      1      0      0      0      0      0      0
  UBC WILD-TYPE     68     46     38     16     53     20     21     38     50
D1386V10, multiclass
        clus
vv       UBC MUTATED UBC WILD-TYPE
  CLUS_1           1            68
  CLUS_2           2            46
  CLUS_3           1            38
  CLUS_4           0            16
  CLUS_5           0            53
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UBC MUTATED        0      0      0      0      0      0
  UBC WILD-TYPE     13     16     14     11     11      9
D1386V11, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBC MUTATED        0      0      0      0      0      0      0      0      0
  UBC WILD-TYPE     11      7      7      9      8      7     11      9      5
D1386V12, multiclass

Clustering(1387) Variable = ZNF594 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF594 MUTATED        3      0      0      0      0
  ZNF594 WILD-TYPE     29     18     46     27     23
D1387V1, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF594 MUTATED        2      0      1
  ZNF594 WILD-TYPE     41     67     35
D1387V2, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF594 MUTATED        1      3     10
  ZNF594 WILD-TYPE     41    170    137
D1387V3, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF594 MUTATED        7      1      3
  ZNF594 WILD-TYPE     55     72     72
D1387V4, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF594 MUTATED        2      1      8
  ZNF594 WILD-TYPE     68    119     92
D1387V5, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1              119
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF594 MUTATED        2      0      0      0      0      5      1      2
  ZNF594 WILD-TYPE     39     26     30     29     39     64     19     12
                  vv
clus               CLUS_9
  ZNF594 MUTATED        1
  ZNF594 WILD-TYPE     21
D1387V6, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF594 MUTATED        1      4      5      4
  ZNF594 WILD-TYPE     99     68     67    117
D1387V7, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              5               67
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF594 MUTATED        3      2      5      2      2
  ZNF594 WILD-TYPE     56     73     69    117     36
D1387V8, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF594 MUTATED        1      4      4      2      3
  ZNF594 WILD-TYPE     50     72     57     69     92
D1387V9, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              4               57
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF594 MUTATED        2      4      0      3      2      0      0      2
  ZNF594 WILD-TYPE     67     44     39     13     51     20     21     36
                  vv
clus               CLUS_9
  ZNF594 MUTATED        1
  ZNF594 WILD-TYPE     49
D1387V10, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF594 MUTATED        0      1      2      0      3      0
  ZNF594 WILD-TYPE     13     15     12     11      8      9
D1387V11, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF594 MUTATED        2      0      0      1      2      0      1      0
  ZNF594 WILD-TYPE      9      7      7      8      6      7     10      9
                  vv
clus               CLUS_9
  ZNF594 MUTATED        0
  ZNF594 WILD-TYPE      5
D1387V12, multiclass
        clus
vv       ZNF594 MUTATED ZNF594 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1388) Variable = BTF3L4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTF3L4 MUTATED        0      0      0      0      0
  BTF3L4 WILD-TYPE     32     18     46     27     23
D1388V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BTF3L4 MUTATED        0      0      0
  BTF3L4 WILD-TYPE     43     67     36
D1388V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BTF3L4 MUTATED        1      1      3
  BTF3L4 WILD-TYPE     41    172    144
D1388V3, multiclass
        clus
vv       BTF3L4 MUTATED BTF3L4 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BTF3L4 MUTATED        3      1      1
  BTF3L4 WILD-TYPE     59     72     74
D1388V4, multiclass
        clus
vv       BTF3L4 MUTATED BTF3L4 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BTF3L4 MUTATED        0      1      3
  BTF3L4 WILD-TYPE     70    119     97
D1388V5, multiclass
        clus
vv       BTF3L4 MUTATED BTF3L4 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTF3L4 MUTATED        0      0      1      0      0      3      0      0
  BTF3L4 WILD-TYPE     41     26     29     29     39     66     20     14
                  vv
clus               CLUS_9
  BTF3L4 MUTATED        0
  BTF3L4 WILD-TYPE     22
D1388V6, multiclass
        clus
vv       BTF3L4 MUTATED BTF3L4 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BTF3L4 MUTATED        1      2      2      0
  BTF3L4 WILD-TYPE     99     70     70    121
D1388V7, multiclass
        clus
vv       BTF3L4 MUTATED BTF3L4 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTF3L4 MUTATED        0      1      4      0      0
  BTF3L4 WILD-TYPE     59     74     70    119     38
D1388V8, multiclass
        clus
vv       BTF3L4 MUTATED BTF3L4 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTF3L4 MUTATED        0      3      1      1      0
  BTF3L4 WILD-TYPE     51     73     60     70     95
D1388V9, multiclass
        clus
vv       BTF3L4 MUTATED BTF3L4 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTF3L4 MUTATED        2      1      0      1      1      0      0      0
  BTF3L4 WILD-TYPE     67     47     39     15     52     20     21     38
                  vv
clus               CLUS_9
  BTF3L4 MUTATED        0
  BTF3L4 WILD-TYPE     50
D1388V10, multiclass
        clus
vv       BTF3L4 MUTATED BTF3L4 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BTF3L4 MUTATED        0      0      1      0      1      0
  BTF3L4 WILD-TYPE     13     16     13     11     10      9
D1388V11, multiclass
[1] "Remove cluster labels:" "BTF3L4 MUTATED"        
clus
  BTF3L4 MUTATED BTF3L4 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AY-6196 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-6748 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTF3L4 MUTATED        0      0      0      0      1      0      1      0
  BTF3L4 WILD-TYPE     11      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  BTF3L4 MUTATED        0
  BTF3L4 WILD-TYPE      5
D1388V12, multiclass
[1] "Remove cluster labels:" "BTF3L4 MUTATED"        
clus
  BTF3L4 MUTATED BTF3L4 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6965       TCGA-AY-6196 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-6748 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" "BTF3L4 WILD-TYPE" 

Clustering(1389) Variable = C14ORF105 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF105 MUTATED        1      0      0      1      0
  C14ORF105 WILD-TYPE     31     18     46     26     23
D1389V1, multiclass
[1] "Remove cluster labels:" "C14ORF105 MUTATED"     
clus
  C14ORF105 MUTATED C14ORF105 WILD-TYPE 
                  2                 144 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3979 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3980          TCGA-AA-3982          TCGA-AA-3984 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3986          TCGA-AA-3989          TCGA-AA-3994 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00D 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00E          TCGA-AA-A00F          TCGA-AA-A00J 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00K          TCGA-AA-A00L          TCGA-AA-A00N 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00O          TCGA-AA-A00Q          TCGA-AA-A00R 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00U          TCGA-AA-A00W          TCGA-AA-A00Z 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A017          TCGA-AA-A01D          TCGA-AA-A01F 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01G          TCGA-AA-A01I          TCGA-AA-A01K 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01Q          TCGA-AA-A024          TCGA-AA-A029 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A02F          TCGA-AA-A02H          TCGA-AA-A02J 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AY-4070          TCGA-AY-4071 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF105 MUTATED        1      1      0
  C14ORF105 WILD-TYPE     42     66     36
D1389V2, multiclass
[1] "Remove cluster labels:" "C14ORF105 MUTATED"     
clus
  C14ORF105 MUTATED C14ORF105 WILD-TYPE 
                  2                 144 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3979 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3980          TCGA-AA-3982          TCGA-AA-3984 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3986          TCGA-AA-3989          TCGA-AA-3994 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00D 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00E          TCGA-AA-A00F          TCGA-AA-A00J 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00K          TCGA-AA-A00L          TCGA-AA-A00N 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00O          TCGA-AA-A00Q          TCGA-AA-A00R 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00U          TCGA-AA-A00W          TCGA-AA-A00Z 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A017          TCGA-AA-A01D          TCGA-AA-A01F 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01G          TCGA-AA-A01I          TCGA-AA-A01K 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01Q          TCGA-AA-A024          TCGA-AA-A029 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A02F          TCGA-AA-A02H          TCGA-AA-A02J 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AY-4070          TCGA-AY-4071 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF105 MUTATED        0      0      3
  C14ORF105 WILD-TYPE     42    173    144
D1389V3, multiclass
        clus
vv       C14ORF105 MUTATED C14ORF105 WILD-TYPE
  CLUS_1                 0                  42
  CLUS_2                 0                 173
  CLUS_3                 3                 144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF105 MUTATED        1      0      0
  C14ORF105 WILD-TYPE     61     73     75
D1389V4, multiclass
[1] "Remove cluster labels:" "C14ORF105 MUTATED"     
clus
  C14ORF105 MUTATED C14ORF105 WILD-TYPE 
                  1                 209 
         TCGA-A6-2671          TCGA-A6-2677          TCGA-A6-3809 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-3810          TCGA-A6-4105          TCGA-A6-5656 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-5657          TCGA-A6-5659          TCGA-A6-5660 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-5661          TCGA-A6-5662          TCGA-A6-5664 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-5665          TCGA-A6-5666          TCGA-A6-6137 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6138          TCGA-A6-6141          TCGA-A6-6142 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6648          TCGA-A6-6649          TCGA-A6-6651 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6652          TCGA-A6-6653          TCGA-A6-6654 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6780          TCGA-A6-6781          TCGA-A6-6782 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3489          TCGA-AA-3492          TCGA-AA-3496 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3502          TCGA-AA-3510          TCGA-AA-3511 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3655          TCGA-AA-3660          TCGA-AA-3662 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3663          TCGA-AA-3697          TCGA-AA-3712 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3713          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AD-6888          TCGA-AD-6889          TCGA-AD-6890 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AD-6895          TCGA-AD-6899          TCGA-AD-6901 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AD-6963          TCGA-AD-6964          TCGA-AD-6965 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AU-3779          TCGA-AU-6004          TCGA-AY-5543 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AY-6196          TCGA-AY-6197          TCGA-AY-6386 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-4315          TCGA-AZ-4323          TCGA-AZ-4616 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-4681          TCGA-AZ-4682          TCGA-AZ-5403 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-5407          TCGA-AZ-6598          TCGA-AZ-6599 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-6600          TCGA-AZ-6601          TCGA-AZ-6603 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-6605          TCGA-AZ-6606          TCGA-AZ-6607 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-6608          TCGA-CA-5254          TCGA-CA-5255 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CA-5796          TCGA-CA-5797          TCGA-CA-6715 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CA-6716          TCGA-CA-6717          TCGA-CA-6718 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CA-6719          TCGA-CK-4947          TCGA-CK-4948 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CK-4950          TCGA-CK-4952          TCGA-CK-5912 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CK-5913          TCGA-CK-5914          TCGA-CK-5915 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CK-5916          TCGA-CK-6746          TCGA-CK-6747 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CK-6748          TCGA-CK-6751          TCGA-CM-4743 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-4744          TCGA-CM-4746          TCGA-CM-4747 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-4752          TCGA-CM-5341          TCGA-CM-5344 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-5348          TCGA-CM-5349          TCGA-CM-5860 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-5861          TCGA-CM-5862          TCGA-CM-5863 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-5864          TCGA-CM-5868          TCGA-CM-6161 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6162          TCGA-CM-6163          TCGA-CM-6164 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6165          TCGA-CM-6166          TCGA-CM-6167 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6168          TCGA-CM-6169          TCGA-CM-6170 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6171          TCGA-CM-6172          TCGA-CM-6674 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6675          TCGA-CM-6676          TCGA-CM-6677 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6678          TCGA-CM-6679          TCGA-CM-6680 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-5537          TCGA-D5-5538          TCGA-D5-5539 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-5540          TCGA-D5-5541          TCGA-D5-6529 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6532          TCGA-D5-6533          TCGA-D5-6534 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6535          TCGA-D5-6536          TCGA-D5-6537 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6538          TCGA-D5-6539          TCGA-D5-6540 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6541          TCGA-D5-6898          TCGA-D5-6920 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6922          TCGA-D5-6923          TCGA-D5-6924 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6926          TCGA-D5-6927          TCGA-D5-6929 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6930          TCGA-D5-6931          TCGA-D5-6932 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-7000          TCGA-DM-A0X9          TCGA-DM-A0XD 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A0XF          TCGA-DM-A1D0          TCGA-DM-A1D4 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A1D6          TCGA-DM-A1D7          TCGA-DM-A1D8 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A1D9          TCGA-DM-A1DA          TCGA-DM-A1DB 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A1HA          TCGA-DM-A1HB          TCGA-DM-A282 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A285          TCGA-DM-A28C          TCGA-DM-A28E 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A28F          TCGA-DM-A28G          TCGA-DM-A28H 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A28K          TCGA-F4-6459          TCGA-F4-6460 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6569          TCGA-F4-6570          TCGA-F4-6703 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6704          TCGA-F4-6805          TCGA-F4-6806 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6807          TCGA-F4-6808          TCGA-F4-6809 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6854          TCGA-F4-6855          TCGA-F4-6856 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6293          TCGA-G4-6299          TCGA-G4-6303 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6304          TCGA-G4-6306          TCGA-G4-6307 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6309          TCGA-G4-6310          TCGA-G4-6315 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6317          TCGA-G4-6321          TCGA-G4-6323 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6586          TCGA-G4-6588          TCGA-G4-6625 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6626          TCGA-G4-6628 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF105 MUTATED        0      1      1
  C14ORF105 WILD-TYPE     70    119     99
D1389V5, multiclass
[1] "Remove cluster labels:" "C14ORF105 MUTATED"     
clus
  C14ORF105 MUTATED C14ORF105 WILD-TYPE 
                  2                 288 
         TCGA-A6-2671          TCGA-A6-2672          TCGA-A6-2676 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-3810          TCGA-A6-5656          TCGA-A6-5657 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-5659          TCGA-A6-5660          TCGA-A6-5661 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-5662          TCGA-A6-5664          TCGA-A6-5665 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-5666          TCGA-A6-6137          TCGA-A6-6138 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6648 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6649          TCGA-A6-6651          TCGA-A6-6652 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6653          TCGA-A6-6654          TCGA-A6-6780 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3492          TCGA-AA-3496          TCGA-AA-3502 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3510          TCGA-AA-3511          TCGA-AA-3514 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3519          TCGA-AA-3520 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3521          TCGA-AA-3522          TCGA-AA-3525 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3529          TCGA-AA-3530          TCGA-AA-3531 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3532          TCGA-AA-3534          TCGA-AA-3548 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3558          TCGA-AA-3560 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3561          TCGA-AA-3562          TCGA-AA-3655 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3672          TCGA-AA-3678 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3681          TCGA-AA-3688          TCGA-AA-3695 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3696          TCGA-AA-3697          TCGA-AA-3710 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3712          TCGA-AA-3713          TCGA-AA-3715 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3811          TCGA-AA-3812          TCGA-AA-3814 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3815          TCGA-AA-3818          TCGA-AA-3819 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3844          TCGA-AA-3845          TCGA-AA-3848 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3850          TCGA-AA-3852          TCGA-AA-3854 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3856          TCGA-AA-3861          TCGA-AA-3864 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3869          TCGA-AA-3872 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3930          TCGA-AA-3947          TCGA-AA-3950 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3955          TCGA-AA-3968          TCGA-AA-3971 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3972          TCGA-AA-3973          TCGA-AA-3975 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3982          TCGA-AA-3986          TCGA-AA-3989 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00E 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00F          TCGA-AA-A00J          TCGA-AA-A00K 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00L          TCGA-AA-A00N          TCGA-AA-A00Q 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00R          TCGA-AA-A00U          TCGA-AA-A00W 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00Z          TCGA-AA-A017          TCGA-AA-A01D 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01F          TCGA-AA-A01I          TCGA-AA-A01K 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01P          TCGA-AA-A01Q          TCGA-AA-A01R 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01S          TCGA-AA-A01T          TCGA-AA-A01V 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01X          TCGA-AA-A022          TCGA-AA-A024 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A029          TCGA-AA-A02F          TCGA-AA-A02H 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A02J          TCGA-AA-A02K          TCGA-AA-A02O 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AA-A02Y          TCGA-AA-A03F 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A03J          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6899          TCGA-AD-6965 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AU-6004          TCGA-AY-5543          TCGA-AY-6196 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AY-6197          TCGA-AY-6386          TCGA-AZ-4315 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-4682 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-5407          TCGA-AZ-6598          TCGA-AZ-6599 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-6600          TCGA-AZ-6601          TCGA-AZ-6603 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-6605          TCGA-AZ-6606          TCGA-AZ-6607 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-6608          TCGA-CA-5254          TCGA-CA-5255 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CA-5796          TCGA-CA-5797          TCGA-CA-6715 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CA-6716          TCGA-CA-6717          TCGA-CA-6718 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CA-6719          TCGA-CK-5914          TCGA-CK-5916 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CK-6746          TCGA-CK-6747          TCGA-CK-6748 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CK-6751          TCGA-CM-4743          TCGA-CM-4744 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-4746          TCGA-CM-4747          TCGA-CM-4752 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-5341          TCGA-CM-5344          TCGA-CM-5348 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-5349          TCGA-CM-5860          TCGA-CM-5861 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-5862          TCGA-CM-5863          TCGA-CM-5864 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-5868          TCGA-CM-6161          TCGA-CM-6162 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6163          TCGA-CM-6164          TCGA-CM-6165 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6166          TCGA-CM-6167          TCGA-CM-6168 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6169          TCGA-CM-6170          TCGA-CM-6171 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6172          TCGA-CM-6674          TCGA-CM-6675 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6676          TCGA-CM-6677          TCGA-CM-6678 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6679          TCGA-CM-6680          TCGA-D5-5538 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-5539          TCGA-D5-5540          TCGA-D5-5541 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6529          TCGA-D5-6532          TCGA-D5-6533 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6534          TCGA-D5-6535          TCGA-D5-6536 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6537          TCGA-D5-6538          TCGA-D5-6539 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6540          TCGA-D5-6541          TCGA-D5-6898 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6920          TCGA-D5-6922          TCGA-D5-6923 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6924          TCGA-D5-6926          TCGA-D5-6927 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6930          TCGA-D5-6931          TCGA-D5-6932 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A0X9          TCGA-DM-A0XF          TCGA-DM-A1D0 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A1D4          TCGA-DM-A1D6          TCGA-DM-A1D7 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A1D8          TCGA-DM-A1D9          TCGA-DM-A1DA 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A1DB          TCGA-DM-A1HA          TCGA-DM-A1HB 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A282          TCGA-DM-A28C          TCGA-DM-A28E 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A28F          TCGA-DM-A28G          TCGA-F4-6459 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6460          TCGA-F4-6569          TCGA-F4-6570 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6703          TCGA-F4-6704          TCGA-F4-6805 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6806          TCGA-F4-6807          TCGA-F4-6808 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6809          TCGA-F4-6854          TCGA-F4-6855 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6856          TCGA-G4-6293          TCGA-G4-6299 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6303          TCGA-G4-6304          TCGA-G4-6306 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6307          TCGA-G4-6309          TCGA-G4-6310 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6315          TCGA-G4-6317          TCGA-G4-6321 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6323          TCGA-G4-6586          TCGA-G4-6588 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6625          TCGA-G4-6626          TCGA-G4-6628 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF105 MUTATED        0      0      1      0      0      1      0      0
  C14ORF105 WILD-TYPE     41     26     29     29     39     68     20     14
                     vv
clus                  CLUS_9
  C14ORF105 MUTATED        0
  C14ORF105 WILD-TYPE     22
D1389V6, multiclass
[1] "Remove cluster labels:" "C14ORF105 MUTATED"     
clus
  C14ORF105 MUTATED C14ORF105 WILD-TYPE 
                  2                 288 
         TCGA-A6-2671          TCGA-A6-2672          TCGA-A6-2676 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-3810          TCGA-A6-5656          TCGA-A6-5657 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-5659          TCGA-A6-5660          TCGA-A6-5661 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-5662          TCGA-A6-5664          TCGA-A6-5665 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-5666          TCGA-A6-6137          TCGA-A6-6138 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6648 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6649          TCGA-A6-6651          TCGA-A6-6652 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6653          TCGA-A6-6654          TCGA-A6-6780 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3492          TCGA-AA-3496          TCGA-AA-3502 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3510          TCGA-AA-3511          TCGA-AA-3514 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3519          TCGA-AA-3520 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3521          TCGA-AA-3522          TCGA-AA-3525 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3529          TCGA-AA-3530          TCGA-AA-3531 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3532          TCGA-AA-3534          TCGA-AA-3548 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3558          TCGA-AA-3560 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3561          TCGA-AA-3562          TCGA-AA-3655 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3672          TCGA-AA-3678 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3681          TCGA-AA-3688          TCGA-AA-3695 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3696          TCGA-AA-3697          TCGA-AA-3710 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3712          TCGA-AA-3713          TCGA-AA-3715 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3811          TCGA-AA-3812          TCGA-AA-3814 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3815          TCGA-AA-3818          TCGA-AA-3819 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3844          TCGA-AA-3845          TCGA-AA-3848 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3850          TCGA-AA-3852          TCGA-AA-3854 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3856          TCGA-AA-3861          TCGA-AA-3864 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3869          TCGA-AA-3872 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3930          TCGA-AA-3947          TCGA-AA-3950 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3955          TCGA-AA-3968          TCGA-AA-3971 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3972          TCGA-AA-3973          TCGA-AA-3975 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-3982          TCGA-AA-3986          TCGA-AA-3989 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00E 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00F          TCGA-AA-A00J          TCGA-AA-A00K 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00L          TCGA-AA-A00N          TCGA-AA-A00Q 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00R          TCGA-AA-A00U          TCGA-AA-A00W 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A00Z          TCGA-AA-A017          TCGA-AA-A01D 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01F          TCGA-AA-A01I          TCGA-AA-A01K 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01P          TCGA-AA-A01Q          TCGA-AA-A01R 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01S          TCGA-AA-A01T          TCGA-AA-A01V 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A01X          TCGA-AA-A022          TCGA-AA-A024 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A029          TCGA-AA-A02F          TCGA-AA-A02H 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A02J          TCGA-AA-A02K          TCGA-AA-A02O 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AA-A02Y          TCGA-AA-A03F 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AA-A03J          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6899          TCGA-AD-6965 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AU-6004          TCGA-AY-5543          TCGA-AY-6196 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AY-6197          TCGA-AY-6386          TCGA-AZ-4315 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-4682 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-5407          TCGA-AZ-6598          TCGA-AZ-6599 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-6600          TCGA-AZ-6601          TCGA-AZ-6603 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-6605          TCGA-AZ-6606          TCGA-AZ-6607 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-AZ-6608          TCGA-CA-5254          TCGA-CA-5255 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CA-5796          TCGA-CA-5797          TCGA-CA-6715 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CA-6716          TCGA-CA-6717          TCGA-CA-6718 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CA-6719          TCGA-CK-5914          TCGA-CK-5916 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CK-6746          TCGA-CK-6747          TCGA-CK-6748 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CK-6751          TCGA-CM-4743          TCGA-CM-4744 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-4746          TCGA-CM-4747          TCGA-CM-4752 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-5341          TCGA-CM-5344          TCGA-CM-5348 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-5349          TCGA-CM-5860          TCGA-CM-5861 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-5862          TCGA-CM-5863          TCGA-CM-5864 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-5868          TCGA-CM-6161          TCGA-CM-6162 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6163          TCGA-CM-6164          TCGA-CM-6165 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6166          TCGA-CM-6167          TCGA-CM-6168 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6169          TCGA-CM-6170          TCGA-CM-6171 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6172          TCGA-CM-6674          TCGA-CM-6675 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6676          TCGA-CM-6677          TCGA-CM-6678 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-CM-6679          TCGA-CM-6680          TCGA-D5-5538 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-5539          TCGA-D5-5540          TCGA-D5-5541 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6529          TCGA-D5-6532          TCGA-D5-6533 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6534          TCGA-D5-6535          TCGA-D5-6536 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6537          TCGA-D5-6538          TCGA-D5-6539 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6540          TCGA-D5-6541          TCGA-D5-6898 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6920          TCGA-D5-6922          TCGA-D5-6923 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6924          TCGA-D5-6926          TCGA-D5-6927 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-D5-6930          TCGA-D5-6931          TCGA-D5-6932 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A0X9          TCGA-DM-A0XF          TCGA-DM-A1D0 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A1D4          TCGA-DM-A1D6          TCGA-DM-A1D7 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A1D8          TCGA-DM-A1D9          TCGA-DM-A1DA 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A1DB          TCGA-DM-A1HA          TCGA-DM-A1HB 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A282          TCGA-DM-A28C          TCGA-DM-A28E 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-DM-A28F          TCGA-DM-A28G          TCGA-F4-6459 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6460          TCGA-F4-6569          TCGA-F4-6570 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6703          TCGA-F4-6704          TCGA-F4-6805 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6806          TCGA-F4-6807          TCGA-F4-6808 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6809          TCGA-F4-6854          TCGA-F4-6855 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-F4-6856          TCGA-G4-6293          TCGA-G4-6299 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6303          TCGA-G4-6304          TCGA-G4-6306 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6307          TCGA-G4-6309          TCGA-G4-6310 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6315          TCGA-G4-6317          TCGA-G4-6321 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6323          TCGA-G4-6586          TCGA-G4-6588 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
         TCGA-G4-6625          TCGA-G4-6626          TCGA-G4-6628 
"C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" "C14ORF105 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF105 MUTATED        0      0      1      2
  C14ORF105 WILD-TYPE    100     72     71    119
D1389V7, multiclass
        clus
vv       C14ORF105 MUTATED C14ORF105 WILD-TYPE
  CLUS_1                 0                 100
  CLUS_2                 0                  72
  CLUS_3                 1                  71
  CLUS_4                 2                 119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF105 MUTATED        0      0      1      1      1
  C14ORF105 WILD-TYPE     59     75     73    118     37
D1389V8, multiclass
        clus
vv       C14ORF105 MUTATED C14ORF105 WILD-TYPE
  CLUS_1                 0                  59
  CLUS_2                 0                  75
  CLUS_3                 1                  73
  CLUS_4                 1                 118
  CLUS_5                 1                  37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF105 MUTATED        0      0      1      0      2
  C14ORF105 WILD-TYPE     51     76     60     71     93
D1389V9, multiclass
        clus
vv       C14ORF105 MUTATED C14ORF105 WILD-TYPE
  CLUS_1                 0                  51
  CLUS_2                 0                  76
  CLUS_3                 1                  60
  CLUS_4                 0                  71
  CLUS_5                 2                  93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF105 MUTATED        0      1      0      0      0      1      0      1
  C14ORF105 WILD-TYPE     69     47     39     16     53     19     21     37
                     vv
clus                  CLUS_9
  C14ORF105 MUTATED        0
  C14ORF105 WILD-TYPE     50
D1389V10, multiclass
        clus
vv       C14ORF105 MUTATED C14ORF105 WILD-TYPE
  CLUS_1                 0                  69
  CLUS_2                 1                  47
  CLUS_3                 0                  39
  CLUS_4                 0                  16
  CLUS_5                 0                  53
  CLUS_6                 1                  19
  CLUS_7                 0                  21
  CLUS_8                 1                  37
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C14ORF105 MUTATED        0      0      0      0      0      0
  C14ORF105 WILD-TYPE     13     16     14     11     11      9
D1389V11, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF105 MUTATED        0      0      0      0      0      0      0      0
  C14ORF105 WILD-TYPE     11      7      7      9      8      7     11      9
                     vv
clus                  CLUS_9
  C14ORF105 MUTATED        0
  C14ORF105 WILD-TYPE      5
D1389V12, multiclass

Clustering(1390) Variable = UBA3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBA3 MUTATED        2      0      0      0      0
  UBA3 WILD-TYPE     30     18     46     27     23
D1390V1, multiclass
[1] "Remove cluster labels:" "UBA3 MUTATED"          
clus
  UBA3 MUTATED UBA3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBA3 MUTATED        1      0      1
  UBA3 WILD-TYPE     42     67     35
D1390V2, multiclass
[1] "Remove cluster labels:" "UBA3 MUTATED"          
clus
  UBA3 MUTATED UBA3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBA3 MUTATED        1      1      4
  UBA3 WILD-TYPE     41    172    143
D1390V3, multiclass
        clus
vv       UBA3 MUTATED UBA3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBA3 MUTATED        3      0      2
  UBA3 WILD-TYPE     59     73     73
D1390V4, multiclass
        clus
vv       UBA3 MUTATED UBA3 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBA3 MUTATED        0      3      2
  UBA3 WILD-TYPE     70    117     98
D1390V5, multiclass
        clus
vv       UBA3 MUTATED UBA3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBA3 MUTATED        0      1      0      0      2      0      1      1      0
  UBA3 WILD-TYPE     41     25     30     29     37     69     19     13     22
D1390V6, multiclass
        clus
vv       UBA3 MUTATED UBA3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            0             69
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UBA3 MUTATED        0      1      2      3
  UBA3 WILD-TYPE    100     71     70    118
D1390V7, multiclass
        clus
vv       UBA3 MUTATED UBA3 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBA3 MUTATED        2      0      1      2      1
  UBA3 WILD-TYPE     57     75     73    117     37
D1390V8, multiclass
        clus
vv       UBA3 MUTATED UBA3 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            0             75
  CLUS_3            1             73
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBA3 MUTATED        1      1      1      1      2
  UBA3 WILD-TYPE     50     75     60     70     93
D1390V9, multiclass
        clus
vv       UBA3 MUTATED UBA3 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBA3 MUTATED        1      1      0      0      1      1      0      1      1
  UBA3 WILD-TYPE     68     47     39     16     52     19     21     37     49
D1390V10, multiclass
        clus
vv       UBA3 MUTATED UBA3 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UBA3 MUTATED        0      1      0      0      0      0
  UBA3 WILD-TYPE     13     15     14     11     11      9
D1390V11, multiclass
[1] "Remove cluster labels:" "UBA3 MUTATED"          
clus
  UBA3 MUTATED UBA3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3511 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-G4-6628 
"UBA3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBA3 MUTATED        1      0      0      0      0      0      0      0      0
  UBA3 WILD-TYPE     10      7      7      9      8      7     11      9      5
D1390V12, multiclass
[1] "Remove cluster labels:" "UBA3 MUTATED"          
clus
  UBA3 MUTATED UBA3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3511 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" "UBA3 WILD-TYPE" 
    TCGA-G4-6628 
"UBA3 WILD-TYPE" 

Clustering(1391) Variable = UBE3C MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBE3C MUTATED        2      0      0      3      1
  UBE3C WILD-TYPE     30     18     46     24     22
D1391V1, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UBE3C MUTATED        3      2      1
  UBE3C WILD-TYPE     40     65     35
D1391V2, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UBE3C MUTATED        3      5     10
  UBE3C WILD-TYPE     39    168    137
D1391V3, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             3              39
  CLUS_2             5             168
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UBE3C MUTATED        6      3      3
  UBE3C WILD-TYPE     56     70     72
D1391V4, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             6              56
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UBE3C MUTATED        2      6      8
  UBE3C WILD-TYPE     68    114     92
D1391V5, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UBE3C MUTATED        3      0      3      1      1      6      0      2
  UBE3C WILD-TYPE     38     26     27     28     38     63     20     12
                 vv
clus              CLUS_9
  UBE3C MUTATED        0
  UBE3C WILD-TYPE     22
D1391V6, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             3              27
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UBE3C MUTATED        6      3      4      5
  UBE3C WILD-TYPE     94     69     68    116
D1391V7, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             6              94
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBE3C MUTATED        4      4      4      3      3
  UBE3C WILD-TYPE     55     71     70    116     35
D1391V8, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             4              55
  CLUS_2             4              71
  CLUS_3             4              70
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBE3C MUTATED        2      4      4      2      4
  UBE3C WILD-TYPE     49     72     57     69     91
D1391V9, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             4              57
  CLUS_4             2              69
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UBE3C MUTATED        3      6      1      0      1      2      0      2
  UBE3C WILD-TYPE     66     42     38     16     52     18     21     36
                 vv
clus              CLUS_9
  UBE3C MUTATED        1
  UBE3C WILD-TYPE     49
D1391V10, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             3              66
  CLUS_2             6              42
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UBE3C MUTATED        2      4      0      0      0      0
  UBE3C WILD-TYPE     11     12     14     11     11      9
D1391V11, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             2              11
  CLUS_2             4              12
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UBE3C MUTATED        2      1      0      0      0      0      1      1
  UBE3C WILD-TYPE      9      6      7      9      8      7     10      8
                 vv
clus              CLUS_9
  UBE3C MUTATED        1
  UBE3C WILD-TYPE      4
D1391V12, multiclass
        clus
vv       UBE3C MUTATED UBE3C WILD-TYPE
  CLUS_1             2               9
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1392) Variable = ZCWPW2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZCWPW2 MUTATED        1      0      1      1      0
  ZCWPW2 WILD-TYPE     31     18     45     26     23
D1392V1, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZCWPW2 MUTATED        1      2      0
  ZCWPW2 WILD-TYPE     42     65     36
D1392V2, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZCWPW2 MUTATED        0      2      9
  ZCWPW2 WILD-TYPE     42    171    138
D1392V3, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZCWPW2 MUTATED        2      3      3
  ZCWPW2 WILD-TYPE     60     70     72
D1392V4, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3               70
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZCWPW2 MUTATED        3      4      3
  ZCWPW2 WILD-TYPE     67    116     97
D1392V5, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              4              116
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZCWPW2 MUTATED        0      1      1      1      2      3      0      2
  ZCWPW2 WILD-TYPE     41     25     29     28     37     66     20     12
                  vv
clus               CLUS_9
  ZCWPW2 MUTATED        0
  ZCWPW2 WILD-TYPE     22
D1392V6, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZCWPW2 MUTATED        1      6      1      3
  ZCWPW2 WILD-TYPE     99     66     71    118
D1392V7, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              6               66
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZCWPW2 MUTATED        1      3      4      2      1
  ZCWPW2 WILD-TYPE     58     72     70    117     37
D1392V8, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZCWPW2 MUTATED        1      5      0      1      4
  ZCWPW2 WILD-TYPE     50     71     61     70     91
D1392V9, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZCWPW2 MUTATED        4      0      0      1      1      2      0      2
  ZCWPW2 WILD-TYPE     65     48     39     15     52     18     21     36
                  vv
clus               CLUS_9
  ZCWPW2 MUTATED        1
  ZCWPW2 WILD-TYPE     49
D1392V10, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZCWPW2 MUTATED        0      0      0      1      2      0
  ZCWPW2 WILD-TYPE     13     16     14     10      9      9
D1392V11, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZCWPW2 MUTATED        0      0      0      1      0      1      1      0
  ZCWPW2 WILD-TYPE     11      7      7      8      8      6     10      9
                  vv
clus               CLUS_9
  ZCWPW2 MUTATED        0
  ZCWPW2 WILD-TYPE      5
D1392V12, multiclass
        clus
vv       ZCWPW2 MUTATED ZCWPW2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1393) Variable = ZNF711 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF711 MUTATED        1      1      0      0      0
  ZNF711 WILD-TYPE     31     17     46     27     23
D1393V1, multiclass
[1] "Remove cluster labels:" "ZNF711 MUTATED"        
clus
  ZNF711 MUTATED ZNF711 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF711 MUTATED        1      1      0
  ZNF711 WILD-TYPE     42     66     36
D1393V2, multiclass
[1] "Remove cluster labels:" "ZNF711 MUTATED"        
clus
  ZNF711 MUTATED ZNF711 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" "ZNF711 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF711 MUTATED        1      3      6
  ZNF711 WILD-TYPE     41    170    141
D1393V3, multiclass
        clus
vv       ZNF711 MUTATED ZNF711 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF711 MUTATED        4      1      3
  ZNF711 WILD-TYPE     58     72     72
D1393V4, multiclass
        clus
vv       ZNF711 MUTATED ZNF711 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF711 MUTATED        3      2      5
  ZNF711 WILD-TYPE     67    118     95
D1393V5, multiclass
        clus
vv       ZNF711 MUTATED ZNF711 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              2              118
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF711 MUTATED        3      0      0      0      1      4      1      0
  ZNF711 WILD-TYPE     38     26     30     29     38     65     19     14
                  vv
clus               CLUS_9
  ZNF711 MUTATED        1
  ZNF711 WILD-TYPE     21
D1393V6, multiclass
        clus
vv       ZNF711 MUTATED ZNF711 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF711 MUTATED        0      2      7      1
  ZNF711 WILD-TYPE    100     70     65    120
D1393V7, multiclass
        clus
vv       ZNF711 MUTATED ZNF711 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              7               65
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF711 MUTATED        3      0      5      1      1
  ZNF711 WILD-TYPE     56     75     69    118     37
D1393V8, multiclass
        clus
vv       ZNF711 MUTATED ZNF711 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              0               75
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF711 MUTATED        1      3      4      0      1
  ZNF711 WILD-TYPE     50     73     57     71     94
D1393V9, multiclass
        clus
vv       ZNF711 MUTATED ZNF711 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              4               57
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF711 MUTATED        2      2      1      1      2      0      0      1
  ZNF711 WILD-TYPE     67     46     38     15     51     20     21     37
                  vv
clus               CLUS_9
  ZNF711 MUTATED        0
  ZNF711 WILD-TYPE     50
D1393V10, multiclass
        clus
vv       ZNF711 MUTATED ZNF711 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF711 MUTATED        0      1      1      0      1      0
  ZNF711 WILD-TYPE     13     15     13     11     10      9
D1393V11, multiclass
        clus
vv       ZNF711 MUTATED ZNF711 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF711 MUTATED        0      1      0      0      2      0      0      0
  ZNF711 WILD-TYPE     11      6      7      9      6      7     11      9
                  vv
clus               CLUS_9
  ZNF711 MUTATED        0
  ZNF711 WILD-TYPE      5
D1393V12, multiclass
        clus
vv       ZNF711 MUTATED ZNF711 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1394) Variable = PRSS48 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRSS48 MUTATED        1      0      0      0      0
  PRSS48 WILD-TYPE     31     18     46     27     23
D1394V1, multiclass
[1] "Remove cluster labels:" "PRSS48 MUTATED"        
clus
  PRSS48 MUTATED PRSS48 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AY-4071 
"PRSS48 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRSS48 MUTATED        0      0      1
  PRSS48 WILD-TYPE     43     67     35
D1394V2, multiclass
[1] "Remove cluster labels:" "PRSS48 MUTATED"        
clus
  PRSS48 MUTATED PRSS48 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" "PRSS48 WILD-TYPE" 
      TCGA-AY-4071 
"PRSS48 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRSS48 MUTATED        1      1      5
  PRSS48 WILD-TYPE     41    172    142
D1394V3, multiclass
        clus
vv       PRSS48 MUTATED PRSS48 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRSS48 MUTATED        3      0      3
  PRSS48 WILD-TYPE     59     73     72
D1394V4, multiclass
        clus
vv       PRSS48 MUTATED PRSS48 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRSS48 MUTATED        3      1      2
  PRSS48 WILD-TYPE     67    119     98
D1394V5, multiclass
        clus
vv       PRSS48 MUTATED PRSS48 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              1              119
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRSS48 MUTATED        0      1      0      0      1      1      2      1
  PRSS48 WILD-TYPE     41     25     30     29     38     68     18     13
                  vv
clus               CLUS_9
  PRSS48 MUTATED        0
  PRSS48 WILD-TYPE     22
D1394V6, multiclass
        clus
vv       PRSS48 MUTATED PRSS48 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRSS48 MUTATED        0      2      4      1
  PRSS48 WILD-TYPE    100     70     68    120
D1394V7, multiclass
        clus
vv       PRSS48 MUTATED PRSS48 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              4               68
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRSS48 MUTATED        2      1      3      1      0
  PRSS48 WILD-TYPE     57     74     71    118     38
D1394V8, multiclass
        clus
vv       PRSS48 MUTATED PRSS48 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRSS48 MUTATED        0      5      1      1      0
  PRSS48 WILD-TYPE     51     71     60     70     95
D1394V9, multiclass
        clus
vv       PRSS48 MUTATED PRSS48 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRSS48 MUTATED        1      1      0      2      3      0      0      0
  PRSS48 WILD-TYPE     68     47     39     14     50     20     21     38
                  vv
clus               CLUS_9
  PRSS48 MUTATED        0
  PRSS48 WILD-TYPE     50
D1394V10, multiclass
        clus
vv       PRSS48 MUTATED PRSS48 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRSS48 MUTATED        0      0      0      1      2      0
  PRSS48 WILD-TYPE     13     16     14     10      9      9
D1394V11, multiclass
        clus
vv       PRSS48 MUTATED PRSS48 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRSS48 MUTATED        0      0      0      1      1      0      1      0
  PRSS48 WILD-TYPE     11      7      7      8      7      7     10      9
                  vv
clus               CLUS_9
  PRSS48 MUTATED        0
  PRSS48 WILD-TYPE      5
D1394V12, multiclass
        clus
vv       PRSS48 MUTATED PRSS48 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1395) Variable = MMP7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMP7 MUTATED        2      0      0      1      0
  MMP7 WILD-TYPE     30     18     46     26     23
D1395V1, multiclass
        clus
vv       MMP7 MUTATED MMP7 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMP7 MUTATED        3      0      0
  MMP7 WILD-TYPE     40     67     36
D1395V2, multiclass
        clus
vv       MMP7 MUTATED MMP7 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMP7 MUTATED        2      1      5
  MMP7 WILD-TYPE     40    172    142
D1395V3, multiclass
        clus
vv       MMP7 MUTATED MMP7 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1            172
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMP7 MUTATED        2      1      1
  MMP7 WILD-TYPE     60     72     74
D1395V4, multiclass
        clus
vv       MMP7 MUTATED MMP7 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMP7 MUTATED        1      3      4
  MMP7 WILD-TYPE     69    117     96
D1395V5, multiclass
        clus
vv       MMP7 MUTATED MMP7 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MMP7 MUTATED        0      0      1      1      1      4      0      1      0
  MMP7 WILD-TYPE     41     26     29     28     38     65     20     13     22
D1395V6, multiclass
        clus
vv       MMP7 MUTATED MMP7 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MMP7 MUTATED        1      4      0      3
  MMP7 WILD-TYPE     99     68     72    118
D1395V7, multiclass
        clus
vv       MMP7 MUTATED MMP7 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            4             68
  CLUS_3            0             72
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMP7 MUTATED        1      2      2      0      3
  MMP7 WILD-TYPE     58     73     72    119     35
D1395V8, multiclass
        clus
vv       MMP7 MUTATED MMP7 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMP7 MUTATED        1      1      2      1      2
  MMP7 WILD-TYPE     50     75     59     70     93
D1395V9, multiclass
        clus
vv       MMP7 MUTATED MMP7 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MMP7 MUTATED        1      0      1      1      1      1      0      1      1
  MMP7 WILD-TYPE     68     48     38     15     52     19     21     37     49
D1395V10, multiclass
        clus
vv       MMP7 MUTATED MMP7 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MMP7 MUTATED        0      0      1      0      0      0
  MMP7 WILD-TYPE     13     16     13     11     11      9
D1395V11, multiclass
[1] "Remove cluster labels:" "MMP7 MUTATED"          
clus
  MMP7 MUTATED MMP7 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6142 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-G4-6628 
"MMP7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MMP7 MUTATED        0      0      0      0      1      0      0      0      0
  MMP7 WILD-TYPE     11      7      7      9      7      7     11      9      5
D1395V12, multiclass
[1] "Remove cluster labels:" "MMP7 MUTATED"          
clus
  MMP7 MUTATED MMP7 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6142 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" "MMP7 WILD-TYPE" 
    TCGA-G4-6628 
"MMP7 WILD-TYPE" 

Clustering(1396) Variable = FAM120C MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM120C MUTATED        1      0      0      1      0
  FAM120C WILD-TYPE     31     18     46     26     23
D1396V1, multiclass
[1] "Remove cluster labels:" "FAM120C MUTATED"       
clus
  FAM120C MUTATED FAM120C WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3866 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM120C MUTATED        1      0      1
  FAM120C WILD-TYPE     42     67     35
D1396V2, multiclass
[1] "Remove cluster labels:" "FAM120C MUTATED"       
clus
  FAM120C MUTATED FAM120C WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3866 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM120C MUTATED        2      2      4
  FAM120C WILD-TYPE     40    171    143
D1396V3, multiclass
        clus
vv       FAM120C MUTATED FAM120C WILD-TYPE
  CLUS_1               2                40
  CLUS_2               2               171
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM120C MUTATED        2      1      3
  FAM120C WILD-TYPE     60     72     72
D1396V4, multiclass
        clus
vv       FAM120C MUTATED FAM120C WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM120C MUTATED        0      5      1
  FAM120C WILD-TYPE     70    115     99
D1396V5, multiclass
        clus
vv       FAM120C MUTATED FAM120C WILD-TYPE
  CLUS_1               0                70
  CLUS_2               5               115
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM120C MUTATED        0      0      0      1      1      0      1      2
  FAM120C WILD-TYPE     41     26     30     28     38     69     19     12
                   vv
clus                CLUS_9
  FAM120C MUTATED        1
  FAM120C WILD-TYPE     21
D1396V6, multiclass
        clus
vv       FAM120C MUTATED FAM120C WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               0                69
  CLUS_7               1                19
  CLUS_8               2                12
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM120C MUTATED        3      3      0      2
  FAM120C WILD-TYPE     97     69     72    119
D1396V7, multiclass
        clus
vv       FAM120C MUTATED FAM120C WILD-TYPE
  CLUS_1               3                97
  CLUS_2               3                69
  CLUS_3               0                72
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM120C MUTATED        2      2      2      1      1
  FAM120C WILD-TYPE     57     73     72    118     37
D1396V8, multiclass
        clus
vv       FAM120C MUTATED FAM120C WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM120C MUTATED        2      3      1      1      1
  FAM120C WILD-TYPE     49     73     60     70     94
D1396V9, multiclass
        clus
vv       FAM120C MUTATED FAM120C WILD-TYPE
  CLUS_1               2                49
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM120C MUTATED        1      0      2      1      3      0      0      1
  FAM120C WILD-TYPE     68     48     37     15     50     20     21     37
                   vv
clus                CLUS_9
  FAM120C MUTATED        0
  FAM120C WILD-TYPE     50
D1396V10, multiclass
        clus
vv       FAM120C MUTATED FAM120C WILD-TYPE
  CLUS_1               1                68
  CLUS_2               0                48
  CLUS_3               2                37
  CLUS_4               1                15
  CLUS_5               3                50
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM120C MUTATED        0      0      0      1      1      0
  FAM120C WILD-TYPE     13     16     14     10     10      9
D1396V11, multiclass
[1] "Remove cluster labels:" "FAM120C MUTATED"       
clus
  FAM120C MUTATED FAM120C WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6569 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM120C MUTATED        0      0      0      1      0      0      1      0
  FAM120C WILD-TYPE     11      7      7      8      8      7     10      9
                   vv
clus                CLUS_9
  FAM120C MUTATED        0
  FAM120C WILD-TYPE      5
D1396V12, multiclass
[1] "Remove cluster labels:" "FAM120C MUTATED"       
clus
  FAM120C MUTATED FAM120C WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6569 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" "FAM120C WILD-TYPE" 

Clustering(1397) Variable = TMSB15B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMSB15B MUTATED        0      0      0      0      0
  TMSB15B WILD-TYPE     32     18     46     27     23
D1397V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMSB15B MUTATED        0      0      0
  TMSB15B WILD-TYPE     43     67     36
D1397V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMSB15B MUTATED        0      2      1
  TMSB15B WILD-TYPE     42    171    146
D1397V3, multiclass
        clus
vv       TMSB15B MUTATED TMSB15B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               1               146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMSB15B MUTATED        0      1      2
  TMSB15B WILD-TYPE     62     72     73
D1397V4, multiclass
        clus
vv       TMSB15B MUTATED TMSB15B WILD-TYPE
  CLUS_1               0                62
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMSB15B MUTATED        1      0      1
  TMSB15B WILD-TYPE     69    120     99
D1397V5, multiclass
[1] "Remove cluster labels:" "TMSB15B MUTATED"       
clus
  TMSB15B MUTATED TMSB15B WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3525        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3560        TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A00N        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A01P        TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A01T        TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A02Y        TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AU-6004        TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AY-6386        TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AZ-4682        TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AZ-6606        TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CA-5255        TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CK-5914        TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CK-6748        TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-4746        TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-5344        TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-5861        TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-5868        TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6164        TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6168        TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6172        TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6529        TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6535        TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6539        TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6932        TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A28F        TCGA-DM-A28G        TCGA-F4-6460        TCGA-F4-6569 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMSB15B MUTATED        1      0      0      0      0      1      0      0
  TMSB15B WILD-TYPE     40     26     30     29     39     68     20     14
                   vv
clus                CLUS_9
  TMSB15B MUTATED        0
  TMSB15B WILD-TYPE     22
D1397V6, multiclass
[1] "Remove cluster labels:" "TMSB15B MUTATED"       
clus
  TMSB15B MUTATED TMSB15B WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3525        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3560        TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A00N        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A01P        TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A01T        TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-A02Y        TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AU-6004        TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AY-6386        TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AZ-4682        TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AZ-6606        TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CA-5255        TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CK-5914        TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CK-6748        TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-4746        TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-5344        TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-5861        TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-5868        TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6164        TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6168        TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6172        TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6529        TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6535        TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6539        TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6932        TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A28F        TCGA-DM-A28G        TCGA-F4-6460        TCGA-F4-6569 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMSB15B MUTATED        2      1      0      0
  TMSB15B WILD-TYPE     98     71     72    121
D1397V7, multiclass
        clus
vv       TMSB15B MUTATED TMSB15B WILD-TYPE
  CLUS_1               2                98
  CLUS_2               1                71
  CLUS_3               0                72
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMSB15B MUTATED        1      1      1      0      0
  TMSB15B WILD-TYPE     58     74     73    119     38
D1397V8, multiclass
        clus
vv       TMSB15B MUTATED TMSB15B WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               1                73
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMSB15B MUTATED        0      1      2      0      0
  TMSB15B WILD-TYPE     51     75     59     71     95
D1397V9, multiclass
        clus
vv       TMSB15B MUTATED TMSB15B WILD-TYPE
  CLUS_1               0                51
  CLUS_2               1                75
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMSB15B MUTATED        0      1      0      1      1      0      0      0
  TMSB15B WILD-TYPE     69     47     39     15     52     20     21     38
                   vv
clus                CLUS_9
  TMSB15B MUTATED        0
  TMSB15B WILD-TYPE     50
D1397V10, multiclass
        clus
vv       TMSB15B MUTATED TMSB15B WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMSB15B MUTATED        0      0      0      1      0      1
  TMSB15B WILD-TYPE     13     16     14     10     11      8
D1397V11, multiclass
[1] "Remove cluster labels:" "TMSB15B MUTATED"       
clus
  TMSB15B MUTATED TMSB15B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28F        TCGA-F4-6460        TCGA-F4-6569 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMSB15B MUTATED        0      0      1      0      0      1      0      0
  TMSB15B WILD-TYPE     11      7      6      9      8      6     11      9
                   vv
clus                CLUS_9
  TMSB15B MUTATED        0
  TMSB15B WILD-TYPE      5
D1397V12, multiclass
[1] "Remove cluster labels:" "TMSB15B MUTATED"       
clus
  TMSB15B MUTATED TMSB15B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28F        TCGA-F4-6460        TCGA-F4-6569 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" "TMSB15B WILD-TYPE" 

Clustering(1398) Variable = UHRF1BP1L MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UHRF1BP1L MUTATED        6      0      0      2      0
  UHRF1BP1L WILD-TYPE     26     18     46     25     23
D1398V1, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 6                  26
  CLUS_2                 0                  18
  CLUS_3                 0                  46
  CLUS_4                 2                  25
  CLUS_5                 0                  23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  UHRF1BP1L MUTATED        7      0      1
  UHRF1BP1L WILD-TYPE     36     67     35
D1398V2, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 7                  36
  CLUS_2                 0                  67
  CLUS_3                 1                  35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  UHRF1BP1L MUTATED        3      4     13
  UHRF1BP1L WILD-TYPE     39    169    134
D1398V3, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 3                  39
  CLUS_2                 4                 169
  CLUS_3                13                 134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  UHRF1BP1L MUTATED        2      4      6
  UHRF1BP1L WILD-TYPE     60     69     69
D1398V4, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 2                  60
  CLUS_2                 4                  69
  CLUS_3                 6                  69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  UHRF1BP1L MUTATED        0      9      7
  UHRF1BP1L WILD-TYPE     70    111     93
D1398V5, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 0                  70
  CLUS_2                 9                 111
  CLUS_3                 7                  93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UHRF1BP1L MUTATED        1      1      0      3      3      5      1      2
  UHRF1BP1L WILD-TYPE     40     25     30     26     36     64     19     12
                     vv
clus                  CLUS_9
  UHRF1BP1L MUTATED        0
  UHRF1BP1L WILD-TYPE     22
D1398V6, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 1                  40
  CLUS_2                 1                  25
  CLUS_3                 0                  30
  CLUS_4                 3                  26
  CLUS_5                 3                  36
  CLUS_6                 5                  64
  CLUS_7                 1                  19
  CLUS_8                 2                  12
  CLUS_9                 0                  22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UHRF1BP1L MUTATED        4      5      3      8
  UHRF1BP1L WILD-TYPE     96     67     69    113
D1398V7, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 4                  96
  CLUS_2                 5                  67
  CLUS_3                 3                  69
  CLUS_4                 8                 113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UHRF1BP1L MUTATED        2      4      6      1      7
  UHRF1BP1L WILD-TYPE     57     71     68    118     31
D1398V8, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 2                  57
  CLUS_2                 4                  71
  CLUS_3                 6                  68
  CLUS_4                 1                 118
  CLUS_5                 7                  31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UHRF1BP1L MUTATED        4      5      2      2      6
  UHRF1BP1L WILD-TYPE     47     71     59     69     89
D1398V9, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 4                  47
  CLUS_2                 5                  71
  CLUS_3                 2                  59
  CLUS_4                 2                  69
  CLUS_5                 6                  89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UHRF1BP1L MUTATED        5      1      3      2      3      0      0      5
  UHRF1BP1L WILD-TYPE     64     47     36     14     50     20     21     33
                     vv
clus                  CLUS_9
  UHRF1BP1L MUTATED        0
  UHRF1BP1L WILD-TYPE     50
D1398V10, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 5                  64
  CLUS_2                 1                  47
  CLUS_3                 3                  36
  CLUS_4                 2                  14
  CLUS_5                 3                  50
  CLUS_6                 0                  20
  CLUS_7                 0                  21
  CLUS_8                 5                  33
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UHRF1BP1L MUTATED        0      0      2      1      2      1
  UHRF1BP1L WILD-TYPE     13     16     12     10      9      8
D1398V11, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 0                  13
  CLUS_2                 0                  16
  CLUS_3                 2                  12
  CLUS_4                 1                  10
  CLUS_5                 2                   9
  CLUS_6                 1                   8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UHRF1BP1L MUTATED        2      0      0      2      0      0      2      0
  UHRF1BP1L WILD-TYPE      9      7      7      7      8      7      9      9
                     vv
clus                  CLUS_9
  UHRF1BP1L MUTATED        0
  UHRF1BP1L WILD-TYPE      5
D1398V12, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 2                   9
  CLUS_2                 0                   7
  CLUS_3                 0                   7
  CLUS_4                 2                   7
  CLUS_5                 0                   8
  CLUS_6                 0                   7
  CLUS_7                 2                   9
  CLUS_8                 0                   9
  CLUS_9                 0                   5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1399) Variable = PLEKHH2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHH2 MUTATED        5      0      0      2      0
  PLEKHH2 WILD-TYPE     27     18     46     25     23
D1399V1, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               5                27
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHH2 MUTATED        5      1      1
  PLEKHH2 WILD-TYPE     38     66     35
D1399V2, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               5                38
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHH2 MUTATED        0      0     18
  PLEKHH2 WILD-TYPE     42    173    129
D1399V3, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3              18               129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHH2 MUTATED        6      0      4
  PLEKHH2 WILD-TYPE     56     73     71
D1399V4, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               6                56
  CLUS_2               0                73
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHH2 MUTATED        3      6      7
  PLEKHH2 WILD-TYPE     67    114     93
D1399V5, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               6               114
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHH2 MUTATED        1      1      2      1      0      6      3      2
  PLEKHH2 WILD-TYPE     40     25     28     28     39     63     17     12
                   vv
clus                CLUS_9
  PLEKHH2 MUTATED        0
  PLEKHH2 WILD-TYPE     22
D1399V6, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               6                63
  CLUS_7               3                17
  CLUS_8               2                12
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLEKHH2 MUTATED        1      8      3      7
  PLEKHH2 WILD-TYPE     99     64     69    114
D1399V7, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               8                64
  CLUS_3               3                69
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHH2 MUTATED        1      3      7      2      6
  PLEKHH2 WILD-TYPE     58     72     67    117     32
D1399V8, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               3                72
  CLUS_3               7                67
  CLUS_4               2               117
  CLUS_5               6                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHH2 MUTATED        0      6      3      1      8
  PLEKHH2 WILD-TYPE     51     70     58     70     87
D1399V9, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               6                70
  CLUS_3               3                58
  CLUS_4               1                70
  CLUS_5               8                87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHH2 MUTATED        2      3      0      3      3      1      0      5
  PLEKHH2 WILD-TYPE     67     45     39     13     50     19     21     33
                   vv
clus                CLUS_9
  PLEKHH2 MUTATED        1
  PLEKHH2 WILD-TYPE     49
D1399V10, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               3                50
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               5                33
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLEKHH2 MUTATED        0      0      1      0      2      0
  PLEKHH2 WILD-TYPE     13     16     13     11      9      9
D1399V11, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHH2 MUTATED        0      0      0      1      1      0      1      0
  PLEKHH2 WILD-TYPE     11      7      7      8      7      7     10      9
                   vv
clus                CLUS_9
  PLEKHH2 MUTATED        0
  PLEKHH2 WILD-TYPE      5
D1399V12, multiclass
        clus
vv       PLEKHH2 MUTATED PLEKHH2 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1400) Variable = VPRBP MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPRBP MUTATED        1      0      1      1      0
  VPRBP WILD-TYPE     31     18     45     26     23
D1400V1, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPRBP MUTATED        0      2      1
  VPRBP WILD-TYPE     43     65     35
D1400V2, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             0              43
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPRBP MUTATED        0      2     10
  VPRBP WILD-TYPE     42    171    137
D1400V3, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPRBP MUTATED        2      1      6
  VPRBP WILD-TYPE     60     72     69
D1400V4, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPRBP MUTATED        1      3      6
  VPRBP WILD-TYPE     69    117     94
D1400V5, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPRBP MUTATED        1      0      1      1      0      4      1      2
  VPRBP WILD-TYPE     40     26     29     28     39     65     19     12
                 vv
clus              CLUS_9
  VPRBP MUTATED        0
  VPRBP WILD-TYPE     22
D1400V6, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VPRBP MUTATED        1      5      3      3
  VPRBP WILD-TYPE     99     67     69    118
D1400V7, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPRBP MUTATED        1      1      7      3      0
  VPRBP WILD-TYPE     58     74     67    116     38
D1400V8, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             7              67
  CLUS_4             3             116
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPRBP MUTATED        0      7      2      1      2
  VPRBP WILD-TYPE     51     69     59     70     93
D1400V9, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPRBP MUTATED        1      4      0      4      1      1      0      0
  VPRBP WILD-TYPE     68     44     39     12     52     19     21     38
                 vv
clus              CLUS_9
  VPRBP MUTATED        1
  VPRBP WILD-TYPE     49
D1400V10, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VPRBP MUTATED        0      0      0      0      4      0
  VPRBP WILD-TYPE     13     16     14     11      7      9
D1400V11, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPRBP MUTATED        0      0      0      2      0      0      2      0
  VPRBP WILD-TYPE     11      7      7      7      8      7      9      9
                 vv
clus              CLUS_9
  VPRBP MUTATED        0
  VPRBP WILD-TYPE      5
D1400V12, multiclass
        clus
vv       VPRBP MUTATED VPRBP WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1401) Variable = ZP3 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZP3 MUTATED        0      0      0      1      1
  ZP3 WILD-TYPE     32     18     46     26     22
D1401V1, multiclass
[1] "Remove cluster labels:" "ZP3 MUTATED"           
clus
  ZP3 MUTATED ZP3 WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3821 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842    TCGA-AA-3844 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A017 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZP3 MUTATED        0      1      1
  ZP3 WILD-TYPE     43     66     35
D1401V2, multiclass
[1] "Remove cluster labels:" "ZP3 MUTATED"           
clus
  ZP3 MUTATED ZP3 WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3821 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842    TCGA-AA-3844 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A017 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZP3 MUTATED        0      3      3
  ZP3 WILD-TYPE     42    170    144
D1401V3, multiclass
        clus
vv       ZP3 MUTATED ZP3 WILD-TYPE
  CLUS_1           0            42
  CLUS_2           3           170
  CLUS_3           3           144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZP3 MUTATED        0      1      3
  ZP3 WILD-TYPE     62     72     72
D1401V4, multiclass
        clus
vv       ZP3 MUTATED ZP3 WILD-TYPE
  CLUS_1           0            62
  CLUS_2           1            72
  CLUS_3           3            72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ZP3 MUTATED        1      4      1
  ZP3 WILD-TYPE     69    116     99
D1401V5, multiclass
        clus
vv       ZP3 MUTATED ZP3 WILD-TYPE
  CLUS_1           1            69
  CLUS_2           4           116
  CLUS_3           1            99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZP3 MUTATED        1      0      2      1      0      0      1      1      0
  ZP3 WILD-TYPE     40     26     28     28     39     69     19     13     22
D1401V6, multiclass
        clus
vv       ZP3 MUTATED ZP3 WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           2            28
  CLUS_4           1            28
  CLUS_5           0            39
  CLUS_6           0            69
  CLUS_7           1            19
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZP3 MUTATED        1      2      1      2
  ZP3 WILD-TYPE     99     70     71    119
D1401V7, multiclass
        clus
vv       ZP3 MUTATED ZP3 WILD-TYPE
  CLUS_1           1            99
  CLUS_2           2            70
  CLUS_3           1            71
  CLUS_4           2           119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZP3 MUTATED        2      0      2      2      0
  ZP3 WILD-TYPE     57     75     72    117     38
D1401V8, multiclass
        clus
vv       ZP3 MUTATED ZP3 WILD-TYPE
  CLUS_1           2            57
  CLUS_2           0            75
  CLUS_3           2            72
  CLUS_4           2           117
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZP3 MUTATED        1      2      1      1      1
  ZP3 WILD-TYPE     50     74     60     70     94
D1401V9, multiclass
        clus
vv       ZP3 MUTATED ZP3 WILD-TYPE
  CLUS_1           1            50
  CLUS_2           2            74
  CLUS_3           1            60
  CLUS_4           1            70
  CLUS_5           1            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZP3 MUTATED        0      2      1      1      1      1      0      0      0
  ZP3 WILD-TYPE     69     46     38     15     52     19     21     38     50
D1401V10, multiclass
        clus
vv       ZP3 MUTATED ZP3 WILD-TYPE
  CLUS_1           0            69
  CLUS_2           2            46
  CLUS_3           1            38
  CLUS_4           1            15
  CLUS_5           1            52
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZP3 MUTATED        1      0      0      0      0      0
  ZP3 WILD-TYPE     12     16     14     11     11      9
D1401V11, multiclass
[1] "Remove cluster labels:" "ZP3 MUTATED"           
clus
  ZP3 MUTATED ZP3 WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZP3 MUTATED        0      0      1      0      0      0      0      0      0
  ZP3 WILD-TYPE     11      7      6      9      8      7     11      9      5
D1401V12, multiclass
[1] "Remove cluster labels:" "ZP3 MUTATED"           
clus
  ZP3 MUTATED ZP3 WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"ZP3 WILD-TYPE" "ZP3 WILD-TYPE" "ZP3 WILD-TYPE" 

Clustering(1402) Variable = OR11H12 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR11H12 MUTATED        0      0      0      0      0
  OR11H12 WILD-TYPE     32     18     46     27     23
D1402V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  OR11H12 MUTATED        0      0      0
  OR11H12 WILD-TYPE     43     67     36
D1402V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  OR11H12 MUTATED        0      2      1
  OR11H12 WILD-TYPE     42    171    146
D1402V3, multiclass
        clus
vv       OR11H12 MUTATED OR11H12 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               1               146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  OR11H12 MUTATED        1      1      1
  OR11H12 WILD-TYPE     61     72     74
D1402V4, multiclass
        clus
vv       OR11H12 MUTATED OR11H12 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  OR11H12 MUTATED        0      1      1
  OR11H12 WILD-TYPE     70    119     99
D1402V5, multiclass
[1] "Remove cluster labels:" "OR11H12 MUTATED"       
clus
  OR11H12 MUTATED OR11H12 WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3525        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3560        TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A00N        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A01P        TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A01T        TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A02Y        TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AU-6004        TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AY-6386        TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AZ-4682        TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AZ-6606        TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CA-5255        TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CK-5914        TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-4746        TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-5344        TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-5861        TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-5868        TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6164        TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6168        TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6172        TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6529        TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6932        TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-F4-6809        TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6293        TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6315        TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6586        TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR11H12 MUTATED        0      0      1      0      0      1      0      0
  OR11H12 WILD-TYPE     41     26     29     29     39     68     20     14
                   vv
clus                CLUS_9
  OR11H12 MUTATED        0
  OR11H12 WILD-TYPE     22
D1402V6, multiclass
[1] "Remove cluster labels:" "OR11H12 MUTATED"       
clus
  OR11H12 MUTATED OR11H12 WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3525        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3560        TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A00N        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A01P        TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A01T        TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-A02Y        TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AU-6004        TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AY-6386        TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AZ-4682        TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AZ-6606        TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CA-5255        TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CK-5914        TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-4746        TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-5344        TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-5861        TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-5868        TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6164        TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6168        TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6172        TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6529        TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6932        TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-F4-6809        TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6293        TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6315        TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6586        TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR11H12 MUTATED        1      1      1      0
  OR11H12 WILD-TYPE     99     71     71    121
D1402V7, multiclass
        clus
vv       OR11H12 MUTATED OR11H12 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               1                71
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR11H12 MUTATED        0      2      1      0      0
  OR11H12 WILD-TYPE     59     73     73    119     38
D1402V8, multiclass
        clus
vv       OR11H12 MUTATED OR11H12 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               1                73
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR11H12 MUTATED        1      2      0      0      0
  OR11H12 WILD-TYPE     50     74     61     71     95
D1402V9, multiclass
        clus
vv       OR11H12 MUTATED OR11H12 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR11H12 MUTATED        3      0      0      0      0      0      0      0
  OR11H12 WILD-TYPE     66     48     39     16     53     20     21     38
                   vv
clus                CLUS_9
  OR11H12 MUTATED        0
  OR11H12 WILD-TYPE     50
D1402V10, multiclass
        clus
vv       OR11H12 MUTATED OR11H12 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR11H12 MUTATED        0      0      1      0      0      0
  OR11H12 WILD-TYPE     13     16     13     11     11      9
D1402V11, multiclass
[1] "Remove cluster labels:" "OR11H12 MUTATED"       
clus
  OR11H12 MUTATED OR11H12 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6625 
"OR11H12 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR11H12 MUTATED        0      0      0      0      0      0      1      0
  OR11H12 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  OR11H12 MUTATED        0
  OR11H12 WILD-TYPE      5
D1402V12, multiclass
[1] "Remove cluster labels:" "OR11H12 MUTATED"       
clus
  OR11H12 MUTATED OR11H12 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" "OR11H12 WILD-TYPE" 
       TCGA-G4-6625 
"OR11H12 WILD-TYPE" 

Clustering(1403) Variable = MMAA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMAA MUTATED        0      0      0      1      0
  MMAA WILD-TYPE     32     18     46     26     23
D1403V1, multiclass
[1] "Remove cluster labels:" "MMAA MUTATED"          
clus
  MMAA MUTATED MMAA WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AY-4071 
"MMAA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMAA MUTATED        1      0      0
  MMAA WILD-TYPE     42     67     36
D1403V2, multiclass
[1] "Remove cluster labels:" "MMAA MUTATED"          
clus
  MMAA MUTATED MMAA WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" "MMAA WILD-TYPE" 
    TCGA-AY-4071 
"MMAA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMAA MUTATED        2      2      5
  MMAA WILD-TYPE     40    171    142
D1403V3, multiclass
        clus
vv       MMAA MUTATED MMAA WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2            171
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMAA MUTATED        5      2      1
  MMAA WILD-TYPE     57     71     74
D1403V4, multiclass
        clus
vv       MMAA MUTATED MMAA WILD-TYPE
  CLUS_1            5             57
  CLUS_2            2             71
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MMAA MUTATED        3      1      4
  MMAA WILD-TYPE     67    119     96
D1403V5, multiclass
        clus
vv       MMAA MUTATED MMAA WILD-TYPE
  CLUS_1            3             67
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MMAA MUTATED        2      0      0      0      1      2      1      1      1
  MMAA WILD-TYPE     39     26     30     29     38     67     19     13     21
D1403V6, multiclass
        clus
vv       MMAA MUTATED MMAA WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MMAA MUTATED        0      3      4      2
  MMAA WILD-TYPE    100     69     68    119
D1403V7, multiclass
        clus
vv       MMAA MUTATED MMAA WILD-TYPE
  CLUS_1            0            100
  CLUS_2            3             69
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMAA MUTATED        3      1      3      1      1
  MMAA WILD-TYPE     56     74     71    118     37
D1403V8, multiclass
        clus
vv       MMAA MUTATED MMAA WILD-TYPE
  CLUS_1            3             56
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MMAA MUTATED        0      2      4      1      1
  MMAA WILD-TYPE     51     74     57     70     94
D1403V9, multiclass
        clus
vv       MMAA MUTATED MMAA WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            4             57
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MMAA MUTATED        2      3      0      1      0      0      0      0      2
  MMAA WILD-TYPE     67     45     39     15     53     20     21     38     48
D1403V10, multiclass
        clus
vv       MMAA MUTATED MMAA WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MMAA MUTATED        0      1      1      0      0      1
  MMAA WILD-TYPE     13     15     13     11     11      8
D1403V11, multiclass
        clus
vv       MMAA MUTATED MMAA WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            0             11
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MMAA MUTATED        1      0      0      0      1      1      0      0      0
  MMAA WILD-TYPE     10      7      7      9      7      6     11      9      5
D1403V12, multiclass
        clus
vv       MMAA MUTATED MMAA WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1404) Variable = CALCOCO2 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CALCOCO2 MUTATED        1      0      0      0      1
  CALCOCO2 WILD-TYPE     31     18     46     27     22
D1404V1, multiclass
[1] "Remove cluster labels:" "CALCOCO2 MUTATED"      
clus
  CALCOCO2 MUTATED CALCOCO2 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00K 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CALCOCO2 MUTATED        1      1      0
  CALCOCO2 WILD-TYPE     42     66     36
D1404V2, multiclass
[1] "Remove cluster labels:" "CALCOCO2 MUTATED"      
clus
  CALCOCO2 MUTATED CALCOCO2 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00K 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CALCOCO2 MUTATED        0      3      4
  CALCOCO2 WILD-TYPE     42    170    143
D1404V3, multiclass
        clus
vv       CALCOCO2 MUTATED CALCOCO2 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3                4                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CALCOCO2 MUTATED        1      1      3
  CALCOCO2 WILD-TYPE     61     72     72
D1404V4, multiclass
        clus
vv       CALCOCO2 MUTATED CALCOCO2 WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                1                 72
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CALCOCO2 MUTATED        2      2      2
  CALCOCO2 WILD-TYPE     68    118     98
D1404V5, multiclass
        clus
vv       CALCOCO2 MUTATED CALCOCO2 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                2                118
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CALCOCO2 MUTATED        3      0      0      2      1      0      0      0
  CALCOCO2 WILD-TYPE     38     26     30     27     38     69     20     14
                    vv
clus                 CLUS_9
  CALCOCO2 MUTATED        0
  CALCOCO2 WILD-TYPE     22
D1404V6, multiclass
        clus
vv       CALCOCO2 MUTATED CALCOCO2 WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                2                 27
  CLUS_5                1                 38
  CLUS_6                0                 69
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CALCOCO2 MUTATED        1      2      2      2
  CALCOCO2 WILD-TYPE     99     70     70    119
D1404V7, multiclass
        clus
vv       CALCOCO2 MUTATED CALCOCO2 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                2                 70
  CLUS_3                2                 70
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CALCOCO2 MUTATED        2      1      2      1      1
  CALCOCO2 WILD-TYPE     57     74     72    118     37
D1404V8, multiclass
        clus
vv       CALCOCO2 MUTATED CALCOCO2 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                1                 74
  CLUS_3                2                 72
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CALCOCO2 MUTATED        1      3      1      0      2
  CALCOCO2 WILD-TYPE     50     73     60     71     93
D1404V9, multiclass
        clus
vv       CALCOCO2 MUTATED CALCOCO2 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                3                 73
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CALCOCO2 MUTATED        2      1      1      1      1      0      0      1
  CALCOCO2 WILD-TYPE     67     47     38     15     52     20     21     37
                    vv
clus                 CLUS_9
  CALCOCO2 MUTATED        0
  CALCOCO2 WILD-TYPE     50
D1404V10, multiclass
        clus
vv       CALCOCO2 MUTATED CALCOCO2 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                1                 47
  CLUS_3                1                 38
  CLUS_4                1                 15
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CALCOCO2 MUTATED        0      0      0      0      0      1
  CALCOCO2 WILD-TYPE     13     16     14     11     11      8
D1404V11, multiclass
[1] "Remove cluster labels:" "CALCOCO2 MUTATED"      
clus
  CALCOCO2 MUTATED CALCOCO2 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-6167         TCGA-CM-6674 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-G4-6628 
"CALCOCO2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CALCOCO2 MUTATED        1      0      0      0      0      0      0      0
  CALCOCO2 WILD-TYPE     10      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  CALCOCO2 MUTATED        0
  CALCOCO2 WILD-TYPE      5
D1404V12, multiclass
[1] "Remove cluster labels:" "CALCOCO2 MUTATED"      
clus
  CALCOCO2 MUTATED CALCOCO2 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-6167         TCGA-CM-6674 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" "CALCOCO2 WILD-TYPE" 
        TCGA-G4-6628 
"CALCOCO2 WILD-TYPE" 

Clustering(1405) Variable = ZNF385B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF385B MUTATED        0      1      0      0      0
  ZNF385B WILD-TYPE     32     17     46     27     23
D1405V1, multiclass
[1] "Remove cluster labels:" "ZNF385B MUTATED"       
clus
  ZNF385B MUTATED ZNF385B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AY-4071 
"ZNF385B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF385B MUTATED        0      1      0
  ZNF385B WILD-TYPE     43     66     36
D1405V2, multiclass
[1] "Remove cluster labels:" "ZNF385B MUTATED"       
clus
  ZNF385B MUTATED ZNF385B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AY-4071 
"ZNF385B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF385B MUTATED        0      1      6
  ZNF385B WILD-TYPE     42    172    141
D1405V3, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF385B MUTATED        2      0      4
  ZNF385B WILD-TYPE     60     73     71
D1405V4, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF385B MUTATED        0      3      3
  ZNF385B WILD-TYPE     70    117     97
D1405V5, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF385B MUTATED        0      2      0      0      0      3      1      0
  ZNF385B WILD-TYPE     41     24     30     29     39     66     19     14
                   vv
clus                CLUS_9
  ZNF385B MUTATED        0
  ZNF385B WILD-TYPE     22
D1405V6, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               0                41
  CLUS_2               2                24
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF385B MUTATED        1      3      2      1
  ZNF385B WILD-TYPE     99     69     70    120
D1405V7, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF385B MUTATED        1      3      2      1      0
  ZNF385B WILD-TYPE     58     72     72    118     38
D1405V8, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               1                58
  CLUS_2               3                72
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF385B MUTATED        2      3      0      1      1
  ZNF385B WILD-TYPE     49     73     61     70     94
D1405V9, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               2                49
  CLUS_2               3                73
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF385B MUTATED        2      1      1      0      1      0      0      0
  ZNF385B WILD-TYPE     67     47     38     16     52     20     21     38
                   vv
clus                CLUS_9
  ZNF385B MUTATED        2
  ZNF385B WILD-TYPE     48
D1405V10, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF385B MUTATED        0      0      0      0      0      0
  ZNF385B WILD-TYPE     13     16     14     11     11      9
D1405V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF385B MUTATED        0      0      0      0      0      0      0      0
  ZNF385B WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  ZNF385B MUTATED        0
  ZNF385B WILD-TYPE      5
D1405V12, multiclass

Clustering(1406) Variable = SUPT3H MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SUPT3H MUTATED        3      0      0      1      0
  SUPT3H WILD-TYPE     29     18     46     26     23
D1406V1, multiclass
        clus
vv       SUPT3H MUTATED SUPT3H WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SUPT3H MUTATED        2      1      1
  SUPT3H WILD-TYPE     41     66     35
D1406V2, multiclass
        clus
vv       SUPT3H MUTATED SUPT3H WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SUPT3H MUTATED        0      3      8
  SUPT3H WILD-TYPE     42    170    139
D1406V3, multiclass
        clus
vv       SUPT3H MUTATED SUPT3H WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SUPT3H MUTATED        2      2      3
  SUPT3H WILD-TYPE     60     71     72
D1406V4, multiclass
        clus
vv       SUPT3H MUTATED SUPT3H WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SUPT3H MUTATED        0      6      3
  SUPT3H WILD-TYPE     70    114     97
D1406V5, multiclass
        clus
vv       SUPT3H MUTATED SUPT3H WILD-TYPE
  CLUS_1              0               70
  CLUS_2              6              114
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SUPT3H MUTATED        2      2      1      1      0      2      1      0
  SUPT3H WILD-TYPE     39     24     29     28     39     67     19     14
                  vv
clus               CLUS_9
  SUPT3H MUTATED        0
  SUPT3H WILD-TYPE     22
D1406V6, multiclass
        clus
vv       SUPT3H MUTATED SUPT3H WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SUPT3H MUTATED        2      2      2      5
  SUPT3H WILD-TYPE     98     70     70    116
D1406V7, multiclass
        clus
vv       SUPT3H MUTATED SUPT3H WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SUPT3H MUTATED        2      1      3      3      2
  SUPT3H WILD-TYPE     57     74     71    116     36
D1406V8, multiclass
        clus
vv       SUPT3H MUTATED SUPT3H WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SUPT3H MUTATED        2      3      1      1      4
  SUPT3H WILD-TYPE     49     73     60     70     91
D1406V9, multiclass
        clus
vv       SUPT3H MUTATED SUPT3H WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SUPT3H MUTATED        0      3      0      1      2      2      0      2
  SUPT3H WILD-TYPE     69     45     39     15     51     18     21     36
                  vv
clus               CLUS_9
  SUPT3H MUTATED        1
  SUPT3H WILD-TYPE     49
D1406V10, multiclass
        clus
vv       SUPT3H MUTATED SUPT3H WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SUPT3H MUTATED        0      1      1      0      0      0
  SUPT3H WILD-TYPE     13     15     13     11     11      9
D1406V11, multiclass
[1] "Remove cluster labels:" "SUPT3H MUTATED"        
clus
  SUPT3H MUTATED SUPT3H WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CK-5916 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6676 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SUPT3H MUTATED        0      0      1      0      0      1      0      0
  SUPT3H WILD-TYPE     11      7      6      9      8      6     11      9
                  vv
clus               CLUS_9
  SUPT3H MUTATED        0
  SUPT3H WILD-TYPE      5
D1406V12, multiclass
[1] "Remove cluster labels:" "SUPT3H MUTATED"        
clus
  SUPT3H MUTATED SUPT3H WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CK-5916 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6676 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" "SUPT3H WILD-TYPE" 

Clustering(1407) Variable = FMO5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FMO5 MUTATED        0      0      0      1      0
  FMO5 WILD-TYPE     32     18     46     26     23
D1407V1, multiclass
[1] "Remove cluster labels:" "FMO5 MUTATED"          
clus
  FMO5 MUTATED FMO5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A01K     TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A02F 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AY-4071 
"FMO5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMO5 MUTATED        0      1      0
  FMO5 WILD-TYPE     43     66     36
D1407V2, multiclass
[1] "Remove cluster labels:" "FMO5 MUTATED"          
clus
  FMO5 MUTATED FMO5 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A01K     TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A02F 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" "FMO5 WILD-TYPE" 
    TCGA-AY-4071 
"FMO5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMO5 MUTATED        1      4      5
  FMO5 WILD-TYPE     41    169    142
D1407V3, multiclass
        clus
vv       FMO5 MUTATED FMO5 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMO5 MUTATED        4      3      2
  FMO5 WILD-TYPE     58     70     73
D1407V4, multiclass
        clus
vv       FMO5 MUTATED FMO5 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMO5 MUTATED        1      3      5
  FMO5 WILD-TYPE     69    117     95
D1407V5, multiclass
        clus
vv       FMO5 MUTATED FMO5 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FMO5 MUTATED        1      0      2      1      0      3      1      1      0
  FMO5 WILD-TYPE     40     26     28     28     39     66     19     13     22
D1407V6, multiclass
        clus
vv       FMO5 MUTATED FMO5 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FMO5 MUTATED        2      2      5      1
  FMO5 WILD-TYPE     98     70     67    120
D1407V7, multiclass
        clus
vv       FMO5 MUTATED FMO5 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            5             67
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FMO5 MUTATED        3      1      5      1      0
  FMO5 WILD-TYPE     56     74     69    118     38
D1407V8, multiclass
        clus
vv       FMO5 MUTATED FMO5 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FMO5 MUTATED        1      5      3      0      1
  FMO5 WILD-TYPE     50     71     58     71     94
D1407V9, multiclass
        clus
vv       FMO5 MUTATED FMO5 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FMO5 MUTATED        3      6      0      0      0      0      0      1      0
  FMO5 WILD-TYPE     66     42     39     16     53     20     21     37     50
D1407V10, multiclass
        clus
vv       FMO5 MUTATED FMO5 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            6             42
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FMO5 MUTATED        1      0      1      1      3      0
  FMO5 WILD-TYPE     12     16     13     10      8      9
D1407V11, multiclass
        clus
vv       FMO5 MUTATED FMO5 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FMO5 MUTATED        0      0      2      0      1      1      2      0      0
  FMO5 WILD-TYPE     11      7      5      9      7      6      9      9      5
D1407V12, multiclass
        clus
vv       FMO5 MUTATED FMO5 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            2              5
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1408) Variable = CHRM3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHRM3 MUTATED        0      0      0      2      0
  CHRM3 WILD-TYPE     32     18     46     25     23
D1408V1, multiclass
[1] "Remove cluster labels:" "CHRM3 MUTATED"         
clus
  CHRM3 MUTATED CHRM3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRM3 MUTATED        2      0      0
  CHRM3 WILD-TYPE     41     67     36
D1408V2, multiclass
[1] "Remove cluster labels:" "CHRM3 MUTATED"         
clus
  CHRM3 MUTATED CHRM3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" "CHRM3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRM3 MUTATED        0      5      8
  CHRM3 WILD-TYPE     42    168    139
D1408V3, multiclass
        clus
vv       CHRM3 MUTATED CHRM3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRM3 MUTATED        3      4      3
  CHRM3 WILD-TYPE     59     69     72
D1408V4, multiclass
        clus
vv       CHRM3 MUTATED CHRM3 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRM3 MUTATED        1      6      5
  CHRM3 WILD-TYPE     69    114     95
D1408V5, multiclass
        clus
vv       CHRM3 MUTATED CHRM3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHRM3 MUTATED        4      0      1      1      1      2      2      1
  CHRM3 WILD-TYPE     37     26     29     28     38     67     18     13
                 vv
clus              CLUS_9
  CHRM3 MUTATED        0
  CHRM3 WILD-TYPE     22
D1408V6, multiclass
        clus
vv       CHRM3 MUTATED CHRM3 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHRM3 MUTATED        1      3      6      3
  CHRM3 WILD-TYPE     99     69     66    118
D1408V7, multiclass
        clus
vv       CHRM3 MUTATED CHRM3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             6              66
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHRM3 MUTATED        4      1      5      0      3
  CHRM3 WILD-TYPE     55     74     69    119     35
D1408V8, multiclass
        clus
vv       CHRM3 MUTATED CHRM3 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHRM3 MUTATED        2      4      3      1      2
  CHRM3 WILD-TYPE     49     72     58     70     93
D1408V9, multiclass
        clus
vv       CHRM3 MUTATED CHRM3 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHRM3 MUTATED        2      4      1      1      1      1      0      2
  CHRM3 WILD-TYPE     67     44     38     15     52     19     21     36
                 vv
clus              CLUS_9
  CHRM3 MUTATED        0
  CHRM3 WILD-TYPE     50
D1408V10, multiclass
        clus
vv       CHRM3 MUTATED CHRM3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHRM3 MUTATED        0      0      0      1      2      1
  CHRM3 WILD-TYPE     13     16     14     10      9      8
D1408V11, multiclass
        clus
vv       CHRM3 MUTATED CHRM3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHRM3 MUTATED        1      0      1      0      1      0      1      0
  CHRM3 WILD-TYPE     10      7      6      9      7      7     10      9
                 vv
clus              CLUS_9
  CHRM3 MUTATED        0
  CHRM3 WILD-TYPE      5
D1408V12, multiclass
        clus
vv       CHRM3 MUTATED CHRM3 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1409) Variable = SYT2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYT2 MUTATED        0      0      0      2      0
  SYT2 WILD-TYPE     32     18     46     25     23
D1409V1, multiclass
[1] "Remove cluster labels:" "SYT2 MUTATED"          
clus
  SYT2 MUTATED SYT2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SYT2 MUTATED        1      1      0
  SYT2 WILD-TYPE     42     66     36
D1409V2, multiclass
[1] "Remove cluster labels:" "SYT2 MUTATED"          
clus
  SYT2 MUTATED SYT2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SYT2 MUTATED        1      3      4
  SYT2 WILD-TYPE     41    170    143
D1409V3, multiclass
        clus
vv       SYT2 MUTATED SYT2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SYT2 MUTATED        1      1      4
  SYT2 WILD-TYPE     61     72     71
D1409V4, multiclass
        clus
vv       SYT2 MUTATED SYT2 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SYT2 MUTATED        0      4      3
  SYT2 WILD-TYPE     70    116     97
D1409V5, multiclass
        clus
vv       SYT2 MUTATED SYT2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SYT2 MUTATED        0      0      1      2      0      3      0      0      1
  SYT2 WILD-TYPE     41     26     29     27     39     66     20     14     21
D1409V6, multiclass
        clus
vv       SYT2 MUTATED SYT2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SYT2 MUTATED        0      4      1      3
  SYT2 WILD-TYPE    100     68     71    118
D1409V7, multiclass
        clus
vv       SYT2 MUTATED SYT2 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYT2 MUTATED        0      1      4      2      1
  SYT2 WILD-TYPE     59     74     70    117     37
D1409V8, multiclass
        clus
vv       SYT2 MUTATED SYT2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYT2 MUTATED        3      3      0      0      1
  SYT2 WILD-TYPE     48     73     61     71     94
D1409V9, multiclass
        clus
vv       SYT2 MUTATED SYT2 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SYT2 MUTATED        0      0      0      2      2      3      0      0      0
  SYT2 WILD-TYPE     69     48     39     14     51     17     21     38     50
D1409V10, multiclass
        clus
vv       SYT2 MUTATED SYT2 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            3             17
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SYT2 MUTATED        0      0      0      0      1      0
  SYT2 WILD-TYPE     13     16     14     11     10      9
D1409V11, multiclass
[1] "Remove cluster labels:" "SYT2 MUTATED"          
clus
  SYT2 MUTATED SYT2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-G4-6628 
"SYT2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SYT2 MUTATED        0      0      0      1      0      0      0      0      0
  SYT2 WILD-TYPE     11      7      7      8      8      7     11      9      5
D1409V12, multiclass
[1] "Remove cluster labels:" "SYT2 MUTATED"          
clus
  SYT2 MUTATED SYT2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" "SYT2 WILD-TYPE" 
    TCGA-G4-6628 
"SYT2 WILD-TYPE" 

Clustering(1410) Variable = NCL MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCL MUTATED        1      0      0      1      0
  NCL WILD-TYPE     31     18     46     26     23
D1410V1, multiclass
[1] "Remove cluster labels:" "NCL MUTATED"           
clus
  NCL MUTATED NCL WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00O    TCGA-AA-A00Q    TCGA-AA-A00R 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NCL MUTATED        2      0      0
  NCL WILD-TYPE     41     67     36
D1410V2, multiclass
[1] "Remove cluster labels:" "NCL MUTATED"           
clus
  NCL MUTATED NCL WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00O    TCGA-AA-A00Q    TCGA-AA-A00R 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" "NCL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NCL MUTATED        1      3      6
  NCL WILD-TYPE     41    170    141
D1410V3, multiclass
        clus
vv       NCL MUTATED NCL WILD-TYPE
  CLUS_1           1            41
  CLUS_2           3           170
  CLUS_3           6           141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NCL MUTATED        2      4      2
  NCL WILD-TYPE     60     69     73
D1410V4, multiclass
        clus
vv       NCL MUTATED NCL WILD-TYPE
  CLUS_1           2            60
  CLUS_2           4            69
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NCL MUTATED        1      3      3
  NCL WILD-TYPE     69    117     97
D1410V5, multiclass
        clus
vv       NCL MUTATED NCL WILD-TYPE
  CLUS_1           1            69
  CLUS_2           3           117
  CLUS_3           3            97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NCL MUTATED        0      1      1      0      3      2      0      0      0
  NCL WILD-TYPE     41     25     29     29     36     67     20     14     22
D1410V6, multiclass
        clus
vv       NCL MUTATED NCL WILD-TYPE
  CLUS_1           0            41
  CLUS_2           1            25
  CLUS_3           1            29
  CLUS_4           0            29
  CLUS_5           3            36
  CLUS_6           2            67
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NCL MUTATED        4      1      2      3
  NCL WILD-TYPE     96     71     70    118
D1410V7, multiclass
        clus
vv       NCL MUTATED NCL WILD-TYPE
  CLUS_1           4            96
  CLUS_2           1            71
  CLUS_3           2            70
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCL MUTATED        0      4      3      1      2
  NCL WILD-TYPE     59     71     71    118     36
D1410V8, multiclass
        clus
vv       NCL MUTATED NCL WILD-TYPE
  CLUS_1           0            59
  CLUS_2           4            71
  CLUS_3           3            71
  CLUS_4           1           118
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCL MUTATED        1      4      1      2      1
  NCL WILD-TYPE     50     72     60     69     94
D1410V9, multiclass
        clus
vv       NCL MUTATED NCL WILD-TYPE
  CLUS_1           1            50
  CLUS_2           4            72
  CLUS_3           1            60
  CLUS_4           2            69
  CLUS_5           1            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NCL MUTATED        3      1      0      1      3      0      0      0      1
  NCL WILD-TYPE     66     47     39     15     50     20     21     38     49
D1410V10, multiclass
        clus
vv       NCL MUTATED NCL WILD-TYPE
  CLUS_1           3            66
  CLUS_2           1            47
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           3            50
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NCL MUTATED        0      0      2      0      1      0
  NCL WILD-TYPE     13     16     12     11     10      9
D1410V11, multiclass
        clus
vv       NCL MUTATED NCL WILD-TYPE
  CLUS_1           0            13
  CLUS_2           0            16
  CLUS_3           2            12
  CLUS_4           0            11
  CLUS_5           1            10
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NCL MUTATED        0      0      0      1      1      1      0      0      0
  NCL WILD-TYPE     11      7      7      8      7      6     11      9      5
D1410V12, multiclass
        clus
vv       NCL MUTATED NCL WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           1             8
  CLUS_5           1             7
  CLUS_6           1             6
  CLUS_7           0            11
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1411) Variable = ZNF462 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF462 MUTATED        5      0      1      1      0
  ZNF462 WILD-TYPE     27     18     45     26     23
D1411V1, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF462 MUTATED        4      1      2
  ZNF462 WILD-TYPE     39     66     34
D1411V2, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF462 MUTATED        3      4     19
  ZNF462 WILD-TYPE     39    169    128
D1411V3, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              4              169
  CLUS_3             19              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF462 MUTATED        6      4      7
  ZNF462 WILD-TYPE     56     69     68
D1411V4, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              4               69
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF462 MUTATED        3      6     11
  ZNF462 WILD-TYPE     67    114     89
D1411V5, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              6              114
  CLUS_3             11               89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF462 MUTATED        3      1      2      2      1     10      1      0
  ZNF462 WILD-TYPE     38     25     28     27     38     59     19     14
                  vv
clus               CLUS_9
  ZNF462 MUTATED        0
  ZNF462 WILD-TYPE     22
D1411V6, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6             10               59
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF462 MUTATED        4      8      7      7
  ZNF462 WILD-TYPE     96     64     65    114
D1411V7, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              8               64
  CLUS_3              7               65
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF462 MUTATED        2      4     12      4      4
  ZNF462 WILD-TYPE     57     71     62    115     34
D1411V8, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3             12               62
  CLUS_4              4              115
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF462 MUTATED        2     10      4      3      6
  ZNF462 WILD-TYPE     49     66     57     68     89
D1411V9, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              2               49
  CLUS_2             10               66
  CLUS_3              4               57
  CLUS_4              3               68
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF462 MUTATED        3      6      0      5      4      1      3      2
  ZNF462 WILD-TYPE     66     42     39     11     49     19     18     36
                  vv
clus               CLUS_9
  ZNF462 MUTATED        1
  ZNF462 WILD-TYPE     49
D1411V10, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              6               42
  CLUS_3              0               39
  CLUS_4              5               11
  CLUS_5              4               49
  CLUS_6              1               19
  CLUS_7              3               18
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF462 MUTATED        1      2      0      0      2      1
  ZNF462 WILD-TYPE     12     14     14     11      9      8
D1411V11, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF462 MUTATED        1      0      0      3      0      1      1      0
  ZNF462 WILD-TYPE     10      7      7      6      8      6     10      9
                  vv
clus               CLUS_9
  ZNF462 MUTATED        0
  ZNF462 WILD-TYPE      5
D1411V12, multiclass
        clus
vv       ZNF462 MUTATED ZNF462 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              3                6
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1412) Variable = SIX5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIX5 MUTATED        2      0      0      0      0
  SIX5 WILD-TYPE     30     18     46     27     23
D1412V1, multiclass
[1] "Remove cluster labels:" "SIX5 MUTATED"          
clus
  SIX5 MUTATED SIX5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3968 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SIX5 MUTATED        2      0      0
  SIX5 WILD-TYPE     41     67     36
D1412V2, multiclass
[1] "Remove cluster labels:" "SIX5 MUTATED"          
clus
  SIX5 MUTATED SIX5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3968 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SIX5 MUTATED        0      0      5
  SIX5 WILD-TYPE     42    173    142
D1412V3, multiclass
        clus
vv       SIX5 MUTATED SIX5 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SIX5 MUTATED        0      0      3
  SIX5 WILD-TYPE     62     73     72
D1412V4, multiclass
        clus
vv       SIX5 MUTATED SIX5 WILD-TYPE
  CLUS_1            0             62
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SIX5 MUTATED        2      0      2
  SIX5 WILD-TYPE     68    120     98
D1412V5, multiclass
        clus
vv       SIX5 MUTATED SIX5 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            0            120
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SIX5 MUTATED        1      0      0      0      1      1      1      0      0
  SIX5 WILD-TYPE     40     26     30     29     38     68     19     14     22
D1412V6, multiclass
        clus
vv       SIX5 MUTATED SIX5 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SIX5 MUTATED        0      1      2      2
  SIX5 WILD-TYPE    100     71     70    119
D1412V7, multiclass
        clus
vv       SIX5 MUTATED SIX5 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIX5 MUTATED        0      0      3      0      2
  SIX5 WILD-TYPE     59     75     71    119     36
D1412V8, multiclass
        clus
vv       SIX5 MUTATED SIX5 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIX5 MUTATED        0      3      0      0      2
  SIX5 WILD-TYPE     51     73     61     71     93
D1412V9, multiclass
        clus
vv       SIX5 MUTATED SIX5 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SIX5 MUTATED        1      1      0      1      0      0      0      2      0
  SIX5 WILD-TYPE     68     47     39     15     53     20     21     36     50
D1412V10, multiclass
        clus
vv       SIX5 MUTATED SIX5 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SIX5 MUTATED        0      1      0      0      1      0
  SIX5 WILD-TYPE     13     15     14     11     10      9
D1412V11, multiclass
[1] "Remove cluster labels:" "SIX5 MUTATED"          
clus
  SIX5 MUTATED SIX5 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SIX5 MUTATED        0      0      0      0      1      0      1      0      0
  SIX5 WILD-TYPE     11      7      7      9      7      7     10      9      5
D1412V12, multiclass
[1] "Remove cluster labels:" "SIX5 MUTATED"          
clus
  SIX5 MUTATED SIX5 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" "SIX5 WILD-TYPE" 

Clustering(1413) Variable = C9ORF125 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF125 MUTATED        4      0      0      0      0
  C9ORF125 WILD-TYPE     28     18     46     27     23
D1413V1, multiclass
        clus
vv       C9ORF125 MUTATED C9ORF125 WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                0                 27
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF125 MUTATED        4      0      0
  C9ORF125 WILD-TYPE     39     67     36
D1413V2, multiclass
        clus
vv       C9ORF125 MUTATED C9ORF125 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                0                 67
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF125 MUTATED        1      0     11
  C9ORF125 WILD-TYPE     41    173    136
D1413V3, multiclass
        clus
vv       C9ORF125 MUTATED C9ORF125 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                173
  CLUS_3               11                136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF125 MUTATED        2      0      6
  C9ORF125 WILD-TYPE     60     73     69
D1413V4, multiclass
        clus
vv       C9ORF125 MUTATED C9ORF125 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                0                 73
  CLUS_3                6                 69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF125 MUTATED        1      3      6
  C9ORF125 WILD-TYPE     69    117     94
D1413V5, multiclass
        clus
vv       C9ORF125 MUTATED C9ORF125 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                3                117
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF125 MUTATED        0      0      1      2      2      5      0      0
  C9ORF125 WILD-TYPE     41     26     29     27     37     64     20     14
                    vv
clus                 CLUS_9
  C9ORF125 MUTATED        0
  C9ORF125 WILD-TYPE     22
D1413V6, multiclass
        clus
vv       C9ORF125 MUTATED C9ORF125 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                2                 27
  CLUS_5                2                 37
  CLUS_6                5                 64
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C9ORF125 MUTATED        0      6      2      4
  C9ORF125 WILD-TYPE    100     66     70    117
D1413V7, multiclass
        clus
vv       C9ORF125 MUTATED C9ORF125 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                6                 66
  CLUS_3                2                 70
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF125 MUTATED        0      1      7      1      3
  C9ORF125 WILD-TYPE     59     74     67    118     35
D1413V8, multiclass
        clus
vv       C9ORF125 MUTATED C9ORF125 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                7                 67
  CLUS_4                1                118
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF125 MUTATED        0      4      2      0      4
  C9ORF125 WILD-TYPE     51     72     59     71     91
D1413V9, multiclass
        clus
vv       C9ORF125 MUTATED C9ORF125 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                4                 72
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF125 MUTATED        1      2      0      3      0      0      0      3
  C9ORF125 WILD-TYPE     68     46     39     13     53     20     21     35
                    vv
clus                 CLUS_9
  C9ORF125 MUTATED        1
  C9ORF125 WILD-TYPE     49
D1413V10, multiclass
        clus
vv       C9ORF125 MUTATED C9ORF125 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                3                 13
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                3                 35
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C9ORF125 MUTATED        0      0      0      0      1      0
  C9ORF125 WILD-TYPE     13     16     14     11     10      9
D1413V11, multiclass
[1] "Remove cluster labels:" "C9ORF125 MUTATED"      
clus
  C9ORF125 MUTATED C9ORF125 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-G4-6628 
"C9ORF125 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF125 MUTATED        0      0      0      1      0      0      0      0
  C9ORF125 WILD-TYPE     11      7      7      8      8      7     11      9
                    vv
clus                 CLUS_9
  C9ORF125 MUTATED        0
  C9ORF125 WILD-TYPE      5
D1413V12, multiclass
[1] "Remove cluster labels:" "C9ORF125 MUTATED"      
clus
  C9ORF125 MUTATED C9ORF125 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" "C9ORF125 WILD-TYPE" 
        TCGA-G4-6628 
"C9ORF125 WILD-TYPE" 

Clustering(1414) Variable = AMBRA1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMBRA1 MUTATED        2      0      0      2      0
  AMBRA1 WILD-TYPE     30     18     46     25     23
D1414V1, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AMBRA1 MUTATED        3      1      0
  AMBRA1 WILD-TYPE     40     66     36
D1414V2, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AMBRA1 MUTATED        1      4     13
  AMBRA1 WILD-TYPE     41    169    134
D1414V3, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AMBRA1 MUTATED        5      4      5
  AMBRA1 WILD-TYPE     57     69     70
D1414V4, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              4               69
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AMBRA1 MUTATED        2      5     10
  AMBRA1 WILD-TYPE     68    115     90
D1414V5, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AMBRA1 MUTATED        2      0      1      2      2      8      2      0
  AMBRA1 WILD-TYPE     39     26     29     27     37     61     18     14
                  vv
clus               CLUS_9
  AMBRA1 MUTATED        0
  AMBRA1 WILD-TYPE     22
D1414V6, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              8               61
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMBRA1 MUTATED        3      6      6      3
  AMBRA1 WILD-TYPE     97     66     66    118
D1414V7, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              6               66
  CLUS_3              6               66
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMBRA1 MUTATED        3      3      8      1      3
  AMBRA1 WILD-TYPE     56     72     66    118     35
D1414V8, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3              8               66
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMBRA1 MUTATED        2      8      1      1      4
  AMBRA1 WILD-TYPE     49     68     60     70     91
D1414V9, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              8               68
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AMBRA1 MUTATED        1      7      0      2      2      1      0      2
  AMBRA1 WILD-TYPE     68     41     39     14     51     19     21     36
                  vv
clus               CLUS_9
  AMBRA1 MUTATED        1
  AMBRA1 WILD-TYPE     49
D1414V10, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              7               41
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMBRA1 MUTATED        0      0      1      3      1      0
  AMBRA1 WILD-TYPE     13     16     13      8     10      9
D1414V11, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              3                8
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AMBRA1 MUTATED        0      0      2      0      0      1      2      0
  AMBRA1 WILD-TYPE     11      7      5      9      8      6      9      9
                  vv
clus               CLUS_9
  AMBRA1 MUTATED        0
  AMBRA1 WILD-TYPE      5
D1414V12, multiclass
        clus
vv       AMBRA1 MUTATED AMBRA1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              2                5
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1415) Variable = ANAPC16 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANAPC16 MUTATED        0      0      0      1      0
  ANAPC16 WILD-TYPE     32     18     46     26     23
D1415V1, multiclass
[1] "Remove cluster labels:" "ANAPC16 MUTATED"       
clus
  ANAPC16 MUTATED ANAPC16 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AY-4071 
"ANAPC16 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANAPC16 MUTATED        0      1      0
  ANAPC16 WILD-TYPE     43     66     36
D1415V2, multiclass
[1] "Remove cluster labels:" "ANAPC16 MUTATED"       
clus
  ANAPC16 MUTATED ANAPC16 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AY-4071 
"ANAPC16 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANAPC16 MUTATED        0      2      1
  ANAPC16 WILD-TYPE     42    171    146
D1415V3, multiclass
        clus
vv       ANAPC16 MUTATED ANAPC16 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               1               146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANAPC16 MUTATED        1      1      0
  ANAPC16 WILD-TYPE     61     72     75
D1415V4, multiclass
[1] "Remove cluster labels:" "ANAPC16 MUTATED"       
clus
  ANAPC16 MUTATED ANAPC16 WILD-TYPE 
                2               208 
       TCGA-A6-2671        TCGA-A6-2677        TCGA-A6-3809        TCGA-A6-3810 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-4105        TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137        TCGA-A6-6138 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AA-3655        TCGA-AA-3660        TCGA-AA-3662 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3663        TCGA-AA-3697        TCGA-AA-3712        TCGA-AA-3713 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6888        TCGA-AD-6889 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AD-6890        TCGA-AD-6895        TCGA-AD-6899        TCGA-AD-6901 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AU-3779 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AU-6004        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4681 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-4682        TCGA-AZ-5403        TCGA-AZ-5407        TCGA-AZ-6598 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-6599        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-6606        TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CA-5255        TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-4947        TCGA-CK-4948        TCGA-CK-4950        TCGA-CK-4952 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-5912        TCGA-CK-5913        TCGA-CK-5914        TCGA-CK-5915 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6529        TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6535        TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6539        TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6920        TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6926        TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6929 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932        TCGA-D5-7000 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28C 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G        TCGA-DM-A28H 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A28K        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANAPC16 MUTATED        1      1      1
  ANAPC16 WILD-TYPE     69    119     99
D1415V5, multiclass
        clus
vv       ANAPC16 MUTATED ANAPC16 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANAPC16 MUTATED        1      0      1      0      0      1      0      0
  ANAPC16 WILD-TYPE     40     26     29     29     39     68     20     14
                   vv
clus                CLUS_9
  ANAPC16 MUTATED        0
  ANAPC16 WILD-TYPE     22
D1415V6, multiclass
        clus
vv       ANAPC16 MUTATED ANAPC16 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANAPC16 MUTATED        0      1      1      1
  ANAPC16 WILD-TYPE    100     71     71    120
D1415V7, multiclass
        clus
vv       ANAPC16 MUTATED ANAPC16 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               1                71
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANAPC16 MUTATED        1      1      0      1      0
  ANAPC16 WILD-TYPE     58     74     74    118     38
D1415V8, multiclass
        clus
vv       ANAPC16 MUTATED ANAPC16 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               0                74
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANAPC16 MUTATED        1      0      1      0      0
  ANAPC16 WILD-TYPE     50     76     60     71     95
D1415V9, multiclass
[1] "Remove cluster labels:" "ANAPC16 MUTATED"       
clus
  ANAPC16 MUTATED ANAPC16 WILD-TYPE 
                2               352 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-2677        TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-3808        TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-4105 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659        TCGA-A6-5660 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664        TCGA-A6-5665 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-5666        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649        TCGA-A6-6651 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654        TCGA-A6-6780 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3492 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510        TCGA-AA-3511 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517        TCGA-AA-3518 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526        TCGA-AA-3527 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542        TCGA-AA-3543 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549        TCGA-AA-3552 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3556 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561        TCGA-AA-3562 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3655        TCGA-AA-3660        TCGA-AA-3662        TCGA-AA-3663 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667        TCGA-AA-3672 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679        TCGA-AA-3680 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685        TCGA-AA-3688 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3695        TCGA-AA-3696 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3697        TCGA-AA-3710        TCGA-AA-3712        TCGA-AA-3713 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3821 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A00D        TCGA-AA-A00J        TCGA-AA-A00L 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00U        TCGA-AA-A00W 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01G 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A01P        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A01Z        TCGA-AA-A022 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02Y 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AD-6888        TCGA-AD-6889        TCGA-AD-6890        TCGA-AD-6895 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AD-6899        TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AD-6965        TCGA-AU-3779        TCGA-AU-6004        TCGA-AY-4070 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AY-4071        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4681 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-4682        TCGA-AZ-5403        TCGA-AZ-5407        TCGA-AZ-6598 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-6599        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-6606        TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CA-5255        TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-4947        TCGA-CK-4948        TCGA-CK-4950        TCGA-CK-4952 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-5912        TCGA-CK-5913        TCGA-CK-5914        TCGA-CK-5915 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6529        TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6535        TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6539        TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6920        TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6926        TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6929 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932        TCGA-D5-7000 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28C 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G        TCGA-DM-A28H 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A28K        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANAPC16 MUTATED        1      0      0      0      0      1      0      0
  ANAPC16 WILD-TYPE     68     48     39     16     53     19     21     38
                   vv
clus                CLUS_9
  ANAPC16 MUTATED        0
  ANAPC16 WILD-TYPE     50
D1415V10, multiclass
[1] "Remove cluster labels:" "ANAPC16 MUTATED"       
clus
  ANAPC16 MUTATED ANAPC16 WILD-TYPE 
                2               352 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-2677        TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-3808        TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-4105 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659        TCGA-A6-5660 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664        TCGA-A6-5665 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-5666        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649        TCGA-A6-6651 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654        TCGA-A6-6780 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3492 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510        TCGA-AA-3511 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517        TCGA-AA-3518 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526        TCGA-AA-3527 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542        TCGA-AA-3543 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549        TCGA-AA-3552 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3556 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561        TCGA-AA-3562 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3655        TCGA-AA-3660        TCGA-AA-3662        TCGA-AA-3663 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667        TCGA-AA-3672 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679        TCGA-AA-3680 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685        TCGA-AA-3688 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3695        TCGA-AA-3696 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3697        TCGA-AA-3710        TCGA-AA-3712        TCGA-AA-3713 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3821 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A00D        TCGA-AA-A00J        TCGA-AA-A00L 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00U        TCGA-AA-A00W 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01G 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A01P        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A01Z        TCGA-AA-A022 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02Y 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AD-6888        TCGA-AD-6889        TCGA-AD-6890        TCGA-AD-6895 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AD-6899        TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AD-6965        TCGA-AU-3779        TCGA-AU-6004        TCGA-AY-4070 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AY-4071        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4681 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-4682        TCGA-AZ-5403        TCGA-AZ-5407        TCGA-AZ-6598 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-6599        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-6606        TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CA-5255        TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-4947        TCGA-CK-4948        TCGA-CK-4950        TCGA-CK-4952 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-5912        TCGA-CK-5913        TCGA-CK-5914        TCGA-CK-5915 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6529        TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6535        TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6539        TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6920        TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6926        TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6929 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932        TCGA-D5-7000 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28C 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G        TCGA-DM-A28H 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A28K        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANAPC16 MUTATED        0      0      1      0      0      0
  ANAPC16 WILD-TYPE     13     16     13     11     11      9
D1415V11, multiclass
[1] "Remove cluster labels:" "ANAPC16 MUTATED"       
clus
  ANAPC16 MUTATED ANAPC16 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6628 
"ANAPC16 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANAPC16 MUTATED        1      0      0      0      0      0      0      0
  ANAPC16 WILD-TYPE     10      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  ANAPC16 MUTATED        0
  ANAPC16 WILD-TYPE      5
D1415V12, multiclass
[1] "Remove cluster labels:" "ANAPC16 MUTATED"       
clus
  ANAPC16 MUTATED ANAPC16 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" "ANAPC16 WILD-TYPE" 
       TCGA-G4-6628 
"ANAPC16 WILD-TYPE" 

Clustering(1416) Variable = SETX MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SETX MUTATED        5      0      1      2      0
  SETX WILD-TYPE     27     18     45     25     23
D1416V1, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SETX MUTATED        5      2      1
  SETX WILD-TYPE     38     65     35
D1416V2, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            5             38
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SETX MUTATED        3      4     18
  SETX WILD-TYPE     39    169    129
D1416V3, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            3             39
  CLUS_2            4            169
  CLUS_3           18            129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SETX MUTATED        5      3      9
  SETX WILD-TYPE     57     70     66
D1416V4, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            5             57
  CLUS_2            3             70
  CLUS_3            9             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SETX MUTATED        3     10      9
  SETX WILD-TYPE     67    110     91
D1416V5, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            3             67
  CLUS_2           10            110
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SETX MUTATED        3      2      3      3      0      5      4      1      1
  SETX WILD-TYPE     38     24     27     26     39     64     16     13     21
D1416V6, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            3             38
  CLUS_2            2             24
  CLUS_3            3             27
  CLUS_4            3             26
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            4             16
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETX MUTATED        1      9      6     10
  SETX WILD-TYPE     99     63     66    111
D1416V7, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            1             99
  CLUS_2            9             63
  CLUS_3            6             66
  CLUS_4           10            111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SETX MUTATED        3      2     11      5      5
  SETX WILD-TYPE     56     73     63    114     33
D1416V8, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3           11             63
  CLUS_4            5            114
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SETX MUTATED        1     10      3      1     10
  SETX WILD-TYPE     50     66     58     70     85
D1416V9, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            1             50
  CLUS_2           10             66
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5           10             85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SETX MUTATED        2      5      0      5      2      2      0      6      3
  SETX WILD-TYPE     67     43     39     11     51     18     21     32     47
D1416V10, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             43
  CLUS_3            0             39
  CLUS_4            5             11
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            6             32
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SETX MUTATED        0      0      0      0      5      1
  SETX WILD-TYPE     13     16     14     11      6      8
D1416V11, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            5              6
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SETX MUTATED        1      0      0      2      1      0      2      0      0
  SETX WILD-TYPE     10      7      7      7      7      7      9      9      5
D1416V12, multiclass
        clus
vv       SETX MUTATED SETX WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1417) Variable = PEBP4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PEBP4 MUTATED        0      0      0      0      0
  PEBP4 WILD-TYPE     32     18     46     27     23
D1417V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PEBP4 MUTATED        0      0      0
  PEBP4 WILD-TYPE     43     67     36
D1417V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PEBP4 MUTATED        0      2      5
  PEBP4 WILD-TYPE     42    171    142
D1417V3, multiclass
        clus
vv       PEBP4 MUTATED PEBP4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PEBP4 MUTATED        1      2      4
  PEBP4 WILD-TYPE     61     71     71
D1417V4, multiclass
        clus
vv       PEBP4 MUTATED PEBP4 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PEBP4 MUTATED        0      3      3
  PEBP4 WILD-TYPE     70    117     97
D1417V5, multiclass
        clus
vv       PEBP4 MUTATED PEBP4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PEBP4 MUTATED        0      0      0      1      0      3      1      0
  PEBP4 WILD-TYPE     41     26     30     28     39     66     19     14
                 vv
clus              CLUS_9
  PEBP4 MUTATED        1
  PEBP4 WILD-TYPE     21
D1417V6, multiclass
        clus
vv       PEBP4 MUTATED PEBP4 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PEBP4 MUTATED        2      4      1      0
  PEBP4 WILD-TYPE     98     68     71    121
D1417V7, multiclass
        clus
vv       PEBP4 MUTATED PEBP4 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PEBP4 MUTATED        0      2      5      0      0
  PEBP4 WILD-TYPE     59     73     69    119     38
D1417V8, multiclass
        clus
vv       PEBP4 MUTATED PEBP4 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PEBP4 MUTATED        2      4      0      1      0
  PEBP4 WILD-TYPE     49     72     61     70     95
D1417V9, multiclass
        clus
vv       PEBP4 MUTATED PEBP4 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PEBP4 MUTATED        1      1      0      3      1      1      0      0
  PEBP4 WILD-TYPE     68     47     39     13     52     19     21     38
                 vv
clus              CLUS_9
  PEBP4 MUTATED        0
  PEBP4 WILD-TYPE     50
D1417V10, multiclass
        clus
vv       PEBP4 MUTATED PEBP4 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PEBP4 MUTATED        1      0      0      0      0      0
  PEBP4 WILD-TYPE     12     16     14     11     11      9
D1417V11, multiclass
[1] "Remove cluster labels:" "PEBP4 MUTATED"         
clus
  PEBP4 MUTATED PEBP4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-G4-6628 
"PEBP4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PEBP4 MUTATED        0      0      0      1      0      0      0      0
  PEBP4 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  PEBP4 MUTATED        0
  PEBP4 WILD-TYPE      5
D1417V12, multiclass
[1] "Remove cluster labels:" "PEBP4 MUTATED"         
clus
  PEBP4 MUTATED PEBP4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625 
"PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" "PEBP4 WILD-TYPE" 
     TCGA-G4-6628 
"PEBP4 WILD-TYPE" 

Clustering(1418) Variable = LEPROTL1 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEPROTL1 MUTATED        1      0      0      1      0
  LEPROTL1 WILD-TYPE     31     18     46     26     23
D1418V1, multiclass
[1] "Remove cluster labels:" "LEPROTL1 MUTATED"      
clus
  LEPROTL1 MUTATED LEPROTL1 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3866 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00K 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  LEPROTL1 MUTATED        2      0      0
  LEPROTL1 WILD-TYPE     41     67     36
D1418V2, multiclass
[1] "Remove cluster labels:" "LEPROTL1 MUTATED"      
clus
  LEPROTL1 MUTATED LEPROTL1 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3866 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00K 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  LEPROTL1 MUTATED        0      0      5
  LEPROTL1 WILD-TYPE     42    173    142
D1418V3, multiclass
        clus
vv       LEPROTL1 MUTATED LEPROTL1 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                5                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  LEPROTL1 MUTATED        2      0      0
  LEPROTL1 WILD-TYPE     60     73     75
D1418V4, multiclass
[1] "Remove cluster labels:" "LEPROTL1 MUTATED"      
clus
  LEPROTL1 MUTATED LEPROTL1 WILD-TYPE 
                 2                208 
        TCGA-A6-2671         TCGA-A6-2677         TCGA-A6-3809 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-3810         TCGA-A6-4105         TCGA-A6-5656 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-5657         TCGA-A6-5659         TCGA-A6-5660 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-5661         TCGA-A6-5662         TCGA-A6-5664 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-5665         TCGA-A6-5666         TCGA-A6-6137 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-6138         TCGA-A6-6141         TCGA-A6-6142 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-6648         TCGA-A6-6649         TCGA-A6-6651 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-6652         TCGA-A6-6653         TCGA-A6-6654 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-6780         TCGA-A6-6781         TCGA-A6-6782 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3489         TCGA-AA-3492         TCGA-AA-3496 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3502         TCGA-AA-3510         TCGA-AA-3511 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3655         TCGA-AA-3660         TCGA-AA-3662 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3663         TCGA-AA-3697         TCGA-AA-3712 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3713         TCGA-AD-5900         TCGA-AD-6548 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AD-6888         TCGA-AD-6889         TCGA-AD-6890 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AD-6895         TCGA-AD-6899         TCGA-AD-6901 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AD-6963         TCGA-AD-6964         TCGA-AD-6965 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AU-3779         TCGA-AU-6004         TCGA-AY-5543 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AY-6196         TCGA-AY-6197         TCGA-AY-6386 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-4315         TCGA-AZ-4323         TCGA-AZ-4616 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-4681         TCGA-AZ-4682         TCGA-AZ-5403 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-5407         TCGA-AZ-6598         TCGA-AZ-6599 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6606         TCGA-AZ-6607 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-6608         TCGA-CA-5254         TCGA-CA-5255 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CA-5796         TCGA-CA-5797         TCGA-CA-6715 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CA-6716         TCGA-CA-6717         TCGA-CA-6718 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-4947         TCGA-CK-4948 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CK-4950         TCGA-CK-4952         TCGA-CK-5912 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CK-5913         TCGA-CK-5914         TCGA-CK-5915 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6746         TCGA-CK-6747 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CK-6751         TCGA-CM-4743 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-4744         TCGA-CM-4746         TCGA-CM-4747 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-4752         TCGA-CM-5341         TCGA-CM-5344 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-5348         TCGA-CM-5349         TCGA-CM-5860 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-5861         TCGA-CM-5862         TCGA-CM-5863 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-5864         TCGA-CM-5868         TCGA-CM-6161 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-6162         TCGA-CM-6163         TCGA-CM-6164 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-6165         TCGA-CM-6166         TCGA-CM-6167 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-6168         TCGA-CM-6169         TCGA-CM-6170 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-6171         TCGA-CM-6172         TCGA-CM-6675 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-5538         TCGA-D5-5539         TCGA-D5-5540 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-5541         TCGA-D5-6529         TCGA-D5-6532 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6535 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-6536         TCGA-D5-6537         TCGA-D5-6538 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-6539         TCGA-D5-6540         TCGA-D5-6541 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-6898         TCGA-D5-6920         TCGA-D5-6922 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-6923         TCGA-D5-6924         TCGA-D5-6926 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-6927         TCGA-D5-6928         TCGA-D5-6929 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-6931         TCGA-D5-6932         TCGA-D5-7000 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A0X9         TCGA-DM-A0XD         TCGA-DM-A0XF 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D4         TCGA-DM-A1D6 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A1D7         TCGA-DM-A1D8         TCGA-DM-A1D9 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A1DA         TCGA-DM-A1DB         TCGA-DM-A1HA 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A1HB         TCGA-DM-A282         TCGA-DM-A285 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A28C         TCGA-DM-A28E         TCGA-DM-A28F 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A28G         TCGA-DM-A28H         TCGA-DM-A28K 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6703         TCGA-F4-6704 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6806         TCGA-F4-6807 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-F4-6808         TCGA-F4-6809         TCGA-F4-6854 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-F4-6855         TCGA-F4-6856         TCGA-G4-6293 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6304 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6307         TCGA-G4-6309 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-G4-6310         TCGA-G4-6315         TCGA-G4-6317 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-G4-6321         TCGA-G4-6323         TCGA-G4-6586 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-G4-6588         TCGA-G4-6625         TCGA-G4-6626 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-G4-6628 
"LEPROTL1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  LEPROTL1 MUTATED        2      1      2
  LEPROTL1 WILD-TYPE     68    119     98
D1418V5, multiclass
        clus
vv       LEPROTL1 MUTATED LEPROTL1 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                1                119
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LEPROTL1 MUTATED        1      1      0      0      1      2      0      0
  LEPROTL1 WILD-TYPE     40     25     30     29     38     67     20     14
                    vv
clus                 CLUS_9
  LEPROTL1 MUTATED        0
  LEPROTL1 WILD-TYPE     22
D1418V6, multiclass
        clus
vv       LEPROTL1 MUTATED LEPROTL1 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                2                 67
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LEPROTL1 MUTATED        0      0      3      2
  LEPROTL1 WILD-TYPE    100     72     69    119
D1418V7, multiclass
        clus
vv       LEPROTL1 MUTATED LEPROTL1 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                0                 72
  CLUS_3                3                 69
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEPROTL1 MUTATED        0      0      3      0      2
  LEPROTL1 WILD-TYPE     59     75     71    119     36
D1418V8, multiclass
        clus
vv       LEPROTL1 MUTATED LEPROTL1 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                3                 71
  CLUS_4                0                119
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LEPROTL1 MUTATED        0      1      1      0      3
  LEPROTL1 WILD-TYPE     51     75     60     71     92
D1418V9, multiclass
        clus
vv       LEPROTL1 MUTATED LEPROTL1 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                1                 75
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LEPROTL1 MUTATED        0      2      0      0      0      0      1      2
  LEPROTL1 WILD-TYPE     69     46     39     16     53     20     20     36
                    vv
clus                 CLUS_9
  LEPROTL1 MUTATED        0
  LEPROTL1 WILD-TYPE     50
D1418V10, multiclass
        clus
vv       LEPROTL1 MUTATED LEPROTL1 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LEPROTL1 MUTATED        0      0      1      0      0      0
  LEPROTL1 WILD-TYPE     13     16     13     11     11      9
D1418V11, multiclass
[1] "Remove cluster labels:" "LEPROTL1 MUTATED"      
clus
  LEPROTL1 MUTATED LEPROTL1 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-G4-6628 
"LEPROTL1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LEPROTL1 MUTATED        0      0      0      0      0      1      0      0
  LEPROTL1 WILD-TYPE     11      7      7      9      8      6     11      9
                    vv
clus                 CLUS_9
  LEPROTL1 MUTATED        0
  LEPROTL1 WILD-TYPE      5
D1418V12, multiclass
[1] "Remove cluster labels:" "LEPROTL1 MUTATED"      
clus
  LEPROTL1 MUTATED LEPROTL1 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" "LEPROTL1 WILD-TYPE" 
        TCGA-G4-6628 
"LEPROTL1 WILD-TYPE" 

Clustering(1419) Variable = MAP7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP7 MUTATED        6      0      0      1      0
  MAP7 WILD-TYPE     26     18     46     26     23
D1419V1, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP7 MUTATED        5      1      1
  MAP7 WILD-TYPE     38     66     35
D1419V2, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP7 MUTATED        0      0     11
  MAP7 WILD-TYPE     42    173    136
D1419V3, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP7 MUTATED        1      0      3
  MAP7 WILD-TYPE     61     73     72
D1419V4, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MAP7 MUTATED        0      3      4
  MAP7 WILD-TYPE     70    117     96
D1419V5, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAP7 MUTATED        0      1      1      0      0      4      0      0      1
  MAP7 WILD-TYPE     41     25     29     29     39     65     20     14     21
D1419V6, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP7 MUTATED        0      3      1      7
  MAP7 WILD-TYPE    100     69     71    114
D1419V7, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            3             69
  CLUS_3            1             71
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP7 MUTATED        0      0      4      2      5
  MAP7 WILD-TYPE     59     75     70    117     33
D1419V8, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAP7 MUTATED        0      4      0      1      5
  MAP7 WILD-TYPE     51     72     61     70     90
D1419V9, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAP7 MUTATED        0      1      0      3      1      1      1      3      0
  MAP7 WILD-TYPE     69     47     39     13     52     19     20     35     50
D1419V10, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAP7 MUTATED        0      0      0      0      3      0
  MAP7 WILD-TYPE     13     16     14     11      8      9
D1419V11, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAP7 MUTATED        0      0      0      2      0      0      1      0      0
  MAP7 WILD-TYPE     11      7      7      7      8      7     10      9      5
D1419V12, multiclass
        clus
vv       MAP7 MUTATED MAP7 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1420) Variable = MCF2L2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCF2L2 MUTATED        2      1      0      1      0
  MCF2L2 WILD-TYPE     30     17     46     26     23
D1420V1, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MCF2L2 MUTATED        2      1      1
  MCF2L2 WILD-TYPE     41     66     35
D1420V2, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MCF2L2 MUTATED        0      4     15
  MCF2L2 WILD-TYPE     42    169    132
D1420V3, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3             15              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MCF2L2 MUTATED        9      0      4
  MCF2L2 WILD-TYPE     53     73     71
D1420V4, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              9               53
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MCF2L2 MUTATED        0      6      8
  MCF2L2 WILD-TYPE     70    114     92
D1420V5, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              6              114
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MCF2L2 MUTATED        1      1      3      1      0      5      1      1
  MCF2L2 WILD-TYPE     40     25     27     28     39     64     19     13
                  vv
clus               CLUS_9
  MCF2L2 MUTATED        1
  MCF2L2 WILD-TYPE     21
D1420V6, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              3               27
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MCF2L2 MUTATED        2      6      5      6
  MCF2L2 WILD-TYPE     98     66     67    115
D1420V7, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              6               66
  CLUS_3              5               67
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCF2L2 MUTATED        3      3      7      3      3
  MCF2L2 WILD-TYPE     56     72     67    116     35
D1420V8, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              3              116
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCF2L2 MUTATED        1      9      2      2      4
  MCF2L2 WILD-TYPE     50     67     59     69     91
D1420V9, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              9               67
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MCF2L2 MUTATED        1      4      1      4      3      0      0      2
  MCF2L2 WILD-TYPE     68     44     38     12     50     20     21     36
                  vv
clus               CLUS_9
  MCF2L2 MUTATED        3
  MCF2L2 WILD-TYPE     47
D1420V10, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              4               12
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MCF2L2 MUTATED        0      0      1      1      2      0
  MCF2L2 WILD-TYPE     13     16     13     10      9      9
D1420V11, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MCF2L2 MUTATED        0      0      0      1      1      0      2      0
  MCF2L2 WILD-TYPE     11      7      7      8      7      7      9      9
                  vv
clus               CLUS_9
  MCF2L2 MUTATED        0
  MCF2L2 WILD-TYPE      5
D1420V12, multiclass
        clus
vv       MCF2L2 MUTATED MCF2L2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1421) Variable = ANKRD26 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD26 MUTATED        3      0      0      2      0
  ANKRD26 WILD-TYPE     29     18     46     25     23
D1421V1, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD26 MUTATED        4      1      0
  ANKRD26 WILD-TYPE     39     66     36
D1421V2, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD26 MUTATED        2      5     12
  ANKRD26 WILD-TYPE     40    168    135
D1421V3, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               5               168
  CLUS_3              12               135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD26 MUTATED        3      2     10
  ANKRD26 WILD-TYPE     59     71     65
D1421V4, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               2                71
  CLUS_3              10                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD26 MUTATED        2      4      9
  ANKRD26 WILD-TYPE     68    116     91
D1421V5, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               4               116
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD26 MUTATED        4      1      1      1      2      5      1      0
  ANKRD26 WILD-TYPE     37     25     29     28     37     64     19     14
                   vv
clus                CLUS_9
  ANKRD26 MUTATED        0
  ANKRD26 WILD-TYPE     22
D1421V6, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               4                37
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               5                64
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKRD26 MUTATED        3      7      4      5
  ANKRD26 WILD-TYPE     97     65     68    116
D1421V7, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               7                65
  CLUS_3               4                68
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD26 MUTATED        4      3      7      1      4
  ANKRD26 WILD-TYPE     55     72     67    118     34
D1421V8, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               3                72
  CLUS_3               7                67
  CLUS_4               1               118
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD26 MUTATED        4      5      2      1      6
  ANKRD26 WILD-TYPE     47     71     59     70     89
D1421V9, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               4                47
  CLUS_2               5                71
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD26 MUTATED        2      5      1      3      0      2      0      4
  ANKRD26 WILD-TYPE     67     43     38     13     53     18     21     34
                   vv
clus                CLUS_9
  ANKRD26 MUTATED        1
  ANKRD26 WILD-TYPE     49
D1421V10, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               5                43
  CLUS_3               1                38
  CLUS_4               3                13
  CLUS_5               0                53
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               4                34
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANKRD26 MUTATED        0      0      0      1      1      1
  ANKRD26 WILD-TYPE     13     16     14     10     10      8
D1421V11, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD26 MUTATED        1      0      1      1      0      0      0      0
  ANKRD26 WILD-TYPE     10      7      6      8      8      7     11      9
                   vv
clus                CLUS_9
  ANKRD26 MUTATED        0
  ANKRD26 WILD-TYPE      5
D1421V12, multiclass
        clus
vv       ANKRD26 MUTATED ANKRD26 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1422) Variable = DNAJC18 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC18 MUTATED        0      0      0      1      0
  DNAJC18 WILD-TYPE     32     18     46     26     23
D1422V1, multiclass
[1] "Remove cluster labels:" "DNAJC18 MUTATED"       
clus
  DNAJC18 MUTATED DNAJC18 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AY-4071 
"DNAJC18 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC18 MUTATED        1      0      0
  DNAJC18 WILD-TYPE     42     67     36
D1422V2, multiclass
[1] "Remove cluster labels:" "DNAJC18 MUTATED"       
clus
  DNAJC18 MUTATED DNAJC18 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AY-4071 
"DNAJC18 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC18 MUTATED        0      3      4
  DNAJC18 WILD-TYPE     42    170    143
D1422V3, multiclass
        clus
vv       DNAJC18 MUTATED DNAJC18 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC18 MUTATED        2      2      2
  DNAJC18 WILD-TYPE     60     71     73
D1422V4, multiclass
        clus
vv       DNAJC18 MUTATED DNAJC18 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               2                71
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJC18 MUTATED        0      2      4
  DNAJC18 WILD-TYPE     70    118     96
D1422V5, multiclass
        clus
vv       DNAJC18 MUTATED DNAJC18 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC18 MUTATED        1      0      0      0      0      3      0      1
  DNAJC18 WILD-TYPE     40     26     30     29     39     66     20     13
                   vv
clus                CLUS_9
  DNAJC18 MUTATED        1
  DNAJC18 WILD-TYPE     21
D1422V6, multiclass
        clus
vv       DNAJC18 MUTATED DNAJC18 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNAJC18 MUTATED        2      2      2      1
  DNAJC18 WILD-TYPE     98     70     70    120
D1422V7, multiclass
        clus
vv       DNAJC18 MUTATED DNAJC18 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC18 MUTATED        3      1      2      0      1
  DNAJC18 WILD-TYPE     56     74     72    119     37
D1422V8, multiclass
        clus
vv       DNAJC18 MUTATED DNAJC18 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJC18 MUTATED        2      2      1      0      1
  DNAJC18 WILD-TYPE     49     74     60     71     94
D1422V9, multiclass
        clus
vv       DNAJC18 MUTATED DNAJC18 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC18 MUTATED        2      1      1      1      0      0      0      0
  DNAJC18 WILD-TYPE     67     47     38     15     53     20     21     38
                   vv
clus                CLUS_9
  DNAJC18 MUTATED        1
  DNAJC18 WILD-TYPE     49
D1422V10, multiclass
        clus
vv       DNAJC18 MUTATED DNAJC18 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNAJC18 MUTATED        0      0      1      0      0      1
  DNAJC18 WILD-TYPE     13     16     13     11     11      8
D1422V11, multiclass
[1] "Remove cluster labels:" "DNAJC18 MUTATED"       
clus
  DNAJC18 MUTATED DNAJC18 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-6167        TCGA-CM-6674 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJC18 MUTATED        1      0      0      0      0      0      1      0
  DNAJC18 WILD-TYPE     10      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  DNAJC18 MUTATED        0
  DNAJC18 WILD-TYPE      5
D1422V12, multiclass
[1] "Remove cluster labels:" "DNAJC18 MUTATED"       
clus
  DNAJC18 MUTATED DNAJC18 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-6167        TCGA-CM-6674 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" "DNAJC18 WILD-TYPE" 

Clustering(1423) Variable = ESRP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESRP2 MUTATED        2      0      0      1      0
  ESRP2 WILD-TYPE     30     18     46     26     23
D1423V1, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESRP2 MUTATED        2      1      0
  ESRP2 WILD-TYPE     41     66     36
D1423V2, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESRP2 MUTATED        0      5      3
  ESRP2 WILD-TYPE     42    168    144
D1423V3, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESRP2 MUTATED        3      2      1
  ESRP2 WILD-TYPE     59     71     74
D1423V4, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESRP2 MUTATED        1      3      4
  ESRP2 WILD-TYPE     69    117     96
D1423V5, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESRP2 MUTATED        0      1      2      0      1      2      2      0
  ESRP2 WILD-TYPE     41     25     28     29     38     67     18     14
                 vv
clus              CLUS_9
  ESRP2 MUTATED        0
  ESRP2 WILD-TYPE     22
D1423V6, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESRP2 MUTATED        3      0      3      3
  ESRP2 WILD-TYPE     97     72     69    118
D1423V7, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             0              72
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESRP2 MUTATED        3      2      1      1      2
  ESRP2 WILD-TYPE     56     73     73    118     36
D1423V8, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             2              73
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESRP2 MUTATED        0      3      1      2      2
  ESRP2 WILD-TYPE     51     73     60     69     93
D1423V9, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESRP2 MUTATED        2      3      0      0      0      1      0      1
  ESRP2 WILD-TYPE     67     45     39     16     53     19     21     37
                 vv
clus              CLUS_9
  ESRP2 MUTATED        1
  ESRP2 WILD-TYPE     49
D1423V10, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ESRP2 MUTATED        1      0      0      1      1      1
  ESRP2 WILD-TYPE     12     16     14     10     10      8
D1423V11, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESRP2 MUTATED        1      0      0      0      0      0      2      1
  ESRP2 WILD-TYPE     10      7      7      9      8      7      9      8
                 vv
clus              CLUS_9
  ESRP2 MUTATED        0
  ESRP2 WILD-TYPE      5
D1423V12, multiclass
        clus
vv       ESRP2 MUTATED ESRP2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1424) Variable = NLRP13 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLRP13 MUTATED        4      1      1      1      0
  NLRP13 WILD-TYPE     28     17     45     26     23
D1424V1, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              1               17
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NLRP13 MUTATED        3      2      2
  NLRP13 WILD-TYPE     40     65     34
D1424V2, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NLRP13 MUTATED        1      9     17
  NLRP13 WILD-TYPE     41    164    130
D1424V3, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              9              164
  CLUS_3             17              130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NLRP13 MUTATED       10      5      4
  NLRP13 WILD-TYPE     52     68     71
D1424V4, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1             10               52
  CLUS_2              5               68
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NLRP13 MUTATED        2     11      9
  NLRP13 WILD-TYPE     68    109     91
D1424V5, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1              2               68
  CLUS_2             11              109
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NLRP13 MUTATED        1      3      1      3      2      7      1      2
  NLRP13 WILD-TYPE     40     23     29     26     37     62     19     12
                  vv
clus               CLUS_9
  NLRP13 MUTATED        2
  NLRP13 WILD-TYPE     20
D1424V6, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              3               23
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              2               12
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NLRP13 MUTATED        7      5      7      7
  NLRP13 WILD-TYPE     93     67     65    114
D1424V7, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1              7               93
  CLUS_2              5               67
  CLUS_3              7               65
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLRP13 MUTATED        4      7      7      5      3
  NLRP13 WILD-TYPE     55     68     67    114     35
D1424V8, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              7               68
  CLUS_3              7               67
  CLUS_4              5              114
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLRP13 MUTATED        5      8      3      4      6
  NLRP13 WILD-TYPE     46     68     58     67     89
D1424V9, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1              5               46
  CLUS_2              8               68
  CLUS_3              3               58
  CLUS_4              4               67
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NLRP13 MUTATED        5      6      1      1      3      4      1      2
  NLRP13 WILD-TYPE     64     42     38     15     50     16     20     36
                  vv
clus               CLUS_9
  NLRP13 MUTATED        3
  NLRP13 WILD-TYPE     47
D1424V10, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              6               42
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              4               16
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NLRP13 MUTATED        1      2      1      0      2      0
  NLRP13 WILD-TYPE     12     14     13     11      9      9
D1424V11, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NLRP13 MUTATED        2      0      0      2      1      1      0      0
  NLRP13 WILD-TYPE      9      7      7      7      7      6     11      9
                  vv
clus               CLUS_9
  NLRP13 MUTATED        0
  NLRP13 WILD-TYPE      5
D1424V12, multiclass
        clus
vv       NLRP13 MUTATED NLRP13 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1425) Variable = LRRN1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRN1 MUTATED        3      0      0      1      0
  LRRN1 WILD-TYPE     29     18     46     26     23
D1425V1, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRN1 MUTATED        4      0      0
  LRRN1 WILD-TYPE     39     67     36
D1425V2, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRN1 MUTATED        0      0     17
  LRRN1 WILD-TYPE     42    173    130
D1425V3, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3            17             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRN1 MUTATED        4      0      9
  LRRN1 WILD-TYPE     58     73     66
D1425V4, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRN1 MUTATED        4      3      6
  LRRN1 WILD-TYPE     66    117     94
D1425V5, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRN1 MUTATED        2      0      0      2      2      5      1      1
  LRRN1 WILD-TYPE     39     26     30     27     37     64     19     13
                 vv
clus              CLUS_9
  LRRN1 MUTATED        0
  LRRN1 WILD-TYPE     22
D1425V6, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRRN1 MUTATED        1      7      6      3
  LRRN1 WILD-TYPE     99     65     66    118
D1425V7, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             7              65
  CLUS_3             6              66
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRN1 MUTATED        1      1     12      0      3
  LRRN1 WILD-TYPE     58     74     62    119     35
D1425V8, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3            12              62
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRN1 MUTATED        0     11      2      0      3
  LRRN1 WILD-TYPE     51     65     59     71     92
D1425V9, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2            11              65
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRN1 MUTATED        2      6      0      5      0      0      0      3
  LRRN1 WILD-TYPE     67     42     39     11     53     20     21     35
                 vv
clus              CLUS_9
  LRRN1 MUTATED        0
  LRRN1 WILD-TYPE     50
D1425V10, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             6              42
  CLUS_3             0              39
  CLUS_4             5              11
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LRRN1 MUTATED        0      1      1      0      5      0
  LRRN1 WILD-TYPE     13     15     13     11      6      9
D1425V11, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             5               6
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRN1 MUTATED        0      0      0      1      2      0      4      0
  LRRN1 WILD-TYPE     11      7      7      8      6      7      7      9
                 vv
clus              CLUS_9
  LRRN1 MUTATED        0
  LRRN1 WILD-TYPE      5
D1425V12, multiclass
        clus
vv       LRRN1 MUTATED LRRN1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             4               7
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1426) Variable = VIM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VIM MUTATED        1      0      0      1      0
  VIM WILD-TYPE     31     18     46     26     23
D1426V1, multiclass
[1] "Remove cluster labels:" "VIM MUTATED"           
clus
  VIM MUTATED VIM WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3982    TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A004    TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A00J    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VIM MUTATED        1      1      0
  VIM WILD-TYPE     42     66     36
D1426V2, multiclass
[1] "Remove cluster labels:" "VIM MUTATED"           
clus
  VIM MUTATED VIM WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-3982    TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A004    TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A00J    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VIM MUTATED        0      1      5
  VIM WILD-TYPE     42    172    142
D1426V3, multiclass
        clus
vv       VIM MUTATED VIM WILD-TYPE
  CLUS_1           0            42
  CLUS_2           1           172
  CLUS_3           5           142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VIM MUTATED        1      0      3
  VIM WILD-TYPE     61     73     72
D1426V4, multiclass
        clus
vv       VIM MUTATED VIM WILD-TYPE
  CLUS_1           1            61
  CLUS_2           0            73
  CLUS_3           3            72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VIM MUTATED        3      1      1
  VIM WILD-TYPE     67    119     99
D1426V5, multiclass
        clus
vv       VIM MUTATED VIM WILD-TYPE
  CLUS_1           3            67
  CLUS_2           1           119
  CLUS_3           1            99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VIM MUTATED        1      1      0      0      1      1      1      0      0
  VIM WILD-TYPE     40     25     30     29     38     68     19     14     22
D1426V6, multiclass
        clus
vv       VIM MUTATED VIM WILD-TYPE
  CLUS_1           1            40
  CLUS_2           1            25
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           1            38
  CLUS_6           1            68
  CLUS_7           1            19
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VIM MUTATED        2      2      0      3
  VIM WILD-TYPE     98     70     72    118
D1426V7, multiclass
        clus
vv       VIM MUTATED VIM WILD-TYPE
  CLUS_1           2            98
  CLUS_2           2            70
  CLUS_3           0            72
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VIM MUTATED        0      2      2      2      1
  VIM WILD-TYPE     59     73     72    117     37
D1426V8, multiclass
        clus
vv       VIM MUTATED VIM WILD-TYPE
  CLUS_1           0            59
  CLUS_2           2            73
  CLUS_3           2            72
  CLUS_4           2           117
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VIM MUTATED        1      2      0      0      2
  VIM WILD-TYPE     50     74     61     71     93
D1426V9, multiclass
        clus
vv       VIM MUTATED VIM WILD-TYPE
  CLUS_1           1            50
  CLUS_2           2            74
  CLUS_3           0            61
  CLUS_4           0            71
  CLUS_5           2            93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VIM MUTATED        3      0      0      0      1      0      0      0      1
  VIM WILD-TYPE     66     48     39     16     52     20     21     38     49
D1426V10, multiclass
        clus
vv       VIM MUTATED VIM WILD-TYPE
  CLUS_1           3            66
  CLUS_2           0            48
  CLUS_3           0            39
  CLUS_4           0            16
  CLUS_5           1            52
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VIM MUTATED        1      0      0      0      0      0
  VIM WILD-TYPE     12     16     14     11     11      9
D1426V11, multiclass
[1] "Remove cluster labels:" "VIM MUTATED"           
clus
  VIM MUTATED VIM WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-CA-6718    TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-CM-6167    TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-CM-6679    TCGA-CM-6680    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  VIM MUTATED        0      0      0      0      0      0      0      0      1
  VIM WILD-TYPE     11      7      7      9      8      7     11      9      4
D1426V12, multiclass
[1] "Remove cluster labels:" "VIM MUTATED"           
clus
  VIM MUTATED VIM WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-CA-6718    TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-CM-6167    TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-CM-6679    TCGA-CM-6680    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"VIM WILD-TYPE" "VIM WILD-TYPE" "VIM WILD-TYPE" 

Clustering(1427) Variable = WDR45L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR45L MUTATED        0      0      0      0      0
  WDR45L WILD-TYPE     32     18     46     27     23
D1427V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  WDR45L MUTATED        0      0      0
  WDR45L WILD-TYPE     43     67     36
D1427V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  WDR45L MUTATED        1      2      4
  WDR45L WILD-TYPE     41    171    143
D1427V3, multiclass
        clus
vv       WDR45L MUTATED WDR45L WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  WDR45L MUTATED        2      3      1
  WDR45L WILD-TYPE     60     70     74
D1427V4, multiclass
        clus
vv       WDR45L MUTATED WDR45L WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3               70
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  WDR45L MUTATED        1      1      3
  WDR45L WILD-TYPE     69    119     97
D1427V5, multiclass
        clus
vv       WDR45L MUTATED WDR45L WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR45L MUTATED        0      0      1      1      0      3      0      0
  WDR45L WILD-TYPE     41     26     29     28     39     66     20     14
                  vv
clus               CLUS_9
  WDR45L MUTATED        0
  WDR45L WILD-TYPE     22
D1427V6, multiclass
        clus
vv       WDR45L MUTATED WDR45L WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WDR45L MUTATED        3      0      3      1
  WDR45L WILD-TYPE     97     72     69    120
D1427V7, multiclass
        clus
vv       WDR45L MUTATED WDR45L WILD-TYPE
  CLUS_1              3               97
  CLUS_2              0               72
  CLUS_3              3               69
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR45L MUTATED        0      3      3      0      1
  WDR45L WILD-TYPE     59     72     71    119     37
D1427V8, multiclass
        clus
vv       WDR45L MUTATED WDR45L WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR45L MUTATED        2      1      2      1      1
  WDR45L WILD-TYPE     49     75     59     70     94
D1427V9, multiclass
        clus
vv       WDR45L MUTATED WDR45L WILD-TYPE
  CLUS_1              2               49
  CLUS_2              1               75
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR45L MUTATED        2      3      0      0      0      1      0      1
  WDR45L WILD-TYPE     67     45     39     16     53     19     21     37
                  vv
clus               CLUS_9
  WDR45L MUTATED        0
  WDR45L WILD-TYPE     50
D1427V10, multiclass
        clus
vv       WDR45L MUTATED WDR45L WILD-TYPE
  CLUS_1              2               67
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WDR45L MUTATED        0      0      0      0      1      0
  WDR45L WILD-TYPE     13     16     14     11     10      9
D1427V11, multiclass
[1] "Remove cluster labels:" "WDR45L MUTATED"        
clus
  WDR45L MUTATED WDR45L WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-G4-6628 
"WDR45L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR45L MUTATED        0      0      0      0      0      0      1      0
  WDR45L WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  WDR45L MUTATED        0
  WDR45L WILD-TYPE      5
D1427V12, multiclass
[1] "Remove cluster labels:" "WDR45L MUTATED"        
clus
  WDR45L MUTATED WDR45L WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" "WDR45L WILD-TYPE" 
      TCGA-G4-6628 
"WDR45L WILD-TYPE" 

Clustering(1428) Variable = PISD MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PISD MUTATED        0      0      0      0      0
  PISD WILD-TYPE     32     18     46     27     23
D1428V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PISD MUTATED        0      0      0
  PISD WILD-TYPE     43     67     36
D1428V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PISD MUTATED        0      2      1
  PISD WILD-TYPE     42    171    146
D1428V3, multiclass
        clus
vv       PISD MUTATED PISD WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            1            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PISD MUTATED        1      1      1
  PISD WILD-TYPE     61     72     74
D1428V4, multiclass
        clus
vv       PISD MUTATED PISD WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PISD MUTATED        0      0      2
  PISD WILD-TYPE     70    120     98
D1428V5, multiclass
[1] "Remove cluster labels:" "PISD MUTATED"          
clus
  PISD MUTATED PISD WILD-TYPE 
             2            288 
    TCGA-A6-2671     TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-A6-5656     TCGA-A6-5657 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-5659     TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-5664     TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3489     TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3510     TCGA-AA-3511     TCGA-AA-3514     TCGA-AA-3517 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521     TCGA-AA-3522 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3525     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3548     TCGA-AA-3552 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555     TCGA-AA-3558 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3655 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3697 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3712     TCGA-AA-3713     TCGA-AA-3715 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3950 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982     TCGA-AA-3986 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00E 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I     TCGA-AA-A01K 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R     TCGA-AA-A01S 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A01T     TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A022 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02K     TCGA-AA-A02O     TCGA-AA-A02W 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A02Y     TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AD-5900 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6899     TCGA-AD-6965 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AU-6004     TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AY-6386     TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AZ-4682     TCGA-AZ-5407     TCGA-AZ-6598     TCGA-AZ-6599 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AZ-6606     TCGA-AZ-6607     TCGA-AZ-6608     TCGA-CA-5254 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CA-5255     TCGA-CA-5796     TCGA-CA-5797     TCGA-CA-6715 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CA-6716     TCGA-CA-6717     TCGA-CA-6718     TCGA-CA-6719 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CK-5914     TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CK-6748     TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-4746     TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-5344     TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-5861     TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-5868     TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6164     TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6168     TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6172     TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6534 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537     TCGA-D5-6538 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541     TCGA-D5-6898 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923     TCGA-D5-6924 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6926     TCGA-D5-6927     TCGA-D5-6928     TCGA-D5-6930 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6931     TCGA-D5-6932     TCGA-DM-A0X9     TCGA-DM-A0XF 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A1HA     TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A28C 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A28E     TCGA-DM-A28F     TCGA-DM-A28G     TCGA-F4-6459 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6703 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6806     TCGA-F4-6807 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-F4-6854     TCGA-F4-6855 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6856     TCGA-G4-6293     TCGA-G4-6299     TCGA-G4-6303 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-G4-6304     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6310 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-G4-6315     TCGA-G4-6317     TCGA-G4-6323     TCGA-G4-6586 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PISD MUTATED        0      0      0      0      0      2      0      0      0
  PISD WILD-TYPE     41     26     30     29     39     67     20     14     22
D1428V6, multiclass
[1] "Remove cluster labels:" "PISD MUTATED"          
clus
  PISD MUTATED PISD WILD-TYPE 
             2            288 
    TCGA-A6-2671     TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-A6-5656     TCGA-A6-5657 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-5659     TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-5664     TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3489     TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3510     TCGA-AA-3511     TCGA-AA-3514     TCGA-AA-3517 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521     TCGA-AA-3522 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3525     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3548     TCGA-AA-3552 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555     TCGA-AA-3558 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3655 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3697 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3712     TCGA-AA-3713     TCGA-AA-3715 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3950 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982     TCGA-AA-3986 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00E 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I     TCGA-AA-A01K 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R     TCGA-AA-A01S 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A01T     TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A022 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02K     TCGA-AA-A02O     TCGA-AA-A02W 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-A02Y     TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AD-5900 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6899     TCGA-AD-6965 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AU-6004     TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AY-6386     TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AZ-4682     TCGA-AZ-5407     TCGA-AZ-6598     TCGA-AZ-6599 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AZ-6606     TCGA-AZ-6607     TCGA-AZ-6608     TCGA-CA-5254 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CA-5255     TCGA-CA-5796     TCGA-CA-5797     TCGA-CA-6715 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CA-6716     TCGA-CA-6717     TCGA-CA-6718     TCGA-CA-6719 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CK-5914     TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CK-6748     TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-4746     TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-5344     TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-5861     TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-5868     TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6164     TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6168     TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6172     TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6534 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537     TCGA-D5-6538 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541     TCGA-D5-6898 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923     TCGA-D5-6924 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6926     TCGA-D5-6927     TCGA-D5-6928     TCGA-D5-6930 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6931     TCGA-D5-6932     TCGA-DM-A0X9     TCGA-DM-A0XF 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A1HA     TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A28C 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A28E     TCGA-DM-A28F     TCGA-DM-A28G     TCGA-F4-6459 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6703 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6806     TCGA-F4-6807 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-F4-6854     TCGA-F4-6855 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6856     TCGA-G4-6293     TCGA-G4-6299     TCGA-G4-6303 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-G4-6304     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6310 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-G4-6315     TCGA-G4-6317     TCGA-G4-6323     TCGA-G4-6586 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PISD MUTATED        2      1      0      0
  PISD WILD-TYPE     98     71     72    121
D1428V7, multiclass
        clus
vv       PISD MUTATED PISD WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            0             72
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PISD MUTATED        1      1      1      0      0
  PISD WILD-TYPE     58     74     73    119     38
D1428V8, multiclass
        clus
vv       PISD MUTATED PISD WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PISD MUTATED        0      2      1      0      0
  PISD WILD-TYPE     51     74     60     71     95
D1428V9, multiclass
        clus
vv       PISD MUTATED PISD WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PISD MUTATED        1      1      0      0      1      0      0      0      0
  PISD WILD-TYPE     68     47     39     16     52     20     21     38     50
D1428V10, multiclass
        clus
vv       PISD MUTATED PISD WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PISD MUTATED        0      1      0      0      0      0
  PISD WILD-TYPE     13     15     14     11     11      9
D1428V11, multiclass
[1] "Remove cluster labels:" "PISD MUTATED"          
clus
  PISD MUTATED PISD WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6598 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-G4-6628 
"PISD WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PISD MUTATED        1      0      0      0      0      0      0      0      0
  PISD WILD-TYPE     10      7      7      9      8      7     11      9      5
D1428V12, multiclass
[1] "Remove cluster labels:" "PISD MUTATED"          
clus
  PISD MUTATED PISD WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6598 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" "PISD WILD-TYPE" 
    TCGA-G4-6628 
"PISD WILD-TYPE" 

Clustering(1429) Variable = ST18 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST18 MUTATED        2      0      0      2      0
  ST18 WILD-TYPE     30     18     46     25     23
D1429V1, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ST18 MUTATED        2      1      1
  ST18 WILD-TYPE     41     66     35
D1429V2, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ST18 MUTATED        3      3     17
  ST18 WILD-TYPE     39    170    130
D1429V3, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            3            170
  CLUS_3           17            130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ST18 MUTATED        8      2      9
  ST18 WILD-TYPE     54     71     66
D1429V4, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            8             54
  CLUS_2            2             71
  CLUS_3            9             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ST18 MUTATED        2      5     13
  ST18 WILD-TYPE     68    115     87
D1429V5, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3           13             87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ST18 MUTATED        1      1      1      1      0     12      2      1      1
  ST18 WILD-TYPE     40     25     29     28     39     57     18     13     21
D1429V6, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6           12             57
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ST18 MUTATED        2      9      7      5
  ST18 WILD-TYPE     98     63     65    116
D1429V7, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            9             63
  CLUS_3            7             65
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST18 MUTATED        2      4     12      3      2
  ST18 WILD-TYPE     57     71     62    116     36
D1429V8, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            4             71
  CLUS_3           12             62
  CLUS_4            3            116
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ST18 MUTATED        1     13      4      1      2
  ST18 WILD-TYPE     50     63     57     70     93
D1429V9, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            1             50
  CLUS_2           13             63
  CLUS_3            4             57
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ST18 MUTATED        6      5      1      3      3      2      0      0      1
  ST18 WILD-TYPE     63     43     38     13     50     18     21     38     49
D1429V10, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            3             13
  CLUS_5            3             50
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ST18 MUTATED        0      3      0      0      1      0
  ST18 WILD-TYPE     13     13     14     11     10      9
D1429V11, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            3             13
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ST18 MUTATED        2      1      0      0      0      0      1      0      0
  ST18 WILD-TYPE      9      6      7      9      8      7     10      9      5
D1429V12, multiclass
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1430) Variable = MAGOHB MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGOHB MUTATED        0      0      0      0      0
  MAGOHB WILD-TYPE     32     18     46     27     23
D1430V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGOHB MUTATED        0      0      0
  MAGOHB WILD-TYPE     43     67     36
D1430V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGOHB MUTATED        0      1      2
  MAGOHB WILD-TYPE     42    172    145
D1430V3, multiclass
        clus
vv       MAGOHB MUTATED MAGOHB WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGOHB MUTATED        3      0      0
  MAGOHB WILD-TYPE     59     73     75
D1430V4, multiclass
        clus
vv       MAGOHB MUTATED MAGOHB WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAGOHB MUTATED        1      0      2
  MAGOHB WILD-TYPE     69    120     98
D1430V5, multiclass
        clus
vv       MAGOHB MUTATED MAGOHB WILD-TYPE
  CLUS_1              1               69
  CLUS_2              0              120
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGOHB MUTATED        0      0      0      0      0      3      0      0
  MAGOHB WILD-TYPE     41     26     30     29     39     66     20     14
                  vv
clus               CLUS_9
  MAGOHB MUTATED        0
  MAGOHB WILD-TYPE     22
D1430V6, multiclass
        clus
vv       MAGOHB MUTATED MAGOHB WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAGOHB MUTATED        0      0      3      0
  MAGOHB WILD-TYPE    100     72     69    121
D1430V7, multiclass
        clus
vv       MAGOHB MUTATED MAGOHB WILD-TYPE
  CLUS_1              0              100
  CLUS_2              0               72
  CLUS_3              3               69
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGOHB MUTATED        1      0      2      0      0
  MAGOHB WILD-TYPE     58     75     72    119     38
D1430V8, multiclass
        clus
vv       MAGOHB MUTATED MAGOHB WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAGOHB MUTATED        0      1      2      0      0
  MAGOHB WILD-TYPE     51     75     59     71     95
D1430V9, multiclass
        clus
vv       MAGOHB MUTATED MAGOHB WILD-TYPE
  CLUS_1              0               51
  CLUS_2              1               75
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGOHB MUTATED        2      1      0      0      0      0      0      0
  MAGOHB WILD-TYPE     67     47     39     16     53     20     21     38
                  vv
clus               CLUS_9
  MAGOHB MUTATED        0
  MAGOHB WILD-TYPE     50
D1430V10, multiclass
        clus
vv       MAGOHB MUTATED MAGOHB WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAGOHB MUTATED        0      2      1      0      0      0
  MAGOHB WILD-TYPE     13     14     13     11     11      9
D1430V11, multiclass
        clus
vv       MAGOHB MUTATED MAGOHB WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MAGOHB MUTATED        3      0      0      0      0      0      0      0
  MAGOHB WILD-TYPE      8      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  MAGOHB MUTATED        0
  MAGOHB WILD-TYPE      5
D1430V12, multiclass
        clus
vv       MAGOHB MUTATED MAGOHB WILD-TYPE
  CLUS_1              3                8
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1431) Variable = DEFB129 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEFB129 MUTATED        2      0      1      0      0
  DEFB129 WILD-TYPE     30     18     45     27     23
D1431V1, multiclass
        clus
vv       DEFB129 MUTATED DEFB129 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DEFB129 MUTATED        2      0      1
  DEFB129 WILD-TYPE     41     67     35
D1431V2, multiclass
        clus
vv       DEFB129 MUTATED DEFB129 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DEFB129 MUTATED        1      1      3
  DEFB129 WILD-TYPE     41    172    144
D1431V3, multiclass
        clus
vv       DEFB129 MUTATED DEFB129 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DEFB129 MUTATED        2      0      0
  DEFB129 WILD-TYPE     60     73     75
D1431V4, multiclass
[1] "Remove cluster labels:" "DEFB129 MUTATED"       
clus
  DEFB129 MUTATED DEFB129 WILD-TYPE 
                2               208 
       TCGA-A6-2671        TCGA-A6-2677        TCGA-A6-3809        TCGA-A6-3810 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-A6-4105        TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137        TCGA-A6-6138 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AA-3655        TCGA-AA-3660        TCGA-AA-3662 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AA-3663        TCGA-AA-3697        TCGA-AA-3712        TCGA-AA-3713 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6888        TCGA-AD-6889 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AD-6890        TCGA-AD-6895        TCGA-AD-6899        TCGA-AD-6901 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AU-3779 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AU-6004        TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AY-6386        TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AZ-4681        TCGA-AZ-4682        TCGA-AZ-5403        TCGA-AZ-5407 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600        TCGA-AZ-6601 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606        TCGA-AZ-6607 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255        TCGA-CA-5796 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716        TCGA-CA-6717 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-4947        TCGA-CK-4948 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CK-4950        TCGA-CK-4952        TCGA-CK-5912        TCGA-CK-5913 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CK-5914        TCGA-CK-5915        TCGA-CK-5916        TCGA-CK-6746 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CK-6747        TCGA-CK-6748        TCGA-CK-6751        TCGA-CM-4743 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-4744        TCGA-CM-4746        TCGA-CM-4747        TCGA-CM-4752 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-5341        TCGA-CM-5344        TCGA-CM-5348        TCGA-CM-5349 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862        TCGA-CM-5863 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161        TCGA-CM-6162 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165        TCGA-CM-6166 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169        TCGA-CM-6170 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674        TCGA-CM-6675 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-5538        TCGA-D5-5539 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529        TCGA-D5-6532 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535        TCGA-D5-6537 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-D5-6538        TCGA-D5-6539        TCGA-D5-6540        TCGA-D5-6541 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-D5-6898        TCGA-D5-6920        TCGA-D5-6922        TCGA-D5-6923 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-D5-6924        TCGA-D5-6926        TCGA-D5-6927        TCGA-D5-6928 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-D5-6929        TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-D5-7000        TCGA-DM-A0X9        TCGA-DM-A0XD        TCGA-DM-A0XF 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-DM-A1HA        TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A285 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-DM-A28H        TCGA-DM-A28K        TCGA-F4-6459        TCGA-F4-6460 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-F4-6809        TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-G4-6293        TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-G4-6315        TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-G4-6586        TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DEFB129 MUTATED        1      0      3
  DEFB129 WILD-TYPE     69    120     97
D1431V5, multiclass
        clus
vv       DEFB129 MUTATED DEFB129 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               0               120
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DEFB129 MUTATED        0      0      0      0      2      1      1      0
  DEFB129 WILD-TYPE     41     26     30     29     37     68     19     14
                   vv
clus                CLUS_9
  DEFB129 MUTATED        0
  DEFB129 WILD-TYPE     22
D1431V6, multiclass
        clus
vv       DEFB129 MUTATED DEFB129 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               2                37
  CLUS_6               1                68
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEFB129 MUTATED        0      0      2      3
  DEFB129 WILD-TYPE    100     72     70    118
D1431V7, multiclass
        clus
vv       DEFB129 MUTATED DEFB129 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               0                72
  CLUS_3               2                70
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEFB129 MUTATED        1      0      1      1      2
  DEFB129 WILD-TYPE     58     75     73    118     36
D1431V8, multiclass
        clus
vv       DEFB129 MUTATED DEFB129 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               1                73
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEFB129 MUTATED        0      2      0      1      2
  DEFB129 WILD-TYPE     51     74     61     70     93
D1431V9, multiclass
        clus
vv       DEFB129 MUTATED DEFB129 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DEFB129 MUTATED        1      1      0      0      0      0      0      2
  DEFB129 WILD-TYPE     68     47     39     16     53     20     21     36
                   vv
clus                CLUS_9
  DEFB129 MUTATED        1
  DEFB129 WILD-TYPE     49
D1431V10, multiclass
        clus
vv       DEFB129 MUTATED DEFB129 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEFB129 MUTATED        0      0      1      1      0      0
  DEFB129 WILD-TYPE     13     16     13     10     11      9
D1431V11, multiclass
[1] "Remove cluster labels:" "DEFB129 MUTATED"       
clus
  DEFB129 MUTATED DEFB129 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DEFB129 MUTATED        0      0      0      0      0      0      2      0
  DEFB129 WILD-TYPE     11      7      7      9      8      7      9      9
                   vv
clus                CLUS_9
  DEFB129 MUTATED        0
  DEFB129 WILD-TYPE      5
D1431V12, multiclass
[1] "Remove cluster labels:" "DEFB129 MUTATED"       
clus
  DEFB129 MUTATED DEFB129 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" "DEFB129 WILD-TYPE" 

Clustering(1432) Variable = OR8K3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR8K3 MUTATED        1      0      0      1      0
  OR8K3 WILD-TYPE     31     18     46     26     23
D1432V1, multiclass
[1] "Remove cluster labels:" "OR8K3 MUTATED"         
clus
  OR8K3 MUTATED OR8K3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8K3 MUTATED        1      1      0
  OR8K3 WILD-TYPE     42     66     36
D1432V2, multiclass
[1] "Remove cluster labels:" "OR8K3 MUTATED"         
clus
  OR8K3 MUTATED OR8K3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" "OR8K3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8K3 MUTATED        0      3      7
  OR8K3 WILD-TYPE     42    170    140
D1432V3, multiclass
        clus
vv       OR8K3 MUTATED OR8K3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8K3 MUTATED        5      1      2
  OR8K3 WILD-TYPE     57     72     73
D1432V4, multiclass
        clus
vv       OR8K3 MUTATED OR8K3 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8K3 MUTATED        2      1      4
  OR8K3 WILD-TYPE     68    119     96
D1432V5, multiclass
        clus
vv       OR8K3 MUTATED OR8K3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR8K3 MUTATED        2      0      1      0      0      3      0      1
  OR8K3 WILD-TYPE     39     26     29     29     39     66     20     13
                 vv
clus              CLUS_9
  OR8K3 MUTATED        0
  OR8K3 WILD-TYPE     22
D1432V6, multiclass
        clus
vv       OR8K3 MUTATED OR8K3 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR8K3 MUTATED        2      3      3      2
  OR8K3 WILD-TYPE     98     69     69    119
D1432V7, multiclass
        clus
vv       OR8K3 MUTATED OR8K3 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR8K3 MUTATED        2      3      3      1      1
  OR8K3 WILD-TYPE     57     72     71    118     37
D1432V8, multiclass
        clus
vv       OR8K3 MUTATED OR8K3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR8K3 MUTATED        1      4      2      2      1
  OR8K3 WILD-TYPE     50     72     59     69     94
D1432V9, multiclass
        clus
vv       OR8K3 MUTATED OR8K3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR8K3 MUTATED        3      2      0      1      2      1      0      1
  OR8K3 WILD-TYPE     66     46     39     15     51     19     21     37
                 vv
clus              CLUS_9
  OR8K3 MUTATED        0
  OR8K3 WILD-TYPE     50
D1432V10, multiclass
        clus
vv       OR8K3 MUTATED OR8K3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR8K3 MUTATED        0      0      2      0      1      0
  OR8K3 WILD-TYPE     13     16     12     11     10      9
D1432V11, multiclass
        clus
vv       OR8K3 MUTATED OR8K3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR8K3 MUTATED        0      0      0      0      2      0      1      0
  OR8K3 WILD-TYPE     11      7      7      9      6      7     10      9
                 vv
clus              CLUS_9
  OR8K3 MUTATED        0
  OR8K3 WILD-TYPE      5
D1432V12, multiclass
        clus
vv       OR8K3 MUTATED OR8K3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             2               6
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1433) Variable = G2E3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  G2E3 MUTATED        1      0      0      1      0
  G2E3 WILD-TYPE     31     18     46     26     23
D1433V1, multiclass
[1] "Remove cluster labels:" "G2E3 MUTATED"          
clus
  G2E3 MUTATED G2E3 WILD-TYPE 
             2            144 
    TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  G2E3 MUTATED        2      0      0
  G2E3 WILD-TYPE     41     67     36
D1433V2, multiclass
[1] "Remove cluster labels:" "G2E3 MUTATED"          
clus
  G2E3 MUTATED G2E3 WILD-TYPE 
             2            144 
    TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  G2E3 MUTATED        0      2     10
  G2E3 WILD-TYPE     42    171    137
D1433V3, multiclass
        clus
vv       G2E3 MUTATED G2E3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  G2E3 MUTATED        5      3      2
  G2E3 WILD-TYPE     57     70     73
D1433V4, multiclass
        clus
vv       G2E3 MUTATED G2E3 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            3             70
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  G2E3 MUTATED        0      4      7
  G2E3 WILD-TYPE     70    116     93
D1433V5, multiclass
        clus
vv       G2E3 MUTATED G2E3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  G2E3 MUTATED        2      1      0      0      1      5      1      1      0
  G2E3 WILD-TYPE     39     25     30     29     38     64     19     13     22
D1433V6, multiclass
        clus
vv       G2E3 MUTATED G2E3 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  G2E3 MUTATED        2      5      2      3
  G2E3 WILD-TYPE     98     67     70    118
D1433V7, multiclass
        clus
vv       G2E3 MUTATED G2E3 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  G2E3 MUTATED        3      1      5      1      2
  G2E3 WILD-TYPE     56     74     69    118     36
D1433V8, multiclass
        clus
vv       G2E3 MUTATED G2E3 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  G2E3 MUTATED        0      3      2      3      3
  G2E3 WILD-TYPE     51     73     59     68     92
D1433V9, multiclass
        clus
vv       G2E3 MUTATED G2E3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            3             68
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  G2E3 MUTATED        3      2      0      2      0      1      0      1      2
  G2E3 WILD-TYPE     66     46     39     14     53     19     21     37     48
D1433V10, multiclass
        clus
vv       G2E3 MUTATED G2E3 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  G2E3 MUTATED        0      0      0      2      0      0
  G2E3 WILD-TYPE     13     16     14      9     11      9
D1433V11, multiclass
[1] "Remove cluster labels:" "G2E3 MUTATED"          
clus
  G2E3 MUTATED G2E3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6677     TCGA-CM-6679     TCGA-CM-6680 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  G2E3 MUTATED        0      0      0      0      0      0      1      1      0
  G2E3 WILD-TYPE     11      7      7      9      8      7     10      8      5
D1433V12, multiclass
[1] "Remove cluster labels:" "G2E3 MUTATED"          
clus
  G2E3 MUTATED G2E3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6677     TCGA-CM-6679     TCGA-CM-6680 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" "G2E3 WILD-TYPE" 

Clustering(1434) Variable = GRK5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRK5 MUTATED        1      0      1      1      1
  GRK5 WILD-TYPE     31     18     45     26     22
D1434V1, multiclass
        clus
vv       GRK5 MUTATED GRK5 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRK5 MUTATED        2      2      0
  GRK5 WILD-TYPE     41     65     36
D1434V2, multiclass
        clus
vv       GRK5 MUTATED GRK5 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRK5 MUTATED        1      4      6
  GRK5 WILD-TYPE     41    169    141
D1434V3, multiclass
        clus
vv       GRK5 MUTATED GRK5 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRK5 MUTATED        4      1      2
  GRK5 WILD-TYPE     58     72     73
D1434V4, multiclass
        clus
vv       GRK5 MUTATED GRK5 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GRK5 MUTATED        0      4      5
  GRK5 WILD-TYPE     70    116     95
D1434V5, multiclass
        clus
vv       GRK5 MUTATED GRK5 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRK5 MUTATED        1      0      1      1      1      4      1      0      0
  GRK5 WILD-TYPE     40     26     29     28     38     65     19     14     22
D1434V6, multiclass
        clus
vv       GRK5 MUTATED GRK5 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRK5 MUTATED        2      2      3      4
  GRK5 WILD-TYPE     98     70     69    117
D1434V7, multiclass
        clus
vv       GRK5 MUTATED GRK5 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            3             69
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRK5 MUTATED        3      1      3      2      2
  GRK5 WILD-TYPE     56     74     71    117     36
D1434V8, multiclass
        clus
vv       GRK5 MUTATED GRK5 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRK5 MUTATED        2      3      3      0      3
  GRK5 WILD-TYPE     49     73     58     71     92
D1434V9, multiclass
        clus
vv       GRK5 MUTATED GRK5 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            3             73
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRK5 MUTATED        1      3      1      0      2      1      1      2      0
  GRK5 WILD-TYPE     68     45     38     16     51     19     20     36     50
D1434V10, multiclass
        clus
vv       GRK5 MUTATED GRK5 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GRK5 MUTATED        0      1      0      0      0      0
  GRK5 WILD-TYPE     13     15     14     11     11      9
D1434V11, multiclass
[1] "Remove cluster labels:" "GRK5 MUTATED"          
clus
  GRK5 MUTATED GRK5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6653     TCGA-A6-6654 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-G4-6628 
"GRK5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GRK5 MUTATED        0      1      0      0      0      0      0      0      0
  GRK5 WILD-TYPE     11      6      7      9      8      7     11      9      5
D1434V12, multiclass
[1] "Remove cluster labels:" "GRK5 MUTATED"          
clus
  GRK5 MUTATED GRK5 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6653     TCGA-A6-6654 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" "GRK5 WILD-TYPE" 
    TCGA-G4-6628 
"GRK5 WILD-TYPE" 

Clustering(1435) Variable = GLDN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLDN MUTATED        2      0      0      0      0
  GLDN WILD-TYPE     30     18     46     27     23
D1435V1, multiclass
[1] "Remove cluster labels:" "GLDN MUTATED"          
clus
  GLDN MUTATED GLDN WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLDN MUTATED        1      0      1
  GLDN WILD-TYPE     42     67     35
D1435V2, multiclass
[1] "Remove cluster labels:" "GLDN MUTATED"          
clus
  GLDN MUTATED GLDN WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLDN MUTATED        0      1      6
  GLDN WILD-TYPE     42    172    141
D1435V3, multiclass
        clus
vv       GLDN MUTATED GLDN WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLDN MUTATED        3      2      0
  GLDN WILD-TYPE     59     71     75
D1435V4, multiclass
        clus
vv       GLDN MUTATED GLDN WILD-TYPE
  CLUS_1            3             59
  CLUS_2            2             71
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLDN MUTATED        0      1      4
  GLDN WILD-TYPE     70    119     96
D1435V5, multiclass
        clus
vv       GLDN MUTATED GLDN WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GLDN MUTATED        0      0      0      0      0      5      0      0      0
  GLDN WILD-TYPE     41     26     30     29     39     64     20     14     22
D1435V6, multiclass
        clus
vv       GLDN MUTATED GLDN WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GLDN MUTATED        2      1      2      2
  GLDN WILD-TYPE     98     71     70    119
D1435V7, multiclass
        clus
vv       GLDN MUTATED GLDN WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLDN MUTATED        0      2      3      1      1
  GLDN WILD-TYPE     59     73     71    118     37
D1435V8, multiclass
        clus
vv       GLDN MUTATED GLDN WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLDN MUTATED        0      4      0      2      1
  GLDN WILD-TYPE     51     72     61     69     94
D1435V9, multiclass
        clus
vv       GLDN MUTATED GLDN WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GLDN MUTATED        3      2      0      0      1      0      0      1      0
  GLDN WILD-TYPE     66     46     39     16     52     20     21     37     50
D1435V10, multiclass
        clus
vv       GLDN MUTATED GLDN WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GLDN MUTATED        1      0      0      0      1      0
  GLDN WILD-TYPE     12     16     14     11     10      9
D1435V11, multiclass
[1] "Remove cluster labels:" "GLDN MUTATED"          
clus
  GLDN MUTATED GLDN WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GLDN MUTATED        0      0      0      1      0      0      1      0      0
  GLDN WILD-TYPE     11      7      7      8      8      7     10      9      5
D1435V12, multiclass
[1] "Remove cluster labels:" "GLDN MUTATED"          
clus
  GLDN MUTATED GLDN WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" "GLDN WILD-TYPE" 

Clustering(1436) Variable = LAMA3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAMA3 MUTATED        5      1      0      3      3
  LAMA3 WILD-TYPE     27     17     46     24     20
D1436V1, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             3              20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMA3 MUTATED        5      4      3
  LAMA3 WILD-TYPE     38     63     33
D1436V2, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             4              63
  CLUS_3             3              33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMA3 MUTATED        3      8     22
  LAMA3 WILD-TYPE     39    165    125
D1436V3, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             8             165
  CLUS_3            22             125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMA3 MUTATED        6      2     13
  LAMA3 WILD-TYPE     56     71     62
D1436V4, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             2              71
  CLUS_3            13              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMA3 MUTATED        6      8     13
  LAMA3 WILD-TYPE     64    112     87
D1436V5, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             6              64
  CLUS_2             8             112
  CLUS_3            13              87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAMA3 MUTATED        5      2      3      3      0     10      3      1
  LAMA3 WILD-TYPE     36     24     27     26     39     59     17     13
                 vv
clus              CLUS_9
  LAMA3 MUTATED        0
  LAMA3 WILD-TYPE     22
D1436V6, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             5              36
  CLUS_2             2              24
  CLUS_3             3              27
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6            10              59
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LAMA3 MUTATED        3     14      5     12
  LAMA3 WILD-TYPE     97     58     67    109
D1436V7, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2            14              58
  CLUS_3             5              67
  CLUS_4            12             109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAMA3 MUTATED        2      6     12      9      5
  LAMA3 WILD-TYPE     57     69     62    110     33
D1436V8, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             6              69
  CLUS_3            12              62
  CLUS_4             9             110
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LAMA3 MUTATED        4     13      1      5     10
  LAMA3 WILD-TYPE     47     63     60     66     85
D1436V9, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             4              47
  CLUS_2            13              63
  CLUS_3             1              60
  CLUS_4             5              66
  CLUS_5            10              85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAMA3 MUTATED        5      3      1      6      4      3      3      5
  LAMA3 WILD-TYPE     64     45     38     10     49     17     18     33
                 vv
clus              CLUS_9
  LAMA3 MUTATED        3
  LAMA3 WILD-TYPE     47
D1436V10, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             6              10
  CLUS_5             4              49
  CLUS_6             3              17
  CLUS_7             3              18
  CLUS_8             5              33
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LAMA3 MUTATED        0      1      1      0      3      0
  LAMA3 WILD-TYPE     13     15     13     11      8      9
D1436V11, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LAMA3 MUTATED        1      0      0      1      1      0      2      0
  LAMA3 WILD-TYPE     10      7      7      8      7      7      9      9
                 vv
clus              CLUS_9
  LAMA3 MUTATED        0
  LAMA3 WILD-TYPE      5
D1436V12, multiclass
        clus
vv       LAMA3 MUTATED LAMA3 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1437) Variable = GNG12 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNG12 MUTATED        0      0      0      0      0
  GNG12 WILD-TYPE     32     18     46     27     23
D1437V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNG12 MUTATED        0      0      0
  GNG12 WILD-TYPE     43     67     36
D1437V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNG12 MUTATED        1      0      7
  GNG12 WILD-TYPE     41    173    140
D1437V3, multiclass
        clus
vv       GNG12 MUTATED GNG12 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNG12 MUTATED        2      0      6
  GNG12 WILD-TYPE     60     73     69
D1437V4, multiclass
        clus
vv       GNG12 MUTATED GNG12 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GNG12 MUTATED        0      3      4
  GNG12 WILD-TYPE     70    117     96
D1437V5, multiclass
        clus
vv       GNG12 MUTATED GNG12 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNG12 MUTATED        0      1      0      2      0      4      0      0
  GNG12 WILD-TYPE     41     25     30     27     39     65     20     14
                 vv
clus              CLUS_9
  GNG12 MUTATED        0
  GNG12 WILD-TYPE     22
D1437V6, multiclass
        clus
vv       GNG12 MUTATED GNG12 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GNG12 MUTATED        0      6      2      0
  GNG12 WILD-TYPE    100     66     70    121
D1437V7, multiclass
        clus
vv       GNG12 MUTATED GNG12 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             2              70
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNG12 MUTATED        0      0      8      0      0
  GNG12 WILD-TYPE     59     75     66    119     38
D1437V8, multiclass
        clus
vv       GNG12 MUTATED GNG12 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             8              66
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNG12 MUTATED        0      8      0      0      0
  GNG12 WILD-TYPE     51     68     61     71     95
D1437V9, multiclass
        clus
vv       GNG12 MUTATED GNG12 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             8              68
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNG12 MUTATED        4      0      0      4      0      0      0      0
  GNG12 WILD-TYPE     65     48     39     12     53     20     21     38
                 vv
clus              CLUS_9
  GNG12 MUTATED        0
  GNG12 WILD-TYPE     50
D1437V10, multiclass
        clus
vv       GNG12 MUTATED GNG12 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GNG12 MUTATED        0      0      1      0      3      0
  GNG12 WILD-TYPE     13     16     13     11      8      9
D1437V11, multiclass
        clus
vv       GNG12 MUTATED GNG12 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GNG12 MUTATED        0      0      0      2      0      1      1      0
  GNG12 WILD-TYPE     11      7      7      7      8      6     10      9
                 vv
clus              CLUS_9
  GNG12 MUTATED        0
  GNG12 WILD-TYPE      5
D1437V12, multiclass
        clus
vv       GNG12 MUTATED GNG12 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1438) Variable = GUCY1A3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GUCY1A3 MUTATED        3      1      1      2      2
  GUCY1A3 WILD-TYPE     29     17     45     25     21
D1438V1, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               1                17
  CLUS_3               1                45
  CLUS_4               2                25
  CLUS_5               2                21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GUCY1A3 MUTATED        5      4      0
  GUCY1A3 WILD-TYPE     38     63     36
D1438V2, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               5                38
  CLUS_2               4                63
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GUCY1A3 MUTATED        4      5     13
  GUCY1A3 WILD-TYPE     38    168    134
D1438V3, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               4                38
  CLUS_2               5               168
  CLUS_3              13               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GUCY1A3 MUTATED        3      3      6
  GUCY1A3 WILD-TYPE     59     70     69
D1438V4, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               3                70
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GUCY1A3 MUTATED        2      9      6
  GUCY1A3 WILD-TYPE     68    111     94
D1438V5, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               9               111
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GUCY1A3 MUTATED        2      2      2      5      2      2      1      1
  GUCY1A3 WILD-TYPE     39     24     28     24     37     67     19     13
                   vv
clus                CLUS_9
  GUCY1A3 MUTATED        0
  GUCY1A3 WILD-TYPE     22
D1438V6, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               2                24
  CLUS_3               2                28
  CLUS_4               5                24
  CLUS_5               2                37
  CLUS_6               2                67
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GUCY1A3 MUTATED        3      8      2      9
  GUCY1A3 WILD-TYPE     97     64     70    112
D1438V7, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               8                64
  CLUS_3               2                70
  CLUS_4               9               112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GUCY1A3 MUTATED        2      4      6      5      5
  GUCY1A3 WILD-TYPE     57     71     68    114     33
D1438V8, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               4                71
  CLUS_3               6                68
  CLUS_4               5               114
  CLUS_5               5                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GUCY1A3 MUTATED        2      7      3      3      6
  GUCY1A3 WILD-TYPE     49     69     58     68     89
D1438V9, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               7                69
  CLUS_3               3                58
  CLUS_4               3                68
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GUCY1A3 MUTATED        1      2      3      4      2      2      0      5
  GUCY1A3 WILD-TYPE     68     46     36     12     51     18     21     33
                   vv
clus                CLUS_9
  GUCY1A3 MUTATED        2
  GUCY1A3 WILD-TYPE     48
D1438V10, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               3                36
  CLUS_4               4                12
  CLUS_5               2                51
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               5                33
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GUCY1A3 MUTATED        2      1      1      0      1      0
  GUCY1A3 WILD-TYPE     11     15     13     11     10      9
D1438V11, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               2                11
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GUCY1A3 MUTATED        0      1      0      2      1      0      0      1
  GUCY1A3 WILD-TYPE     11      6      7      7      7      7     11      8
                   vv
clus                CLUS_9
  GUCY1A3 MUTATED        0
  GUCY1A3 WILD-TYPE      5
D1438V12, multiclass
        clus
vv       GUCY1A3 MUTATED GUCY1A3 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1439) Variable = CALB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CALB2 MUTATED        1      0      0      0      0
  CALB2 WILD-TYPE     31     18     46     27     23
D1439V1, multiclass
[1] "Remove cluster labels:" "CALB2 MUTATED"         
clus
  CALB2 MUTATED CALB2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AY-4071 
"CALB2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CALB2 MUTATED        1      0      0
  CALB2 WILD-TYPE     42     67     36
D1439V2, multiclass
[1] "Remove cluster labels:" "CALB2 MUTATED"         
clus
  CALB2 MUTATED CALB2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AY-4071 
"CALB2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CALB2 MUTATED        0      1      3
  CALB2 WILD-TYPE     42    172    144
D1439V3, multiclass
        clus
vv       CALB2 MUTATED CALB2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CALB2 MUTATED        1      0      2
  CALB2 WILD-TYPE     61     73     73
D1439V4, multiclass
        clus
vv       CALB2 MUTATED CALB2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CALB2 MUTATED        1      1      1
  CALB2 WILD-TYPE     69    119     99
D1439V5, multiclass
        clus
vv       CALB2 MUTATED CALB2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CALB2 MUTATED        1      0      0      1      0      1      0      0
  CALB2 WILD-TYPE     40     26     30     28     39     68     20     14
                 vv
clus              CLUS_9
  CALB2 MUTATED        0
  CALB2 WILD-TYPE     22
D1439V6, multiclass
        clus
vv       CALB2 MUTATED CALB2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CALB2 MUTATED        0      1      2      1
  CALB2 WILD-TYPE    100     71     70    120
D1439V7, multiclass
        clus
vv       CALB2 MUTATED CALB2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CALB2 MUTATED        0      0      3      0      1
  CALB2 WILD-TYPE     59     75     71    119     37
D1439V8, multiclass
        clus
vv       CALB2 MUTATED CALB2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CALB2 MUTATED        1      2      0      0      1
  CALB2 WILD-TYPE     50     74     61     71     94
D1439V9, multiclass
        clus
vv       CALB2 MUTATED CALB2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CALB2 MUTATED        1      1      0      0      0      1      0      1
  CALB2 WILD-TYPE     68     47     39     16     53     19     21     37
                 vv
clus              CLUS_9
  CALB2 MUTATED        0
  CALB2 WILD-TYPE     50
D1439V10, multiclass
        clus
vv       CALB2 MUTATED CALB2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CALB2 MUTATED        0      1      1      0      0      0
  CALB2 WILD-TYPE     13     15     13     11     11      9
D1439V11, multiclass
[1] "Remove cluster labels:" "CALB2 MUTATED"         
clus
  CALB2 MUTATED CALB2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CALB2 MUTATED        0      0      0      0      0      0      2      0
  CALB2 WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  CALB2 MUTATED        0
  CALB2 WILD-TYPE      5
D1439V12, multiclass
[1] "Remove cluster labels:" "CALB2 MUTATED"         
clus
  CALB2 MUTATED CALB2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" "CALB2 WILD-TYPE" 

Clustering(1440) Variable = LRRN3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRN3 MUTATED        5      2      0      1      0
  LRRN3 WILD-TYPE     27     16     46     26     23
D1440V1, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             2              16
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRN3 MUTATED        5      3      0
  LRRN3 WILD-TYPE     38     64     36
D1440V2, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRN3 MUTATED        1      5     15
  LRRN3 WILD-TYPE     41    168    132
D1440V3, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRN3 MUTATED        5      3      4
  LRRN3 WILD-TYPE     57     70     71
D1440V4, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LRRN3 MUTATED        4      8      8
  LRRN3 WILD-TYPE     66    112     92
D1440V5, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             8             112
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRN3 MUTATED        1      2      2      1      3      7      2      1
  LRRN3 WILD-TYPE     40     24     28     28     36     62     18     13
                 vv
clus              CLUS_9
  LRRN3 MUTATED        1
  LRRN3 WILD-TYPE     21
D1440V6, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             7              62
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRRN3 MUTATED        2      4      6      9
  LRRN3 WILD-TYPE     98     68     66    112
D1440V7, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             6              66
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRN3 MUTATED        2      3      6      5      5
  LRRN3 WILD-TYPE     57     72     68    114     33
D1440V8, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             6              68
  CLUS_4             5             114
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRN3 MUTATED        2      3      3      2      9
  LRRN3 WILD-TYPE     49     73     58     69     86
D1440V9, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             9              86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRN3 MUTATED        2      2      0      2      2      1      2      4
  LRRN3 WILD-TYPE     67     46     39     14     51     19     19     34
                 vv
clus              CLUS_9
  LRRN3 MUTATED        4
  LRRN3 WILD-TYPE     46
D1440V10, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             2              19
  CLUS_8             4              34
  CLUS_9             4              46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LRRN3 MUTATED        0      0      1      1      1      0
  LRRN3 WILD-TYPE     13     16     13     10     10      9
D1440V11, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRN3 MUTATED        0      0      0      0      1      0      1      1
  LRRN3 WILD-TYPE     11      7      7      9      7      7     10      8
                 vv
clus              CLUS_9
  LRRN3 MUTATED        0
  LRRN3 WILD-TYPE      5
D1440V12, multiclass
        clus
vv       LRRN3 MUTATED LRRN3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1441) Variable = DEK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEK MUTATED        0      0      0      1      0
  DEK WILD-TYPE     32     18     46     26     23
D1441V1, multiclass
[1] "Remove cluster labels:" "DEK MUTATED"           
clus
  DEK MUTATED DEK WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3982    TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A004    TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A00J    TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00O    TCGA-AA-A00Q 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DEK MUTATED        1      0      0
  DEK WILD-TYPE     42     67     36
D1441V2, multiclass
[1] "Remove cluster labels:" "DEK MUTATED"           
clus
  DEK MUTATED DEK WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-3982    TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A004    TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A00J    TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00O    TCGA-AA-A00Q 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" "DEK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DEK MUTATED        1      1      4
  DEK WILD-TYPE     41    172    143
D1441V3, multiclass
        clus
vv       DEK MUTATED DEK WILD-TYPE
  CLUS_1           1            41
  CLUS_2           1           172
  CLUS_3           4           143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DEK MUTATED        1      2      2
  DEK WILD-TYPE     61     71     73
D1441V4, multiclass
        clus
vv       DEK MUTATED DEK WILD-TYPE
  CLUS_1           1            61
  CLUS_2           2            71
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DEK MUTATED        0      1      5
  DEK WILD-TYPE     70    119     95
D1441V5, multiclass
        clus
vv       DEK MUTATED DEK WILD-TYPE
  CLUS_1           0            70
  CLUS_2           1           119
  CLUS_3           5            95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DEK MUTATED        1      0      0      0      0      4      1      0      0
  DEK WILD-TYPE     40     26     30     29     39     65     19     14     22
D1441V6, multiclass
        clus
vv       DEK MUTATED DEK WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           0            39
  CLUS_6           4            65
  CLUS_7           1            19
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEK MUTATED        2      2      1      1
  DEK WILD-TYPE     98     70     71    120
D1441V7, multiclass
        clus
vv       DEK MUTATED DEK WILD-TYPE
  CLUS_1           2            98
  CLUS_2           2            70
  CLUS_3           1            71
  CLUS_4           1           120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEK MUTATED        1      2      2      0      1
  DEK WILD-TYPE     58     73     72    119     37
D1441V8, multiclass
        clus
vv       DEK MUTATED DEK WILD-TYPE
  CLUS_1           1            58
  CLUS_2           2            73
  CLUS_3           2            72
  CLUS_4           0           119
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEK MUTATED        1      2      1      1      0
  DEK WILD-TYPE     50     74     60     70     95
D1441V9, multiclass
        clus
vv       DEK MUTATED DEK WILD-TYPE
  CLUS_1           1            50
  CLUS_2           2            74
  CLUS_3           1            60
  CLUS_4           1            70
  CLUS_5           0            95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DEK MUTATED        2      1      1      0      1      0      0      0      0
  DEK WILD-TYPE     67     47     38     16     52     20     21     38     50
D1441V10, multiclass
        clus
vv       DEK MUTATED DEK WILD-TYPE
  CLUS_1           2            67
  CLUS_2           1            47
  CLUS_3           1            38
  CLUS_4           0            16
  CLUS_5           1            52
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEK MUTATED        0      0      0      0      0      0
  DEK WILD-TYPE     13     16     14     11     11      9
D1441V11, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DEK MUTATED        0      0      0      0      0      0      0      0      0
  DEK WILD-TYPE     11      7      7      9      8      7     11      9      5
D1441V12, multiclass

Clustering(1442) Variable = PCDH9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH9 MUTATED        5      2      3      4      3
  PCDH9 WILD-TYPE     27     16     43     23     20
D1442V1, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             2              16
  CLUS_3             3              43
  CLUS_4             4              23
  CLUS_5             3              20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCDH9 MUTATED        7      6      4
  PCDH9 WILD-TYPE     36     61     32
D1442V2, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             6              61
  CLUS_3             4              32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCDH9 MUTATED        4     13     20
  PCDH9 WILD-TYPE     38    160    127
D1442V3, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1             4              38
  CLUS_2            13             160
  CLUS_3            20             127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCDH9 MUTATED       10      3      8
  PCDH9 WILD-TYPE     52     70     67
D1442V4, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1            10              52
  CLUS_2             3              70
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCDH9 MUTATED        3     14     12
  PCDH9 WILD-TYPE     67    106     88
D1442V5, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1             3              67
  CLUS_2            14             106
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH9 MUTATED        3      1      2      4      3      8      4      1
  PCDH9 WILD-TYPE     38     25     28     25     36     61     16     13
                 vv
clus              CLUS_9
  PCDH9 MUTATED        3
  PCDH9 WILD-TYPE     19
D1442V6, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             4              25
  CLUS_5             3              36
  CLUS_6             8              61
  CLUS_7             4              16
  CLUS_8             1              13
  CLUS_9             3              19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDH9 MUTATED        6      9      5     18
  PCDH9 WILD-TYPE     94     63     67    103
D1442V7, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1             6              94
  CLUS_2             9              63
  CLUS_3             5              67
  CLUS_4            18             103
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH9 MUTATED        4      5     10     13      6
  PCDH9 WILD-TYPE     55     70     64    106     32
D1442V8, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             5              70
  CLUS_3            10              64
  CLUS_4            13             106
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDH9 MUTATED        4     10      6      6     10
  PCDH9 WILD-TYPE     47     66     55     65     85
D1442V9, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1             4              47
  CLUS_2            10              66
  CLUS_3             6              55
  CLUS_4             6              65
  CLUS_5            10              85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH9 MUTATED        3      7      6      3      3      2      3      5
  PCDH9 WILD-TYPE     66     41     33     13     50     18     18     33
                 vv
clus              CLUS_9
  PCDH9 MUTATED        4
  PCDH9 WILD-TYPE     46
D1442V10, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             7              41
  CLUS_3             6              33
  CLUS_4             3              13
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             3              18
  CLUS_8             5              33
  CLUS_9             4              46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCDH9 MUTATED        0      1      1      0      2      0
  PCDH9 WILD-TYPE     13     15     13     11      9      9
D1442V11, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDH9 MUTATED        1      0      0      1      1      0      1      0
  PCDH9 WILD-TYPE     10      7      7      8      7      7     10      9
                 vv
clus              CLUS_9
  PCDH9 MUTATED        0
  PCDH9 WILD-TYPE      5
D1442V12, multiclass
        clus
vv       PCDH9 MUTATED PCDH9 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1443) Variable = LIX1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIX1 MUTATED        2      0      0      1      0
  LIX1 WILD-TYPE     30     18     46     26     23
D1443V1, multiclass
        clus
vv       LIX1 MUTATED LIX1 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIX1 MUTATED        2      1      0
  LIX1 WILD-TYPE     41     66     36
D1443V2, multiclass
        clus
vv       LIX1 MUTATED LIX1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIX1 MUTATED        2      1      6
  LIX1 WILD-TYPE     40    172    141
D1443V3, multiclass
        clus
vv       LIX1 MUTATED LIX1 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1            172
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIX1 MUTATED        3      1      2
  LIX1 WILD-TYPE     59     72     73
D1443V4, multiclass
        clus
vv       LIX1 MUTATED LIX1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIX1 MUTATED        1      3      4
  LIX1 WILD-TYPE     69    117     96
D1443V5, multiclass
        clus
vv       LIX1 MUTATED LIX1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LIX1 MUTATED        1      1      1      0      1      3      0      0      1
  LIX1 WILD-TYPE     40     25     29     29     38     66     20     14     21
D1443V6, multiclass
        clus
vv       LIX1 MUTATED LIX1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LIX1 MUTATED        1      3      2      3
  LIX1 WILD-TYPE     99     69     70    118
D1443V7, multiclass
        clus
vv       LIX1 MUTATED LIX1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIX1 MUTATED        0      1      5      1      2
  LIX1 WILD-TYPE     59     74     69    118     36
D1443V8, multiclass
        clus
vv       LIX1 MUTATED LIX1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIX1 MUTATED        0      4      1      0      4
  LIX1 WILD-TYPE     51     72     60     71     91
D1443V9, multiclass
        clus
vv       LIX1 MUTATED LIX1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LIX1 MUTATED        2      2      0      0      0      2      0      3      0
  LIX1 WILD-TYPE     67     46     39     16     53     18     21     35     50
D1443V10, multiclass
        clus
vv       LIX1 MUTATED LIX1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LIX1 MUTATED        0      1      0      0      1      0
  LIX1 WILD-TYPE     13     15     14     11     10      9
D1443V11, multiclass
[1] "Remove cluster labels:" "LIX1 MUTATED"          
clus
  LIX1 MUTATED LIX1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LIX1 MUTATED        1      0      0      0      0      0      1      0      0
  LIX1 WILD-TYPE     10      7      7      9      8      7     10      9      5
D1443V12, multiclass
[1] "Remove cluster labels:" "LIX1 MUTATED"          
clus
  LIX1 MUTATED LIX1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" "LIX1 WILD-TYPE" 

Clustering(1444) Variable = C3ORF63 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C3ORF63 MUTATED        4      0      0      2      0
  C3ORF63 WILD-TYPE     28     18     46     25     23
D1444V1, multiclass
        clus
vv       C3ORF63 MUTATED C3ORF63 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C3ORF63 MUTATED        4      1      1
  C3ORF63 WILD-TYPE     39     66     35
D1444V2, multiclass
        clus
vv       C3ORF63 MUTATED C3ORF63 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C3ORF63 MUTATED        2      6     13
  C3ORF63 WILD-TYPE     40    167    134
D1444V3, multiclass
        clus
vv       C3ORF63 MUTATED C3ORF63 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               6               167
  CLUS_3              13               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C3ORF63 MUTATED        5      5      6
  C3ORF63 WILD-TYPE     57     68     69
D1444V4, multiclass
        clus
vv       C3ORF63 MUTATED C3ORF63 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               5                68
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C3ORF63 MUTATED        1      8      9
  C3ORF63 WILD-TYPE     69    112     91
D1444V5, multiclass
        clus
vv       C3ORF63 MUTATED C3ORF63 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               8               112
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C3ORF63 MUTATED        2      0      1      3      3      5      1      1
  C3ORF63 WILD-TYPE     39     26     29     26     36     64     19     13
                   vv
clus                CLUS_9
  C3ORF63 MUTATED        2
  C3ORF63 WILD-TYPE     20
D1444V6, multiclass
        clus
vv       C3ORF63 MUTATED C3ORF63 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               3                26
  CLUS_5               3                36
  CLUS_6               5                64
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               2                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C3ORF63 MUTATED        5      6      4      6
  C3ORF63 WILD-TYPE     95     66     68    115
D1444V7, multiclass
        clus
vv       C3ORF63 MUTATED C3ORF63 WILD-TYPE
  CLUS_1               5                95
  CLUS_2               6                66
  CLUS_3               4                68
  CLUS_4               6               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C3ORF63 MUTATED        4      5      6      2      4
  C3ORF63 WILD-TYPE     55     70     68    117     34
D1444V8, multiclass
        clus
vv       C3ORF63 MUTATED C3ORF63 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               5                70
  CLUS_3               6                68
  CLUS_4               2               117
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C3ORF63 MUTATED        4      7      3      1      5
  C3ORF63 WILD-TYPE     47     69     58     70     90
D1444V9, multiclass
        clus
vv       C3ORF63 MUTATED C3ORF63 WILD-TYPE
  CLUS_1               4                47
  CLUS_2               7                69
  CLUS_3               3                58
  CLUS_4               1                70
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C3ORF63 MUTATED        1      3      2      5      4      2      0      2
  C3ORF63 WILD-TYPE     68     45     37     11     49     18     21     36
                   vv
clus                CLUS_9
  C3ORF63 MUTATED        1
  C3ORF63 WILD-TYPE     49
D1444V10, multiclass
        clus
vv       C3ORF63 MUTATED C3ORF63 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               2                37
  CLUS_4               5                11
  CLUS_5               4                49
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C3ORF63 MUTATED        0      0      0      0      2      0
  C3ORF63 WILD-TYPE     13     16     14     11      9      9
D1444V11, multiclass
[1] "Remove cluster labels:" "C3ORF63 MUTATED"       
clus
  C3ORF63 MUTATED C3ORF63 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625        TCGA-G4-6628 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C3ORF63 MUTATED        0      0      0      2      0      0      0      0
  C3ORF63 WILD-TYPE     11      7      7      7      8      7     11      9
                   vv
clus                CLUS_9
  C3ORF63 MUTATED        0
  C3ORF63 WILD-TYPE      5
D1444V12, multiclass
[1] "Remove cluster labels:" "C3ORF63 MUTATED"       
clus
  C3ORF63 MUTATED C3ORF63 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6625        TCGA-G4-6628 
"C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" "C3ORF63 WILD-TYPE" 

Clustering(1445) Variable = FAM199X MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM199X MUTATED        1      1      0      0      0
  FAM199X WILD-TYPE     31     17     46     27     23
D1445V1, multiclass
[1] "Remove cluster labels:" "FAM199X MUTATED"       
clus
  FAM199X MUTATED FAM199X WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM199X MUTATED        1      0      1
  FAM199X WILD-TYPE     42     67     35
D1445V2, multiclass
[1] "Remove cluster labels:" "FAM199X MUTATED"       
clus
  FAM199X MUTATED FAM199X WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" "FAM199X WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM199X MUTATED        1      5      4
  FAM199X WILD-TYPE     41    168    143
D1445V3, multiclass
        clus
vv       FAM199X MUTATED FAM199X WILD-TYPE
  CLUS_1               1                41
  CLUS_2               5               168
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM199X MUTATED        2      2      4
  FAM199X WILD-TYPE     60     71     71
D1445V4, multiclass
        clus
vv       FAM199X MUTATED FAM199X WILD-TYPE
  CLUS_1               2                60
  CLUS_2               2                71
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM199X MUTATED        1      2      5
  FAM199X WILD-TYPE     69    118     95
D1445V5, multiclass
        clus
vv       FAM199X MUTATED FAM199X WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM199X MUTATED        3      0      0      1      0      2      2      0
  FAM199X WILD-TYPE     38     26     30     28     39     67     18     14
                   vv
clus                CLUS_9
  FAM199X MUTATED        0
  FAM199X WILD-TYPE     22
D1445V6, multiclass
        clus
vv       FAM199X MUTATED FAM199X WILD-TYPE
  CLUS_1               3                38
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM199X MUTATED        3      2      3      2
  FAM199X WILD-TYPE     97     70     69    119
D1445V7, multiclass
        clus
vv       FAM199X MUTATED FAM199X WILD-TYPE
  CLUS_1               3                97
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM199X MUTATED        2      2      4      1      1
  FAM199X WILD-TYPE     57     73     70    118     37
D1445V8, multiclass
        clus
vv       FAM199X MUTATED FAM199X WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM199X MUTATED        2      3      4      0      1
  FAM199X WILD-TYPE     49     73     57     71     94
D1445V9, multiclass
        clus
vv       FAM199X MUTATED FAM199X WILD-TYPE
  CLUS_1               2                49
  CLUS_2               3                73
  CLUS_3               4                57
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM199X MUTATED        0      4      0      1      3      0      2      0
  FAM199X WILD-TYPE     69     44     39     15     50     20     19     38
                   vv
clus                CLUS_9
  FAM199X MUTATED        0
  FAM199X WILD-TYPE     50
D1445V10, multiclass
        clus
vv       FAM199X MUTATED FAM199X WILD-TYPE
  CLUS_1               0                69
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               3                50
  CLUS_6               0                20
  CLUS_7               2                19
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM199X MUTATED        1      0      0      1      0      1
  FAM199X WILD-TYPE     12     16     14     10     11      8
D1445V11, multiclass
        clus
vv       FAM199X MUTATED FAM199X WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               1                10
  CLUS_5               0                11
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM199X MUTATED        0      0      1      1      0      1      0      0
  FAM199X WILD-TYPE     11      7      6      8      8      6     11      9
                   vv
clus                CLUS_9
  FAM199X MUTATED        0
  FAM199X WILD-TYPE      5
D1445V12, multiclass
        clus
vv       FAM199X MUTATED FAM199X WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1446) Variable = SKIV2L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SKIV2L MUTATED        0      1      0      2      0
  SKIV2L WILD-TYPE     32     17     46     25     23
D1446V1, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              0               32
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SKIV2L MUTATED        2      1      0
  SKIV2L WILD-TYPE     41     66     36
D1446V2, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SKIV2L MUTATED        2      1      9
  SKIV2L WILD-TYPE     40    172    138
D1446V3, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1              172
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SKIV2L MUTATED        2      2      5
  SKIV2L WILD-TYPE     60     71     70
D1446V4, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SKIV2L MUTATED        4      3      4
  SKIV2L WILD-TYPE     66    117     96
D1446V5, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              4               66
  CLUS_2              3              117
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SKIV2L MUTATED        3      0      1      1      2      1      2      1
  SKIV2L WILD-TYPE     38     26     29     28     37     68     18     13
                  vv
clus               CLUS_9
  SKIV2L MUTATED        0
  SKIV2L WILD-TYPE     22
D1446V6, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              1               68
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SKIV2L MUTATED        0      7      2      3
  SKIV2L WILD-TYPE    100     65     70    118
D1446V7, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              0              100
  CLUS_2              7               65
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SKIV2L MUTATED        1      3      5      2      1
  SKIV2L WILD-TYPE     58     72     69    117     37
D1446V8, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              5               69
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SKIV2L MUTATED        1      6      3      0      2
  SKIV2L WILD-TYPE     50     70     58     71     93
D1446V9, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              1               50
  CLUS_2              6               70
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SKIV2L MUTATED        4      1      0      2      0      2      2      1
  SKIV2L WILD-TYPE     65     47     39     14     53     18     19     37
                  vv
clus               CLUS_9
  SKIV2L MUTATED        0
  SKIV2L WILD-TYPE     50
D1446V10, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              4               65
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              2               19
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SKIV2L MUTATED        1      1      0      1      1      0
  SKIV2L WILD-TYPE     12     15     14     10     10      9
D1446V11, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SKIV2L MUTATED        1      0      1      1      0      1      0      0
  SKIV2L WILD-TYPE     10      7      6      8      8      6     11      9
                  vv
clus               CLUS_9
  SKIV2L MUTATED        0
  SKIV2L WILD-TYPE      5
D1446V12, multiclass
        clus
vv       SKIV2L MUTATED SKIV2L WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1447) Variable = TAPBP MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAPBP MUTATED        2      0      0      0      0
  TAPBP WILD-TYPE     30     18     46     27     23
D1447V1, multiclass
[1] "Remove cluster labels:" "TAPBP MUTATED"         
clus
  TAPBP MUTATED TAPBP WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3837 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAPBP MUTATED        2      0      0
  TAPBP WILD-TYPE     41     67     36
D1447V2, multiclass
[1] "Remove cluster labels:" "TAPBP MUTATED"         
clus
  TAPBP MUTATED TAPBP WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3837 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAPBP MUTATED        0      1      2
  TAPBP WILD-TYPE     42    172    145
D1447V3, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAPBP MUTATED        0      1      0
  TAPBP WILD-TYPE     62     72     75
D1447V4, multiclass
[1] "Remove cluster labels:" "TAPBP MUTATED"         
clus
  TAPBP MUTATED TAPBP WILD-TYPE 
              1             209 
     TCGA-A6-2671      TCGA-A6-2677      TCGA-A6-3809      TCGA-A6-3810 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-A6-4105      TCGA-A6-5656      TCGA-A6-5657      TCGA-A6-5659 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662      TCGA-A6-5664 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502      TCGA-AA-3510 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3511      TCGA-AA-3655      TCGA-AA-3660      TCGA-AA-3662 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AA-3663      TCGA-AA-3697      TCGA-AA-3712      TCGA-AA-3713 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6888      TCGA-AD-6889 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AD-6890      TCGA-AD-6895      TCGA-AD-6899      TCGA-AD-6901 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AU-3779 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AZ-4681      TCGA-AZ-4682      TCGA-AZ-5403      TCGA-AZ-5407 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600      TCGA-AZ-6601 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606      TCGA-AZ-6607 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255      TCGA-CA-5796 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CA-5797      TCGA-CA-6715      TCGA-CA-6716      TCGA-CA-6717 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-4947      TCGA-CK-4948 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CK-4950      TCGA-CK-4952      TCGA-CK-5912      TCGA-CK-5913 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CK-5914      TCGA-CK-5915      TCGA-CK-5916      TCGA-CK-6746 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CK-6747      TCGA-CK-6748      TCGA-CK-6751      TCGA-CM-4743 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CM-4744      TCGA-CM-4746      TCGA-CM-4747      TCGA-CM-4752 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CM-5341      TCGA-CM-5344      TCGA-CM-5348      TCGA-CM-5349 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-5861      TCGA-CM-5863      TCGA-CM-5864 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CM-5868      TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CM-6164      TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CM-6168      TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CM-6172      TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-5538      TCGA-D5-5539      TCGA-D5-5540 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-D5-5541      TCGA-D5-6529      TCGA-D5-6532      TCGA-D5-6533 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6535      TCGA-D5-6536      TCGA-D5-6537 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-D5-6538      TCGA-D5-6539      TCGA-D5-6540      TCGA-D5-6541 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-D5-6898      TCGA-D5-6920      TCGA-D5-6922      TCGA-D5-6923 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-D5-6924      TCGA-D5-6926      TCGA-D5-6927      TCGA-D5-6928 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-D5-6929      TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-D5-7000      TCGA-DM-A0X9      TCGA-DM-A0XD      TCGA-DM-A0XF 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-DM-A1HA      TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A285 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-DM-A28C      TCGA-DM-A28E      TCGA-DM-A28F      TCGA-DM-A28G 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-DM-A28H      TCGA-DM-A28K      TCGA-F4-6459      TCGA-F4-6460 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-F4-6809      TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-G4-6293      TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-G4-6315      TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-G4-6586      TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626 
"TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" "TAPBP WILD-TYPE" 
     TCGA-G4-6628 
"TAPBP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAPBP MUTATED        1      0      2
  TAPBP WILD-TYPE     69    120     98
D1447V5, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             1              69
  CLUS_2             0             120
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAPBP MUTATED        1      0      0      0      0      2      0      0
  TAPBP WILD-TYPE     40     26     30     29     39     67     20     14
                 vv
clus              CLUS_9
  TAPBP MUTATED        0
  TAPBP WILD-TYPE     22
D1447V6, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAPBP MUTATED        1      0      0      2
  TAPBP WILD-TYPE     99     72     72    119
D1447V7, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             1              99
  CLUS_2             0              72
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAPBP MUTATED        1      0      0      0      2
  TAPBP WILD-TYPE     58     75     74    119     36
D1447V8, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             0              74
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAPBP MUTATED        1      0      1      0      1
  TAPBP WILD-TYPE     50     76     60     71     94
D1447V9, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             1              50
  CLUS_2             0              76
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAPBP MUTATED        0      0      0      0      1      0      1      1
  TAPBP WILD-TYPE     69     48     39     16     52     20     20     37
                 vv
clus              CLUS_9
  TAPBP MUTATED        0
  TAPBP WILD-TYPE     50
D1447V10, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAPBP MUTATED        0      0      0      0      0      0
  TAPBP WILD-TYPE     13     16     14     11     11      9
D1447V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAPBP MUTATED        0      0      0      0      0      0      0      0
  TAPBP WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  TAPBP MUTATED        0
  TAPBP WILD-TYPE      5
D1447V12, multiclass

Clustering(1448) Variable = CDHR3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDHR3 MUTATED        0      0      0      0      0
  CDHR3 WILD-TYPE     32     18     46     27     23
D1448V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDHR3 MUTATED        0      0      0
  CDHR3 WILD-TYPE     43     67     36
D1448V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDHR3 MUTATED        0      0     13
  CDHR3 WILD-TYPE     42    173    134
D1448V3, multiclass
        clus
vv       CDHR3 MUTATED CDHR3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDHR3 MUTATED        9      0      4
  CDHR3 WILD-TYPE     53     73     71
D1448V4, multiclass
        clus
vv       CDHR3 MUTATED CDHR3 WILD-TYPE
  CLUS_1             9              53
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDHR3 MUTATED        2      2      8
  CDHR3 WILD-TYPE     68    118     92
D1448V5, multiclass
        clus
vv       CDHR3 MUTATED CDHR3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             118
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDHR3 MUTATED        2      1      0      1      0      6      1      1
  CDHR3 WILD-TYPE     39     25     30     28     39     63     19     13
                 vv
clus              CLUS_9
  CDHR3 MUTATED        0
  CDHR3 WILD-TYPE     22
D1448V6, multiclass
        clus
vv       CDHR3 MUTATED CDHR3 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDHR3 MUTATED        0      6      6      1
  CDHR3 WILD-TYPE    100     66     66    120
D1448V7, multiclass
        clus
vv       CDHR3 MUTATED CDHR3 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             6              66
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDHR3 MUTATED        1      1     10      1      0
  CDHR3 WILD-TYPE     58     74     64    118     38
D1448V8, multiclass
        clus
vv       CDHR3 MUTATED CDHR3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3            10              64
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDHR3 MUTATED        0      7      4      0      2
  CDHR3 WILD-TYPE     51     69     57     71     93
D1448V9, multiclass
        clus
vv       CDHR3 MUTATED CDHR3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             4              57
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDHR3 MUTATED        2      5      0      3      1      0      0      0
  CDHR3 WILD-TYPE     67     43     39     13     52     20     21     38
                 vv
clus              CLUS_9
  CDHR3 MUTATED        2
  CDHR3 WILD-TYPE     48
D1448V10, multiclass
        clus
vv       CDHR3 MUTATED CDHR3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDHR3 MUTATED        0      1      3      0      0      0
  CDHR3 WILD-TYPE     13     15     11     11     11      9
D1448V11, multiclass
        clus
vv       CDHR3 MUTATED CDHR3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             3              11
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDHR3 MUTATED        0      0      0      0      2      1      1      0
  CDHR3 WILD-TYPE     11      7      7      9      6      6     10      9
                 vv
clus              CLUS_9
  CDHR3 MUTATED        0
  CDHR3 WILD-TYPE      5
D1448V12, multiclass
        clus
vv       CDHR3 MUTATED CDHR3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             2               6
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1449) Variable = TJP1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TJP1 MUTATED        2      0      0      2      0
  TJP1 WILD-TYPE     30     18     46     25     23
D1449V1, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TJP1 MUTATED        4      0      0
  TJP1 WILD-TYPE     39     67     36
D1449V2, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TJP1 MUTATED        0      6     12
  TJP1 WILD-TYPE     42    167    135
D1449V3, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            6            167
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TJP1 MUTATED        4      3      7
  TJP1 WILD-TYPE     58     70     68
D1449V4, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TJP1 MUTATED        2      5      6
  TJP1 WILD-TYPE     68    115     94
D1449V5, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TJP1 MUTATED        1      0      0      2      3      7      0      0      0
  TJP1 WILD-TYPE     40     26     30     27     36     62     20     14     22
D1449V6, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            3             36
  CLUS_6            7             62
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TJP1 MUTATED        4      6      4      4
  TJP1 WILD-TYPE     96     66     68    117
D1449V7, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            6             66
  CLUS_3            4             68
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TJP1 MUTATED        1      3     10      0      4
  TJP1 WILD-TYPE     58     72     64    119     34
D1449V8, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3           10             64
  CLUS_4            0            119
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TJP1 MUTATED        3      5      4      1      4
  TJP1 WILD-TYPE     48     71     57     70     91
D1449V9, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            5             71
  CLUS_3            4             57
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TJP1 MUTATED        2      5      1      3      1      1      0      4      0
  TJP1 WILD-TYPE     67     43     38     13     52     19     21     34     50
D1449V10, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            4             34
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TJP1 MUTATED        0      2      0      0      1      0
  TJP1 WILD-TYPE     13     14     14     11     10      9
D1449V11, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TJP1 MUTATED        2      0      0      0      0      0      1      0      0
  TJP1 WILD-TYPE      9      7      7      9      8      7     10      9      5
D1449V12, multiclass
        clus
vv       TJP1 MUTATED TJP1 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1450) Variable = DPPA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPPA2 MUTATED        1      0      0      0      0
  DPPA2 WILD-TYPE     31     18     46     27     23
D1450V1, multiclass
[1] "Remove cluster labels:" "DPPA2 MUTATED"         
clus
  DPPA2 MUTATED DPPA2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AY-4071 
"DPPA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPPA2 MUTATED        1      0      0
  DPPA2 WILD-TYPE     42     67     36
D1450V2, multiclass
[1] "Remove cluster labels:" "DPPA2 MUTATED"         
clus
  DPPA2 MUTATED DPPA2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AY-4071 
"DPPA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPPA2 MUTATED        0      2      5
  DPPA2 WILD-TYPE     42    171    142
D1450V3, multiclass
        clus
vv       DPPA2 MUTATED DPPA2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPPA2 MUTATED        2      1      3
  DPPA2 WILD-TYPE     60     72     72
D1450V4, multiclass
        clus
vv       DPPA2 MUTATED DPPA2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPPA2 MUTATED        1      0      4
  DPPA2 WILD-TYPE     69    120     96
D1450V5, multiclass
        clus
vv       DPPA2 MUTATED DPPA2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             0             120
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DPPA2 MUTATED        2      0      0      0      0      2      1      0
  DPPA2 WILD-TYPE     39     26     30     29     39     67     19     14
                 vv
clus              CLUS_9
  DPPA2 MUTATED        0
  DPPA2 WILD-TYPE     22
D1450V6, multiclass
        clus
vv       DPPA2 MUTATED DPPA2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DPPA2 MUTATED        2      1      3      1
  DPPA2 WILD-TYPE     98     71     69    120
D1450V7, multiclass
        clus
vv       DPPA2 MUTATED DPPA2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPPA2 MUTATED        2      1      3      0      1
  DPPA2 WILD-TYPE     57     74     71    119     37
D1450V8, multiclass
        clus
vv       DPPA2 MUTATED DPPA2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPPA2 MUTATED        1      4      1      0      1
  DPPA2 WILD-TYPE     50     72     60     71     94
D1450V9, multiclass
        clus
vv       DPPA2 MUTATED DPPA2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DPPA2 MUTATED        2      3      0      1      0      0      0      1
  DPPA2 WILD-TYPE     67     45     39     15     53     20     21     37
                 vv
clus              CLUS_9
  DPPA2 MUTATED        0
  DPPA2 WILD-TYPE     50
D1450V10, multiclass
        clus
vv       DPPA2 MUTATED DPPA2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DPPA2 MUTATED        0      0      0      0      2      0
  DPPA2 WILD-TYPE     13     16     14     11      9      9
D1450V11, multiclass
[1] "Remove cluster labels:" "DPPA2 MUTATED"         
clus
  DPPA2 MUTATED DPPA2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-6748 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DPPA2 MUTATED        0      0      0      0      0      0      2      0
  DPPA2 WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  DPPA2 MUTATED        0
  DPPA2 WILD-TYPE      5
D1450V12, multiclass
[1] "Remove cluster labels:" "DPPA2 MUTATED"         
clus
  DPPA2 MUTATED DPPA2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-6748 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" "DPPA2 WILD-TYPE" 

Clustering(1451) Variable = HIST1H4L MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H4L MUTATED        1      0      0      0      0
  HIST1H4L WILD-TYPE     31     18     46     27     23
D1451V1, multiclass
[1] "Remove cluster labels:" "HIST1H4L MUTATED"      
clus
  HIST1H4L MUTATED HIST1H4L WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3811         TCGA-AA-3812 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AY-4071 
"HIST1H4L WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H4L MUTATED        1      0      0
  HIST1H4L WILD-TYPE     42     67     36
D1451V2, multiclass
[1] "Remove cluster labels:" "HIST1H4L MUTATED"      
clus
  HIST1H4L MUTATED HIST1H4L WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3811         TCGA-AA-3812 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AY-4071 
"HIST1H4L WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H4L MUTATED        0      3      3
  HIST1H4L WILD-TYPE     42    170    144
D1451V3, multiclass
        clus
vv       HIST1H4L MUTATED HIST1H4L WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H4L MUTATED        1      2      2
  HIST1H4L WILD-TYPE     61     71     73
D1451V4, multiclass
        clus
vv       HIST1H4L MUTATED HIST1H4L WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                2                 71
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H4L MUTATED        0      2      4
  HIST1H4L WILD-TYPE     70    118     96
D1451V5, multiclass
        clus
vv       HIST1H4L MUTATED HIST1H4L WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                118
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H4L MUTATED        1      0      0      0      1      3      1      0
  HIST1H4L WILD-TYPE     40     26     30     29     38     66     19     14
                    vv
clus                 CLUS_9
  HIST1H4L MUTATED        0
  HIST1H4L WILD-TYPE     22
D1451V6, multiclass
        clus
vv       HIST1H4L MUTATED HIST1H4L WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                3                 66
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST1H4L MUTATED        1      2      2      1
  HIST1H4L WILD-TYPE     99     70     70    120
D1451V7, multiclass
        clus
vv       HIST1H4L MUTATED HIST1H4L WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                2                 70
  CLUS_3                2                 70
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H4L MUTATED        2      0      3      0      1
  HIST1H4L WILD-TYPE     57     75     71    119     37
D1451V8, multiclass
        clus
vv       HIST1H4L MUTATED HIST1H4L WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                0                 75
  CLUS_3                3                 71
  CLUS_4                0                119
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H4L MUTATED        1      2      1      1      1
  HIST1H4L WILD-TYPE     50     74     60     70     94
D1451V9, multiclass
        clus
vv       HIST1H4L MUTATED HIST1H4L WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                2                 74
  CLUS_3                1                 60
  CLUS_4                1                 70
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H4L MUTATED        3      1      0      0      1      0      0      1
  HIST1H4L WILD-TYPE     66     47     39     16     52     20     21     37
                    vv
clus                 CLUS_9
  HIST1H4L MUTATED        0
  HIST1H4L WILD-TYPE     50
D1451V10, multiclass
        clus
vv       HIST1H4L MUTATED HIST1H4L WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIST1H4L MUTATED        0      0      0      1      1      0
  HIST1H4L WILD-TYPE     13     16     14     10     10      9
D1451V11, multiclass
[1] "Remove cluster labels:" "HIST1H4L MUTATED"      
clus
  HIST1H4L MUTATED HIST1H4L WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6649         TCGA-A6-6651 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6781 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-6748         TCGA-CM-5860 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H4L MUTATED        0      0      0      0      0      1      1      0
  HIST1H4L WILD-TYPE     11      7      7      9      8      6     10      9
                    vv
clus                 CLUS_9
  HIST1H4L MUTATED        0
  HIST1H4L WILD-TYPE      5
D1451V12, multiclass
[1] "Remove cluster labels:" "HIST1H4L MUTATED"      
clus
  HIST1H4L MUTATED HIST1H4L WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6649         TCGA-A6-6651 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6781 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-6748         TCGA-CM-5860 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" "HIST1H4L WILD-TYPE" 

Clustering(1452) Variable = AFF3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AFF3 MUTATED        4      0      0      3      0
  AFF3 WILD-TYPE     28     18     46     24     23
D1452V1, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AFF3 MUTATED        6      1      0
  AFF3 WILD-TYPE     37     66     36
D1452V2, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AFF3 MUTATED        1      3     18
  AFF3 WILD-TYPE     41    170    129
D1452V3, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3           18            129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AFF3 MUTATED        8      2      2
  AFF3 WILD-TYPE     54     71     73
D1452V4, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            8             54
  CLUS_2            2             71
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AFF3 MUTATED        3      8      8
  AFF3 WILD-TYPE     67    112     92
D1452V5, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            8            112
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AFF3 MUTATED        3      2      3      0      2      5      1      2      1
  AFF3 WILD-TYPE     38     24     27     29     37     64     19     12     21
D1452V6, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            2             24
  CLUS_3            3             27
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AFF3 MUTATED        3      3      7      9
  AFF3 WILD-TYPE     97     69     65    112
D1452V7, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            3             69
  CLUS_3            7             65
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AFF3 MUTATED        4      4      5      3      6
  AFF3 WILD-TYPE     55     71     69    116     32
D1452V8, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            4             55
  CLUS_2            4             71
  CLUS_3            5             69
  CLUS_4            3            116
  CLUS_5            6             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AFF3 MUTATED        1      5      4      1     10
  AFF3 WILD-TYPE     50     71     57     70     85
D1452V9, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            4             57
  CLUS_4            1             70
  CLUS_5           10             85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AFF3 MUTATED        0      7      0      1      2      2      1      4      4
  AFF3 WILD-TYPE     69     41     39     15     51     18     20     34     46
D1452V10, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            7             41
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            4             46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AFF3 MUTATED        0      1      0      0      2      0
  AFF3 WILD-TYPE     13     15     14     11      9      9
D1452V11, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AFF3 MUTATED        0      0      0      1      0      0      2      0      0
  AFF3 WILD-TYPE     11      7      7      8      8      7      9      9      5
D1452V12, multiclass
        clus
vv       AFF3 MUTATED AFF3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1453) Variable = TRAF3IP3 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRAF3IP3 MUTATED        5      0      0      0      0
  TRAF3IP3 WILD-TYPE     27     18     46     27     23
D1453V1, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                5                 27
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                0                 27
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TRAF3IP3 MUTATED        4      0      1
  TRAF3IP3 WILD-TYPE     39     67     35
D1453V2, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                0                 67
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TRAF3IP3 MUTATED        2      2      8
  TRAF3IP3 WILD-TYPE     40    171    139
D1453V3, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                2                171
  CLUS_3                8                139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TRAF3IP3 MUTATED        3      2      2
  TRAF3IP3 WILD-TYPE     59     71     73
D1453V4, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                2                 71
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TRAF3IP3 MUTATED        0      4      7
  TRAF3IP3 WILD-TYPE     70    116     93
D1453V5, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                4                116
  CLUS_3                7                 93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRAF3IP3 MUTATED        2      0      0      2      1      5      1      0
  TRAF3IP3 WILD-TYPE     39     26     30     27     38     64     19     14
                    vv
clus                 CLUS_9
  TRAF3IP3 MUTATED        0
  TRAF3IP3 WILD-TYPE     22
D1453V6, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                2                 27
  CLUS_5                1                 38
  CLUS_6                5                 64
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRAF3IP3 MUTATED        2      2      4      4
  TRAF3IP3 WILD-TYPE     98     70     68    117
D1453V7, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                2                 70
  CLUS_3                4                 68
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRAF3IP3 MUTATED        2      2      3      2      3
  TRAF3IP3 WILD-TYPE     57     73     71    117     35
D1453V8, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                2                 73
  CLUS_3                3                 71
  CLUS_4                2                117
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRAF3IP3 MUTATED        2      3      2      2      3
  TRAF3IP3 WILD-TYPE     49     73     59     69     92
D1453V9, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                3                 73
  CLUS_3                2                 59
  CLUS_4                2                 69
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRAF3IP3 MUTATED        1      3      1      1      3      0      1      2
  TRAF3IP3 WILD-TYPE     68     45     38     15     50     20     20     36
                    vv
clus                 CLUS_9
  TRAF3IP3 MUTATED        0
  TRAF3IP3 WILD-TYPE     50
D1453V10, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                3                 45
  CLUS_3                1                 38
  CLUS_4                1                 15
  CLUS_5                3                 50
  CLUS_6                0                 20
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRAF3IP3 MUTATED        1      0      0      0      1      1
  TRAF3IP3 WILD-TYPE     12     16     14     11     10      8
D1453V11, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                0                 16
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                1                 10
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRAF3IP3 MUTATED        1      0      0      0      0      0      1      1
  TRAF3IP3 WILD-TYPE     10      7      7      9      8      7     10      8
                    vv
clus                 CLUS_9
  TRAF3IP3 MUTATED        0
  TRAF3IP3 WILD-TYPE      5
D1453V12, multiclass
        clus
vv       TRAF3IP3 MUTATED TRAF3IP3 WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                1                  8
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1454) Variable = CDH24 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH24 MUTATED        3      0      0      2      0
  CDH24 WILD-TYPE     29     18     46     25     23
D1454V1, multiclass
        clus
vv       CDH24 MUTATED CDH24 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH24 MUTATED        3      2      0
  CDH24 WILD-TYPE     40     65     36
D1454V2, multiclass
        clus
vv       CDH24 MUTATED CDH24 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH24 MUTATED        0      2     10
  CDH24 WILD-TYPE     42    171    137
D1454V3, multiclass
        clus
vv       CDH24 MUTATED CDH24 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH24 MUTATED        1      0      6
  CDH24 WILD-TYPE     61     73     69
D1454V4, multiclass
        clus
vv       CDH24 MUTATED CDH24 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDH24 MUTATED        3      4      3
  CDH24 WILD-TYPE     67    116     97
D1454V5, multiclass
        clus
vv       CDH24 MUTATED CDH24 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDH24 MUTATED        0      1      2      1      3      2      0      1
  CDH24 WILD-TYPE     41     25     28     28     36     67     20     13
                 vv
clus              CLUS_9
  CDH24 MUTATED        0
  CDH24 WILD-TYPE     22
D1454V6, multiclass
        clus
vv       CDH24 MUTATED CDH24 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDH24 MUTATED        1      5      1      5
  CDH24 WILD-TYPE     99     67     71    116
D1454V7, multiclass
        clus
vv       CDH24 MUTATED CDH24 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH24 MUTATED        0      3      4      3      2
  CDH24 WILD-TYPE     59     72     70    116     36
D1454V8, multiclass
        clus
vv       CDH24 MUTATED CDH24 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH24 MUTATED        1      5      0      1      5
  CDH24 WILD-TYPE     50     71     61     70     90
D1454V9, multiclass
        clus
vv       CDH24 MUTATED CDH24 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDH24 MUTATED        6      0      1      0      0      1      1      3
  CDH24 WILD-TYPE     63     48     38     16     53     19     20     35
                 vv
clus              CLUS_9
  CDH24 MUTATED        0
  CDH24 WILD-TYPE     50
D1454V10, multiclass
        clus
vv       CDH24 MUTATED CDH24 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDH24 MUTATED        0      0      0      0      1      0
  CDH24 WILD-TYPE     13     16     14     11     10      9
D1454V11, multiclass
[1] "Remove cluster labels:" "CDH24 MUTATED"         
clus
  CDH24 MUTATED CDH24 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-G4-6628 
"CDH24 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDH24 MUTATED        0      0      0      0      0      1      0      0
  CDH24 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  CDH24 MUTATED        0
  CDH24 WILD-TYPE      5
D1454V12, multiclass
[1] "Remove cluster labels:" "CDH24 MUTATED"         
clus
  CDH24 MUTATED CDH24 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" "CDH24 WILD-TYPE" 
     TCGA-G4-6628 
"CDH24 WILD-TYPE" 

Clustering(1455) Variable = TYW3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TYW3 MUTATED        0      0      0      0      0
  TYW3 WILD-TYPE     32     18     46     27     23
D1455V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TYW3 MUTATED        0      0      0
  TYW3 WILD-TYPE     43     67     36
D1455V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TYW3 MUTATED        1      3      2
  TYW3 WILD-TYPE     41    170    145
D1455V3, multiclass
        clus
vv       TYW3 MUTATED TYW3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TYW3 MUTATED        4      2      0
  TYW3 WILD-TYPE     58     71     75
D1455V4, multiclass
        clus
vv       TYW3 MUTATED TYW3 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            2             71
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TYW3 MUTATED        0      1      4
  TYW3 WILD-TYPE     70    119     96
D1455V5, multiclass
        clus
vv       TYW3 MUTATED TYW3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TYW3 MUTATED        1      1      0      0      0      1      2      0      0
  TYW3 WILD-TYPE     40     25     30     29     39     68     18     14     22
D1455V6, multiclass
        clus
vv       TYW3 MUTATED TYW3 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TYW3 MUTATED        2      1      3      0
  TYW3 WILD-TYPE     98     71     69    121
D1455V7, multiclass
        clus
vv       TYW3 MUTATED TYW3 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            3             69
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TYW3 MUTATED        3      1      2      0      0
  TYW3 WILD-TYPE     56     74     72    119     38
D1455V8, multiclass
        clus
vv       TYW3 MUTATED TYW3 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            1             74
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TYW3 MUTATED        1      3      2      0      0
  TYW3 WILD-TYPE     50     73     59     71     95
D1455V9, multiclass
        clus
vv       TYW3 MUTATED TYW3 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TYW3 MUTATED        2      2      0      0      1      1      0      0      0
  TYW3 WILD-TYPE     67     46     39     16     52     19     21     38     50
D1455V10, multiclass
        clus
vv       TYW3 MUTATED TYW3 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TYW3 MUTATED        0      2      1      1      0      0
  TYW3 WILD-TYPE     13     14     13     10     11      9
D1455V11, multiclass
        clus
vv       TYW3 MUTATED TYW3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TYW3 MUTATED        1      1      0      0      1      0      1      0      0
  TYW3 WILD-TYPE     10      6      7      9      7      7     10      9      5
D1455V12, multiclass
        clus
vv       TYW3 MUTATED TYW3 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1456) Variable = ZNF197 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF197 MUTATED        1      0      0      1      0
  ZNF197 WILD-TYPE     31     18     46     26     23
D1456V1, multiclass
[1] "Remove cluster labels:" "ZNF197 MUTATED"        
clus
  ZNF197 MUTATED ZNF197 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF197 MUTATED        1      1      0
  ZNF197 WILD-TYPE     42     66     36
D1456V2, multiclass
[1] "Remove cluster labels:" "ZNF197 MUTATED"        
clus
  ZNF197 MUTATED ZNF197 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF197 MUTATED        0      0      9
  ZNF197 WILD-TYPE     42    173    138
D1456V3, multiclass
        clus
vv       ZNF197 MUTATED ZNF197 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF197 MUTATED        3      0      4
  ZNF197 WILD-TYPE     59     73     71
D1456V4, multiclass
        clus
vv       ZNF197 MUTATED ZNF197 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF197 MUTATED        2      2      2
  ZNF197 WILD-TYPE     68    118     98
D1456V5, multiclass
        clus
vv       ZNF197 MUTATED ZNF197 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF197 MUTATED        0      1      1      0      1      2      0      1
  ZNF197 WILD-TYPE     41     25     29     29     38     67     20     13
                  vv
clus               CLUS_9
  ZNF197 MUTATED        0
  ZNF197 WILD-TYPE     22
D1456V6, multiclass
        clus
vv       ZNF197 MUTATED ZNF197 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF197 MUTATED        0      6      0      3
  ZNF197 WILD-TYPE    100     66     72    118
D1456V7, multiclass
        clus
vv       ZNF197 MUTATED ZNF197 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              6               66
  CLUS_3              0               72
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF197 MUTATED        0      0      6      2      1
  ZNF197 WILD-TYPE     59     75     68    117     37
D1456V8, multiclass
        clus
vv       ZNF197 MUTATED ZNF197 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              6               68
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF197 MUTATED        0      3      1      1      4
  ZNF197 WILD-TYPE     51     73     60     70     91
D1456V9, multiclass
        clus
vv       ZNF197 MUTATED ZNF197 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF197 MUTATED        1      0      0      3      0      2      0      2
  ZNF197 WILD-TYPE     68     48     39     13     53     18     21     36
                  vv
clus               CLUS_9
  ZNF197 MUTATED        1
  ZNF197 WILD-TYPE     49
D1456V10, multiclass
        clus
vv       ZNF197 MUTATED ZNF197 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF197 MUTATED        0      0      2      0      0      0
  ZNF197 WILD-TYPE     13     16     12     11     11      9
D1456V11, multiclass
[1] "Remove cluster labels:" "ZNF197 MUTATED"        
clus
  ZNF197 MUTATED ZNF197 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6142 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XF 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF197 MUTATED        0      0      0      0      1      0      0      0
  ZNF197 WILD-TYPE     11      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  ZNF197 MUTATED        1
  ZNF197 WILD-TYPE      4
D1456V12, multiclass
[1] "Remove cluster labels:" "ZNF197 MUTATED"        
clus
  ZNF197 MUTATED ZNF197 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6142 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XF 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" "ZNF197 WILD-TYPE" 

Clustering(1457) Variable = ESCO1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESCO1 MUTATED        5      0      0      0      0
  ESCO1 WILD-TYPE     27     18     46     27     23
D1457V1, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESCO1 MUTATED        4      0      1
  ESCO1 WILD-TYPE     39     67     35
D1457V2, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESCO1 MUTATED        1      1     11
  ESCO1 WILD-TYPE     41    172    136
D1457V3, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESCO1 MUTATED        4      1      4
  ESCO1 WILD-TYPE     58     72     71
D1457V4, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESCO1 MUTATED        1      6      4
  ESCO1 WILD-TYPE     69    114     96
D1457V5, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESCO1 MUTATED        1      2      0      1      3      2      0      1
  ESCO1 WILD-TYPE     40     24     30     28     36     67     20     13
                 vv
clus              CLUS_9
  ESCO1 MUTATED        1
  ESCO1 WILD-TYPE     21
D1457V6, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESCO1 MUTATED        1      4      2      6
  ESCO1 WILD-TYPE     99     68     70    115
D1457V7, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESCO1 MUTATED        1      2      4      2      4
  ESCO1 WILD-TYPE     58     73     70    117     34
D1457V8, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESCO1 MUTATED        0      4      2      1      6
  ESCO1 WILD-TYPE     51     72     59     70     89
D1457V9, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESCO1 MUTATED        2      2      0      2      1      0      0      4
  ESCO1 WILD-TYPE     67     46     39     14     52     20     21     34
                 vv
clus              CLUS_9
  ESCO1 MUTATED        2
  ESCO1 WILD-TYPE     48
D1457V10, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ESCO1 MUTATED        0      0      1      0      3      0
  ESCO1 WILD-TYPE     13     16     13     11      8      9
D1457V11, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESCO1 MUTATED        0      0      0      2      1      0      1      0
  ESCO1 WILD-TYPE     11      7      7      7      7      7     10      9
                 vv
clus              CLUS_9
  ESCO1 MUTATED        0
  ESCO1 WILD-TYPE      5
D1457V12, multiclass
        clus
vv       ESCO1 MUTATED ESCO1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1458) Variable = NT5C3L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NT5C3L MUTATED        2      0      0      0      0
  NT5C3L WILD-TYPE     30     18     46     27     23
D1458V1, multiclass
[1] "Remove cluster labels:" "NT5C3L MUTATED"        
clus
  NT5C3L MUTATED NT5C3L WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NT5C3L MUTATED        2      0      0
  NT5C3L WILD-TYPE     41     67     36
D1458V2, multiclass
[1] "Remove cluster labels:" "NT5C3L MUTATED"        
clus
  NT5C3L MUTATED NT5C3L WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979       TCGA-AA-3980 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NT5C3L MUTATED        0      1      4
  NT5C3L WILD-TYPE     42    172    143
D1458V3, multiclass
        clus
vv       NT5C3L MUTATED NT5C3L WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NT5C3L MUTATED        0      0      2
  NT5C3L WILD-TYPE     62     73     73
D1458V4, multiclass
[1] "Remove cluster labels:" "NT5C3L MUTATED"        
clus
  NT5C3L MUTATED NT5C3L WILD-TYPE 
               2              208 
      TCGA-A6-2671       TCGA-A6-2677       TCGA-A6-3809       TCGA-A6-3810 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-A6-4105       TCGA-A6-5656       TCGA-A6-5657       TCGA-A6-5659 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662       TCGA-A6-5664 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137       TCGA-A6-6138 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648       TCGA-A6-6649 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653       TCGA-A6-6654 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3492 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3496       TCGA-AA-3502       TCGA-AA-3510       TCGA-AA-3511 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3655       TCGA-AA-3660       TCGA-AA-3662       TCGA-AA-3663 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AA-3697       TCGA-AA-3712       TCGA-AA-3713       TCGA-AD-5900 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6888       TCGA-AD-6889       TCGA-AD-6890 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AD-6895       TCGA-AD-6899       TCGA-AD-6901       TCGA-AD-6963 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AU-3779       TCGA-AU-6004 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4681 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AZ-4682       TCGA-AZ-5403       TCGA-AZ-5407       TCGA-AZ-6598 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AZ-6599       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6606       TCGA-AZ-6607       TCGA-AZ-6608 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796       TCGA-CA-5797 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6717       TCGA-CA-6718 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CA-6719       TCGA-CK-4947       TCGA-CK-4948       TCGA-CK-4950 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CK-4952       TCGA-CK-5912       TCGA-CK-5913       TCGA-CK-5914 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CK-5915       TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CK-6748       TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CM-4746       TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CM-5344       TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CM-5861       TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CM-5868       TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CM-6164       TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CM-6168       TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-D5-5538       TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-D5-6529       TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-D5-6535       TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-D5-6539       TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-D5-6920       TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-D5-6926       TCGA-D5-6927       TCGA-D5-6928       TCGA-D5-6929 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932       TCGA-D5-7000 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-DM-A1D4       TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-DM-A1HB       TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28C 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-DM-A28E       TCGA-DM-A28F       TCGA-DM-A28G       TCGA-DM-A28H 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-DM-A28K       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" "NT5C3L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NT5C3L MUTATED        0      1      2
  NT5C3L WILD-TYPE     70    119     98
D1458V5, multiclass
        clus
vv       NT5C3L MUTATED NT5C3L WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NT5C3L MUTATED        1      0      1      0      0      1      0      0
  NT5C3L WILD-TYPE     40     26     29     29     39     68     20     14
                  vv
clus               CLUS_9
  NT5C3L MUTATED        0
  NT5C3L WILD-TYPE     22
D1458V6, multiclass
        clus
vv       NT5C3L MUTATED NT5C3L WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NT5C3L MUTATED        0      1      1      3
  NT5C3L WILD-TYPE    100     71     71    118
D1458V7, multiclass
        clus
vv       NT5C3L MUTATED NT5C3L WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NT5C3L MUTATED        1      1      0      0      3
  NT5C3L WILD-TYPE     58     74     74    119     35
D1458V8, multiclass
        clus
vv       NT5C3L MUTATED NT5C3L WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              0               74
  CLUS_4              0              119
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NT5C3L MUTATED        1      1      0      0      3
  NT5C3L WILD-TYPE     50     75     61     71     92
D1458V9, multiclass
        clus
vv       NT5C3L MUTATED NT5C3L WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NT5C3L MUTATED        0      1      0      0      1      0      1      2
  NT5C3L WILD-TYPE     69     47     39     16     52     20     20     36
                  vv
clus               CLUS_9
  NT5C3L MUTATED        0
  NT5C3L WILD-TYPE     50
D1458V10, multiclass
        clus
vv       NT5C3L MUTATED NT5C3L WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NT5C3L MUTATED        0      0      0      0      0      0
  NT5C3L WILD-TYPE     13     16     14     11     11      9
D1458V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NT5C3L MUTATED        0      0      0      0      0      0      0      0
  NT5C3L WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  NT5C3L MUTATED        0
  NT5C3L WILD-TYPE      5
D1458V12, multiclass

Clustering(1459) Variable = KIAA1919 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1919 MUTATED        1      0      0      1      0
  KIAA1919 WILD-TYPE     31     18     46     26     23
D1459V1, multiclass
[1] "Remove cluster labels:" "KIAA1919 MUTATED"      
clus
  KIAA1919 MUTATED KIAA1919 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2677 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-A6-2678         TCGA-A6-2683         TCGA-A6-3807 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-A6-3808         TCGA-A6-3809         TCGA-A6-3810 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3514         TCGA-AA-3516         TCGA-AA-3517 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3518         TCGA-AA-3519         TCGA-AA-3520 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1919 MUTATED        1      1      0
  KIAA1919 WILD-TYPE     42     66     36
D1459V2, multiclass
[1] "Remove cluster labels:" "KIAA1919 MUTATED"      
clus
  KIAA1919 MUTATED KIAA1919 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2677 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-A6-2678         TCGA-A6-2683         TCGA-A6-3807 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-A6-3808         TCGA-A6-3809         TCGA-A6-3810 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3514         TCGA-AA-3516         TCGA-AA-3517 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3518         TCGA-AA-3519         TCGA-AA-3520 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1919 MUTATED        0      0      9
  KIAA1919 WILD-TYPE     42    173    138
D1459V3, multiclass
        clus
vv       KIAA1919 MUTATED KIAA1919 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                9                138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1919 MUTATED        4      0      3
  KIAA1919 WILD-TYPE     58     73     72
D1459V4, multiclass
        clus
vv       KIAA1919 MUTATED KIAA1919 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                0                 73
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1919 MUTATED        1      3      5
  KIAA1919 WILD-TYPE     69    117     95
D1459V5, multiclass
        clus
vv       KIAA1919 MUTATED KIAA1919 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                3                117
  CLUS_3                5                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1919 MUTATED        1      1      1      1      0      4      1      0
  KIAA1919 WILD-TYPE     40     25     29     28     39     65     19     14
                    vv
clus                 CLUS_9
  KIAA1919 MUTATED        0
  KIAA1919 WILD-TYPE     22
D1459V6, multiclass
        clus
vv       KIAA1919 MUTATED KIAA1919 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                4                 65
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1919 MUTATED        0      3      4      2
  KIAA1919 WILD-TYPE    100     69     68    119
D1459V7, multiclass
        clus
vv       KIAA1919 MUTATED KIAA1919 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                3                 69
  CLUS_3                4                 68
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1919 MUTATED        1      2      4      1      1
  KIAA1919 WILD-TYPE     58     73     70    118     37
D1459V8, multiclass
        clus
vv       KIAA1919 MUTATED KIAA1919 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                2                 73
  CLUS_3                4                 70
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1919 MUTATED        1      4      1      0      3
  KIAA1919 WILD-TYPE     50     72     60     71     92
D1459V9, multiclass
        clus
vv       KIAA1919 MUTATED KIAA1919 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                4                 72
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1919 MUTATED        1      3      0      2      0      1      0      1
  KIAA1919 WILD-TYPE     68     45     39     14     53     19     21     37
                    vv
clus                 CLUS_9
  KIAA1919 MUTATED        1
  KIAA1919 WILD-TYPE     49
D1459V10, multiclass
        clus
vv       KIAA1919 MUTATED KIAA1919 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA1919 MUTATED        0      0      0      0      2      0
  KIAA1919 WILD-TYPE     13     16     14     11      9      9
D1459V11, multiclass
[1] "Remove cluster labels:" "KIAA1919 MUTATED"      
clus
  KIAA1919 MUTATED KIAA1919 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6704         TCGA-F4-6805 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1919 MUTATED        0      0      0      0      1      0      1      0
  KIAA1919 WILD-TYPE     11      7      7      9      7      7     10      9
                    vv
clus                 CLUS_9
  KIAA1919 MUTATED        0
  KIAA1919 WILD-TYPE      5
D1459V12, multiclass
[1] "Remove cluster labels:" "KIAA1919 MUTATED"      
clus
  KIAA1919 MUTATED KIAA1919 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6704         TCGA-F4-6805 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" "KIAA1919 WILD-TYPE" 

Clustering(1460) Variable = EPB41L4B MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPB41L4B MUTATED        2      0      0      1      0
  EPB41L4B WILD-TYPE     30     18     46     26     23
D1460V1, multiclass
        clus
vv       EPB41L4B MUTATED EPB41L4B WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  EPB41L4B MUTATED        2      0      1
  EPB41L4B WILD-TYPE     41     67     35
D1460V2, multiclass
        clus
vv       EPB41L4B MUTATED EPB41L4B WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                0                 67
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  EPB41L4B MUTATED        1      0     10
  EPB41L4B WILD-TYPE     41    173    137
D1460V3, multiclass
        clus
vv       EPB41L4B MUTATED EPB41L4B WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                173
  CLUS_3               10                137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  EPB41L4B MUTATED        1      2      4
  EPB41L4B WILD-TYPE     61     71     71
D1460V4, multiclass
        clus
vv       EPB41L4B MUTATED EPB41L4B WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                2                 71
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  EPB41L4B MUTATED        1      5      2
  EPB41L4B WILD-TYPE     69    115     98
D1460V5, multiclass
        clus
vv       EPB41L4B MUTATED EPB41L4B WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                5                115
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPB41L4B MUTATED        0      1      2      1      0      2      2      0
  EPB41L4B WILD-TYPE     41     25     28     28     39     67     18     14
                    vv
clus                 CLUS_9
  EPB41L4B MUTATED        0
  EPB41L4B WILD-TYPE     22
D1460V6, multiclass
        clus
vv       EPB41L4B MUTATED EPB41L4B WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                2                 28
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                2                 67
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPB41L4B MUTATED        2      4      0      6
  EPB41L4B WILD-TYPE     98     68     72    115
D1460V7, multiclass
        clus
vv       EPB41L4B MUTATED EPB41L4B WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                4                 68
  CLUS_3                0                 72
  CLUS_4                6                115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPB41L4B MUTATED        0      2      4      2      4
  EPB41L4B WILD-TYPE     59     73     70    117     34
D1460V8, multiclass
        clus
vv       EPB41L4B MUTATED EPB41L4B WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                2                 73
  CLUS_3                4                 70
  CLUS_4                2                117
  CLUS_5                4                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPB41L4B MUTATED        2      4      0      1      4
  EPB41L4B WILD-TYPE     49     72     61     70     91
D1460V9, multiclass
        clus
vv       EPB41L4B MUTATED EPB41L4B WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                4                 72
  CLUS_3                0                 61
  CLUS_4                1                 70
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPB41L4B MUTATED        1      1      1      2      2      0      0      3
  EPB41L4B WILD-TYPE     68     47     38     14     51     20     21     35
                    vv
clus                 CLUS_9
  EPB41L4B MUTATED        1
  EPB41L4B WILD-TYPE     49
D1460V10, multiclass
        clus
vv       EPB41L4B MUTATED EPB41L4B WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                1                 47
  CLUS_3                1                 38
  CLUS_4                2                 14
  CLUS_5                2                 51
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                3                 35
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EPB41L4B MUTATED        0      0      0      0      0      0
  EPB41L4B WILD-TYPE     13     16     14     11     11      9
D1460V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPB41L4B MUTATED        0      0      0      0      0      0      0      0
  EPB41L4B WILD-TYPE     11      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  EPB41L4B MUTATED        0
  EPB41L4B WILD-TYPE      5
D1460V12, multiclass

Clustering(1461) Variable = SRL MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SRL MUTATED        0      0      0      1      0
  SRL WILD-TYPE     32     18     46     26     23
D1461V1, multiclass
[1] "Remove cluster labels:" "SRL MUTATED"           
clus
  SRL MUTATED SRL WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3982    TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A004    TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A00J    TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00O    TCGA-AA-A00Q 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SRL MUTATED        1      0      0
  SRL WILD-TYPE     42     67     36
D1461V2, multiclass
[1] "Remove cluster labels:" "SRL MUTATED"           
clus
  SRL MUTATED SRL WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-3982    TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A004    TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A00J    TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00O    TCGA-AA-A00Q 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" "SRL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SRL MUTATED        0      3      9
  SRL WILD-TYPE     42    170    138
D1461V3, multiclass
        clus
vv       SRL MUTATED SRL WILD-TYPE
  CLUS_1           0            42
  CLUS_2           3           170
  CLUS_3           9           138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SRL MUTATED        3      2      6
  SRL WILD-TYPE     59     71     69
D1461V4, multiclass
        clus
vv       SRL MUTATED SRL WILD-TYPE
  CLUS_1           3            59
  CLUS_2           2            71
  CLUS_3           6            69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SRL MUTATED        0      4      6
  SRL WILD-TYPE     70    116     94
D1461V5, multiclass
        clus
vv       SRL MUTATED SRL WILD-TYPE
  CLUS_1           0            70
  CLUS_2           4           116
  CLUS_3           6            94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SRL MUTATED        1      0      0      0      0      5      2      1      1
  SRL WILD-TYPE     40     26     30     29     39     64     18     13     21
D1461V6, multiclass
        clus
vv       SRL MUTATED SRL WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           0            39
  CLUS_6           5            64
  CLUS_7           2            18
  CLUS_8           1            13
  CLUS_9           1            21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SRL MUTATED        2      6      2      2
  SRL WILD-TYPE     98     66     70    119
D1461V7, multiclass
        clus
vv       SRL MUTATED SRL WILD-TYPE
  CLUS_1           2            98
  CLUS_2           6            66
  CLUS_3           2            70
  CLUS_4           2           119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SRL MUTATED        3      2      5      1      1
  SRL WILD-TYPE     56     73     69    118     37
D1461V8, multiclass
        clus
vv       SRL MUTATED SRL WILD-TYPE
  CLUS_1           3            56
  CLUS_2           2            73
  CLUS_3           5            69
  CLUS_4           1           118
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SRL MUTATED        3      4      2      2      0
  SRL WILD-TYPE     48     72     59     69     95
D1461V9, multiclass
        clus
vv       SRL MUTATED SRL WILD-TYPE
  CLUS_1           3            48
  CLUS_2           4            72
  CLUS_3           2            59
  CLUS_4           2            69
  CLUS_5           0            95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SRL MUTATED        1      2      0      2      4      2      0      0      0
  SRL WILD-TYPE     68     46     39     14     49     18     21     38     50
D1461V10, multiclass
        clus
vv       SRL MUTATED SRL WILD-TYPE
  CLUS_1           1            68
  CLUS_2           2            46
  CLUS_3           0            39
  CLUS_4           2            14
  CLUS_5           4            49
  CLUS_6           2            18
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SRL MUTATED        0      1      1      1      0      0
  SRL WILD-TYPE     13     15     13     10     11      9
D1461V11, multiclass
        clus
vv       SRL MUTATED SRL WILD-TYPE
  CLUS_1           0            13
  CLUS_2           1            15
  CLUS_3           1            13
  CLUS_4           1            10
  CLUS_5           0            11
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SRL MUTATED        0      1      0      0      0      0      0      1      1
  SRL WILD-TYPE     11      6      7      9      8      7     11      8      4
D1461V12, multiclass
        clus
vv       SRL MUTATED SRL WILD-TYPE
  CLUS_1           0            11
  CLUS_2           1             6
  CLUS_3           0             7
  CLUS_4           0             9
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           0            11
  CLUS_8           1             8
  CLUS_9           1             4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1462) Variable = SKIV2L2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SKIV2L2 MUTATED        1      0      0      1      0
  SKIV2L2 WILD-TYPE     31     18     46     26     23
D1462V1, multiclass
[1] "Remove cluster labels:" "SKIV2L2 MUTATED"       
clus
  SKIV2L2 MUTATED SKIV2L2 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SKIV2L2 MUTATED        2      0      0
  SKIV2L2 WILD-TYPE     41     67     36
D1462V2, multiclass
[1] "Remove cluster labels:" "SKIV2L2 MUTATED"       
clus
  SKIV2L2 MUTATED SKIV2L2 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" "SKIV2L2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SKIV2L2 MUTATED        0      4      7
  SKIV2L2 WILD-TYPE     42    169    140
D1462V3, multiclass
        clus
vv       SKIV2L2 MUTATED SKIV2L2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               4               169
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SKIV2L2 MUTATED        2      3      4
  SKIV2L2 WILD-TYPE     60     70     71
D1462V4, multiclass
        clus
vv       SKIV2L2 MUTATED SKIV2L2 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               3                70
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SKIV2L2 MUTATED        3      3      4
  SKIV2L2 WILD-TYPE     67    117     96
D1462V5, multiclass
        clus
vv       SKIV2L2 MUTATED SKIV2L2 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               3               117
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SKIV2L2 MUTATED        1      0      0      0      1      5      1      1
  SKIV2L2 WILD-TYPE     40     26     30     29     38     64     19     13
                   vv
clus                CLUS_9
  SKIV2L2 MUTATED        1
  SKIV2L2 WILD-TYPE     21
D1462V6, multiclass
        clus
vv       SKIV2L2 MUTATED SKIV2L2 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SKIV2L2 MUTATED        3      2      4      2
  SKIV2L2 WILD-TYPE     97     70     68    119
D1462V7, multiclass
        clus
vv       SKIV2L2 MUTATED SKIV2L2 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               2                70
  CLUS_3               4                68
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SKIV2L2 MUTATED        3      1      5      0      2
  SKIV2L2 WILD-TYPE     56     74     69    119     36
D1462V8, multiclass
        clus
vv       SKIV2L2 MUTATED SKIV2L2 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               1                74
  CLUS_3               5                69
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SKIV2L2 MUTATED        2      3      1      2      2
  SKIV2L2 WILD-TYPE     49     73     60     69     93
D1462V9, multiclass
        clus
vv       SKIV2L2 MUTATED SKIV2L2 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               2                69
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SKIV2L2 MUTATED        0      2      1      1      3      1      0      2
  SKIV2L2 WILD-TYPE     69     46     38     15     50     19     21     36
                   vv
clus                CLUS_9
  SKIV2L2 MUTATED        0
  SKIV2L2 WILD-TYPE     50
D1462V10, multiclass
        clus
vv       SKIV2L2 MUTATED SKIV2L2 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               3                50
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SKIV2L2 MUTATED        1      0      1      1      2      0
  SKIV2L2 WILD-TYPE     12     16     13     10      9      9
D1462V11, multiclass
        clus
vv       SKIV2L2 MUTATED SKIV2L2 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SKIV2L2 MUTATED        0      0      0      1      1      0      2      0
  SKIV2L2 WILD-TYPE     11      7      7      8      7      7      9      9
                   vv
clus                CLUS_9
  SKIV2L2 MUTATED        1
  SKIV2L2 WILD-TYPE      4
D1462V12, multiclass
        clus
vv       SKIV2L2 MUTATED SKIV2L2 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1463) Variable = KBTBD4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KBTBD4 MUTATED        1      0      0      0      0
  KBTBD4 WILD-TYPE     31     18     46     27     23
D1463V1, multiclass
[1] "Remove cluster labels:" "KBTBD4 MUTATED"        
clus
  KBTBD4 MUTATED KBTBD4 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3812 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AY-4071 
"KBTBD4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KBTBD4 MUTATED        1      0      0
  KBTBD4 WILD-TYPE     42     67     36
D1463V2, multiclass
[1] "Remove cluster labels:" "KBTBD4 MUTATED"        
clus
  KBTBD4 MUTATED KBTBD4 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3812 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" "KBTBD4 WILD-TYPE" 
      TCGA-AY-4071 
"KBTBD4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KBTBD4 MUTATED        2      0      5
  KBTBD4 WILD-TYPE     40    173    142
D1463V3, multiclass
        clus
vv       KBTBD4 MUTATED KBTBD4 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              0              173
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KBTBD4 MUTATED        1      0      5
  KBTBD4 WILD-TYPE     61     73     70
D1463V4, multiclass
        clus
vv       KBTBD4 MUTATED KBTBD4 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KBTBD4 MUTATED        1      3      2
  KBTBD4 WILD-TYPE     69    117     98
D1463V5, multiclass
        clus
vv       KBTBD4 MUTATED KBTBD4 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KBTBD4 MUTATED        0      0      0      1      1      2      2      0
  KBTBD4 WILD-TYPE     41     26     30     28     38     67     18     14
                  vv
clus               CLUS_9
  KBTBD4 MUTATED        0
  KBTBD4 WILD-TYPE     22
D1463V6, multiclass
        clus
vv       KBTBD4 MUTATED KBTBD4 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KBTBD4 MUTATED        0      3      3      1
  KBTBD4 WILD-TYPE    100     69     69    120
D1463V7, multiclass
        clus
vv       KBTBD4 MUTATED KBTBD4 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KBTBD4 MUTATED        0      1      5      0      1
  KBTBD4 WILD-TYPE     59     74     69    119     37
D1463V8, multiclass
        clus
vv       KBTBD4 MUTATED KBTBD4 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              5               69
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KBTBD4 MUTATED        1      5      0      1      0
  KBTBD4 WILD-TYPE     50     71     61     70     95
D1463V9, multiclass
        clus
vv       KBTBD4 MUTATED KBTBD4 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KBTBD4 MUTATED        1      1      0      3      1      1      0      0
  KBTBD4 WILD-TYPE     68     47     39     13     52     19     21     38
                  vv
clus               CLUS_9
  KBTBD4 MUTATED        0
  KBTBD4 WILD-TYPE     50
D1463V10, multiclass
        clus
vv       KBTBD4 MUTATED KBTBD4 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KBTBD4 MUTATED        0      0      1      0      3      0
  KBTBD4 WILD-TYPE     13     16     13     11      8      9
D1463V11, multiclass
        clus
vv       KBTBD4 MUTATED KBTBD4 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KBTBD4 MUTATED        0      0      0      1      1      0      2      0
  KBTBD4 WILD-TYPE     11      7      7      8      7      7      9      9
                  vv
clus               CLUS_9
  KBTBD4 MUTATED        0
  KBTBD4 WILD-TYPE      5
D1463V12, multiclass
        clus
vv       KBTBD4 MUTATED KBTBD4 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1464) Variable = OLFML1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OLFML1 MUTATED        3      0      2      2      0
  OLFML1 WILD-TYPE     29     18     44     25     23
D1464V1, multiclass
        clus
vv       OLFML1 MUTATED OLFML1 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              2               44
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OLFML1 MUTATED        4      3      0
  OLFML1 WILD-TYPE     39     64     36
D1464V2, multiclass
        clus
vv       OLFML1 MUTATED OLFML1 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              3               64
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OLFML1 MUTATED        1      1      9
  OLFML1 WILD-TYPE     41    172    138
D1464V3, multiclass
        clus
vv       OLFML1 MUTATED OLFML1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OLFML1 MUTATED        2      1      1
  OLFML1 WILD-TYPE     60     72     74
D1464V4, multiclass
        clus
vv       OLFML1 MUTATED OLFML1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OLFML1 MUTATED        0      6      2
  OLFML1 WILD-TYPE     70    114     98
D1464V5, multiclass
        clus
vv       OLFML1 MUTATED OLFML1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              6              114
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OLFML1 MUTATED        1      1      1      1      3      0      0      1
  OLFML1 WILD-TYPE     40     25     29     28     36     69     20     13
                  vv
clus               CLUS_9
  OLFML1 MUTATED        0
  OLFML1 WILD-TYPE     22
D1464V6, multiclass
        clus
vv       OLFML1 MUTATED OLFML1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              0               69
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OLFML1 MUTATED        1      1      1      8
  OLFML1 WILD-TYPE     99     71     71    113
D1464V7, multiclass
        clus
vv       OLFML1 MUTATED OLFML1 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              1               71
  CLUS_3              1               71
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OLFML1 MUTATED        1      1      1      4      4
  OLFML1 WILD-TYPE     58     74     73    115     34
D1464V8, multiclass
        clus
vv       OLFML1 MUTATED OLFML1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              1               73
  CLUS_4              4              115
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OLFML1 MUTATED        1      1      1      0      8
  OLFML1 WILD-TYPE     50     75     60     71     87
D1464V9, multiclass
        clus
vv       OLFML1 MUTATED OLFML1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OLFML1 MUTATED        0      1      2      0      1      1      1      4
  OLFML1 WILD-TYPE     69     47     37     16     52     19     20     34
                  vv
clus               CLUS_9
  OLFML1 MUTATED        1
  OLFML1 WILD-TYPE     49
D1464V10, multiclass
        clus
vv       OLFML1 MUTATED OLFML1 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              2               37
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              4               34
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OLFML1 MUTATED        0      0      0      0      0      0
  OLFML1 WILD-TYPE     13     16     14     11     11      9
D1464V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OLFML1 MUTATED        0      0      0      0      0      0      0      0
  OLFML1 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  OLFML1 MUTATED        0
  OLFML1 WILD-TYPE      5
D1464V12, multiclass

Clustering(1465) Variable = C7ORF60 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF60 MUTATED        0      0      0      0      0
  C7ORF60 WILD-TYPE     32     18     46     27     23
D1465V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF60 MUTATED        0      0      0
  C7ORF60 WILD-TYPE     43     67     36
D1465V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF60 MUTATED        2      1      3
  C7ORF60 WILD-TYPE     40    172    144
D1465V3, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               1               172
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF60 MUTATED        3      2      1
  C7ORF60 WILD-TYPE     59     71     74
D1465V4, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               2                71
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF60 MUTATED        1      2      3
  C7ORF60 WILD-TYPE     69    118     97
D1465V5, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF60 MUTATED        1      0      0      0      0      2      0      3
  C7ORF60 WILD-TYPE     40     26     30     29     39     67     20     11
                   vv
clus                CLUS_9
  C7ORF60 MUTATED        0
  C7ORF60 WILD-TYPE     22
D1465V6, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               3                11
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C7ORF60 MUTATED        2      2      2      0
  C7ORF60 WILD-TYPE     98     70     70    121
D1465V7, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF60 MUTATED        1      3      2      0      0
  C7ORF60 WILD-TYPE     58     72     72    119     38
D1465V8, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               3                72
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF60 MUTATED        2      2      1      0      1
  C7ORF60 WILD-TYPE     49     74     60     71     94
D1465V9, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF60 MUTATED        1      0      2      0      1      1      0      0
  C7ORF60 WILD-TYPE     68     48     37     16     52     19     21     38
                   vv
clus                CLUS_9
  C7ORF60 MUTATED        1
  C7ORF60 WILD-TYPE     49
D1465V10, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               0                48
  CLUS_3               2                37
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C7ORF60 MUTATED        1      1      1      0      0      0
  C7ORF60 WILD-TYPE     12     15     13     11     11      9
D1465V11, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C7ORF60 MUTATED        0      1      0      1      1      0      0      0
  C7ORF60 WILD-TYPE     11      6      7      8      7      7     11      9
                   vv
clus                CLUS_9
  C7ORF60 MUTATED        0
  C7ORF60 WILD-TYPE      5
D1465V12, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1466) Variable = IDE MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDE MUTATED        1      0      1      1      1
  IDE WILD-TYPE     31     18     45     26     22
D1466V1, multiclass
        clus
vv       IDE MUTATED IDE WILD-TYPE
  CLUS_1           1            31
  CLUS_2           0            18
  CLUS_3           1            45
  CLUS_4           1            26
  CLUS_5           1            22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IDE MUTATED        0      2      2
  IDE WILD-TYPE     43     65     34
D1466V2, multiclass
        clus
vv       IDE MUTATED IDE WILD-TYPE
  CLUS_1           0            43
  CLUS_2           2            65
  CLUS_3           2            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IDE MUTATED        0      5      5
  IDE WILD-TYPE     42    168    142
D1466V3, multiclass
        clus
vv       IDE MUTATED IDE WILD-TYPE
  CLUS_1           0            42
  CLUS_2           5           168
  CLUS_3           5           142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IDE MUTATED        0      4      2
  IDE WILD-TYPE     62     69     73
D1466V4, multiclass
        clus
vv       IDE MUTATED IDE WILD-TYPE
  CLUS_1           0            62
  CLUS_2           4            69
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IDE MUTATED        1      6      1
  IDE WILD-TYPE     69    114     99
D1466V5, multiclass
        clus
vv       IDE MUTATED IDE WILD-TYPE
  CLUS_1           1            69
  CLUS_2           6           114
  CLUS_3           1            99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDE MUTATED        0      0      1      3      3      0      0      0      1
  IDE WILD-TYPE     41     26     29     26     36     69     20     14     21
D1466V6, multiclass
        clus
vv       IDE MUTATED IDE WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           1            29
  CLUS_4           3            26
  CLUS_5           3            36
  CLUS_6           0            69
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           1            21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDE MUTATED        2      2      2      4
  IDE WILD-TYPE     98     70     70    117
D1466V7, multiclass
        clus
vv       IDE MUTATED IDE WILD-TYPE
  CLUS_1           2            98
  CLUS_2           2            70
  CLUS_3           2            70
  CLUS_4           4           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDE MUTATED        1      3      2      4      0
  IDE WILD-TYPE     58     72     72    115     38
D1466V8, multiclass
        clus
vv       IDE MUTATED IDE WILD-TYPE
  CLUS_1           1            58
  CLUS_2           3            72
  CLUS_3           2            72
  CLUS_4           4           115
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDE MUTATED        2      2      1      1      4
  IDE WILD-TYPE     49     74     60     70     91
D1466V9, multiclass
        clus
vv       IDE MUTATED IDE WILD-TYPE
  CLUS_1           2            49
  CLUS_2           2            74
  CLUS_3           1            60
  CLUS_4           1            70
  CLUS_5           4            91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDE MUTATED        2      2      0      0      2      1      0      1      2
  IDE WILD-TYPE     67     46     39     16     51     19     21     37     48
D1466V10, multiclass
        clus
vv       IDE MUTATED IDE WILD-TYPE
  CLUS_1           2            67
  CLUS_2           2            46
  CLUS_3           0            39
  CLUS_4           0            16
  CLUS_5           2            51
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           2            48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IDE MUTATED        0      0      0      0      0      0
  IDE WILD-TYPE     13     16     14     11     11      9
D1466V11, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDE MUTATED        0      0      0      0      0      0      0      0      0
  IDE WILD-TYPE     11      7      7      9      8      7     11      9      5
D1466V12, multiclass

Clustering(1467) Variable = C1ORF124 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF124 MUTATED        3      0      0      1      0
  C1ORF124 WILD-TYPE     29     18     46     26     23
D1467V1, multiclass
        clus
vv       C1ORF124 MUTATED C1ORF124 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF124 MUTATED        4      0      0
  C1ORF124 WILD-TYPE     39     67     36
D1467V2, multiclass
        clus
vv       C1ORF124 MUTATED C1ORF124 WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                0                 67
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF124 MUTATED        0      1      7
  C1ORF124 WILD-TYPE     42    172    140
D1467V3, multiclass
        clus
vv       C1ORF124 MUTATED C1ORF124 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                1                172
  CLUS_3                7                140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF124 MUTATED        2      1      1
  C1ORF124 WILD-TYPE     60     72     74
D1467V4, multiclass
        clus
vv       C1ORF124 MUTATED C1ORF124 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                1                 72
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF124 MUTATED        0      2      6
  C1ORF124 WILD-TYPE     70    118     94
D1467V5, multiclass
        clus
vv       C1ORF124 MUTATED C1ORF124 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                118
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF124 MUTATED        0      0      1      1      0      6      0      0
  C1ORF124 WILD-TYPE     41     26     29     28     39     63     20     14
                    vv
clus                 CLUS_9
  C1ORF124 MUTATED        0
  C1ORF124 WILD-TYPE     22
D1467V6, multiclass
        clus
vv       C1ORF124 MUTATED C1ORF124 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                6                 63
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF124 MUTATED        1      1      2      4
  C1ORF124 WILD-TYPE     99     71     70    117
D1467V7, multiclass
        clus
vv       C1ORF124 MUTATED C1ORF124 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                1                 71
  CLUS_3                2                 70
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF124 MUTATED        0      1      3      1      3
  C1ORF124 WILD-TYPE     59     74     71    118     35
D1467V8, multiclass
        clus
vv       C1ORF124 MUTATED C1ORF124 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                3                 71
  CLUS_4                1                118
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF124 MUTATED        0      3      1      0      2
  C1ORF124 WILD-TYPE     51     73     60     71     93
D1467V9, multiclass
        clus
vv       C1ORF124 MUTATED C1ORF124 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                3                 73
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF124 MUTATED        0      3      0      0      1      0      1      1
  C1ORF124 WILD-TYPE     69     45     39     16     52     20     20     37
                    vv
clus                 CLUS_9
  C1ORF124 MUTATED        0
  C1ORF124 WILD-TYPE     50
D1467V10, multiclass
        clus
vv       C1ORF124 MUTATED C1ORF124 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                1                 20
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C1ORF124 MUTATED        0      0      0      0      1      0
  C1ORF124 WILD-TYPE     13     16     14     11     10      9
D1467V11, multiclass
[1] "Remove cluster labels:" "C1ORF124 MUTATED"      
clus
  C1ORF124 MUTATED C1ORF124 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-G4-6628 
"C1ORF124 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF124 MUTATED        0      0      0      0      0      0      1      0
  C1ORF124 WILD-TYPE     11      7      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  C1ORF124 MUTATED        0
  C1ORF124 WILD-TYPE      5
D1467V12, multiclass
[1] "Remove cluster labels:" "C1ORF124 MUTATED"      
clus
  C1ORF124 MUTATED C1ORF124 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" "C1ORF124 WILD-TYPE" 
        TCGA-G4-6628 
"C1ORF124 WILD-TYPE" 

Clustering(1468) Variable = PIGK MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIGK MUTATED        2      0      0      1      0
  PIGK WILD-TYPE     30     18     46     26     23
D1468V1, multiclass
        clus
vv       PIGK MUTATED PIGK WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGK MUTATED        3      0      0
  PIGK WILD-TYPE     40     67     36
D1468V2, multiclass
        clus
vv       PIGK MUTATED PIGK WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGK MUTATED        0      3      7
  PIGK WILD-TYPE     42    170    140
D1468V3, multiclass
        clus
vv       PIGK MUTATED PIGK WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGK MUTATED        1      3      3
  PIGK WILD-TYPE     61     70     72
D1468V4, multiclass
        clus
vv       PIGK MUTATED PIGK WILD-TYPE
  CLUS_1            1             61
  CLUS_2            3             70
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGK MUTATED        1      2      3
  PIGK WILD-TYPE     69    118     97
D1468V5, multiclass
        clus
vv       PIGK MUTATED PIGK WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PIGK MUTATED        1      0      1      0      1      3      0      0      0
  PIGK WILD-TYPE     40     26     29     29     38     66     20     14     22
D1468V6, multiclass
        clus
vv       PIGK MUTATED PIGK WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIGK MUTATED        2      4      1      3
  PIGK WILD-TYPE     98     68     71    118
D1468V7, multiclass
        clus
vv       PIGK MUTATED PIGK WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIGK MUTATED        0      4      3      0      3
  PIGK WILD-TYPE     59     71     71    119     35
D1468V8, multiclass
        clus
vv       PIGK MUTATED PIGK WILD-TYPE
  CLUS_1            0             59
  CLUS_2            4             71
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIGK MUTATED        2      3      1      1      3
  PIGK WILD-TYPE     49     73     60     70     92
D1468V9, multiclass
        clus
vv       PIGK MUTATED PIGK WILD-TYPE
  CLUS_1            2             49
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PIGK MUTATED        3      1      1      1      0      1      0      3      0
  PIGK WILD-TYPE     66     47     38     15     53     19     21     35     50
D1468V10, multiclass
        clus
vv       PIGK MUTATED PIGK WILD-TYPE
  CLUS_1            3             66
  CLUS_2            1             47
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIGK MUTATED        0      0      0      0      0      0
  PIGK WILD-TYPE     13     16     14     11     11      9
D1468V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PIGK MUTATED        0      0      0      0      0      0      0      0      0
  PIGK WILD-TYPE     11      7      7      9      8      7     11      9      5
D1468V12, multiclass

Clustering(1469) Variable = TRIB1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIB1 MUTATED        1      0      0      0      0
  TRIB1 WILD-TYPE     31     18     46     27     23
D1469V1, multiclass
[1] "Remove cluster labels:" "TRIB1 MUTATED"         
clus
  TRIB1 MUTATED TRIB1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AY-4071 
"TRIB1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIB1 MUTATED        1      0      0
  TRIB1 WILD-TYPE     42     67     36
D1469V2, multiclass
[1] "Remove cluster labels:" "TRIB1 MUTATED"         
clus
  TRIB1 MUTATED TRIB1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" "TRIB1 WILD-TYPE" 
     TCGA-AY-4071 
"TRIB1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIB1 MUTATED        0      1      6
  TRIB1 WILD-TYPE     42    172    141
D1469V3, multiclass
        clus
vv       TRIB1 MUTATED TRIB1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIB1 MUTATED        2      1      3
  TRIB1 WILD-TYPE     60     72     72
D1469V4, multiclass
        clus
vv       TRIB1 MUTATED TRIB1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIB1 MUTATED        0      2      2
  TRIB1 WILD-TYPE     70    118     98
D1469V5, multiclass
        clus
vv       TRIB1 MUTATED TRIB1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIB1 MUTATED        0      0      0      0      1      2      1      0
  TRIB1 WILD-TYPE     41     26     30     29     38     67     19     14
                 vv
clus              CLUS_9
  TRIB1 MUTATED        0
  TRIB1 WILD-TYPE     22
D1469V6, multiclass
        clus
vv       TRIB1 MUTATED TRIB1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIB1 MUTATED        1      3      2      1
  TRIB1 WILD-TYPE     99     69     70    120
D1469V7, multiclass
        clus
vv       TRIB1 MUTATED TRIB1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIB1 MUTATED        0      1      5      0      1
  TRIB1 WILD-TYPE     59     74     69    119     37
D1469V8, multiclass
        clus
vv       TRIB1 MUTATED TRIB1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIB1 MUTATED        0      5      1      0      1
  TRIB1 WILD-TYPE     51     71     60     71     94
D1469V9, multiclass
        clus
vv       TRIB1 MUTATED TRIB1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIB1 MUTATED        2      0      1      1      2      0      0      1
  TRIB1 WILD-TYPE     67     48     38     15     51     20     21     37
                 vv
clus              CLUS_9
  TRIB1 MUTATED        0
  TRIB1 WILD-TYPE     50
D1469V10, multiclass
        clus
vv       TRIB1 MUTATED TRIB1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIB1 MUTATED        1      0      1      0      1      0
  TRIB1 WILD-TYPE     12     16     13     11     10      9
D1469V11, multiclass
        clus
vv       TRIB1 MUTATED TRIB1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIB1 MUTATED        0      0      0      0      1      1      0      1
  TRIB1 WILD-TYPE     11      7      7      9      7      6     11      8
                 vv
clus              CLUS_9
  TRIB1 MUTATED        0
  TRIB1 WILD-TYPE      5
D1469V12, multiclass
        clus
vv       TRIB1 MUTATED TRIB1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1470) Variable = MYST3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYST3 MUTATED        6      0      1      2      0
  MYST3 WILD-TYPE     26     18     45     25     23
D1470V1, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYST3 MUTATED        7      2      0
  MYST3 WILD-TYPE     36     65     36
D1470V2, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYST3 MUTATED        2      6     16
  MYST3 WILD-TYPE     40    167    131
D1470V3, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             6             167
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYST3 MUTATED        5      4      6
  MYST3 WILD-TYPE     57     69     69
D1470V4, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             4              69
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYST3 MUTATED        2      9     10
  MYST3 WILD-TYPE     68    111     90
D1470V5, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             9             111
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYST3 MUTATED        4      2      2      4      1      6      2      0
  MYST3 WILD-TYPE     37     24     28     25     38     63     18     14
                 vv
clus              CLUS_9
  MYST3 MUTATED        0
  MYST3 WILD-TYPE     22
D1470V6, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             4              37
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             4              25
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYST3 MUTATED        3      9      4      8
  MYST3 WILD-TYPE     97     63     68    113
D1470V7, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             9              63
  CLUS_3             4              68
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYST3 MUTATED        3      4      8      3      6
  MYST3 WILD-TYPE     56     71     66    116     32
D1470V8, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             4              71
  CLUS_3             8              66
  CLUS_4             3             116
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYST3 MUTATED        0      8      3      3      7
  MYST3 WILD-TYPE     51     68     58     68     88
D1470V9, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             8              68
  CLUS_3             3              58
  CLUS_4             3              68
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYST3 MUTATED        3      3      2      6      0      1      1      3
  MYST3 WILD-TYPE     66     45     37     10     53     19     20     35
                 vv
clus              CLUS_9
  MYST3 MUTATED        2
  MYST3 WILD-TYPE     48
D1470V10, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             2              37
  CLUS_4             6              10
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MYST3 MUTATED        0      1      1      1      2      0
  MYST3 WILD-TYPE     13     15     13     10      9      9
D1470V11, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYST3 MUTATED        0      0      1      2      1      1      0      0
  MYST3 WILD-TYPE     11      7      6      7      7      6     11      9
                 vv
clus              CLUS_9
  MYST3 MUTATED        0
  MYST3 WILD-TYPE      5
D1470V12, multiclass
        clus
vv       MYST3 MUTATED MYST3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1471) Variable = KLF12 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF12 MUTATED        1      0      0      0      0
  KLF12 WILD-TYPE     31     18     46     27     23
D1471V1, multiclass
[1] "Remove cluster labels:" "KLF12 MUTATED"         
clus
  KLF12 MUTATED KLF12 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3950 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AY-4071 
"KLF12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLF12 MUTATED        1      0      0
  KLF12 WILD-TYPE     42     67     36
D1471V2, multiclass
[1] "Remove cluster labels:" "KLF12 MUTATED"         
clus
  KLF12 MUTATED KLF12 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3950 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AY-4071 
"KLF12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLF12 MUTATED        1      0      2
  KLF12 WILD-TYPE     41    173    145
D1471V3, multiclass
        clus
vv       KLF12 MUTATED KLF12 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLF12 MUTATED        1      0      1
  KLF12 WILD-TYPE     61     73     74
D1471V4, multiclass
[1] "Remove cluster labels:" "KLF12 MUTATED"         
clus
  KLF12 MUTATED KLF12 WILD-TYPE 
              2             208 
     TCGA-A6-2671      TCGA-A6-2677      TCGA-A6-3809      TCGA-A6-3810 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-4105      TCGA-A6-5656      TCGA-A6-5657      TCGA-A6-5659 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662      TCGA-A6-5664 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502      TCGA-AA-3510 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AA-3655      TCGA-AA-3660      TCGA-AA-3662 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3663      TCGA-AA-3697      TCGA-AA-3712      TCGA-AA-3713 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6888      TCGA-AD-6889 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AD-6890      TCGA-AD-6895      TCGA-AD-6899      TCGA-AD-6901 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AU-3779 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AZ-4681      TCGA-AZ-4682      TCGA-AZ-5403      TCGA-AZ-5407 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600      TCGA-AZ-6601 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606      TCGA-AZ-6607 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255      TCGA-CA-5796 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CA-6715      TCGA-CA-6716      TCGA-CA-6717      TCGA-CA-6718 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CA-6719      TCGA-CK-4947      TCGA-CK-4948      TCGA-CK-4950 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CK-4952      TCGA-CK-5912      TCGA-CK-5913      TCGA-CK-5914 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CK-5915      TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-4746      TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-5344      TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-5861      TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-5868      TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6164      TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6168      TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6172      TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-5538      TCGA-D5-5539      TCGA-D5-5540 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-5541      TCGA-D5-6529      TCGA-D5-6532      TCGA-D5-6533 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6535      TCGA-D5-6536      TCGA-D5-6537 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6538      TCGA-D5-6539      TCGA-D5-6540      TCGA-D5-6541 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6898      TCGA-D5-6920      TCGA-D5-6922      TCGA-D5-6923 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6924      TCGA-D5-6926      TCGA-D5-6927      TCGA-D5-6928 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6929      TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-7000      TCGA-DM-A0X9      TCGA-DM-A0XD      TCGA-DM-A0XF 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A1HA      TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A285 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A28C      TCGA-DM-A28E      TCGA-DM-A28F      TCGA-DM-A28G 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A28H      TCGA-DM-A28K      TCGA-F4-6459      TCGA-F4-6460 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-F4-6809      TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6293      TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6315      TCGA-G4-6317      TCGA-G4-6323      TCGA-G4-6586 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLF12 MUTATED        0      0      2
  KLF12 WILD-TYPE     70    120     98
D1471V5, multiclass
[1] "Remove cluster labels:" "KLF12 MUTATED"         
clus
  KLF12 MUTATED KLF12 WILD-TYPE 
              2             288 
     TCGA-A6-2671      TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-A6-5656      TCGA-A6-5657 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-5659      TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-5664      TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3489      TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3510      TCGA-AA-3511      TCGA-AA-3514      TCGA-AA-3517 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3525      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3548      TCGA-AA-3552 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3558 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3655 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3681 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696      TCGA-AA-3697 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3712      TCGA-AA-3713      TCGA-AA-3715 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3950 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982      TCGA-AA-3986 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00E 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01I      TCGA-AA-A01K 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02K      TCGA-AA-A02O      TCGA-AA-A02W 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A02Y      TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AD-5900 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6899      TCGA-AD-6965 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AZ-4682      TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AZ-6606      TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CA-5255      TCGA-CA-5796      TCGA-CA-6715      TCGA-CA-6716 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CA-6717      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5914 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5538 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-5539      TCGA-D5-5540      TCGA-D5-5541      TCGA-D5-6529 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6532      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6535 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6537      TCGA-D5-6538      TCGA-D5-6539 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6540      TCGA-D5-6541      TCGA-D5-6898      TCGA-D5-6920 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6923      TCGA-D5-6924      TCGA-D5-6926 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6927      TCGA-D5-6928      TCGA-D5-6930      TCGA-D5-6931 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6932      TCGA-DM-A0X9      TCGA-DM-A0XF      TCGA-DM-A1D0 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A28C      TCGA-DM-A28E 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-DM-A28G      TCGA-F4-6459      TCGA-F4-6460 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-F4-6809      TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6293      TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6315      TCGA-G4-6317      TCGA-G4-6323      TCGA-G4-6586 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLF12 MUTATED        1      0      0      0      0      1      0      0
  KLF12 WILD-TYPE     40     26     30     29     39     68     20     14
                 vv
clus              CLUS_9
  KLF12 MUTATED        0
  KLF12 WILD-TYPE     22
D1471V6, multiclass
[1] "Remove cluster labels:" "KLF12 MUTATED"         
clus
  KLF12 MUTATED KLF12 WILD-TYPE 
              2             288 
     TCGA-A6-2671      TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-A6-5656      TCGA-A6-5657 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-5659      TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-5664      TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3489      TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3510      TCGA-AA-3511      TCGA-AA-3514      TCGA-AA-3517 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3525      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3548      TCGA-AA-3552 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3558 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3655 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3681 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696      TCGA-AA-3697 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3712      TCGA-AA-3713      TCGA-AA-3715 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3950 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982      TCGA-AA-3986 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00E 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01I      TCGA-AA-A01K 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02K      TCGA-AA-A02O      TCGA-AA-A02W 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AA-A02Y      TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AD-5900 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6899      TCGA-AD-6965 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AZ-4682      TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-AZ-6606      TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CA-5255      TCGA-CA-5796      TCGA-CA-6715      TCGA-CA-6716 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CA-6717      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5914 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5538 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-5539      TCGA-D5-5540      TCGA-D5-5541      TCGA-D5-6529 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6532      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6535 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6537      TCGA-D5-6538      TCGA-D5-6539 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6540      TCGA-D5-6541      TCGA-D5-6898      TCGA-D5-6920 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6923      TCGA-D5-6924      TCGA-D5-6926 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6927      TCGA-D5-6928      TCGA-D5-6930      TCGA-D5-6931 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-D5-6932      TCGA-DM-A0X9      TCGA-DM-A0XF      TCGA-DM-A1D0 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A28C      TCGA-DM-A28E 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-DM-A28G      TCGA-F4-6459      TCGA-F4-6460 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-F4-6809      TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6293      TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6315      TCGA-G4-6317      TCGA-G4-6323      TCGA-G4-6586 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" "KLF12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLF12 MUTATED        1      1      0      1
  KLF12 WILD-TYPE     99     71     72    120
D1471V7, multiclass
        clus
vv       KLF12 MUTATED KLF12 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF12 MUTATED        1      0      1      0      1
  KLF12 WILD-TYPE     58     75     73    119     37
D1471V8, multiclass
        clus
vv       KLF12 MUTATED KLF12 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF12 MUTATED        1      1      0      0      1
  KLF12 WILD-TYPE     50     75     61     71     94
D1471V9, multiclass
        clus
vv       KLF12 MUTATED KLF12 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLF12 MUTATED        1      0      0      0      1      0      1      0
  KLF12 WILD-TYPE     68     48     39     16     52     20     20     38
                 vv
clus              CLUS_9
  KLF12 MUTATED        0
  KLF12 WILD-TYPE     50
D1471V10, multiclass
        clus
vv       KLF12 MUTATED KLF12 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLF12 MUTATED        0      0      0      0      0      0
  KLF12 WILD-TYPE     13     16     14     11     11      9
D1471V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLF12 MUTATED        0      0      0      0      0      0      0      0
  KLF12 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  KLF12 MUTATED        0
  KLF12 WILD-TYPE      5
D1471V12, multiclass

Clustering(1472) Variable = APLP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APLP1 MUTATED        5      0      2      1      1
  APLP1 WILD-TYPE     27     18     44     26     22
D1472V1, multiclass
        clus
vv       APLP1 MUTATED APLP1 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  APLP1 MUTATED        6      1      2
  APLP1 WILD-TYPE     37     66     34
D1472V2, multiclass
        clus
vv       APLP1 MUTATED APLP1 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  APLP1 MUTATED        0      5     11
  APLP1 WILD-TYPE     42    168    136
D1472V3, multiclass
        clus
vv       APLP1 MUTATED APLP1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  APLP1 MUTATED        2      2      4
  APLP1 WILD-TYPE     60     71     71
D1472V4, multiclass
        clus
vv       APLP1 MUTATED APLP1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  APLP1 MUTATED        3      5      3
  APLP1 WILD-TYPE     67    115     97
D1472V5, multiclass
        clus
vv       APLP1 MUTATED APLP1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APLP1 MUTATED        2      0      1      1      3      3      1      0
  APLP1 WILD-TYPE     39     26     29     28     36     66     19     14
                 vv
clus              CLUS_9
  APLP1 MUTATED        0
  APLP1 WILD-TYPE     22
D1472V6, multiclass
        clus
vv       APLP1 MUTATED APLP1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APLP1 MUTATED        3      6      0      7
  APLP1 WILD-TYPE     97     66     72    114
D1472V7, multiclass
        clus
vv       APLP1 MUTATED APLP1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             6              66
  CLUS_3             0              72
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APLP1 MUTATED        1      2      4      3      6
  APLP1 WILD-TYPE     58     73     70    116     32
D1472V8, multiclass
        clus
vv       APLP1 MUTATED APLP1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             3             116
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APLP1 MUTATED        2      2      1      2      8
  APLP1 WILD-TYPE     49     74     60     69     87
D1472V9, multiclass
        clus
vv       APLP1 MUTATED APLP1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             8              87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APLP1 MUTATED        1      1      2      1      2      1      1      5
  APLP1 WILD-TYPE     68     47     37     15     51     19     20     33
                 vv
clus              CLUS_9
  APLP1 MUTATED        1
  APLP1 WILD-TYPE     49
D1472V10, multiclass
        clus
vv       APLP1 MUTATED APLP1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             5              33
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  APLP1 MUTATED        1      0      0      1      0      0
  APLP1 WILD-TYPE     12     16     14     10     11      9
D1472V11, multiclass
[1] "Remove cluster labels:" "APLP1 MUTATED"         
clus
  APLP1 MUTATED APLP1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AY-6196 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6460      TCGA-F4-6569 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APLP1 MUTATED        0      0      1      0      0      0      0      0
  APLP1 WILD-TYPE     11      7      6      9      8      7     11      9
                 vv
clus              CLUS_9
  APLP1 MUTATED        1
  APLP1 WILD-TYPE      4
D1472V12, multiclass
[1] "Remove cluster labels:" "APLP1 MUTATED"         
clus
  APLP1 MUTATED APLP1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AY-6196 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6460      TCGA-F4-6569 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" "APLP1 WILD-TYPE" 

Clustering(1473) Variable = SPARCL1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPARCL1 MUTATED        3      0      0      0      0
  SPARCL1 WILD-TYPE     29     18     46     27     23
D1473V1, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPARCL1 MUTATED        3      0      0
  SPARCL1 WILD-TYPE     40     67     36
D1473V2, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPARCL1 MUTATED        0      0     14
  SPARCL1 WILD-TYPE     42    173    133
D1473V3, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3              14               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPARCL1 MUTATED        5      0      6
  SPARCL1 WILD-TYPE     57     73     69
D1473V4, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               0                73
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SPARCL1 MUTATED        2      3      6
  SPARCL1 WILD-TYPE     68    117     94
D1473V5, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               3               117
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPARCL1 MUTATED        2      3      0      0      1      5      0      0
  SPARCL1 WILD-TYPE     39     23     30     29     38     64     20     14
                   vv
clus                CLUS_9
  SPARCL1 MUTATED        0
  SPARCL1 WILD-TYPE     22
D1473V6, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               3                23
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPARCL1 MUTATED        0      7      3      4
  SPARCL1 WILD-TYPE    100     65     69    117
D1473V7, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               7                65
  CLUS_3               3                69
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPARCL1 MUTATED        1      1      7      2      3
  SPARCL1 WILD-TYPE     58     74     67    117     35
D1473V8, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               7                67
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPARCL1 MUTATED        0      6      1      1      6
  SPARCL1 WILD-TYPE     51     70     60     70     89
D1473V9, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               6                70
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPARCL1 MUTATED        2      2      0      3      0      1      0      4
  SPARCL1 WILD-TYPE     67     46     39     13     53     19     21     34
                   vv
clus                CLUS_9
  SPARCL1 MUTATED        2
  SPARCL1 WILD-TYPE     48
D1473V10, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               4                34
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPARCL1 MUTATED        0      0      2      0      3      0
  SPARCL1 WILD-TYPE     13     16     12     11      8      9
D1473V11, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               2                12
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPARCL1 MUTATED        0      0      0      2      0      0      2      0
  SPARCL1 WILD-TYPE     11      7      7      7      8      7      9      9
                   vv
clus                CLUS_9
  SPARCL1 MUTATED        1
  SPARCL1 WILD-TYPE      4
D1473V12, multiclass
        clus
vv       SPARCL1 MUTATED SPARCL1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1474) Variable = UGT1A9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT1A9 MUTATED        2      1      0      2      0
  UGT1A9 WILD-TYPE     30     17     46     25     23
D1474V1, multiclass
        clus
vv       UGT1A9 MUTATED UGT1A9 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A9 MUTATED        3      1      1
  UGT1A9 WILD-TYPE     40     66     35
D1474V2, multiclass
        clus
vv       UGT1A9 MUTATED UGT1A9 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A9 MUTATED        0      1      8
  UGT1A9 WILD-TYPE     42    172    139
D1474V3, multiclass
        clus
vv       UGT1A9 MUTATED UGT1A9 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A9 MUTATED        3      1      0
  UGT1A9 WILD-TYPE     59     72     75
D1474V4, multiclass
        clus
vv       UGT1A9 MUTATED UGT1A9 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UGT1A9 MUTATED        2      3      2
  UGT1A9 WILD-TYPE     68    117     98
D1474V5, multiclass
        clus
vv       UGT1A9 MUTATED UGT1A9 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT1A9 MUTATED        2      2      1      0      1      1      0      0
  UGT1A9 WILD-TYPE     39     24     29     29     38     68     20     14
                  vv
clus               CLUS_9
  UGT1A9 MUTATED        0
  UGT1A9 WILD-TYPE     22
D1474V6, multiclass
        clus
vv       UGT1A9 MUTATED UGT1A9 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UGT1A9 MUTATED        0      1      1      7
  UGT1A9 WILD-TYPE    100     71     71    114
D1474V7, multiclass
        clus
vv       UGT1A9 MUTATED UGT1A9 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              1               71
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT1A9 MUTATED        1      1      0      5      2
  UGT1A9 WILD-TYPE     58     74     74    114     36
D1474V8, multiclass
        clus
vv       UGT1A9 MUTATED UGT1A9 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              0               74
  CLUS_4              5              114
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGT1A9 MUTATED        1      0      1      1      6
  UGT1A9 WILD-TYPE     50     76     60     70     89
D1474V9, multiclass
        clus
vv       UGT1A9 MUTATED UGT1A9 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              0               76
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT1A9 MUTATED        0      1      0      0      1      1      1      3
  UGT1A9 WILD-TYPE     69     47     39     16     52     19     20     35
                  vv
clus               CLUS_9
  UGT1A9 MUTATED        2
  UGT1A9 WILD-TYPE     48
D1474V10, multiclass
        clus
vv       UGT1A9 MUTATED UGT1A9 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UGT1A9 MUTATED        0      0      0      0      0      0
  UGT1A9 WILD-TYPE     13     16     14     11     11      9
D1474V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGT1A9 MUTATED        0      0      0      0      0      0      0      0
  UGT1A9 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  UGT1A9 MUTATED        0
  UGT1A9 WILD-TYPE      5
D1474V12, multiclass

Clustering(1475) Variable = MBP MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MBP MUTATED        2      0      0      1      0
  MBP WILD-TYPE     30     18     46     26     23
D1475V1, multiclass
        clus
vv       MBP MUTATED MBP WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MBP MUTATED        2      1      0
  MBP WILD-TYPE     41     66     36
D1475V2, multiclass
        clus
vv       MBP MUTATED MBP WILD-TYPE
  CLUS_1           2            41
  CLUS_2           1            66
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MBP MUTATED        1      0      5
  MBP WILD-TYPE     41    173    142
D1475V3, multiclass
        clus
vv       MBP MUTATED MBP WILD-TYPE
  CLUS_1           1            41
  CLUS_2           0           173
  CLUS_3           5           142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MBP MUTATED        2      0      1
  MBP WILD-TYPE     60     73     74
D1475V4, multiclass
        clus
vv       MBP MUTATED MBP WILD-TYPE
  CLUS_1           2            60
  CLUS_2           0            73
  CLUS_3           1            74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MBP MUTATED        0      3      3
  MBP WILD-TYPE     70    117     97
D1475V5, multiclass
        clus
vv       MBP MUTATED MBP WILD-TYPE
  CLUS_1           0            70
  CLUS_2           3           117
  CLUS_3           3            97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MBP MUTATED        0      0      1      1      1      3      0      0      0
  MBP WILD-TYPE     41     26     29     28     38     66     20     14     22
D1475V6, multiclass
        clus
vv       MBP MUTATED MBP WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           1            29
  CLUS_4           1            28
  CLUS_5           1            38
  CLUS_6           3            66
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MBP MUTATED        0      2      1      3
  MBP WILD-TYPE    100     70     71    118
D1475V7, multiclass
        clus
vv       MBP MUTATED MBP WILD-TYPE
  CLUS_1           0           100
  CLUS_2           2            70
  CLUS_3           1            71
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MBP MUTATED        0      0      3      1      2
  MBP WILD-TYPE     59     75     71    118     36
D1475V8, multiclass
        clus
vv       MBP MUTATED MBP WILD-TYPE
  CLUS_1           0            59
  CLUS_2           0            75
  CLUS_3           3            71
  CLUS_4           1           118
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MBP MUTATED        0      3      1      0      2
  MBP WILD-TYPE     51     73     60     71     93
D1475V9, multiclass
        clus
vv       MBP MUTATED MBP WILD-TYPE
  CLUS_1           0            51
  CLUS_2           3            73
  CLUS_3           1            60
  CLUS_4           0            71
  CLUS_5           2            93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MBP MUTATED        0      1      0      2      0      1      1      1      0
  MBP WILD-TYPE     69     47     39     14     53     19     20     37     50
D1475V10, multiclass
        clus
vv       MBP MUTATED MBP WILD-TYPE
  CLUS_1           0            69
  CLUS_2           1            47
  CLUS_3           0            39
  CLUS_4           2            14
  CLUS_5           0            53
  CLUS_6           1            19
  CLUS_7           1            20
  CLUS_8           1            37
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MBP MUTATED        0      0      1      0      1      0
  MBP WILD-TYPE     13     16     13     11     10      9
D1475V11, multiclass
[1] "Remove cluster labels:" "MBP MUTATED"           
clus
  MBP MUTATED MBP WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6600 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679    TCGA-CM-6680 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536    TCGA-D5-6922 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0    TCGA-DM-A1D7 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA    TCGA-DM-A282 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460    TCGA-F4-6569 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"MBP WILD-TYPE" "MBP WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MBP MUTATED        0      0      0      1      0      1      0      0      0
  MBP WILD-TYPE     11      7      7      8      8      6     11      9      5
D1475V12, multiclass
[1] "Remove cluster labels:" "MBP MUTATED"           
clus
  MBP MUTATED MBP WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6600 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679    TCGA-CM-6680 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536    TCGA-D5-6922 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0    TCGA-DM-A1D7 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA    TCGA-DM-A282 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460    TCGA-F4-6569 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" "MBP WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"MBP WILD-TYPE" "MBP WILD-TYPE" 

Clustering(1476) Variable = AAMP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AAMP MUTATED        0      0      0      0      0
  AAMP WILD-TYPE     32     18     46     27     23
D1476V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AAMP MUTATED        0      0      0
  AAMP WILD-TYPE     43     67     36
D1476V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AAMP MUTATED        0      0      3
  AAMP WILD-TYPE     42    173    144
D1476V3, multiclass
        clus
vv       AAMP MUTATED AAMP WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AAMP MUTATED        3      0      0
  AAMP WILD-TYPE     59     73     75
D1476V4, multiclass
        clus
vv       AAMP MUTATED AAMP WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            0             75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AAMP MUTATED        0      1      2
  AAMP WILD-TYPE     70    119     98
D1476V5, multiclass
        clus
vv       AAMP MUTATED AAMP WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AAMP MUTATED        0      0      0      0      0      2      0      1      0
  AAMP WILD-TYPE     41     26     30     29     39     67     20     13     22
D1476V6, multiclass
        clus
vv       AAMP MUTATED AAMP WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AAMP MUTATED        0      1      2      0
  AAMP WILD-TYPE    100     71     70    121
D1476V7, multiclass
        clus
vv       AAMP MUTATED AAMP WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AAMP MUTATED        0      0      3      0      0
  AAMP WILD-TYPE     59     75     71    119     38
D1476V8, multiclass
        clus
vv       AAMP MUTATED AAMP WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AAMP MUTATED        0      3      0      0      0
  AAMP WILD-TYPE     51     73     61     71     95
D1476V9, multiclass
        clus
vv       AAMP MUTATED AAMP WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AAMP MUTATED        2      0      0      1      0      0      0      0      0
  AAMP WILD-TYPE     67     48     39     15     53     20     21     38     50
D1476V10, multiclass
        clus
vv       AAMP MUTATED AAMP WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AAMP MUTATED        0      0      1      0      2      0
  AAMP WILD-TYPE     13     16     13     11      9      9
D1476V11, multiclass
        clus
vv       AAMP MUTATED AAMP WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AAMP MUTATED        0      0      0      1      0      1      1      0      0
  AAMP WILD-TYPE     11      7      7      8      8      6     10      9      5
D1476V12, multiclass
        clus
vv       AAMP MUTATED AAMP WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1477) Variable = MGEA5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MGEA5 MUTATED        1      0      0      0      1
  MGEA5 WILD-TYPE     31     18     46     27     22
D1477V1, multiclass
[1] "Remove cluster labels:" "MGEA5 MUTATED"         
clus
  MGEA5 MUTATED MGEA5 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3685 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MGEA5 MUTATED        2      0      0
  MGEA5 WILD-TYPE     41     67     36
D1477V2, multiclass
[1] "Remove cluster labels:" "MGEA5 MUTATED"         
clus
  MGEA5 MUTATED MGEA5 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3685 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3821 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3842 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MGEA5 MUTATED        2      1      5
  MGEA5 WILD-TYPE     40    172    142
D1477V3, multiclass
        clus
vv       MGEA5 MUTATED MGEA5 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MGEA5 MUTATED        3      2      1
  MGEA5 WILD-TYPE     59     71     74
D1477V4, multiclass
        clus
vv       MGEA5 MUTATED MGEA5 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MGEA5 MUTATED        0      2      5
  MGEA5 WILD-TYPE     70    118     95
D1477V5, multiclass
        clus
vv       MGEA5 MUTATED MGEA5 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MGEA5 MUTATED        2      0      0      0      1      1      1      0
  MGEA5 WILD-TYPE     39     26     30     29     38     68     19     14
                 vv
clus              CLUS_9
  MGEA5 MUTATED        2
  MGEA5 WILD-TYPE     20
D1477V6, multiclass
        clus
vv       MGEA5 MUTATED MGEA5 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MGEA5 MUTATED        1      3      2      2
  MGEA5 WILD-TYPE     99     69     70    119
D1477V7, multiclass
        clus
vv       MGEA5 MUTATED MGEA5 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MGEA5 MUTATED        2      2      2      1      1
  MGEA5 WILD-TYPE     57     73     72    118     37
D1477V8, multiclass
        clus
vv       MGEA5 MUTATED MGEA5 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MGEA5 MUTATED        1      2      2      0      3
  MGEA5 WILD-TYPE     50     74     59     71     92
D1477V9, multiclass
        clus
vv       MGEA5 MUTATED MGEA5 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MGEA5 MUTATED        1      2      0      1      0      1      1      1
  MGEA5 WILD-TYPE     68     46     39     15     53     19     20     37
                 vv
clus              CLUS_9
  MGEA5 MUTATED        1
  MGEA5 WILD-TYPE     49
D1477V10, multiclass
        clus
vv       MGEA5 MUTATED MGEA5 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MGEA5 MUTATED        0      1      0      0      0      0
  MGEA5 WILD-TYPE     13     15     14     11     11      9
D1477V11, multiclass
[1] "Remove cluster labels:" "MGEA5 MUTATED"         
clus
  MGEA5 MUTATED MGEA5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-G4-6628 
"MGEA5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MGEA5 MUTATED        1      0      0      0      0      0      0      0
  MGEA5 WILD-TYPE     10      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  MGEA5 MUTATED        0
  MGEA5 WILD-TYPE      5
D1477V12, multiclass
[1] "Remove cluster labels:" "MGEA5 MUTATED"         
clus
  MGEA5 MUTATED MGEA5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" "MGEA5 WILD-TYPE" 
     TCGA-G4-6628 
"MGEA5 WILD-TYPE" 

Clustering(1478) Variable = BEX5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BEX5 MUTATED        1      0      0      1      0
  BEX5 WILD-TYPE     31     18     46     26     23
D1478V1, multiclass
[1] "Remove cluster labels:" "BEX5 MUTATED"          
clus
  BEX5 MUTATED BEX5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3968 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BEX5 MUTATED        2      0      0
  BEX5 WILD-TYPE     41     67     36
D1478V2, multiclass
[1] "Remove cluster labels:" "BEX5 MUTATED"          
clus
  BEX5 MUTATED BEX5 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3968 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BEX5 MUTATED        0      2      5
  BEX5 WILD-TYPE     42    171    142
D1478V3, multiclass
        clus
vv       BEX5 MUTATED BEX5 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BEX5 MUTATED        3      1      1
  BEX5 WILD-TYPE     59     72     74
D1478V4, multiclass
        clus
vv       BEX5 MUTATED BEX5 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BEX5 MUTATED        1      1      3
  BEX5 WILD-TYPE     69    119     97
D1478V5, multiclass
        clus
vv       BEX5 MUTATED BEX5 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BEX5 MUTATED        1      1      0      0      0      1      2      0      0
  BEX5 WILD-TYPE     40     25     30     29     39     68     18     14     22
D1478V6, multiclass
        clus
vv       BEX5 MUTATED BEX5 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BEX5 MUTATED        0      2      4      1
  BEX5 WILD-TYPE    100     70     68    120
D1478V7, multiclass
        clus
vv       BEX5 MUTATED BEX5 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            4             68
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BEX5 MUTATED        2      2      1      0      2
  BEX5 WILD-TYPE     57     73     73    119     36
D1478V8, multiclass
        clus
vv       BEX5 MUTATED BEX5 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BEX5 MUTATED        1      2      2      0      2
  BEX5 WILD-TYPE     50     74     59     71     93
D1478V9, multiclass
        clus
vv       BEX5 MUTATED BEX5 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BEX5 MUTATED        1      2      0      0      1      1      0      2      0
  BEX5 WILD-TYPE     68     46     39     16     52     19     21     36     50
D1478V10, multiclass
        clus
vv       BEX5 MUTATED BEX5 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BEX5 MUTATED        0      0      1      1      0      0
  BEX5 WILD-TYPE     13     16     13     10     11      9
D1478V11, multiclass
[1] "Remove cluster labels:" "BEX5 MUTATED"          
clus
  BEX5 MUTATED BEX5 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BEX5 MUTATED        0      0      1      0      1      0      0      0      0
  BEX5 WILD-TYPE     11      7      6      9      7      7     11      9      5
D1478V12, multiclass
[1] "Remove cluster labels:" "BEX5 MUTATED"          
clus
  BEX5 MUTATED BEX5 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" "BEX5 WILD-TYPE" 

Clustering(1479) Variable = HAUS3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAUS3 MUTATED        0      0      0      2      0
  HAUS3 WILD-TYPE     32     18     46     25     23
D1479V1, multiclass
[1] "Remove cluster labels:" "HAUS3 MUTATED"         
clus
  HAUS3 MUTATED HAUS3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS3 MUTATED        1      1      0
  HAUS3 WILD-TYPE     42     66     36
D1479V2, multiclass
[1] "Remove cluster labels:" "HAUS3 MUTATED"         
clus
  HAUS3 MUTATED HAUS3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS3 MUTATED        0      3      6
  HAUS3 WILD-TYPE     42    170    141
D1479V3, multiclass
        clus
vv       HAUS3 MUTATED HAUS3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS3 MUTATED        1      3      3
  HAUS3 WILD-TYPE     61     70     72
D1479V4, multiclass
        clus
vv       HAUS3 MUTATED HAUS3 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HAUS3 MUTATED        1      3      4
  HAUS3 WILD-TYPE     69    117     96
D1479V5, multiclass
        clus
vv       HAUS3 MUTATED HAUS3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HAUS3 MUTATED        0      1      1      2      0      2      1      0
  HAUS3 WILD-TYPE     41     25     29     27     39     67     19     14
                 vv
clus              CLUS_9
  HAUS3 MUTATED        1
  HAUS3 WILD-TYPE     21
D1479V6, multiclass
        clus
vv       HAUS3 MUTATED HAUS3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HAUS3 MUTATED        2      2      2      3
  HAUS3 WILD-TYPE     98     70     70    118
D1479V7, multiclass
        clus
vv       HAUS3 MUTATED HAUS3 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAUS3 MUTATED        1      2      3      2      1
  HAUS3 WILD-TYPE     58     73     71    117     37
D1479V8, multiclass
        clus
vv       HAUS3 MUTATED HAUS3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HAUS3 MUTATED        2      3      1      0      2
  HAUS3 WILD-TYPE     49     73     60     71     93
D1479V9, multiclass
        clus
vv       HAUS3 MUTATED HAUS3 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HAUS3 MUTATED        1      1      0      2      1      2      0      0
  HAUS3 WILD-TYPE     68     47     39     14     52     18     21     38
                 vv
clus              CLUS_9
  HAUS3 MUTATED        1
  HAUS3 WILD-TYPE     49
D1479V10, multiclass
        clus
vv       HAUS3 MUTATED HAUS3 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HAUS3 MUTATED        1      0      0      0      1      0
  HAUS3 WILD-TYPE     12     16     14     11     10      9
D1479V11, multiclass
[1] "Remove cluster labels:" "HAUS3 MUTATED"         
clus
  HAUS3 MUTATED HAUS3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D7      TCGA-DM-A1D8 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HAUS3 MUTATED        0      0      0      0      1      0      0      0
  HAUS3 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  HAUS3 MUTATED        1
  HAUS3 WILD-TYPE      4
D1479V12, multiclass
[1] "Remove cluster labels:" "HAUS3 MUTATED"         
clus
  HAUS3 MUTATED HAUS3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D7      TCGA-DM-A1D8 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" "HAUS3 WILD-TYPE" 

Clustering(1480) Variable = HYDIN MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HYDIN MUTATED       11      0      3      6      1
  HYDIN WILD-TYPE     21     18     43     21     22
D1480V1, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1            11              21
  CLUS_2             0              18
  CLUS_3             3              43
  CLUS_4             6              21
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HYDIN MUTATED       13      6      2
  HYDIN WILD-TYPE     30     61     34
D1480V2, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1            13              30
  CLUS_2             6              61
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HYDIN MUTATED        4     24     50
  HYDIN WILD-TYPE     38    149     97
D1480V3, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             4              38
  CLUS_2            24             149
  CLUS_3            50              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HYDIN MUTATED       15     12     31
  HYDIN WILD-TYPE     47     61     44
D1480V4, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1            15              47
  CLUS_2            12              61
  CLUS_3            31              44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HYDIN MUTATED       16     25     27
  HYDIN WILD-TYPE     54     95     73
D1480V5, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1            16              54
  CLUS_2            25              95
  CLUS_3            27              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HYDIN MUTATED        6     11      5      7      8     20      5      1
  HYDIN WILD-TYPE     35     15     25     22     31     49     15     13
                 vv
clus              CLUS_9
  HYDIN MUTATED        5
  HYDIN WILD-TYPE     17
D1480V6, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             6              35
  CLUS_2            11              15
  CLUS_3             5              25
  CLUS_4             7              22
  CLUS_5             8              31
  CLUS_6            20              49
  CLUS_7             5              15
  CLUS_8             1              13
  CLUS_9             5              17
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HYDIN MUTATED       15     23     21     21
  HYDIN WILD-TYPE     85     49     51    100
D1480V7, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1            15              85
  CLUS_2            23              49
  CLUS_3            21              51
  CLUS_4            21             100
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HYDIN MUTATED        9     19     27     11     14
  HYDIN WILD-TYPE     50     56     47    108     24
D1480V8, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             9              50
  CLUS_2            19              56
  CLUS_3            27              47
  CLUS_4            11             108
  CLUS_5            14              24
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HYDIN MUTATED       14     26     10      7     21
  HYDIN WILD-TYPE     37     50     51     64     74
D1480V9, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1            14              37
  CLUS_2            26              50
  CLUS_3            10              51
  CLUS_4             7              64
  CLUS_5            21              74
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HYDIN MUTATED       18     13      5      9      5      5      2     14
  HYDIN WILD-TYPE     51     35     34      7     48     15     19     24
                 vv
clus              CLUS_9
  HYDIN MUTATED        7
  HYDIN WILD-TYPE     43
D1480V10, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1            18              51
  CLUS_2            13              35
  CLUS_3             5              34
  CLUS_4             9               7
  CLUS_5             5              48
  CLUS_6             5              15
  CLUS_7             2              19
  CLUS_8            14              24
  CLUS_9             7              43
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HYDIN MUTATED        4      3      4      2      6      1
  HYDIN WILD-TYPE      9     13     10      9      5      8
D1480V11, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             4               9
  CLUS_2             3              13
  CLUS_3             4              10
  CLUS_4             2               9
  CLUS_5             6               5
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HYDIN MUTATED        2      0      0      3      2      3      5      3
  HYDIN WILD-TYPE      9      7      7      6      6      4      6      6
                 vv
clus              CLUS_9
  HYDIN MUTATED        2
  HYDIN WILD-TYPE      3
D1480V12, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             2               6
  CLUS_6             3               4
  CLUS_7             5               6
  CLUS_8             3               6
  CLUS_9             2               3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1481) Variable = NUDT16L1 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUDT16L1 MUTATED        0      0      0      0      0
  NUDT16L1 WILD-TYPE     32     18     46     27     23
D1481V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NUDT16L1 MUTATED        0      0      0
  NUDT16L1 WILD-TYPE     43     67     36
D1481V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NUDT16L1 MUTATED        0      0      3
  NUDT16L1 WILD-TYPE     42    173    144
D1481V3, multiclass
        clus
vv       NUDT16L1 MUTATED NUDT16L1 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NUDT16L1 MUTATED        1      0      1
  NUDT16L1 WILD-TYPE     61     73     74
D1481V4, multiclass
[1] "Remove cluster labels:" "NUDT16L1 MUTATED"      
clus
  NUDT16L1 MUTATED NUDT16L1 WILD-TYPE 
                 2                208 
        TCGA-A6-2671         TCGA-A6-2677         TCGA-A6-3809 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-3810         TCGA-A6-4105         TCGA-A6-5656 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-5657         TCGA-A6-5659         TCGA-A6-5660 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-5661         TCGA-A6-5662         TCGA-A6-5664 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-5665         TCGA-A6-5666         TCGA-A6-6137 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-6138         TCGA-A6-6141         TCGA-A6-6142 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-6648         TCGA-A6-6649         TCGA-A6-6651 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-6652         TCGA-A6-6653         TCGA-A6-6654 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-6780         TCGA-A6-6781         TCGA-A6-6782 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AA-3489         TCGA-AA-3492         TCGA-AA-3496 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AA-3502         TCGA-AA-3510         TCGA-AA-3511 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AA-3655         TCGA-AA-3660         TCGA-AA-3662 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AA-3663         TCGA-AA-3697         TCGA-AA-3712 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AA-3713         TCGA-AD-5900         TCGA-AD-6548 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AD-6888         TCGA-AD-6889         TCGA-AD-6890 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AD-6895         TCGA-AD-6899         TCGA-AD-6901 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AD-6963         TCGA-AD-6964         TCGA-AD-6965 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AU-3779         TCGA-AU-6004         TCGA-AY-5543 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AY-6196         TCGA-AY-6197         TCGA-AY-6386 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-4315         TCGA-AZ-4323         TCGA-AZ-4616 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-4681         TCGA-AZ-4682         TCGA-AZ-5403 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-5407         TCGA-AZ-6598         TCGA-AZ-6599 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6606         TCGA-AZ-6607 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-6608         TCGA-CA-5254         TCGA-CA-5255 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CA-5796         TCGA-CA-5797         TCGA-CA-6715 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CA-6716         TCGA-CA-6717         TCGA-CA-6718 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-4947         TCGA-CK-4948 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CK-4950         TCGA-CK-4952         TCGA-CK-5912 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CK-5913         TCGA-CK-5914         TCGA-CK-5915 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6746         TCGA-CK-6748 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CK-6751         TCGA-CM-4743         TCGA-CM-4744 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-4746         TCGA-CM-4747         TCGA-CM-4752 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-5341         TCGA-CM-5344         TCGA-CM-5348 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-5349         TCGA-CM-5860         TCGA-CM-5861 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-5862         TCGA-CM-5863         TCGA-CM-5864 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-5868         TCGA-CM-6161         TCGA-CM-6162 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-6163         TCGA-CM-6164         TCGA-CM-6165 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-6166         TCGA-CM-6167         TCGA-CM-6168 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-6169         TCGA-CM-6170         TCGA-CM-6171 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-6172         TCGA-CM-6675         TCGA-CM-6676 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-5538 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-5539         TCGA-D5-5540         TCGA-D5-5541 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6529         TCGA-D5-6532         TCGA-D5-6533 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6535         TCGA-D5-6536 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6537         TCGA-D5-6538         TCGA-D5-6539 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6540         TCGA-D5-6541         TCGA-D5-6898 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6920         TCGA-D5-6922         TCGA-D5-6923 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6924         TCGA-D5-6926         TCGA-D5-6927 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6928         TCGA-D5-6929         TCGA-D5-6930 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6931         TCGA-D5-6932         TCGA-D5-7000 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A0X9         TCGA-DM-A0XD         TCGA-DM-A0XF 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D4         TCGA-DM-A1D6 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A1D7         TCGA-DM-A1D8         TCGA-DM-A1D9 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A1DA         TCGA-DM-A1DB         TCGA-DM-A1HA 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A1HB         TCGA-DM-A282         TCGA-DM-A285 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A28C         TCGA-DM-A28E         TCGA-DM-A28F 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A28G         TCGA-DM-A28H         TCGA-DM-A28K 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6703         TCGA-F4-6704 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6806         TCGA-F4-6807 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-F4-6808         TCGA-F4-6809         TCGA-F4-6854 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-F4-6855         TCGA-F4-6856         TCGA-G4-6293 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6304 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6307         TCGA-G4-6309 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-G4-6310         TCGA-G4-6315         TCGA-G4-6317 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-G4-6321         TCGA-G4-6323         TCGA-G4-6586 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-G4-6588         TCGA-G4-6625         TCGA-G4-6626 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-G4-6628 
"NUDT16L1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NUDT16L1 MUTATED        0      2      1
  NUDT16L1 WILD-TYPE     70    118     99
D1481V5, multiclass
        clus
vv       NUDT16L1 MUTATED NUDT16L1 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                118
  CLUS_3                1                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUDT16L1 MUTATED        0      1      1      0      0      1      0      0
  NUDT16L1 WILD-TYPE     41     25     29     29     39     68     20     14
                    vv
clus                 CLUS_9
  NUDT16L1 MUTATED        0
  NUDT16L1 WILD-TYPE     22
D1481V6, multiclass
        clus
vv       NUDT16L1 MUTATED NUDT16L1 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                1                 68
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUDT16L1 MUTATED        0      1      1      1
  NUDT16L1 WILD-TYPE    100     71     71    120
D1481V7, multiclass
        clus
vv       NUDT16L1 MUTATED NUDT16L1 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                1                 71
  CLUS_3                1                 71
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUDT16L1 MUTATED        0      1      1      0      1
  NUDT16L1 WILD-TYPE     59     74     73    119     37
D1481V8, multiclass
        clus
vv       NUDT16L1 MUTATED NUDT16L1 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                1                 73
  CLUS_4                0                119
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUDT16L1 MUTATED        1      1      0      0      1
  NUDT16L1 WILD-TYPE     50     75     61     71     94
D1481V9, multiclass
        clus
vv       NUDT16L1 MUTATED NUDT16L1 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                1                 75
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUDT16L1 MUTATED        1      1      0      0      0      0      0      1
  NUDT16L1 WILD-TYPE     68     47     39     16     53     20     21     37
                    vv
clus                 CLUS_9
  NUDT16L1 MUTATED        0
  NUDT16L1 WILD-TYPE     50
D1481V10, multiclass
        clus
vv       NUDT16L1 MUTATED NUDT16L1 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUDT16L1 MUTATED        0      0      1      0      0      0
  NUDT16L1 WILD-TYPE     13     16     13     11     11      9
D1481V11, multiclass
[1] "Remove cluster labels:" "NUDT16L1 MUTATED"      
clus
  NUDT16L1 MUTATED NUDT16L1 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-G4-6628 
"NUDT16L1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NUDT16L1 MUTATED        0      0      0      0      0      1      0      0
  NUDT16L1 WILD-TYPE     11      7      7      9      8      6     11      9
                    vv
clus                 CLUS_9
  NUDT16L1 MUTATED        0
  NUDT16L1 WILD-TYPE      5
D1481V12, multiclass
[1] "Remove cluster labels:" "NUDT16L1 MUTATED"      
clus
  NUDT16L1 MUTATED NUDT16L1 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" "NUDT16L1 WILD-TYPE" 
        TCGA-G4-6628 
"NUDT16L1 WILD-TYPE" 

Clustering(1482) Variable = AGBL5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGBL5 MUTATED        1      0      0      1      0
  AGBL5 WILD-TYPE     31     18     46     26     23
D1482V1, multiclass
[1] "Remove cluster labels:" "AGBL5 MUTATED"         
clus
  AGBL5 MUTATED AGBL5 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGBL5 MUTATED        2      0      0
  AGBL5 WILD-TYPE     41     67     36
D1482V2, multiclass
[1] "Remove cluster labels:" "AGBL5 MUTATED"         
clus
  AGBL5 MUTATED AGBL5 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" "AGBL5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGBL5 MUTATED        0      1     11
  AGBL5 WILD-TYPE     42    172    136
D1482V3, multiclass
        clus
vv       AGBL5 MUTATED AGBL5 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGBL5 MUTATED        2      1      7
  AGBL5 WILD-TYPE     60     72     68
D1482V4, multiclass
        clus
vv       AGBL5 MUTATED AGBL5 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AGBL5 MUTATED        2      4      5
  AGBL5 WILD-TYPE     68    116     95
D1482V5, multiclass
        clus
vv       AGBL5 MUTATED AGBL5 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGBL5 MUTATED        2      1      1      0      0      4      2      1
  AGBL5 WILD-TYPE     39     25     29     29     39     65     18     13
                 vv
clus              CLUS_9
  AGBL5 MUTATED        0
  AGBL5 WILD-TYPE     22
D1482V6, multiclass
        clus
vv       AGBL5 MUTATED AGBL5 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AGBL5 MUTATED        1      6      3      2
  AGBL5 WILD-TYPE     99     66     69    119
D1482V7, multiclass
        clus
vv       AGBL5 MUTATED AGBL5 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGBL5 MUTATED        0      1      8      1      2
  AGBL5 WILD-TYPE     59     74     66    118     36
D1482V8, multiclass
        clus
vv       AGBL5 MUTATED AGBL5 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGBL5 MUTATED        0      7      1      1      2
  AGBL5 WILD-TYPE     51     69     60     70     93
D1482V9, multiclass
        clus
vv       AGBL5 MUTATED AGBL5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGBL5 MUTATED        2      2      0      4      1      0      0      2
  AGBL5 WILD-TYPE     67     46     39     12     52     20     21     36
                 vv
clus              CLUS_9
  AGBL5 MUTATED        0
  AGBL5 WILD-TYPE     50
D1482V10, multiclass
        clus
vv       AGBL5 MUTATED AGBL5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AGBL5 MUTATED        0      1      0      0      3      0
  AGBL5 WILD-TYPE     13     15     14     11      8      9
D1482V11, multiclass
        clus
vv       AGBL5 MUTATED AGBL5 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGBL5 MUTATED        0      0      0      2      0      1      1      0
  AGBL5 WILD-TYPE     11      7      7      7      8      6     10      9
                 vv
clus              CLUS_9
  AGBL5 MUTATED        0
  AGBL5 WILD-TYPE      5
D1482V12, multiclass
        clus
vv       AGBL5 MUTATED AGBL5 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1483) Variable = C14ORF104 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF104 MUTATED        1      0      0      1      0
  C14ORF104 WILD-TYPE     31     18     46     26     23
D1483V1, multiclass
[1] "Remove cluster labels:" "C14ORF104 MUTATED"     
clus
  C14ORF104 MUTATED C14ORF104 WILD-TYPE 
                  2                 144 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3986          TCGA-AA-3989          TCGA-AA-3994 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00D 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00E          TCGA-AA-A00F          TCGA-AA-A00J 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00K          TCGA-AA-A00L          TCGA-AA-A00N 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00O          TCGA-AA-A00Q          TCGA-AA-A00R 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00U          TCGA-AA-A00W          TCGA-AA-A00Z 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A017          TCGA-AA-A01D          TCGA-AA-A01F 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01G          TCGA-AA-A01I          TCGA-AA-A01K 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01Q          TCGA-AA-A024          TCGA-AA-A029 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A02F          TCGA-AA-A02H          TCGA-AA-A02J 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AY-4070          TCGA-AY-4071 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF104 MUTATED        0      1      1
  C14ORF104 WILD-TYPE     43     66     35
D1483V2, multiclass
[1] "Remove cluster labels:" "C14ORF104 MUTATED"     
clus
  C14ORF104 MUTATED C14ORF104 WILD-TYPE 
                  2                 144 
         TCGA-A6-2672          TCGA-A6-2674          TCGA-A6-2676 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-3810          TCGA-AA-3514          TCGA-AA-3516 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3518          TCGA-AA-3519 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3520          TCGA-AA-3521          TCGA-AA-3522 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3524          TCGA-AA-3525          TCGA-AA-3526 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3527          TCGA-AA-3529          TCGA-AA-3530 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3531          TCGA-AA-3532          TCGA-AA-3534 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3538          TCGA-AA-3542          TCGA-AA-3543 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3544          TCGA-AA-3548          TCGA-AA-3549 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3556          TCGA-AA-3558 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3560          TCGA-AA-3561          TCGA-AA-3562 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3666          TCGA-AA-3667 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3672          TCGA-AA-3673          TCGA-AA-3678 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3679          TCGA-AA-3680          TCGA-AA-3681 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3684          TCGA-AA-3685          TCGA-AA-3688 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3692          TCGA-AA-3693          TCGA-AA-3696 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3710          TCGA-AA-3715          TCGA-AA-3811 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3812          TCGA-AA-3814          TCGA-AA-3815 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3818          TCGA-AA-3819          TCGA-AA-3821 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3842          TCGA-AA-3844          TCGA-AA-3845 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3846          TCGA-AA-3848          TCGA-AA-3850 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3851          TCGA-AA-3852          TCGA-AA-3854 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3855          TCGA-AA-3856          TCGA-AA-3858 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3860          TCGA-AA-3861          TCGA-AA-3864 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3867          TCGA-AA-3869 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3870          TCGA-AA-3872          TCGA-AA-3875 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3877          TCGA-AA-3930          TCGA-AA-3939 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3941          TCGA-AA-3947          TCGA-AA-3949 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3950          TCGA-AA-3952          TCGA-AA-3955 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3956          TCGA-AA-3966          TCGA-AA-3968 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3971          TCGA-AA-3972          TCGA-AA-3973 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3975          TCGA-AA-3976          TCGA-AA-3977 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3979          TCGA-AA-3980          TCGA-AA-3982 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3986          TCGA-AA-3989          TCGA-AA-3994 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00D 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00E          TCGA-AA-A00F          TCGA-AA-A00J 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00K          TCGA-AA-A00L          TCGA-AA-A00N 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00O          TCGA-AA-A00Q          TCGA-AA-A00R 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00U          TCGA-AA-A00W          TCGA-AA-A00Z 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A017          TCGA-AA-A01D          TCGA-AA-A01F 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01G          TCGA-AA-A01I          TCGA-AA-A01K 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01Q          TCGA-AA-A024          TCGA-AA-A029 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A02F          TCGA-AA-A02H          TCGA-AA-A02J 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AY-4070          TCGA-AY-4071 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF104 MUTATED        0      1      3
  C14ORF104 WILD-TYPE     42    172    144
D1483V3, multiclass
        clus
vv       C14ORF104 MUTATED C14ORF104 WILD-TYPE
  CLUS_1                 0                  42
  CLUS_2                 1                 172
  CLUS_3                 3                 144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF104 MUTATED        2      0      0
  C14ORF104 WILD-TYPE     60     73     75
D1483V4, multiclass
[1] "Remove cluster labels:" "C14ORF104 MUTATED"     
clus
  C14ORF104 MUTATED C14ORF104 WILD-TYPE 
                  2                 208 
         TCGA-A6-2671          TCGA-A6-2677          TCGA-A6-3809 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-3810          TCGA-A6-4105          TCGA-A6-5656 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-5657          TCGA-A6-5659          TCGA-A6-5660 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-5661          TCGA-A6-5662          TCGA-A6-5664 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-5665          TCGA-A6-5666          TCGA-A6-6137 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6138          TCGA-A6-6141          TCGA-A6-6142 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6648          TCGA-A6-6649          TCGA-A6-6651 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6652          TCGA-A6-6653          TCGA-A6-6654 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6780          TCGA-A6-6781          TCGA-A6-6782 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3489          TCGA-AA-3492          TCGA-AA-3496 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3502          TCGA-AA-3510          TCGA-AA-3511 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3655          TCGA-AA-3660          TCGA-AA-3662 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3663          TCGA-AA-3697          TCGA-AA-3712 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3713          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AD-6888          TCGA-AD-6889          TCGA-AD-6890 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AD-6895          TCGA-AD-6899          TCGA-AD-6901 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AD-6964          TCGA-AD-6965          TCGA-AU-3779 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AU-6004          TCGA-AY-5543          TCGA-AY-6196 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AY-6197          TCGA-AY-6386          TCGA-AZ-4315 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-4681 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-4682          TCGA-AZ-5403          TCGA-AZ-5407 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6598          TCGA-AZ-6599          TCGA-AZ-6600 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6601          TCGA-AZ-6603          TCGA-AZ-6605 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6606          TCGA-AZ-6607          TCGA-AZ-6608 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CA-5254          TCGA-CA-5255          TCGA-CA-5796 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CA-5797          TCGA-CA-6715          TCGA-CA-6716 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CA-6717          TCGA-CA-6718          TCGA-CA-6719 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CK-4947          TCGA-CK-4948          TCGA-CK-4950 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CK-4952          TCGA-CK-5912          TCGA-CK-5913 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CK-5914          TCGA-CK-5915          TCGA-CK-5916 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CK-6746          TCGA-CK-6747          TCGA-CK-6748 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CK-6751          TCGA-CM-4743          TCGA-CM-4744 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-4746          TCGA-CM-4747          TCGA-CM-4752 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5341          TCGA-CM-5344          TCGA-CM-5348 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5349          TCGA-CM-5860          TCGA-CM-5861 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5862          TCGA-CM-5863          TCGA-CM-5864 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5868          TCGA-CM-6161          TCGA-CM-6162 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6163          TCGA-CM-6164          TCGA-CM-6165 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6166          TCGA-CM-6167          TCGA-CM-6168 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6169          TCGA-CM-6170          TCGA-CM-6171 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6172          TCGA-CM-6674          TCGA-CM-6675 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6676          TCGA-CM-6677          TCGA-CM-6678 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6679          TCGA-CM-6680          TCGA-D5-5537 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-5538          TCGA-D5-5539          TCGA-D5-5540 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-5541          TCGA-D5-6529          TCGA-D5-6532 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6533          TCGA-D5-6534          TCGA-D5-6535 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6536          TCGA-D5-6537          TCGA-D5-6538 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6539          TCGA-D5-6540          TCGA-D5-6541 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6898          TCGA-D5-6920          TCGA-D5-6922 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6923          TCGA-D5-6924          TCGA-D5-6926 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6927          TCGA-D5-6928          TCGA-D5-6929 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6931          TCGA-D5-6932          TCGA-D5-7000 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A0X9          TCGA-DM-A0XD          TCGA-DM-A0XF 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1D0          TCGA-DM-A1D4          TCGA-DM-A1D6 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1D7          TCGA-DM-A1D8          TCGA-DM-A1D9 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1DA          TCGA-DM-A1DB          TCGA-DM-A1HA 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1HB          TCGA-DM-A282          TCGA-DM-A285 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A28C          TCGA-DM-A28E          TCGA-DM-A28F 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A28G          TCGA-DM-A28H          TCGA-DM-A28K 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6459          TCGA-F4-6460          TCGA-F4-6569 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6570          TCGA-F4-6703          TCGA-F4-6704 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6805          TCGA-F4-6806          TCGA-F4-6807 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6808          TCGA-F4-6809          TCGA-F4-6854 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6855          TCGA-F4-6856          TCGA-G4-6293 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6299          TCGA-G4-6303          TCGA-G4-6304 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6306          TCGA-G4-6307          TCGA-G4-6309 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6310          TCGA-G4-6315          TCGA-G4-6317 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6321          TCGA-G4-6323          TCGA-G4-6586 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6588          TCGA-G4-6625          TCGA-G4-6626 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6628 
"C14ORF104 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF104 MUTATED        0      1      1
  C14ORF104 WILD-TYPE     70    119     99
D1483V5, multiclass
[1] "Remove cluster labels:" "C14ORF104 MUTATED"     
clus
  C14ORF104 MUTATED C14ORF104 WILD-TYPE 
                  2                 288 
         TCGA-A6-2671          TCGA-A6-2672          TCGA-A6-2676 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-3810          TCGA-A6-5656          TCGA-A6-5657 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-5659          TCGA-A6-5660          TCGA-A6-5661 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-5662          TCGA-A6-5664          TCGA-A6-5665 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-5666          TCGA-A6-6137          TCGA-A6-6138 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6648 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6649          TCGA-A6-6651          TCGA-A6-6652 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6653          TCGA-A6-6654          TCGA-A6-6780 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3492          TCGA-AA-3496          TCGA-AA-3502 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3510          TCGA-AA-3511          TCGA-AA-3514 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3519          TCGA-AA-3520 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3521          TCGA-AA-3522          TCGA-AA-3525 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3529          TCGA-AA-3530          TCGA-AA-3531 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3532          TCGA-AA-3534          TCGA-AA-3548 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3558          TCGA-AA-3560 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3561          TCGA-AA-3562          TCGA-AA-3655 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3672          TCGA-AA-3678 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3681          TCGA-AA-3688          TCGA-AA-3695 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3696          TCGA-AA-3697          TCGA-AA-3710 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3712          TCGA-AA-3713          TCGA-AA-3715 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3811          TCGA-AA-3812          TCGA-AA-3814 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3815          TCGA-AA-3818          TCGA-AA-3819 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3844          TCGA-AA-3845          TCGA-AA-3848 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3850          TCGA-AA-3852          TCGA-AA-3854 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3856          TCGA-AA-3861          TCGA-AA-3864 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3869          TCGA-AA-3872 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3930          TCGA-AA-3947          TCGA-AA-3950 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3955          TCGA-AA-3968          TCGA-AA-3971 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3972          TCGA-AA-3973          TCGA-AA-3975 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3982          TCGA-AA-3986          TCGA-AA-3989 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00E 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00F          TCGA-AA-A00J          TCGA-AA-A00K 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00L          TCGA-AA-A00N          TCGA-AA-A00Q 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00R          TCGA-AA-A00U          TCGA-AA-A00W 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00Z          TCGA-AA-A017          TCGA-AA-A01D 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01F          TCGA-AA-A01I          TCGA-AA-A01K 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01P          TCGA-AA-A01Q          TCGA-AA-A01R 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01S          TCGA-AA-A01T          TCGA-AA-A01V 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01X          TCGA-AA-A022          TCGA-AA-A024 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A029          TCGA-AA-A02F          TCGA-AA-A02H 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A02J          TCGA-AA-A02K          TCGA-AA-A02O 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AA-A02Y          TCGA-AA-A03F 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A03J          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6899          TCGA-AD-6965 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AU-6004          TCGA-AY-5543          TCGA-AY-6196 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AY-6197          TCGA-AY-6386          TCGA-AZ-4315 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-4682 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-5407          TCGA-AZ-6598          TCGA-AZ-6599 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6600          TCGA-AZ-6601          TCGA-AZ-6603 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6605          TCGA-AZ-6606          TCGA-AZ-6607 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6608          TCGA-CA-5254          TCGA-CA-5255 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CA-5796          TCGA-CA-5797          TCGA-CA-6715 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CA-6716          TCGA-CA-6717          TCGA-CA-6718 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CA-6719          TCGA-CK-5914          TCGA-CK-5916 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CK-6746          TCGA-CK-6747          TCGA-CK-6748 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CK-6751          TCGA-CM-4743          TCGA-CM-4744 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-4746          TCGA-CM-4747          TCGA-CM-4752 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5341          TCGA-CM-5344          TCGA-CM-5348 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5349          TCGA-CM-5860          TCGA-CM-5861 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5862          TCGA-CM-5863          TCGA-CM-5864 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5868          TCGA-CM-6161          TCGA-CM-6162 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6163          TCGA-CM-6164          TCGA-CM-6165 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6166          TCGA-CM-6167          TCGA-CM-6168 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6169          TCGA-CM-6170          TCGA-CM-6171 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6172          TCGA-CM-6674          TCGA-CM-6675 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6676          TCGA-CM-6677          TCGA-CM-6678 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6679          TCGA-CM-6680          TCGA-D5-5538 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-5539          TCGA-D5-5540          TCGA-D5-5541 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6529          TCGA-D5-6532          TCGA-D5-6533 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6534          TCGA-D5-6535          TCGA-D5-6536 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6537          TCGA-D5-6538          TCGA-D5-6539 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6540          TCGA-D5-6541          TCGA-D5-6898 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6920          TCGA-D5-6922          TCGA-D5-6923 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6924          TCGA-D5-6926          TCGA-D5-6927 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6928          TCGA-D5-6931          TCGA-D5-6932 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A0X9          TCGA-DM-A0XF          TCGA-DM-A1D0 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1D4          TCGA-DM-A1D6          TCGA-DM-A1D7 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1D8          TCGA-DM-A1D9          TCGA-DM-A1DA 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1DB          TCGA-DM-A1HA          TCGA-DM-A1HB 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A282          TCGA-DM-A28C          TCGA-DM-A28E 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A28F          TCGA-DM-A28G          TCGA-F4-6459 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6460          TCGA-F4-6569          TCGA-F4-6570 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6703          TCGA-F4-6704          TCGA-F4-6805 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6806          TCGA-F4-6807          TCGA-F4-6808 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6809          TCGA-F4-6854          TCGA-F4-6855 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6856          TCGA-G4-6293          TCGA-G4-6299 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6303          TCGA-G4-6304          TCGA-G4-6306 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6307          TCGA-G4-6309          TCGA-G4-6310 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6315          TCGA-G4-6317          TCGA-G4-6321 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6323          TCGA-G4-6586          TCGA-G4-6588 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6625          TCGA-G4-6626          TCGA-G4-6628 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF104 MUTATED        0      0      1      0      0      1      0      0
  C14ORF104 WILD-TYPE     41     26     29     29     39     68     20     14
                     vv
clus                  CLUS_9
  C14ORF104 MUTATED        0
  C14ORF104 WILD-TYPE     22
D1483V6, multiclass
[1] "Remove cluster labels:" "C14ORF104 MUTATED"     
clus
  C14ORF104 MUTATED C14ORF104 WILD-TYPE 
                  2                 288 
         TCGA-A6-2671          TCGA-A6-2672          TCGA-A6-2676 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-3810          TCGA-A6-5656          TCGA-A6-5657 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-5659          TCGA-A6-5660          TCGA-A6-5661 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-5662          TCGA-A6-5664          TCGA-A6-5665 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-5666          TCGA-A6-6137          TCGA-A6-6138 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6648 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6649          TCGA-A6-6651          TCGA-A6-6652 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6653          TCGA-A6-6654          TCGA-A6-6780 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3492          TCGA-AA-3496          TCGA-AA-3502 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3510          TCGA-AA-3511          TCGA-AA-3514 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3519          TCGA-AA-3520 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3521          TCGA-AA-3522          TCGA-AA-3525 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3529          TCGA-AA-3530          TCGA-AA-3531 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3532          TCGA-AA-3534          TCGA-AA-3548 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3558          TCGA-AA-3560 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3561          TCGA-AA-3562          TCGA-AA-3655 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3672          TCGA-AA-3678 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3681          TCGA-AA-3688          TCGA-AA-3695 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3696          TCGA-AA-3697          TCGA-AA-3710 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3712          TCGA-AA-3713          TCGA-AA-3715 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3811          TCGA-AA-3812          TCGA-AA-3814 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3815          TCGA-AA-3818          TCGA-AA-3819 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3844          TCGA-AA-3845          TCGA-AA-3848 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3850          TCGA-AA-3852          TCGA-AA-3854 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3856          TCGA-AA-3861          TCGA-AA-3864 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3869          TCGA-AA-3872 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3930          TCGA-AA-3947          TCGA-AA-3950 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3955          TCGA-AA-3968          TCGA-AA-3971 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3972          TCGA-AA-3973          TCGA-AA-3975 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3982          TCGA-AA-3986          TCGA-AA-3989 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00E 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00F          TCGA-AA-A00J          TCGA-AA-A00K 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00L          TCGA-AA-A00N          TCGA-AA-A00Q 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00R          TCGA-AA-A00U          TCGA-AA-A00W 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A00Z          TCGA-AA-A017          TCGA-AA-A01D 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01F          TCGA-AA-A01I          TCGA-AA-A01K 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01P          TCGA-AA-A01Q          TCGA-AA-A01R 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01S          TCGA-AA-A01T          TCGA-AA-A01V 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A01X          TCGA-AA-A022          TCGA-AA-A024 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A029          TCGA-AA-A02F          TCGA-AA-A02H 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A02J          TCGA-AA-A02K          TCGA-AA-A02O 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A02W          TCGA-AA-A02Y          TCGA-AA-A03F 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-A03J          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6899          TCGA-AD-6965 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AU-6004          TCGA-AY-5543          TCGA-AY-6196 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AY-6197          TCGA-AY-6386          TCGA-AZ-4315 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-4682 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-5407          TCGA-AZ-6598          TCGA-AZ-6599 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6600          TCGA-AZ-6601          TCGA-AZ-6603 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6605          TCGA-AZ-6606          TCGA-AZ-6607 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6608          TCGA-CA-5254          TCGA-CA-5255 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CA-5796          TCGA-CA-5797          TCGA-CA-6715 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CA-6716          TCGA-CA-6717          TCGA-CA-6718 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CA-6719          TCGA-CK-5914          TCGA-CK-5916 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CK-6746          TCGA-CK-6747          TCGA-CK-6748 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CK-6751          TCGA-CM-4743          TCGA-CM-4744 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-4746          TCGA-CM-4747          TCGA-CM-4752 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5341          TCGA-CM-5344          TCGA-CM-5348 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5349          TCGA-CM-5860          TCGA-CM-5861 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5862          TCGA-CM-5863          TCGA-CM-5864 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5868          TCGA-CM-6161          TCGA-CM-6162 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6163          TCGA-CM-6164          TCGA-CM-6165 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6166          TCGA-CM-6167          TCGA-CM-6168 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6169          TCGA-CM-6170          TCGA-CM-6171 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6172          TCGA-CM-6674          TCGA-CM-6675 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6676          TCGA-CM-6677          TCGA-CM-6678 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6679          TCGA-CM-6680          TCGA-D5-5538 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-5539          TCGA-D5-5540          TCGA-D5-5541 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6529          TCGA-D5-6532          TCGA-D5-6533 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6534          TCGA-D5-6535          TCGA-D5-6536 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6537          TCGA-D5-6538          TCGA-D5-6539 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6540          TCGA-D5-6541          TCGA-D5-6898 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6920          TCGA-D5-6922          TCGA-D5-6923 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6924          TCGA-D5-6926          TCGA-D5-6927 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6928          TCGA-D5-6931          TCGA-D5-6932 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A0X9          TCGA-DM-A0XF          TCGA-DM-A1D0 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1D4          TCGA-DM-A1D6          TCGA-DM-A1D7 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1D8          TCGA-DM-A1D9          TCGA-DM-A1DA 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1DB          TCGA-DM-A1HA          TCGA-DM-A1HB 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A282          TCGA-DM-A28C          TCGA-DM-A28E 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A28F          TCGA-DM-A28G          TCGA-F4-6459 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6460          TCGA-F4-6569          TCGA-F4-6570 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6703          TCGA-F4-6704          TCGA-F4-6805 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6806          TCGA-F4-6807          TCGA-F4-6808 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6809          TCGA-F4-6854          TCGA-F4-6855 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6856          TCGA-G4-6293          TCGA-G4-6299 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6303          TCGA-G4-6304          TCGA-G4-6306 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6307          TCGA-G4-6309          TCGA-G4-6310 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6315          TCGA-G4-6317          TCGA-G4-6321 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6323          TCGA-G4-6586          TCGA-G4-6588 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6625          TCGA-G4-6626          TCGA-G4-6628 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF104 MUTATED        1      0      1      2
  C14ORF104 WILD-TYPE     99     72     71    119
D1483V7, multiclass
        clus
vv       C14ORF104 MUTATED C14ORF104 WILD-TYPE
  CLUS_1                 1                  99
  CLUS_2                 0                  72
  CLUS_3                 1                  71
  CLUS_4                 2                 119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF104 MUTATED        0      1      1      2      0
  C14ORF104 WILD-TYPE     59     74     73    117     38
D1483V8, multiclass
        clus
vv       C14ORF104 MUTATED C14ORF104 WILD-TYPE
  CLUS_1                 0                  59
  CLUS_2                 1                  74
  CLUS_3                 1                  73
  CLUS_4                 2                 117
  CLUS_5                 0                  38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF104 MUTATED        0      1      1      1      1
  C14ORF104 WILD-TYPE     51     75     60     70     94
D1483V9, multiclass
        clus
vv       C14ORF104 MUTATED C14ORF104 WILD-TYPE
  CLUS_1                 0                  51
  CLUS_2                 1                  75
  CLUS_3                 1                  60
  CLUS_4                 1                  70
  CLUS_5                 1                  94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF104 MUTATED        1      1      0      0      1      1      0      0
  C14ORF104 WILD-TYPE     68     47     39     16     52     19     21     38
                     vv
clus                  CLUS_9
  C14ORF104 MUTATED        0
  C14ORF104 WILD-TYPE     50
D1483V10, multiclass
        clus
vv       C14ORF104 MUTATED C14ORF104 WILD-TYPE
  CLUS_1                 1                  68
  CLUS_2                 1                  47
  CLUS_3                 0                  39
  CLUS_4                 0                  16
  CLUS_5                 1                  52
  CLUS_6                 1                  19
  CLUS_7                 0                  21
  CLUS_8                 0                  38
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C14ORF104 MUTATED        0      0      1      0      0      0
  C14ORF104 WILD-TYPE     13     16     13     11     11      9
D1483V11, multiclass
[1] "Remove cluster labels:" "C14ORF104 MUTATED"     
clus
  C14ORF104 MUTATED C14ORF104 WILD-TYPE 
                  1                  73 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6964 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AD-6965          TCGA-AY-6196          TCGA-AZ-4323 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-4616          TCGA-AZ-5403          TCGA-AZ-6598 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6600          TCGA-AZ-6601          TCGA-AZ-6603 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6605          TCGA-AZ-6607          TCGA-CA-6718 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CA-6719          TCGA-CK-5916          TCGA-CK-6748 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5860          TCGA-CM-6167          TCGA-CM-6674 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6676          TCGA-CM-6677          TCGA-CM-6678 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6679          TCGA-CM-6680          TCGA-D5-5537 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6533          TCGA-D5-6534          TCGA-D5-6536 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6922          TCGA-D5-6924          TCGA-DM-A0XD 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A0XF          TCGA-DM-A1D0          TCGA-DM-A1D7 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1D8          TCGA-DM-A1D9          TCGA-DM-A1DA 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1HA          TCGA-DM-A282          TCGA-DM-A285 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A28F          TCGA-F4-6459          TCGA-F4-6460 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6569          TCGA-F4-6570          TCGA-F4-6704 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6805          TCGA-F4-6807          TCGA-F4-6808 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6809          TCGA-G4-6299          TCGA-G4-6303 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6306          TCGA-G4-6309          TCGA-G4-6625 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6628 
"C14ORF104 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF104 MUTATED        0      0      0      0      1      0      0      0
  C14ORF104 WILD-TYPE     11      7      7      9      7      7     11      9
                     vv
clus                  CLUS_9
  C14ORF104 MUTATED        0
  C14ORF104 WILD-TYPE      5
D1483V12, multiclass
[1] "Remove cluster labels:" "C14ORF104 MUTATED"     
clus
  C14ORF104 MUTATED C14ORF104 WILD-TYPE 
                  1                  73 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6964 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AD-6965          TCGA-AY-6196          TCGA-AZ-4323 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-4616          TCGA-AZ-5403          TCGA-AZ-6598 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6600          TCGA-AZ-6601          TCGA-AZ-6603 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-AZ-6605          TCGA-AZ-6607          TCGA-CA-6718 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CA-6719          TCGA-CK-5916          TCGA-CK-6748 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-5860          TCGA-CM-6167          TCGA-CM-6674 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6676          TCGA-CM-6677          TCGA-CM-6678 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-CM-6679          TCGA-CM-6680          TCGA-D5-5537 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6533          TCGA-D5-6534          TCGA-D5-6536 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-D5-6922          TCGA-D5-6924          TCGA-DM-A0XD 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A0XF          TCGA-DM-A1D0          TCGA-DM-A1D7 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1D8          TCGA-DM-A1D9          TCGA-DM-A1DA 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A1HA          TCGA-DM-A282          TCGA-DM-A285 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-DM-A28F          TCGA-F4-6459          TCGA-F4-6460 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6569          TCGA-F4-6570          TCGA-F4-6704 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6805          TCGA-F4-6807          TCGA-F4-6808 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-F4-6809          TCGA-G4-6299          TCGA-G4-6303 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6306          TCGA-G4-6309          TCGA-G4-6625 
"C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" "C14ORF104 WILD-TYPE" 
         TCGA-G4-6628 
"C14ORF104 WILD-TYPE" 

Clustering(1484) Variable = ZSCAN20 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZSCAN20 MUTATED        1      0      2      1      0
  ZSCAN20 WILD-TYPE     31     18     44     26     23
D1484V1, multiclass
        clus
vv       ZSCAN20 MUTATED ZSCAN20 WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               2                44
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZSCAN20 MUTATED        2      1      1
  ZSCAN20 WILD-TYPE     41     66     35
D1484V2, multiclass
        clus
vv       ZSCAN20 MUTATED ZSCAN20 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZSCAN20 MUTATED        1      4      8
  ZSCAN20 WILD-TYPE     41    169    139
D1484V3, multiclass
        clus
vv       ZSCAN20 MUTATED ZSCAN20 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               4               169
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZSCAN20 MUTATED        5      1      3
  ZSCAN20 WILD-TYPE     57     72     72
D1484V4, multiclass
        clus
vv       ZSCAN20 MUTATED ZSCAN20 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZSCAN20 MUTATED        2      3      7
  ZSCAN20 WILD-TYPE     68    117     93
D1484V5, multiclass
        clus
vv       ZSCAN20 MUTATED ZSCAN20 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               3               117
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZSCAN20 MUTATED        0      0      2      1      2      6      1      0
  ZSCAN20 WILD-TYPE     41     26     28     28     37     63     19     14
                   vv
clus                CLUS_9
  ZSCAN20 MUTATED        0
  ZSCAN20 WILD-TYPE     22
D1484V6, multiclass
        clus
vv       ZSCAN20 MUTATED ZSCAN20 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               6                63
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZSCAN20 MUTATED        1      5      3      4
  ZSCAN20 WILD-TYPE     99     67     69    117
D1484V7, multiclass
        clus
vv       ZSCAN20 MUTATED ZSCAN20 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               5                67
  CLUS_3               3                69
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZSCAN20 MUTATED        1      4      4      2      2
  ZSCAN20 WILD-TYPE     58     71     70    117     36
D1484V8, multiclass
        clus
vv       ZSCAN20 MUTATED ZSCAN20 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               4                71
  CLUS_3               4                70
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZSCAN20 MUTATED        1      4      2      2      4
  ZSCAN20 WILD-TYPE     50     72     59     69     91
D1484V9, multiclass
        clus
vv       ZSCAN20 MUTATED ZSCAN20 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               4                72
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZSCAN20 MUTATED        1      2      0      2      3      1      0      2
  ZSCAN20 WILD-TYPE     68     46     39     14     50     19     21     36
                   vv
clus                CLUS_9
  ZSCAN20 MUTATED        2
  ZSCAN20 WILD-TYPE     48
D1484V10, multiclass
        clus
vv       ZSCAN20 MUTATED ZSCAN20 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               3                50
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZSCAN20 MUTATED        0      0      0      1      1      0
  ZSCAN20 WILD-TYPE     13     16     14     10     10      9
D1484V11, multiclass
[1] "Remove cluster labels:" "ZSCAN20 MUTATED"       
clus
  ZSCAN20 MUTATED ZSCAN20 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZSCAN20 MUTATED        0      0      0      0      0      1      1      0
  ZSCAN20 WILD-TYPE     11      7      7      9      8      6     10      9
                   vv
clus                CLUS_9
  ZSCAN20 MUTATED        0
  ZSCAN20 WILD-TYPE      5
D1484V12, multiclass
[1] "Remove cluster labels:" "ZSCAN20 MUTATED"       
clus
  ZSCAN20 MUTATED ZSCAN20 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" "ZSCAN20 WILD-TYPE" 

Clustering(1485) Variable = PLCB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLCB2 MUTATED        3      0      0      0      0
  PLCB2 WILD-TYPE     29     18     46     27     23
D1485V1, multiclass
        clus
vv       PLCB2 MUTATED PLCB2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCB2 MUTATED        3      0      0
  PLCB2 WILD-TYPE     40     67     36
D1485V2, multiclass
        clus
vv       PLCB2 MUTATED PLCB2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCB2 MUTATED        0      5      4
  PLCB2 WILD-TYPE     42    168    143
D1485V3, multiclass
        clus
vv       PLCB2 MUTATED PLCB2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCB2 MUTATED        2      4      0
  PLCB2 WILD-TYPE     60     69     75
D1485V4, multiclass
        clus
vv       PLCB2 MUTATED PLCB2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             4              69
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCB2 MUTATED        0      4      3
  PLCB2 WILD-TYPE     70    116     97
D1485V5, multiclass
        clus
vv       PLCB2 MUTATED PLCB2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLCB2 MUTATED        1      0      1      1      0      2      1      0
  PLCB2 WILD-TYPE     40     26     29     28     39     67     19     14
                 vv
clus              CLUS_9
  PLCB2 MUTATED        1
  PLCB2 WILD-TYPE     21
D1485V6, multiclass
        clus
vv       PLCB2 MUTATED PLCB2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLCB2 MUTATED        3      2      1      3
  PLCB2 WILD-TYPE     97     70     71    118
D1485V7, multiclass
        clus
vv       PLCB2 MUTATED PLCB2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLCB2 MUTATED        1      4      1      1      2
  PLCB2 WILD-TYPE     58     71     73    118     36
D1485V8, multiclass
        clus
vv       PLCB2 MUTATED PLCB2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLCB2 MUTATED        1      2      0      2      4
  PLCB2 WILD-TYPE     50     74     61     69     91
D1485V9, multiclass
        clus
vv       PLCB2 MUTATED PLCB2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLCB2 MUTATED        2      1      1      0      0      1      2      1
  PLCB2 WILD-TYPE     67     47     38     16     53     19     19     37
                 vv
clus              CLUS_9
  PLCB2 MUTATED        1
  PLCB2 WILD-TYPE     49
D1485V10, multiclass
        clus
vv       PLCB2 MUTATED PLCB2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             2              19
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLCB2 MUTATED        0      0      0      1      0      0
  PLCB2 WILD-TYPE     13     16     14     10     11      9
D1485V11, multiclass
[1] "Remove cluster labels:" "PLCB2 MUTATED"         
clus
  PLCB2 MUTATED PLCB2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-G4-6628 
"PLCB2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLCB2 MUTATED        0      0      0      0      0      0      1      0
  PLCB2 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  PLCB2 MUTATED        0
  PLCB2 WILD-TYPE      5
D1485V12, multiclass
[1] "Remove cluster labels:" "PLCB2 MUTATED"         
clus
  PLCB2 MUTATED PLCB2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" "PLCB2 WILD-TYPE" 
     TCGA-G4-6628 
"PLCB2 WILD-TYPE" 

Clustering(1486) Variable = SAFB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAFB MUTATED        3      1      0      0      0
  SAFB WILD-TYPE     29     17     46     27     23
D1486V1, multiclass
        clus
vv       SAFB MUTATED SAFB WILD-TYPE
  CLUS_1            3             29
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SAFB MUTATED        2      1      1
  SAFB WILD-TYPE     41     66     35
D1486V2, multiclass
        clus
vv       SAFB MUTATED SAFB WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SAFB MUTATED        1      2     11
  SAFB WILD-TYPE     41    171    136
D1486V3, multiclass
        clus
vv       SAFB MUTATED SAFB WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SAFB MUTATED        4      2      4
  SAFB WILD-TYPE     58     71     71
D1486V4, multiclass
        clus
vv       SAFB MUTATED SAFB WILD-TYPE
  CLUS_1            4             58
  CLUS_2            2             71
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SAFB MUTATED        0      5      7
  SAFB WILD-TYPE     70    115     93
D1486V5, multiclass
        clus
vv       SAFB MUTATED SAFB WILD-TYPE
  CLUS_1            0             70
  CLUS_2            5            115
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SAFB MUTATED        1      0      1      1      0      5      2      2      0
  SAFB WILD-TYPE     40     26     29     28     39     64     18     12     22
D1486V6, multiclass
        clus
vv       SAFB MUTATED SAFB WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            2             12
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SAFB MUTATED        3      5      3      3
  SAFB WILD-TYPE     97     67     69    118
D1486V7, multiclass
        clus
vv       SAFB MUTATED SAFB WILD-TYPE
  CLUS_1            3             97
  CLUS_2            5             67
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAFB MUTATED        1      3      6      2      2
  SAFB WILD-TYPE     58     72     68    117     36
D1486V8, multiclass
        clus
vv       SAFB MUTATED SAFB WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            6             68
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAFB MUTATED        2      5      4      2      1
  SAFB WILD-TYPE     49     71     57     69     94
D1486V9, multiclass
        clus
vv       SAFB MUTATED SAFB WILD-TYPE
  CLUS_1            2             49
  CLUS_2            5             71
  CLUS_3            4             57
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SAFB MUTATED        3      2      1      3      1      1      2      1      0
  SAFB WILD-TYPE     66     46     38     13     52     19     19     37     50
D1486V10, multiclass
        clus
vv       SAFB MUTATED SAFB WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            2             19
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SAFB MUTATED        0      0      0      0      1      0
  SAFB WILD-TYPE     13     16     14     11     10      9
D1486V11, multiclass
[1] "Remove cluster labels:" "SAFB MUTATED"          
clus
  SAFB MUTATED SAFB WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-G4-6628 
"SAFB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SAFB MUTATED        0      0      0      0      0      1      0      0      0
  SAFB WILD-TYPE     11      7      7      9      8      6     11      9      5
D1486V12, multiclass
[1] "Remove cluster labels:" "SAFB MUTATED"          
clus
  SAFB MUTATED SAFB WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" "SAFB WILD-TYPE" 
    TCGA-G4-6628 
"SAFB WILD-TYPE" 

Clustering(1487) Variable = GSK3B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSK3B MUTATED        3      1      0      1      0
  GSK3B WILD-TYPE     29     17     46     26     23
D1487V1, multiclass
        clus
vv       GSK3B MUTATED GSK3B WILD-TYPE
  CLUS_1             3              29
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSK3B MUTATED        3      1      1
  GSK3B WILD-TYPE     40     66     35
D1487V2, multiclass
        clus
vv       GSK3B MUTATED GSK3B WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSK3B MUTATED        0      4      9
  GSK3B WILD-TYPE     42    169    138
D1487V3, multiclass
        clus
vv       GSK3B MUTATED GSK3B WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSK3B MUTATED        3      2      4
  GSK3B WILD-TYPE     59     71     71
D1487V4, multiclass
        clus
vv       GSK3B MUTATED GSK3B WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSK3B MUTATED        1      5      4
  GSK3B WILD-TYPE     69    115     96
D1487V5, multiclass
        clus
vv       GSK3B MUTATED GSK3B WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GSK3B MUTATED        3      1      2      1      1      2      0      0
  GSK3B WILD-TYPE     38     25     28     28     38     67     20     14
                 vv
clus              CLUS_9
  GSK3B MUTATED        0
  GSK3B WILD-TYPE     22
D1487V6, multiclass
        clus
vv       GSK3B MUTATED GSK3B WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GSK3B MUTATED        2      6      2      4
  GSK3B WILD-TYPE     98     66     70    117
D1487V7, multiclass
        clus
vv       GSK3B MUTATED GSK3B WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSK3B MUTATED        2      3      4      2      3
  GSK3B WILD-TYPE     57     72     70    117     35
D1487V8, multiclass
        clus
vv       GSK3B MUTATED GSK3B WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSK3B MUTATED        2      3      4      2      3
  GSK3B WILD-TYPE     49     73     57     69     92
D1487V9, multiclass
        clus
vv       GSK3B MUTATED GSK3B WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             4              57
  CLUS_4             2              69
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GSK3B MUTATED        2      2      0      1      2      3      1      2
  GSK3B WILD-TYPE     67     46     39     15     51     17     20     36
                 vv
clus              CLUS_9
  GSK3B MUTATED        1
  GSK3B WILD-TYPE     49
D1487V10, multiclass
        clus
vv       GSK3B MUTATED GSK3B WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             3              17
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GSK3B MUTATED        0      0      0      0      0      1
  GSK3B WILD-TYPE     13     16     14     11     11      8
D1487V11, multiclass
[1] "Remove cluster labels:" "GSK3B MUTATED"         
clus
  GSK3B MUTATED GSK3B WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-G4-6628 
"GSK3B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GSK3B MUTATED        0      0      0      0      0      1      0      0
  GSK3B WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  GSK3B MUTATED        0
  GSK3B WILD-TYPE      5
D1487V12, multiclass
[1] "Remove cluster labels:" "GSK3B MUTATED"         
clus
  GSK3B MUTATED GSK3B WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" "GSK3B WILD-TYPE" 
     TCGA-G4-6628 
"GSK3B WILD-TYPE" 

Clustering(1488) Variable = DNAJB11 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJB11 MUTATED        2      0      0      0      0
  DNAJB11 WILD-TYPE     30     18     46     27     23
D1488V1, multiclass
[1] "Remove cluster labels:" "DNAJB11 MUTATED"       
clus
  DNAJB11 MUTATED DNAJB11 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJB11 MUTATED        2      0      0
  DNAJB11 WILD-TYPE     41     67     36
D1488V2, multiclass
[1] "Remove cluster labels:" "DNAJB11 MUTATED"       
clus
  DNAJB11 MUTATED DNAJB11 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" "DNAJB11 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJB11 MUTATED        0      4      5
  DNAJB11 WILD-TYPE     42    169    142
D1488V3, multiclass
        clus
vv       DNAJB11 MUTATED DNAJB11 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               4               169
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJB11 MUTATED        1      4      2
  DNAJB11 WILD-TYPE     61     69     73
D1488V4, multiclass
        clus
vv       DNAJB11 MUTATED DNAJB11 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               4                69
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DNAJB11 MUTATED        2      2      4
  DNAJB11 WILD-TYPE     68    118     96
D1488V5, multiclass
        clus
vv       DNAJB11 MUTATED DNAJB11 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               2               118
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJB11 MUTATED        3      1      0      0      0      3      0      0
  DNAJB11 WILD-TYPE     38     25     30     29     39     66     20     14
                   vv
clus                CLUS_9
  DNAJB11 MUTATED        1
  DNAJB11 WILD-TYPE     21
D1488V6, multiclass
        clus
vv       DNAJB11 MUTATED DNAJB11 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNAJB11 MUTATED        3      2      2      2
  DNAJB11 WILD-TYPE     97     70     70    119
D1488V7, multiclass
        clus
vv       DNAJB11 MUTATED DNAJB11 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               2                70
  CLUS_3               2                70
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJB11 MUTATED        3      1      3      0      2
  DNAJB11 WILD-TYPE     56     74     71    119     36
D1488V8, multiclass
        clus
vv       DNAJB11 MUTATED DNAJB11 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNAJB11 MUTATED        1      3      2      2      0
  DNAJB11 WILD-TYPE     50     73     59     69     95
D1488V9, multiclass
        clus
vv       DNAJB11 MUTATED DNAJB11 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJB11 MUTATED        1      3      1      2      0      0      0      1
  DNAJB11 WILD-TYPE     68     45     38     14     53     20     21     37
                   vv
clus                CLUS_9
  DNAJB11 MUTATED        0
  DNAJB11 WILD-TYPE     50
D1488V10, multiclass
        clus
vv       DNAJB11 MUTATED DNAJB11 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               1                38
  CLUS_4               2                14
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNAJB11 MUTATED        1      1      0      0      1      0
  DNAJB11 WILD-TYPE     12     15     14     11     10      9
D1488V11, multiclass
        clus
vv       DNAJB11 MUTATED DNAJB11 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DNAJB11 MUTATED        0      0      0      2      0      0      1      0
  DNAJB11 WILD-TYPE     11      7      7      7      8      7     10      9
                   vv
clus                CLUS_9
  DNAJB11 MUTATED        0
  DNAJB11 WILD-TYPE      5
D1488V12, multiclass
        clus
vv       DNAJB11 MUTATED DNAJB11 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1489) Variable = SLC46A3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC46A3 MUTATED        1      0      0      2      0
  SLC46A3 WILD-TYPE     31     18     46     25     23
D1489V1, multiclass
        clus
vv       SLC46A3 MUTATED SLC46A3 WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC46A3 MUTATED        1      2      0
  SLC46A3 WILD-TYPE     42     65     36
D1489V2, multiclass
        clus
vv       SLC46A3 MUTATED SLC46A3 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC46A3 MUTATED        0      1      7
  SLC46A3 WILD-TYPE     42    172    140
D1489V3, multiclass
        clus
vv       SLC46A3 MUTATED SLC46A3 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC46A3 MUTATED        4      0      1
  SLC46A3 WILD-TYPE     58     73     74
D1489V4, multiclass
        clus
vv       SLC46A3 MUTATED SLC46A3 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               0                73
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC46A3 MUTATED        0      3      3
  SLC46A3 WILD-TYPE     70    117     97
D1489V5, multiclass
        clus
vv       SLC46A3 MUTATED SLC46A3 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC46A3 MUTATED        1      1      1      0      0      2      1      0
  SLC46A3 WILD-TYPE     40     25     29     29     39     67     19     14
                   vv
clus                CLUS_9
  SLC46A3 MUTATED        0
  SLC46A3 WILD-TYPE     22
D1489V6, multiclass
        clus
vv       SLC46A3 MUTATED SLC46A3 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC46A3 MUTATED        0      1      3      4
  SLC46A3 WILD-TYPE    100     71     69    117
D1489V7, multiclass
        clus
vv       SLC46A3 MUTATED SLC46A3 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               1                71
  CLUS_3               3                69
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC46A3 MUTATED        1      0      3      3      1
  SLC46A3 WILD-TYPE     58     75     71    116     37
D1489V8, multiclass
        clus
vv       SLC46A3 MUTATED SLC46A3 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               3                71
  CLUS_4               3               116
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC46A3 MUTATED        1      2      1      0      4
  SLC46A3 WILD-TYPE     50     74     60     71     91
D1489V9, multiclass
        clus
vv       SLC46A3 MUTATED SLC46A3 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC46A3 MUTATED        1      2      0      0      1      1      1      1
  SLC46A3 WILD-TYPE     68     46     39     16     52     19     20     37
                   vv
clus                CLUS_9
  SLC46A3 MUTATED        1
  SLC46A3 WILD-TYPE     49
D1489V10, multiclass
        clus
vv       SLC46A3 MUTATED SLC46A3 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC46A3 MUTATED        0      0      0      0      1      0
  SLC46A3 WILD-TYPE     13     16     14     11     10      9
D1489V11, multiclass
[1] "Remove cluster labels:" "SLC46A3 MUTATED"       
clus
  SLC46A3 MUTATED SLC46A3 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-G4-6628 
"SLC46A3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC46A3 MUTATED        0      0      0      0      0      1      0      0
  SLC46A3 WILD-TYPE     11      7      7      9      8      6     11      9
                   vv
clus                CLUS_9
  SLC46A3 MUTATED        0
  SLC46A3 WILD-TYPE      5
D1489V12, multiclass
[1] "Remove cluster labels:" "SLC46A3 MUTATED"       
clus
  SLC46A3 MUTATED SLC46A3 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" "SLC46A3 WILD-TYPE" 
       TCGA-G4-6628 
"SLC46A3 WILD-TYPE" 

Clustering(1490) Variable = C9ORF102 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF102 MUTATED        2      1      0      1      0
  C9ORF102 WILD-TYPE     30     17     46     26     23
D1490V1, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                1                 17
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF102 MUTATED        2      1      1
  C9ORF102 WILD-TYPE     41     66     35
D1490V2, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF102 MUTATED        0      0      7
  C9ORF102 WILD-TYPE     42    173    140
D1490V3, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                7                140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF102 MUTATED        1      0      3
  C9ORF102 WILD-TYPE     61     73     72
D1490V4, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                0                 73
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF102 MUTATED        3      1      1
  C9ORF102 WILD-TYPE     67    119     99
D1490V5, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                1                119
  CLUS_3                1                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF102 MUTATED        3      0      1      0      0      1      0      0
  C9ORF102 WILD-TYPE     38     26     29     29     39     68     20     14
                    vv
clus                 CLUS_9
  C9ORF102 MUTATED        0
  C9ORF102 WILD-TYPE     22
D1490V6, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                1                 68
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C9ORF102 MUTATED        0      1      4      3
  C9ORF102 WILD-TYPE    100     71     68    118
D1490V7, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                1                 71
  CLUS_3                4                 68
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF102 MUTATED        1      1      2      2      2
  C9ORF102 WILD-TYPE     58     74     72    117     36
D1490V8, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                1                 74
  CLUS_3                2                 72
  CLUS_4                2                117
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF102 MUTATED        0      2      3      1      2
  C9ORF102 WILD-TYPE     51     74     58     70     93
D1490V9, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                2                 74
  CLUS_3                3                 58
  CLUS_4                1                 70
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF102 MUTATED        0      3      0      0      2      1      1      1
  C9ORF102 WILD-TYPE     69     45     39     16     51     19     20     37
                    vv
clus                 CLUS_9
  C9ORF102 MUTATED        0
  C9ORF102 WILD-TYPE     50
D1490V10, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                1                 20
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C9ORF102 MUTATED        0      2      0      0      0      0
  C9ORF102 WILD-TYPE     13     14     14     11     11      9
D1490V11, multiclass
[1] "Remove cluster labels:" "C9ORF102 MUTATED"      
clus
  C9ORF102 MUTATED C9ORF102 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-6548         TCGA-AD-6889 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6674         TCGA-CM-6676 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF102 MUTATED        0      1      0      0      0      0      1      0
  C9ORF102 WILD-TYPE     11      6      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  C9ORF102 MUTATED        0
  C9ORF102 WILD-TYPE      5
D1490V12, multiclass
[1] "Remove cluster labels:" "C9ORF102 MUTATED"      
clus
  C9ORF102 MUTATED C9ORF102 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-6548         TCGA-AD-6889 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6674         TCGA-CM-6676 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" "C9ORF102 WILD-TYPE" 

Clustering(1491) Variable = NSF MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NSF MUTATED        0      0      0      0      0
  NSF WILD-TYPE     32     18     46     27     23
D1491V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NSF MUTATED        0      0      0
  NSF WILD-TYPE     43     67     36
D1491V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NSF MUTATED        0      1      3
  NSF WILD-TYPE     42    172    144
D1491V3, multiclass
        clus
vv       NSF MUTATED NSF WILD-TYPE
  CLUS_1           0            42
  CLUS_2           1           172
  CLUS_3           3           144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NSF MUTATED        2      1      0
  NSF WILD-TYPE     60     72     75
D1491V4, multiclass
        clus
vv       NSF MUTATED NSF WILD-TYPE
  CLUS_1           2            60
  CLUS_2           1            72
  CLUS_3           0            75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NSF MUTATED        0      3      1
  NSF WILD-TYPE     70    117     99
D1491V5, multiclass
        clus
vv       NSF MUTATED NSF WILD-TYPE
  CLUS_1           0            70
  CLUS_2           3           117
  CLUS_3           1            99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NSF MUTATED        0      0      1      0      1      1      0      1      0
  NSF WILD-TYPE     41     26     29     29     38     68     20     13     22
D1491V6, multiclass
        clus
vv       NSF MUTATED NSF WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           1            29
  CLUS_4           0            29
  CLUS_5           1            38
  CLUS_6           1            68
  CLUS_7           0            20
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NSF MUTATED        1      1      1      1
  NSF WILD-TYPE     99     71     71    120
D1491V7, multiclass
        clus
vv       NSF MUTATED NSF WILD-TYPE
  CLUS_1           1            99
  CLUS_2           1            71
  CLUS_3           1            71
  CLUS_4           1           120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NSF MUTATED        1      0      2      0      1
  NSF WILD-TYPE     58     75     72    119     37
D1491V8, multiclass
        clus
vv       NSF MUTATED NSF WILD-TYPE
  CLUS_1           1            58
  CLUS_2           0            75
  CLUS_3           2            72
  CLUS_4           0           119
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NSF MUTATED        0      1      1      1      1
  NSF WILD-TYPE     51     75     60     70     94
D1491V9, multiclass
        clus
vv       NSF MUTATED NSF WILD-TYPE
  CLUS_1           0            51
  CLUS_2           1            75
  CLUS_3           1            60
  CLUS_4           1            70
  CLUS_5           1            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NSF MUTATED        2      1      0      0      0      0      0      1      0
  NSF WILD-TYPE     67     47     39     16     53     20     21     37     50
D1491V10, multiclass
        clus
vv       NSF MUTATED NSF WILD-TYPE
  CLUS_1           2            67
  CLUS_2           1            47
  CLUS_3           0            39
  CLUS_4           0            16
  CLUS_5           0            53
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NSF MUTATED        0      0      0      1      0      0
  NSF WILD-TYPE     13     16     14     10     11      9
D1491V11, multiclass
[1] "Remove cluster labels:" "NSF MUTATED"           
clus
  NSF MUTATED NSF WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-CA-6718    TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-CM-6167    TCGA-CM-6674    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NSF MUTATED        0      0      0      0      0      0      0      1      0
  NSF WILD-TYPE     11      7      7      9      8      7     11      8      5
D1491V12, multiclass
[1] "Remove cluster labels:" "NSF MUTATED"           
clus
  NSF MUTATED NSF WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-CA-6718    TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-CM-6167    TCGA-CM-6674    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"NSF WILD-TYPE" "NSF WILD-TYPE" "NSF WILD-TYPE" 

Clustering(1492) Variable = MTIF2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTIF2 MUTATED        1      0      0      1      0
  MTIF2 WILD-TYPE     31     18     46     26     23
D1492V1, multiclass
[1] "Remove cluster labels:" "MTIF2 MUTATED"         
clus
  MTIF2 MUTATED MTIF2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MTIF2 MUTATED        1      1      0
  MTIF2 WILD-TYPE     42     66     36
D1492V2, multiclass
[1] "Remove cluster labels:" "MTIF2 MUTATED"         
clus
  MTIF2 MUTATED MTIF2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MTIF2 MUTATED        0      2      7
  MTIF2 WILD-TYPE     42    171    140
D1492V3, multiclass
        clus
vv       MTIF2 MUTATED MTIF2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MTIF2 MUTATED        3      0      3
  MTIF2 WILD-TYPE     59     73     72
D1492V4, multiclass
        clus
vv       MTIF2 MUTATED MTIF2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MTIF2 MUTATED        1      4      3
  MTIF2 WILD-TYPE     69    116     97
D1492V5, multiclass
        clus
vv       MTIF2 MUTATED MTIF2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MTIF2 MUTATED        2      0      2      1      0      2      0      0
  MTIF2 WILD-TYPE     39     26     28     28     39     67     20     14
                 vv
clus              CLUS_9
  MTIF2 MUTATED        1
  MTIF2 WILD-TYPE     21
D1492V6, multiclass
        clus
vv       MTIF2 MUTATED MTIF2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTIF2 MUTATED        0      1      5      3
  MTIF2 WILD-TYPE    100     71     67    118
D1492V7, multiclass
        clus
vv       MTIF2 MUTATED MTIF2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             1              71
  CLUS_3             5              67
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTIF2 MUTATED        2      1      3      1      2
  MTIF2 WILD-TYPE     57     74     71    118     36
D1492V8, multiclass
        clus
vv       MTIF2 MUTATED MTIF2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTIF2 MUTATED        2      3      1      0      3
  MTIF2 WILD-TYPE     49     73     60     71     92
D1492V9, multiclass
        clus
vv       MTIF2 MUTATED MTIF2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MTIF2 MUTATED        1      4      0      0      1      1      0      2
  MTIF2 WILD-TYPE     68     44     39     16     52     19     21     36
                 vv
clus              CLUS_9
  MTIF2 MUTATED        0
  MTIF2 WILD-TYPE     50
D1492V10, multiclass
        clus
vv       MTIF2 MUTATED MTIF2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MTIF2 MUTATED        0      1      1      0      0      0
  MTIF2 WILD-TYPE     13     15     13     11     11      9
D1492V11, multiclass
[1] "Remove cluster labels:" "MTIF2 MUTATED"         
clus
  MTIF2 MUTATED MTIF2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CK-5916 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MTIF2 MUTATED        0      0      1      0      0      0      1      0
  MTIF2 WILD-TYPE     11      7      6      9      8      7     10      9
                 vv
clus              CLUS_9
  MTIF2 MUTATED        0
  MTIF2 WILD-TYPE      5
D1492V12, multiclass
[1] "Remove cluster labels:" "MTIF2 MUTATED"         
clus
  MTIF2 MUTATED MTIF2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CK-5916 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" "MTIF2 WILD-TYPE" 

Clustering(1493) Variable = MEGF8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MEGF8 MUTATED        5      0      0      1      0
  MEGF8 WILD-TYPE     27     18     46     26     23
D1493V1, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MEGF8 MUTATED        5      1      0
  MEGF8 WILD-TYPE     38     66     36
D1493V2, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MEGF8 MUTATED        2      0     21
  MEGF8 WILD-TYPE     40    173    126
D1493V3, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0             173
  CLUS_3            21             126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MEGF8 MUTATED        4      0     13
  MEGF8 WILD-TYPE     58     73     62
D1493V4, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3            13              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MEGF8 MUTATED        2      7     12
  MEGF8 WILD-TYPE     68    113     88
D1493V5, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             7             113
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MEGF8 MUTATED        1      1      2      4      3      7      3      0
  MEGF8 WILD-TYPE     40     25     28     25     36     62     17     14
                 vv
clus              CLUS_9
  MEGF8 MUTATED        0
  MEGF8 WILD-TYPE     22
D1493V6, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             4              25
  CLUS_5             3              36
  CLUS_6             7              62
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MEGF8 MUTATED        0     12      5      7
  MEGF8 WILD-TYPE    100     60     67    114
D1493V7, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             0             100
  CLUS_2            12              60
  CLUS_3             5              67
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MEGF8 MUTATED        1      1     15      1      6
  MEGF8 WILD-TYPE     58     74     59    118     32
D1493V8, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3            15              59
  CLUS_4             1             118
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MEGF8 MUTATED        1     14      1      1      7
  MEGF8 WILD-TYPE     50     62     60     70     88
D1493V9, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             1              50
  CLUS_2            14              62
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MEGF8 MUTATED        2      5      0      7      2      2      1      5
  MEGF8 WILD-TYPE     67     43     39      9     51     18     20     33
                 vv
clus              CLUS_9
  MEGF8 MUTATED        0
  MEGF8 WILD-TYPE     50
D1493V10, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             7               9
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             5              33
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MEGF8 MUTATED        0      0      0      0      4      0
  MEGF8 WILD-TYPE     13     16     14     11      7      9
D1493V11, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MEGF8 MUTATED        0      0      0      2      0      1      1      0
  MEGF8 WILD-TYPE     11      7      7      7      8      6     10      9
                 vv
clus              CLUS_9
  MEGF8 MUTATED        0
  MEGF8 WILD-TYPE      5
D1493V12, multiclass
        clus
vv       MEGF8 MUTATED MEGF8 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1494) Variable = ARID2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID2 MUTATED        6      1      0      2      0
  ARID2 WILD-TYPE     26     17     46     25     23
D1494V1, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARID2 MUTATED        7      1      1
  ARID2 WILD-TYPE     36     66     35
D1494V2, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             7              36
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARID2 MUTATED        3      6     22
  ARID2 WILD-TYPE     39    167    125
D1494V3, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             6             167
  CLUS_3            22             125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARID2 MUTATED        9      4      7
  ARID2 WILD-TYPE     53     69     68
D1494V4, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             9              53
  CLUS_2             4              69
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARID2 MUTATED        5      7     14
  ARID2 WILD-TYPE     65    113     86
D1494V5, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             5              65
  CLUS_2             7             113
  CLUS_3            14              86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID2 MUTATED        1      1      2      1      7     12      1      1
  ARID2 WILD-TYPE     40     25     28     28     32     57     19     13
                 vv
clus              CLUS_9
  ARID2 MUTATED        0
  ARID2 WILD-TYPE     22
D1494V6, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             7              32
  CLUS_6            12              57
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID2 MUTATED        5      5     11      9
  ARID2 WILD-TYPE     95     67     61    112
D1494V7, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             5              67
  CLUS_3            11              61
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID2 MUTATED        5      5     10      3      7
  ARID2 WILD-TYPE     54     70     64    116     31
D1494V8, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             5              54
  CLUS_2             5              70
  CLUS_3            10              64
  CLUS_4             3             116
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID2 MUTATED        2      9      8      2      8
  ARID2 WILD-TYPE     49     67     53     69     87
D1494V9, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             9              67
  CLUS_3             8              53
  CLUS_4             2              69
  CLUS_5             8              87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID2 MUTATED        5      6      3      3      4      2      1      4
  ARID2 WILD-TYPE     64     42     36     13     49     18     20     34
                 vv
clus              CLUS_9
  ARID2 MUTATED        1
  ARID2 WILD-TYPE     49
D1494V10, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             6              42
  CLUS_3             3              36
  CLUS_4             3              13
  CLUS_5             4              49
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID2 MUTATED        1      2      3      0      2      0
  ARID2 WILD-TYPE     12     14     11     11      9      9
D1494V11, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             3              11
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID2 MUTATED        0      2      0      1      3      0      2      0
  ARID2 WILD-TYPE     11      5      7      8      5      7      9      9
                 vv
clus              CLUS_9
  ARID2 MUTATED        0
  ARID2 WILD-TYPE      5
D1494V12, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             2               5
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             3               5
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1495) Variable = PCDHGA4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHGA4 MUTATED        2      0      0      2      0
  PCDHGA4 WILD-TYPE     30     18     46     25     23
D1495V1, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA4 MUTATED        4      0      0
  PCDHGA4 WILD-TYPE     39     67     36
D1495V2, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA4 MUTATED        0      3     15
  PCDHGA4 WILD-TYPE     42    170    132
D1495V3, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3              15               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA4 MUTATED        6      1      6
  PCDHGA4 WILD-TYPE     56     72     69
D1495V4, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               6                56
  CLUS_2               1                72
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA4 MUTATED        5      4      9
  PCDHGA4 WILD-TYPE     65    116     91
D1495V5, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               5                65
  CLUS_2               4               116
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDHGA4 MUTATED        2      1      1      0      5      6      0      3
  PCDHGA4 WILD-TYPE     39     25     29     29     34     63     20     11
                   vv
clus                CLUS_9
  PCDHGA4 MUTATED        0
  PCDHGA4 WILD-TYPE     22
D1495V6, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               5                34
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               3                11
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA4 MUTATED        2      7      4      5
  PCDHGA4 WILD-TYPE     98     65     68    116
D1495V7, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               7                65
  CLUS_3               4                68
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHGA4 MUTATED        4      1      8      0      5
  PCDHGA4 WILD-TYPE     55     74     66    119     33
D1495V8, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               1                74
  CLUS_3               8                66
  CLUS_4               0               119
  CLUS_5               5                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHGA4 MUTATED        2      6      2      1      6
  PCDHGA4 WILD-TYPE     49     70     59     70     89
D1495V9, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               6                70
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDHGA4 MUTATED        4      4      0      3      0      0      0      5
  PCDHGA4 WILD-TYPE     65     44     39     13     53     20     21     33
                   vv
clus                CLUS_9
  PCDHGA4 MUTATED        1
  PCDHGA4 WILD-TYPE     49
D1495V10, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               5                33
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCDHGA4 MUTATED        0      0      1      1      3      0
  PCDHGA4 WILD-TYPE     13     16     13     10      8      9
D1495V11, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDHGA4 MUTATED        0      0      0      1      1      1      1      1
  PCDHGA4 WILD-TYPE     11      7      7      8      7      6     10      8
                   vv
clus                CLUS_9
  PCDHGA4 MUTATED        0
  PCDHGA4 WILD-TYPE      5
D1495V12, multiclass
        clus
vv       PCDHGA4 MUTATED PCDHGA4 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1496) Variable = NRAP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAP MUTATED        2      0      0      2      1
  NRAP WILD-TYPE     30     18     46     25     22
D1496V1, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAP MUTATED        4      0      1
  NRAP WILD-TYPE     39     67     35
D1496V2, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAP MUTATED        1      4     19
  NRAP WILD-TYPE     41    169    128
D1496V3, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3           19            128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAP MUTATED       10      2      7
  NRAP WILD-TYPE     52     71     68
D1496V4, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1           10             52
  CLUS_2            2             71
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAP MUTATED        2      6     11
  NRAP WILD-TYPE     68    114     89
D1496V5, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            114
  CLUS_3           11             89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NRAP MUTATED        1      3      0      3      1      8      2      1      0
  NRAP WILD-TYPE     40     23     30     26     38     61     18     13     22
D1496V6, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1            1             40
  CLUS_2            3             23
  CLUS_3            0             30
  CLUS_4            3             26
  CLUS_5            1             38
  CLUS_6            8             61
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAP MUTATED        2      9      8      5
  NRAP WILD-TYPE     98     63     64    116
D1496V7, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1            2             98
  CLUS_2            9             63
  CLUS_3            8             64
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAP MUTATED        2      3     13      3      3
  NRAP WILD-TYPE     57     72     61    116     35
D1496V8, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3           13             61
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAP MUTATED        2     10      5      3      3
  NRAP WILD-TYPE     49     66     56     68     92
D1496V9, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1            2             49
  CLUS_2           10             66
  CLUS_3            5             56
  CLUS_4            3             68
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NRAP MUTATED        4      8      0      3      4      1      1      1      1
  NRAP WILD-TYPE     65     40     39     13     49     19     20     37     49
D1496V10, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1            4             65
  CLUS_2            8             40
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NRAP MUTATED        0      0      2      0      2      0
  NRAP WILD-TYPE     13     16     12     11      9      9
D1496V11, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NRAP MUTATED        0      0      0      1      2      0      1      0      0
  NRAP WILD-TYPE     11      7      7      8      6      7     10      9      5
D1496V12, multiclass
        clus
vv       NRAP MUTATED NRAP WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            2              6
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1497) Variable = DDX11 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX11 MUTATED        1      0      0      0      0
  DDX11 WILD-TYPE     31     18     46     27     23
D1497V1, multiclass
[1] "Remove cluster labels:" "DDX11 MUTATED"         
clus
  DDX11 MUTATED DDX11 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AY-4071 
"DDX11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX11 MUTATED        1      0      0
  DDX11 WILD-TYPE     42     67     36
D1497V2, multiclass
[1] "Remove cluster labels:" "DDX11 MUTATED"         
clus
  DDX11 MUTATED DDX11 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AY-4071 
"DDX11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX11 MUTATED        0      0      7
  DDX11 WILD-TYPE     42    173    140
D1497V3, multiclass
        clus
vv       DDX11 MUTATED DDX11 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX11 MUTATED        1      1      4
  DDX11 WILD-TYPE     61     72     71
D1497V4, multiclass
        clus
vv       DDX11 MUTATED DDX11 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX11 MUTATED        1      3      3
  DDX11 WILD-TYPE     69    117     97
D1497V5, multiclass
        clus
vv       DDX11 MUTATED DDX11 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX11 MUTATED        0      0      0      1      2      3      1      0
  DDX11 WILD-TYPE     41     26     30     28     37     66     19     14
                 vv
clus              CLUS_9
  DDX11 MUTATED        0
  DDX11 WILD-TYPE     22
D1497V6, multiclass
        clus
vv       DDX11 MUTATED DDX11 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDX11 MUTATED        0      5      1      1
  DDX11 WILD-TYPE    100     67     71    120
D1497V7, multiclass
        clus
vv       DDX11 MUTATED DDX11 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX11 MUTATED        0      1      5      0      1
  DDX11 WILD-TYPE     59     74     69    119     37
D1497V8, multiclass
        clus
vv       DDX11 MUTATED DDX11 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX11 MUTATED        1      5      0      0      1
  DDX11 WILD-TYPE     50     71     61     71     94
D1497V9, multiclass
        clus
vv       DDX11 MUTATED DDX11 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX11 MUTATED        3      1      0      1      1      0      0      1
  DDX11 WILD-TYPE     66     47     39     15     52     20     21     37
                 vv
clus              CLUS_9
  DDX11 MUTATED        0
  DDX11 WILD-TYPE     50
D1497V10, multiclass
        clus
vv       DDX11 MUTATED DDX11 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDX11 MUTATED        0      0      1      0      0      0
  DDX11 WILD-TYPE     13     16     13     11     11      9
D1497V11, multiclass
[1] "Remove cluster labels:" "DDX11 MUTATED"         
clus
  DDX11 MUTATED DDX11 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-G4-6628 
"DDX11 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX11 MUTATED        0      0      0      0      0      1      0      0
  DDX11 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  DDX11 MUTATED        0
  DDX11 WILD-TYPE      5
D1497V12, multiclass
[1] "Remove cluster labels:" "DDX11 MUTATED"         
clus
  DDX11 MUTATED DDX11 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" "DDX11 WILD-TYPE" 
     TCGA-G4-6628 
"DDX11 WILD-TYPE" 

Clustering(1498) Variable = KIF5B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF5B MUTATED        1      0      0      2      0
  KIF5B WILD-TYPE     31     18     46     25     23
D1498V1, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIF5B MUTATED        3      0      0
  KIF5B WILD-TYPE     40     67     36
D1498V2, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIF5B MUTATED        1      2     11
  KIF5B WILD-TYPE     41    171    136
D1498V3, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIF5B MUTATED        3      4      3
  KIF5B WILD-TYPE     59     69     72
D1498V4, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIF5B MUTATED        2      4      6
  KIF5B WILD-TYPE     68    116     94
D1498V5, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF5B MUTATED        1      1      1      0      1      7      0      1
  KIF5B WILD-TYPE     40     25     29     29     38     62     20     13
                 vv
clus              CLUS_9
  KIF5B MUTATED        0
  KIF5B WILD-TYPE     22
D1498V6, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             7              62
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIF5B MUTATED        4      3      3      4
  KIF5B WILD-TYPE     96     69     69    117
D1498V7, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             4              96
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF5B MUTATED        1      3      6      0      4
  KIF5B WILD-TYPE     58     72     68    119     34
D1498V8, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             6              68
  CLUS_4             0             119
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF5B MUTATED        2      7      1      0      3
  KIF5B WILD-TYPE     49     69     60     71     92
D1498V9, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF5B MUTATED        3      3      1      3      0      0      0      3
  KIF5B WILD-TYPE     66     45     38     13     53     20     21     35
                 vv
clus              CLUS_9
  KIF5B MUTATED        0
  KIF5B WILD-TYPE     50
D1498V10, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIF5B MUTATED        0      0      1      0      3      0
  KIF5B WILD-TYPE     13     16     13     11      8      9
D1498V11, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF5B MUTATED        0      0      0      1      0      2      1      0
  KIF5B WILD-TYPE     11      7      7      8      8      5     10      9
                 vv
clus              CLUS_9
  KIF5B MUTATED        0
  KIF5B WILD-TYPE      5
D1498V12, multiclass
        clus
vv       KIF5B MUTATED KIF5B WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             2               5
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1499) Variable = ZNF418 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF418 MUTATED        4      0      0      0      0
  ZNF418 WILD-TYPE     28     18     46     27     23
D1499V1, multiclass
        clus
vv       ZNF418 MUTATED ZNF418 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF418 MUTATED        3      0      1
  ZNF418 WILD-TYPE     40     67     35
D1499V2, multiclass
        clus
vv       ZNF418 MUTATED ZNF418 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF418 MUTATED        1      2     11
  ZNF418 WILD-TYPE     41    171    136
D1499V3, multiclass
        clus
vv       ZNF418 MUTATED ZNF418 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF418 MUTATED        3      1      6
  ZNF418 WILD-TYPE     59     72     69
D1499V4, multiclass
        clus
vv       ZNF418 MUTATED ZNF418 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF418 MUTATED        0      7      4
  ZNF418 WILD-TYPE     70    113     96
D1499V5, multiclass
        clus
vv       ZNF418 MUTATED ZNF418 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              7              113
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF418 MUTATED        2      2      1      3      1      2      0      0
  ZNF418 WILD-TYPE     39     24     29     26     38     67     20     14
                  vv
clus               CLUS_9
  ZNF418 MUTATED        0
  ZNF418 WILD-TYPE     22
D1499V6, multiclass
        clus
vv       ZNF418 MUTATED ZNF418 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF418 MUTATED        1      7      1      5
  ZNF418 WILD-TYPE     99     65     71    116
D1499V7, multiclass
        clus
vv       ZNF418 MUTATED ZNF418 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              7               65
  CLUS_3              1               71
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF418 MUTATED        2      3      4      2      3
  ZNF418 WILD-TYPE     57     72     70    117     35
D1499V8, multiclass
        clus
vv       ZNF418 MUTATED ZNF418 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF418 MUTATED        1      5      2      1      5
  ZNF418 WILD-TYPE     50     71     59     70     90
D1499V9, multiclass
        clus
vv       ZNF418 MUTATED ZNF418 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF418 MUTATED        3      2      0      2      2      0      0      3
  ZNF418 WILD-TYPE     66     46     39     14     51     20     21     35
                  vv
clus               CLUS_9
  ZNF418 MUTATED        2
  ZNF418 WILD-TYPE     48
D1499V10, multiclass
        clus
vv       ZNF418 MUTATED ZNF418 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF418 MUTATED        0      0      0      0      2      0
  ZNF418 WILD-TYPE     13     16     14     11      9      9
D1499V11, multiclass
[1] "Remove cluster labels:" "ZNF418 MUTATED"        
clus
  ZNF418 MUTATED ZNF418 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6600 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF418 MUTATED        0      0      0      2      0      0      0      0
  ZNF418 WILD-TYPE     11      7      7      7      8      7     11      9
                  vv
clus               CLUS_9
  ZNF418 MUTATED        0
  ZNF418 WILD-TYPE      5
D1499V12, multiclass
[1] "Remove cluster labels:" "ZNF418 MUTATED"        
clus
  ZNF418 MUTATED ZNF418 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6600 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" "ZNF418 WILD-TYPE" 

Clustering(1500) Variable = TRPC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRPC1 MUTATED        3      0      0      1      0
  TRPC1 WILD-TYPE     29     18     46     26     23
D1500V1, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPC1 MUTATED        2      1      1
  TRPC1 WILD-TYPE     41     66     35
D1500V2, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPC1 MUTATED        1      3      9
  TRPC1 WILD-TYPE     41    170    138
D1500V3, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPC1 MUTATED        3      2      4
  TRPC1 WILD-TYPE     59     71     71
D1500V4, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPC1 MUTATED        2      5      3
  TRPC1 WILD-TYPE     68    115     97
D1500V5, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRPC1 MUTATED        2      0      1      2      0      3      1      0
  TRPC1 WILD-TYPE     39     26     29     27     39     66     19     14
                 vv
clus              CLUS_9
  TRPC1 MUTATED        1
  TRPC1 WILD-TYPE     21
D1500V6, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRPC1 MUTATED        2      1      6      4
  TRPC1 WILD-TYPE     98     71     66    117
D1500V7, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             6              66
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRPC1 MUTATED        2      2      5      3      1
  TRPC1 WILD-TYPE     57     73     69    116     37
D1500V8, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRPC1 MUTATED        1      3      3      3      2
  TRPC1 WILD-TYPE     50     73     58     68     93
D1500V9, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             3              58
  CLUS_4             3              68
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRPC1 MUTATED        2      4      0      2      2      1      1      0
  TRPC1 WILD-TYPE     67     44     39     14     51     19     20     38
                 vv
clus              CLUS_9
  TRPC1 MUTATED        0
  TRPC1 WILD-TYPE     50
D1500V10, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRPC1 MUTATED        0      1      0      0      2      2
  TRPC1 WILD-TYPE     13     15     14     11      9      7
D1500V11, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRPC1 MUTATED        0      0      0      0      1      1      1      2
  TRPC1 WILD-TYPE     11      7      7      9      7      6     10      7
                 vv
clus              CLUS_9
  TRPC1 MUTATED        0
  TRPC1 WILD-TYPE      5
D1500V12, multiclass
        clus
vv       TRPC1 MUTATED TRPC1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             2               7
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1501) Variable = ZNF124 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF124 MUTATED        1      0      0      1      0
  ZNF124 WILD-TYPE     31     18     46     26     23
D1501V1, multiclass
[1] "Remove cluster labels:" "ZNF124 MUTATED"        
clus
  ZNF124 MUTATED ZNF124 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF124 MUTATED        2      0      0
  ZNF124 WILD-TYPE     41     67     36
D1501V2, multiclass
[1] "Remove cluster labels:" "ZNF124 MUTATED"        
clus
  ZNF124 MUTATED ZNF124 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF124 MUTATED        0      0      8
  ZNF124 WILD-TYPE     42    173    139
D1501V3, multiclass
        clus
vv       ZNF124 MUTATED ZNF124 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF124 MUTATED        4      0      3
  ZNF124 WILD-TYPE     58     73     72
D1501V4, multiclass
        clus
vv       ZNF124 MUTATED ZNF124 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF124 MUTATED        0      3      5
  ZNF124 WILD-TYPE     70    117     95
D1501V5, multiclass
        clus
vv       ZNF124 MUTATED ZNF124 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF124 MUTATED        1      1      0      1      1      4      0      0
  ZNF124 WILD-TYPE     40     25     30     28     38     65     20     14
                  vv
clus               CLUS_9
  ZNF124 MUTATED        0
  ZNF124 WILD-TYPE     22
D1501V6, multiclass
        clus
vv       ZNF124 MUTATED ZNF124 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF124 MUTATED        0      4      2      2
  ZNF124 WILD-TYPE    100     68     70    119
D1501V7, multiclass
        clus
vv       ZNF124 MUTATED ZNF124 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF124 MUTATED        1      1      4      0      2
  ZNF124 WILD-TYPE     58     74     70    119     36
D1501V8, multiclass
        clus
vv       ZNF124 MUTATED ZNF124 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF124 MUTATED        0      4      1      0      2
  ZNF124 WILD-TYPE     51     72     60     71     93
D1501V9, multiclass
        clus
vv       ZNF124 MUTATED ZNF124 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF124 MUTATED        1      2      0      2      0      0      0      1
  ZNF124 WILD-TYPE     68     46     39     14     53     20     21     37
                  vv
clus               CLUS_9
  ZNF124 MUTATED        1
  ZNF124 WILD-TYPE     49
D1501V10, multiclass
        clus
vv       ZNF124 MUTATED ZNF124 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF124 MUTATED        0      0      0      0      1      0
  ZNF124 WILD-TYPE     13     16     14     11     10      9
D1501V11, multiclass
[1] "Remove cluster labels:" "ZNF124 MUTATED"        
clus
  ZNF124 MUTATED ZNF124 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF124 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF124 MUTATED        0      0      0      1      0      0      0      0
  ZNF124 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  ZNF124 MUTATED        0
  ZNF124 WILD-TYPE      5
D1501V12, multiclass
[1] "Remove cluster labels:" "ZNF124 MUTATED"        
clus
  ZNF124 MUTATED ZNF124 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" "ZNF124 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF124 WILD-TYPE" 

Clustering(1502) Variable = KLC3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLC3 MUTATED        0      0      0      0      0
  KLC3 WILD-TYPE     32     18     46     27     23
D1502V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLC3 MUTATED        0      0      0
  KLC3 WILD-TYPE     43     67     36
D1502V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLC3 MUTATED        0      2      4
  KLC3 WILD-TYPE     42    171    143
D1502V3, multiclass
        clus
vv       KLC3 MUTATED KLC3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLC3 MUTATED        4      1      1
  KLC3 WILD-TYPE     58     72     74
D1502V4, multiclass
        clus
vv       KLC3 MUTATED KLC3 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLC3 MUTATED        0      0      6
  KLC3 WILD-TYPE     70    120     94
D1502V5, multiclass
        clus
vv       KLC3 MUTATED KLC3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            0            120
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLC3 MUTATED        1      0      0      0      0      5      0      0      0
  KLC3 WILD-TYPE     40     26     30     29     39     64     20     14     22
D1502V6, multiclass
        clus
vv       KLC3 MUTATED KLC3 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLC3 MUTATED        1      1      3      1
  KLC3 WILD-TYPE     99     71     69    120
D1502V7, multiclass
        clus
vv       KLC3 MUTATED KLC3 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            1             71
  CLUS_3            3             69
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLC3 MUTATED        1      1      3      1      0
  KLC3 WILD-TYPE     58     74     71    118     38
D1502V8, multiclass
        clus
vv       KLC3 MUTATED KLC3 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLC3 MUTATED        1      2      3      0      0
  KLC3 WILD-TYPE     50     74     58     71     95
D1502V9, multiclass
        clus
vv       KLC3 MUTATED KLC3 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLC3 MUTATED        0      3      1      1      1      0      0      0      0
  KLC3 WILD-TYPE     69     45     38     15     52     20     21     38     50
D1502V10, multiclass
        clus
vv       KLC3 MUTATED KLC3 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLC3 MUTATED        1      0      0      0      0      0
  KLC3 WILD-TYPE     12     16     14     11     11      9
D1502V11, multiclass
[1] "Remove cluster labels:" "KLC3 MUTATED"          
clus
  KLC3 MUTATED KLC3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6534 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-G4-6628 
"KLC3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KLC3 MUTATED        0      0      0      0      0      0      0      1      0
  KLC3 WILD-TYPE     11      7      7      9      8      7     11      8      5
D1502V12, multiclass
[1] "Remove cluster labels:" "KLC3 MUTATED"          
clus
  KLC3 MUTATED KLC3 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6534 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" "KLC3 WILD-TYPE" 
    TCGA-G4-6628 
"KLC3 WILD-TYPE" 

Clustering(1503) Variable = KIAA0528 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0528 MUTATED        2      0      0      1      1
  KIAA0528 WILD-TYPE     30     18     46     26     22
D1503V1, multiclass
        clus
vv       KIAA0528 MUTATED KIAA0528 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                1                 22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0528 MUTATED        2      1      1
  KIAA0528 WILD-TYPE     41     66     35
D1503V2, multiclass
        clus
vv       KIAA0528 MUTATED KIAA0528 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0528 MUTATED        1      2     11
  KIAA0528 WILD-TYPE     41    171    136
D1503V3, multiclass
        clus
vv       KIAA0528 MUTATED KIAA0528 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                2                171
  CLUS_3               11                136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0528 MUTATED        5      2      3
  KIAA0528 WILD-TYPE     57     71     72
D1503V4, multiclass
        clus
vv       KIAA0528 MUTATED KIAA0528 WILD-TYPE
  CLUS_1                5                 57
  CLUS_2                2                 71
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0528 MUTATED        1      5      4
  KIAA0528 WILD-TYPE     69    115     96
D1503V5, multiclass
        clus
vv       KIAA0528 MUTATED KIAA0528 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                5                115
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0528 MUTATED        1      1      1      2      0      3      1      0
  KIAA0528 WILD-TYPE     40     25     29     27     39     66     19     14
                    vv
clus                 CLUS_9
  KIAA0528 MUTATED        1
  KIAA0528 WILD-TYPE     21
D1503V6, multiclass
        clus
vv       KIAA0528 MUTATED KIAA0528 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                2                 27
  CLUS_5                0                 39
  CLUS_6                3                 66
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0528 MUTATED        2      4      4      5
  KIAA0528 WILD-TYPE     98     68     68    116
D1503V7, multiclass
        clus
vv       KIAA0528 MUTATED KIAA0528 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                4                 68
  CLUS_3                4                 68
  CLUS_4                5                116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0528 MUTATED        1      3      6      3      2
  KIAA0528 WILD-TYPE     58     72     68    116     36
D1503V8, multiclass
        clus
vv       KIAA0528 MUTATED KIAA0528 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                3                 72
  CLUS_3                6                 68
  CLUS_4                3                116
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0528 MUTATED        1      5      2      1      6
  KIAA0528 WILD-TYPE     50     71     59     70     89
D1503V9, multiclass
        clus
vv       KIAA0528 MUTATED KIAA0528 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                5                 71
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                6                 89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0528 MUTATED        0      4      1      2      2      1      1      2
  KIAA0528 WILD-TYPE     69     44     38     14     51     19     20     36
                    vv
clus                 CLUS_9
  KIAA0528 MUTATED        2
  KIAA0528 WILD-TYPE     48
D1503V10, multiclass
        clus
vv       KIAA0528 MUTATED KIAA0528 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                4                 44
  CLUS_3                1                 38
  CLUS_4                2                 14
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                1                 20
  CLUS_8                2                 36
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA0528 MUTATED        0      0      1      0      1      0
  KIAA0528 WILD-TYPE     13     16     13     11     10      9
D1503V11, multiclass
[1] "Remove cluster labels:" "KIAA0528 MUTATED"      
clus
  KIAA0528 MUTATED KIAA0528 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6603         TCGA-AZ-6605 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0528 MUTATED        0      0      0      0      1      0      1      0
  KIAA0528 WILD-TYPE     11      7      7      9      7      7     10      9
                    vv
clus                 CLUS_9
  KIAA0528 MUTATED        0
  KIAA0528 WILD-TYPE      5
D1503V12, multiclass
[1] "Remove cluster labels:" "KIAA0528 MUTATED"      
clus
  KIAA0528 MUTATED KIAA0528 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6603         TCGA-AZ-6605 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" "KIAA0528 WILD-TYPE" 

Clustering(1504) Variable = RNF219 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF219 MUTATED        1      0      0      0      0
  RNF219 WILD-TYPE     31     18     46     27     23
D1504V1, multiclass
[1] "Remove cluster labels:" "RNF219 MUTATED"        
clus
  RNF219 MUTATED RNF219 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A01K       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AY-4071 
"RNF219 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF219 MUTATED        1      0      0
  RNF219 WILD-TYPE     42     67     36
D1504V2, multiclass
[1] "Remove cluster labels:" "RNF219 MUTATED"        
clus
  RNF219 MUTATED RNF219 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A01K       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" "RNF219 WILD-TYPE" 
      TCGA-AY-4071 
"RNF219 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF219 MUTATED        1      4      9
  RNF219 WILD-TYPE     41    169    138
D1504V3, multiclass
        clus
vv       RNF219 MUTATED RNF219 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF219 MUTATED        5      3      5
  RNF219 WILD-TYPE     57     70     70
D1504V4, multiclass
        clus
vv       RNF219 MUTATED RNF219 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              3               70
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF219 MUTATED        2      4      7
  RNF219 WILD-TYPE     68    116     93
D1504V5, multiclass
        clus
vv       RNF219 MUTATED RNF219 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF219 MUTATED        1      0      0      2      0      7      0      2
  RNF219 WILD-TYPE     40     26     30     27     39     62     20     12
                  vv
clus               CLUS_9
  RNF219 MUTATED        1
  RNF219 WILD-TYPE     21
D1504V6, multiclass
        clus
vv       RNF219 MUTATED RNF219 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              7               62
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF219 MUTATED        2      6      5      1
  RNF219 WILD-TYPE     98     66     67    120
D1504V7, multiclass
        clus
vv       RNF219 MUTATED RNF219 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              6               66
  CLUS_3              5               67
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF219 MUTATED        2      2      9      0      1
  RNF219 WILD-TYPE     57     73     65    119     37
D1504V8, multiclass
        clus
vv       RNF219 MUTATED RNF219 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              9               65
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF219 MUTATED        3      7      3      0      0
  RNF219 WILD-TYPE     48     69     58     71     95
D1504V9, multiclass
        clus
vv       RNF219 MUTATED RNF219 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              7               69
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF219 MUTATED        3      5      1      3      1      0      0      0
  RNF219 WILD-TYPE     66     43     38     13     52     20     21     38
                  vv
clus               CLUS_9
  RNF219 MUTATED        0
  RNF219 WILD-TYPE     50
D1504V10, multiclass
        clus
vv       RNF219 MUTATED RNF219 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              5               43
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF219 MUTATED        0      1      0      0      3      0
  RNF219 WILD-TYPE     13     15     14     11      8      9
D1504V11, multiclass
        clus
vv       RNF219 MUTATED RNF219 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF219 MUTATED        1      0      0      2      0      0      1      0
  RNF219 WILD-TYPE     10      7      7      7      8      7     10      9
                  vv
clus               CLUS_9
  RNF219 MUTATED        0
  RNF219 WILD-TYPE      5
D1504V12, multiclass
        clus
vv       RNF219 MUTATED RNF219 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1505) Variable = MED12L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MED12L MUTATED        7      0      1      2      1
  MED12L WILD-TYPE     25     18     45     25     22
D1505V1, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              7               25
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MED12L MUTATED        7      2      2
  MED12L WILD-TYPE     36     65     34
D1505V2, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              7               36
  CLUS_2              2               65
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MED12L MUTATED        1      7     20
  MED12L WILD-TYPE     41    166    127
D1505V3, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              1               41
  CLUS_2              7              166
  CLUS_3             20              127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MED12L MUTATED        6      3      8
  MED12L WILD-TYPE     56     70     67
D1505V4, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              6               56
  CLUS_2              3               70
  CLUS_3              8               67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MED12L MUTATED        3      8      9
  MED12L WILD-TYPE     67    112     91
D1505V5, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              3               67
  CLUS_2              8              112
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MED12L MUTATED        3      2      2      1      2      8      0      0
  MED12L WILD-TYPE     38     24     28     28     37     61     20     14
                  vv
clus               CLUS_9
  MED12L MUTATED        2
  MED12L WILD-TYPE     20
D1505V6, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              3               38
  CLUS_2              2               24
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              8               61
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MED12L MUTATED        3      7      6     12
  MED12L WILD-TYPE     97     65     66    109
D1505V7, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              3               97
  CLUS_2              7               65
  CLUS_3              6               66
  CLUS_4             12              109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MED12L MUTATED        3      4      8      6      7
  MED12L WILD-TYPE     56     71     66    113     31
D1505V8, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              3               56
  CLUS_2              4               71
  CLUS_3              8               66
  CLUS_4              6              113
  CLUS_5              7               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MED12L MUTATED        3      7      4      1     11
  MED12L WILD-TYPE     48     69     57     70     84
D1505V9, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              3               48
  CLUS_2              7               69
  CLUS_3              4               57
  CLUS_4              1               70
  CLUS_5             11               84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MED12L MUTATED        4      5      2      2      3      2      1      4
  MED12L WILD-TYPE     65     43     37     14     50     18     20     34
                  vv
clus               CLUS_9
  MED12L MUTATED        3
  MED12L WILD-TYPE     47
D1505V10, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              4               65
  CLUS_2              5               43
  CLUS_3              2               37
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              4               34
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MED12L MUTATED        0      2      0      0      1      0
  MED12L WILD-TYPE     13     14     14     11     10      9
D1505V11, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MED12L MUTATED        0      1      0      1      0      0      1      0
  MED12L WILD-TYPE     11      6      7      8      8      7     10      9
                  vv
clus               CLUS_9
  MED12L MUTATED        0
  MED12L WILD-TYPE      5
D1505V12, multiclass
        clus
vv       MED12L MUTATED MED12L WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1506) Variable = PIWIL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIWIL1 MUTATED        2      0      0      1      0
  PIWIL1 WILD-TYPE     30     18     46     26     23
D1506V1, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIWIL1 MUTATED        2      1      0
  PIWIL1 WILD-TYPE     41     66     36
D1506V2, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIWIL1 MUTATED        2      3     17
  PIWIL1 WILD-TYPE     40    170    130
D1506V3, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3              170
  CLUS_3             17              130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIWIL1 MUTATED        6      2     10
  PIWIL1 WILD-TYPE     56     71     65
D1506V4, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              2               71
  CLUS_3             10               65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIWIL1 MUTATED        5      4      9
  PIWIL1 WILD-TYPE     65    116     91
D1506V5, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              5               65
  CLUS_2              4              116
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIWIL1 MUTATED        4      2      2      1      1      5      1      2
  PIWIL1 WILD-TYPE     37     24     28     28     38     64     19     12
                  vv
clus               CLUS_9
  PIWIL1 MUTATED        0
  PIWIL1 WILD-TYPE     22
D1506V6, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              4               37
  CLUS_2              2               24
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIWIL1 MUTATED        4      9      5      4
  PIWIL1 WILD-TYPE     96     63     67    117
D1506V7, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              9               63
  CLUS_3              5               67
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIWIL1 MUTATED        3      5      9      2      3
  PIWIL1 WILD-TYPE     56     70     65    117     35
D1506V8, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              5               70
  CLUS_3              9               65
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIWIL1 MUTATED        3      7      6      1      5
  PIWIL1 WILD-TYPE     48     69     55     70     90
D1506V9, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              7               69
  CLUS_3              6               55
  CLUS_4              1               70
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIWIL1 MUTATED        6      5      2      2      1      1      0      5
  PIWIL1 WILD-TYPE     63     43     37     14     52     19     21     33
                  vv
clus               CLUS_9
  PIWIL1 MUTATED        0
  PIWIL1 WILD-TYPE     50
D1506V10, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              5               43
  CLUS_3              2               37
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              5               33
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIWIL1 MUTATED        0      2      1      0      2      0
  PIWIL1 WILD-TYPE     13     14     13     11      9      9
D1506V11, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIWIL1 MUTATED        1      1      1      1      1      0      0      0
  PIWIL1 WILD-TYPE     10      6      6      8      7      7     11      9
                  vv
clus               CLUS_9
  PIWIL1 MUTATED        0
  PIWIL1 WILD-TYPE      5
D1506V12, multiclass
        clus
vv       PIWIL1 MUTATED PIWIL1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              1                6
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1507) Variable = ZNF546 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF546 MUTATED        3      0      0      2      0
  ZNF546 WILD-TYPE     29     18     46     25     23
D1507V1, multiclass
        clus
vv       ZNF546 MUTATED ZNF546 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF546 MUTATED        3      1      1
  ZNF546 WILD-TYPE     40     66     35
D1507V2, multiclass
        clus
vv       ZNF546 MUTATED ZNF546 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF546 MUTATED        0      2     13
  ZNF546 WILD-TYPE     42    171    134
D1507V3, multiclass
        clus
vv       ZNF546 MUTATED ZNF546 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF546 MUTATED        3      3      5
  ZNF546 WILD-TYPE     59     70     70
D1507V4, multiclass
        clus
vv       ZNF546 MUTATED ZNF546 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              3               70
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF546 MUTATED        4      5      4
  ZNF546 WILD-TYPE     66    115     96
D1507V5, multiclass
        clus
vv       ZNF546 MUTATED ZNF546 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              5              115
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF546 MUTATED        2      1      1      1      2      3      2      1
  ZNF546 WILD-TYPE     39     25     29     28     37     66     18     13
                  vv
clus               CLUS_9
  ZNF546 MUTATED        0
  ZNF546 WILD-TYPE     22
D1507V6, multiclass
        clus
vv       ZNF546 MUTATED ZNF546 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF546 MUTATED        3      4      2      6
  ZNF546 WILD-TYPE     97     68     70    115
D1507V7, multiclass
        clus
vv       ZNF546 MUTATED ZNF546 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF546 MUTATED        3      3      3      3      3
  ZNF546 WILD-TYPE     56     72     71    116     35
D1507V8, multiclass
        clus
vv       ZNF546 MUTATED ZNF546 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3              3               71
  CLUS_4              3              116
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF546 MUTATED        1      3      2      2      6
  ZNF546 WILD-TYPE     50     73     59     69     89
D1507V9, multiclass
        clus
vv       ZNF546 MUTATED ZNF546 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF546 MUTATED        2      2      0      1      3      1      0      3
  ZNF546 WILD-TYPE     67     46     39     15     50     19     21     35
                  vv
clus               CLUS_9
  ZNF546 MUTATED        2
  ZNF546 WILD-TYPE     48
D1507V10, multiclass
        clus
vv       ZNF546 MUTATED ZNF546 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF546 MUTATED        0      0      0      1      1      0
  ZNF546 WILD-TYPE     13     16     14     10     10      9
D1507V11, multiclass
[1] "Remove cluster labels:" "ZNF546 MUTATED"        
clus
  ZNF546 MUTATED ZNF546 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6679 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF546 MUTATED        0      0      0      0      1      0      1      0
  ZNF546 WILD-TYPE     11      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  ZNF546 MUTATED        0
  ZNF546 WILD-TYPE      5
D1507V12, multiclass
[1] "Remove cluster labels:" "ZNF546 MUTATED"        
clus
  ZNF546 MUTATED ZNF546 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6679 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" "ZNF546 WILD-TYPE" 

Clustering(1508) Variable = ZNF643 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF643 MUTATED        1      0      0      2      0
  ZNF643 WILD-TYPE     31     18     46     25     23
D1508V1, multiclass
        clus
vv       ZNF643 MUTATED ZNF643 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF643 MUTATED        1      1      1
  ZNF643 WILD-TYPE     42     66     35
D1508V2, multiclass
        clus
vv       ZNF643 MUTATED ZNF643 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF643 MUTATED        1      2      6
  ZNF643 WILD-TYPE     41    171    141
D1508V3, multiclass
        clus
vv       ZNF643 MUTATED ZNF643 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF643 MUTATED        2      2      2
  ZNF643 WILD-TYPE     60     71     73
D1508V4, multiclass
        clus
vv       ZNF643 MUTATED ZNF643 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF643 MUTATED        0      3      4
  ZNF643 WILD-TYPE     70    117     96
D1508V5, multiclass
        clus
vv       ZNF643 MUTATED ZNF643 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF643 MUTATED        0      0      2      0      1      4      0      0
  ZNF643 WILD-TYPE     41     26     28     29     38     65     20     14
                  vv
clus               CLUS_9
  ZNF643 MUTATED        0
  ZNF643 WILD-TYPE     22
D1508V6, multiclass
        clus
vv       ZNF643 MUTATED ZNF643 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF643 MUTATED        2      3      1      3
  ZNF643 WILD-TYPE     98     69     71    118
D1508V7, multiclass
        clus
vv       ZNF643 MUTATED ZNF643 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF643 MUTATED        0      5      1      2      1
  ZNF643 WILD-TYPE     59     70     73    117     37
D1508V8, multiclass
        clus
vv       ZNF643 MUTATED ZNF643 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              5               70
  CLUS_3              1               73
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF643 MUTATED        0      3      1      2      2
  ZNF643 WILD-TYPE     51     73     60     69     93
D1508V9, multiclass
        clus
vv       ZNF643 MUTATED ZNF643 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF643 MUTATED        4      1      0      0      1      1      0      0
  ZNF643 WILD-TYPE     65     47     39     16     52     19     21     38
                  vv
clus               CLUS_9
  ZNF643 MUTATED        1
  ZNF643 WILD-TYPE     49
D1508V10, multiclass
        clus
vv       ZNF643 MUTATED ZNF643 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF643 MUTATED        0      1      0      0      0      0
  ZNF643 WILD-TYPE     13     15     14     11     11      9
D1508V11, multiclass
[1] "Remove cluster labels:" "ZNF643 MUTATED"        
clus
  ZNF643 MUTATED ZNF643 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF643 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF643 MUTATED        1      0      0      0      0      0      0      0
  ZNF643 WILD-TYPE     10      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  ZNF643 MUTATED        0
  ZNF643 WILD-TYPE      5
D1508V12, multiclass
[1] "Remove cluster labels:" "ZNF643 MUTATED"        
clus
  ZNF643 MUTATED ZNF643 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" "ZNF643 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF643 WILD-TYPE" 

Clustering(1509) Variable = ANK3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANK3 MUTATED       10      0      2      3      0
  ANK3 WILD-TYPE     22     18     44     24     23
D1509V1, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1           10             22
  CLUS_2            0             18
  CLUS_3            2             44
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ANK3 MUTATED       10      4      1
  ANK3 WILD-TYPE     33     63     35
D1509V2, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1           10             33
  CLUS_2            4             63
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ANK3 MUTATED        2      6     40
  ANK3 WILD-TYPE     40    167    107
D1509V3, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            6            167
  CLUS_3           40            107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ANK3 MUTATED       13      5     14
  ANK3 WILD-TYPE     49     68     61
D1509V4, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1           13             49
  CLUS_2            5             68
  CLUS_3           14             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ANK3 MUTATED        8     14     20
  ANK3 WILD-TYPE     62    106     80
D1509V5, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1            8             62
  CLUS_2           14            106
  CLUS_3           20             80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ANK3 MUTATED        5      6      3      2      4     17      2      2      1
  ANK3 WILD-TYPE     36     20     27     27     35     52     18     12     21
D1509V6, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1            5             36
  CLUS_2            6             20
  CLUS_3            3             27
  CLUS_4            2             27
  CLUS_5            4             35
  CLUS_6           17             52
  CLUS_7            2             18
  CLUS_8            2             12
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANK3 MUTATED        4     18     10     16
  ANK3 WILD-TYPE     96     54     62    105
D1509V7, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1            4             96
  CLUS_2           18             54
  CLUS_3           10             62
  CLUS_4           16            105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANK3 MUTATED        2      6     23      7     10
  ANK3 WILD-TYPE     57     69     51    112     28
D1509V8, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            6             69
  CLUS_3           23             51
  CLUS_4            7            112
  CLUS_5           10             28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANK3 MUTATED        4     18      5      3     16
  ANK3 WILD-TYPE     47     58     56     68     79
D1509V9, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1            4             47
  CLUS_2           18             58
  CLUS_3            5             56
  CLUS_4            3             68
  CLUS_5           16             79
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ANK3 MUTATED        8      7      2      8      3      5      3      8      2
  ANK3 WILD-TYPE     61     41     37      8     50     15     18     30     48
D1509V10, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1            8             61
  CLUS_2            7             41
  CLUS_3            2             37
  CLUS_4            8              8
  CLUS_5            3             50
  CLUS_6            5             15
  CLUS_7            3             18
  CLUS_8            8             30
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANK3 MUTATED        1      1      2      0      4      0
  ANK3 WILD-TYPE     12     15     12     11      7      9
D1509V11, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ANK3 MUTATED        0      0      0      3      1      0      3      0      1
  ANK3 WILD-TYPE     11      7      7      6      7      7      8      9      4
D1509V12, multiclass
        clus
vv       ANK3 MUTATED ANK3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            3              6
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            3              8
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1510) Variable = KRT25 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT25 MUTATED        3      0      0      0      0
  KRT25 WILD-TYPE     29     18     46     27     23
D1510V1, multiclass
        clus
vv       KRT25 MUTATED KRT25 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT25 MUTATED        3      0      0
  KRT25 WILD-TYPE     40     67     36
D1510V2, multiclass
        clus
vv       KRT25 MUTATED KRT25 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT25 MUTATED        0      4      6
  KRT25 WILD-TYPE     42    169    141
D1510V3, multiclass
        clus
vv       KRT25 MUTATED KRT25 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT25 MUTATED        4      0      3
  KRT25 WILD-TYPE     58     73     72
D1510V4, multiclass
        clus
vv       KRT25 MUTATED KRT25 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT25 MUTATED        0      1      6
  KRT25 WILD-TYPE     70    119     94
D1510V5, multiclass
        clus
vv       KRT25 MUTATED KRT25 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT25 MUTATED        2      0      0      0      1      4      0      0
  KRT25 WILD-TYPE     39     26     30     29     38     65     20     14
                 vv
clus              CLUS_9
  KRT25 MUTATED        0
  KRT25 WILD-TYPE     22
D1510V6, multiclass
        clus
vv       KRT25 MUTATED KRT25 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRT25 MUTATED        3      1      3      3
  KRT25 WILD-TYPE     97     71     69    118
D1510V7, multiclass
        clus
vv       KRT25 MUTATED KRT25 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT25 MUTATED        2      3      2      0      3
  KRT25 WILD-TYPE     57     72     72    119     35
D1510V8, multiclass
        clus
vv       KRT25 MUTATED KRT25 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT25 MUTATED        2      4      2      0      1
  KRT25 WILD-TYPE     49     72     59     71     94
D1510V9, multiclass
        clus
vv       KRT25 MUTATED KRT25 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT25 MUTATED        4      1      0      0      2      0      1      1
  KRT25 WILD-TYPE     65     47     39     16     51     20     20     37
                 vv
clus              CLUS_9
  KRT25 MUTATED        0
  KRT25 WILD-TYPE     50
D1510V10, multiclass
        clus
vv       KRT25 MUTATED KRT25 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRT25 MUTATED        0      0      0      0      1      1
  KRT25 WILD-TYPE     13     16     14     11     10      8
D1510V11, multiclass
[1] "Remove cluster labels:" "KRT25 MUTATED"         
clus
  KRT25 MUTATED KRT25 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT25 MUTATED        1      0      0      0      0      1      0      0
  KRT25 WILD-TYPE     10      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  KRT25 MUTATED        0
  KRT25 WILD-TYPE      5
D1510V12, multiclass
[1] "Remove cluster labels:" "KRT25 MUTATED"         
clus
  KRT25 MUTATED KRT25 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" "KRT25 WILD-TYPE" 

Clustering(1511) Variable = ACTA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTA1 MUTATED        2      0      0      0      0
  ACTA1 WILD-TYPE     30     18     46     27     23
D1511V1, multiclass
[1] "Remove cluster labels:" "ACTA1 MUTATED"         
clus
  ACTA1 MUTATED ACTA1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3837      TCGA-AA-3842 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTA1 MUTATED        2      0      0
  ACTA1 WILD-TYPE     41     67     36
D1511V2, multiclass
[1] "Remove cluster labels:" "ACTA1 MUTATED"         
clus
  ACTA1 MUTATED ACTA1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3837      TCGA-AA-3842 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" "ACTA1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTA1 MUTATED        2      1      9
  ACTA1 WILD-TYPE     40    172    138
D1511V3, multiclass
        clus
vv       ACTA1 MUTATED ACTA1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTA1 MUTATED        5      0      4
  ACTA1 WILD-TYPE     57     73     71
D1511V4, multiclass
        clus
vv       ACTA1 MUTATED ACTA1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACTA1 MUTATED        0      5      5
  ACTA1 WILD-TYPE     70    115     95
D1511V5, multiclass
        clus
vv       ACTA1 MUTATED ACTA1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTA1 MUTATED        2      0      1      2      1      3      0      1
  ACTA1 WILD-TYPE     39     26     29     27     38     66     20     13
                 vv
clus              CLUS_9
  ACTA1 MUTATED        0
  ACTA1 WILD-TYPE     22
D1511V6, multiclass
        clus
vv       ACTA1 MUTATED ACTA1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACTA1 MUTATED        1      4      4      3
  ACTA1 WILD-TYPE     99     68     68    118
D1511V7, multiclass
        clus
vv       ACTA1 MUTATED ACTA1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTA1 MUTATED        2      0      7      0      3
  ACTA1 WILD-TYPE     57     75     67    119     35
D1511V8, multiclass
        clus
vv       ACTA1 MUTATED ACTA1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             7              67
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTA1 MUTATED        0      3      6      1      2
  ACTA1 WILD-TYPE     51     73     55     70     93
D1511V9, multiclass
        clus
vv       ACTA1 MUTATED ACTA1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             6              55
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTA1 MUTATED        2      3      1      1      1      1      1      2
  ACTA1 WILD-TYPE     67     45     38     15     52     19     20     36
                 vv
clus              CLUS_9
  ACTA1 MUTATED        0
  ACTA1 WILD-TYPE     50
D1511V10, multiclass
        clus
vv       ACTA1 MUTATED ACTA1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACTA1 MUTATED        0      0      2      1      1      1
  ACTA1 WILD-TYPE     13     16     12     10     10      8
D1511V11, multiclass
        clus
vv       ACTA1 MUTATED ACTA1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTA1 MUTATED        0      0      0      1      1      1      1      0
  ACTA1 WILD-TYPE     11      7      7      8      7      6     10      9
                 vv
clus              CLUS_9
  ACTA1 MUTATED        1
  ACTA1 WILD-TYPE      4
D1511V12, multiclass
        clus
vv       ACTA1 MUTATED ACTA1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1512) Variable = RNF10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF10 MUTATED        3      0      0      2      0
  RNF10 WILD-TYPE     29     18     46     25     23
D1512V1, multiclass
        clus
vv       RNF10 MUTATED RNF10 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF10 MUTATED        4      1      0
  RNF10 WILD-TYPE     39     66     36
D1512V2, multiclass
        clus
vv       RNF10 MUTATED RNF10 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF10 MUTATED        2      2      8
  RNF10 WILD-TYPE     40    171    139
D1512V3, multiclass
        clus
vv       RNF10 MUTATED RNF10 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF10 MUTATED        4      0      4
  RNF10 WILD-TYPE     58     73     71
D1512V4, multiclass
        clus
vv       RNF10 MUTATED RNF10 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF10 MUTATED        1      4      7
  RNF10 WILD-TYPE     69    116     93
D1512V5, multiclass
        clus
vv       RNF10 MUTATED RNF10 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF10 MUTATED        1      1      2      0      2      5      1      0
  RNF10 WILD-TYPE     40     25     28     29     37     64     19     14
                 vv
clus              CLUS_9
  RNF10 MUTATED        0
  RNF10 WILD-TYPE     22
D1512V6, multiclass
        clus
vv       RNF10 MUTATED RNF10 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF10 MUTATED        1      4      2      6
  RNF10 WILD-TYPE     99     68     70    115
D1512V7, multiclass
        clus
vv       RNF10 MUTATED RNF10 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF10 MUTATED        2      2      3      2      4
  RNF10 WILD-TYPE     57     73     71    117     34
D1512V8, multiclass
        clus
vv       RNF10 MUTATED RNF10 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF10 MUTATED        0      1      2      3      7
  RNF10 WILD-TYPE     51     75     59     68     88
D1512V9, multiclass
        clus
vv       RNF10 MUTATED RNF10 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF10 MUTATED        2      1      1      0      1      1      0      5
  RNF10 WILD-TYPE     67     47     38     16     52     19     21     33
                 vv
clus              CLUS_9
  RNF10 MUTATED        2
  RNF10 WILD-TYPE     48
D1512V10, multiclass
        clus
vv       RNF10 MUTATED RNF10 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             5              33
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF10 MUTATED        1      0      1      0      0      0
  RNF10 WILD-TYPE     12     16     13     11     11      9
D1512V11, multiclass
[1] "Remove cluster labels:" "RNF10 MUTATED"         
clus
  RNF10 MUTATED RNF10 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RNF10 MUTATED        0      0      0      0      0      0      0      1
  RNF10 WILD-TYPE     11      7      7      9      8      7     11      8
                 vv
clus              CLUS_9
  RNF10 MUTATED        1
  RNF10 WILD-TYPE      4
D1512V12, multiclass
[1] "Remove cluster labels:" "RNF10 MUTATED"         
clus
  RNF10 MUTATED RNF10 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" "RNF10 WILD-TYPE" 

Clustering(1513) Variable = ZNF577 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF577 MUTATED        1      0      0      3      0
  ZNF577 WILD-TYPE     31     18     46     24     23
D1513V1, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              3               24
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF577 MUTATED        2      2      0
  ZNF577 WILD-TYPE     41     65     36
D1513V2, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF577 MUTATED        2      1      9
  ZNF577 WILD-TYPE     40    172    138
D1513V3, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1              172
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF577 MUTATED        5      1      2
  ZNF577 WILD-TYPE     57     72     73
D1513V4, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF577 MUTATED        3      4      5
  ZNF577 WILD-TYPE     67    116     95
D1513V5, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              4              116
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF577 MUTATED        2      0      2      2      1      4      0      0
  ZNF577 WILD-TYPE     39     26     28     27     38     65     20     14
                  vv
clus               CLUS_9
  ZNF577 MUTATED        1
  ZNF577 WILD-TYPE     21
D1513V6, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF577 MUTATED        1      3      4      4
  ZNF577 WILD-TYPE     99     69     68    117
D1513V7, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              4               68
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF577 MUTATED        2      1      5      2      2
  ZNF577 WILD-TYPE     57     74     69    117     36
D1513V8, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              5               69
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF577 MUTATED        1      4      3      0      3
  ZNF577 WILD-TYPE     50     72     58     71     92
D1513V9, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF577 MUTATED        1      3      0      1      4      1      0      1
  ZNF577 WILD-TYPE     68     45     39     15     49     19     21     37
                  vv
clus               CLUS_9
  ZNF577 MUTATED        0
  ZNF577 WILD-TYPE     50
D1513V10, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              4               49
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF577 MUTATED        0      0      1      1      1      0
  ZNF577 WILD-TYPE     13     16     13     10     10      9
D1513V11, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF577 MUTATED        0      0      0      0      0      0      3      0
  ZNF577 WILD-TYPE     11      7      7      9      8      7      8      9
                  vv
clus               CLUS_9
  ZNF577 MUTATED        0
  ZNF577 WILD-TYPE      5
D1513V12, multiclass
        clus
vv       ZNF577 MUTATED ZNF577 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              3                8
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1514) Variable = SRGAP3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SRGAP3 MUTATED        3      0      1      1      0
  SRGAP3 WILD-TYPE     29     18     45     26     23
D1514V1, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SRGAP3 MUTATED        3      2      0
  SRGAP3 WILD-TYPE     40     65     36
D1514V2, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SRGAP3 MUTATED        1      5     10
  SRGAP3 WILD-TYPE     41    168    137
D1514V3, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SRGAP3 MUTATED        4      1      7
  SRGAP3 WILD-TYPE     58     72     68
D1514V4, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SRGAP3 MUTATED        2      4      7
  SRGAP3 WILD-TYPE     68    116     93
D1514V5, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SRGAP3 MUTATED        3      0      2      1      1      5      1      0
  SRGAP3 WILD-TYPE     38     26     28     28     38     64     19     14
                  vv
clus               CLUS_9
  SRGAP3 MUTATED        0
  SRGAP3 WILD-TYPE     22
D1514V6, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SRGAP3 MUTATED        3      3      6      5
  SRGAP3 WILD-TYPE     97     69     66    116
D1514V7, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              3               69
  CLUS_3              6               66
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SRGAP3 MUTATED        2      3      7      2      3
  SRGAP3 WILD-TYPE     57     72     67    117     35
D1514V8, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              2              117
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SRGAP3 MUTATED        1      6      5      0      5
  SRGAP3 WILD-TYPE     50     70     56     71     90
D1514V9, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              6               70
  CLUS_3              5               56
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SRGAP3 MUTATED        1      7      0      2      2      0      0      5
  SRGAP3 WILD-TYPE     68     41     39     14     51     20     21     33
                  vv
clus               CLUS_9
  SRGAP3 MUTATED        0
  SRGAP3 WILD-TYPE     50
D1514V10, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              7               41
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              5               33
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SRGAP3 MUTATED        0      1      1      0      1      1
  SRGAP3 WILD-TYPE     13     15     13     11     10      8
D1514V11, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SRGAP3 MUTATED        0      0      0      1      0      2      1      0
  SRGAP3 WILD-TYPE     11      7      7      8      8      5     10      9
                  vv
clus               CLUS_9
  SRGAP3 MUTATED        0
  SRGAP3 WILD-TYPE      5
D1514V12, multiclass
        clus
vv       SRGAP3 MUTATED SRGAP3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              2                5
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1515) Variable = ZMYND8 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZMYND8 MUTATED        2      0      1      2      0
  ZMYND8 WILD-TYPE     30     18     45     25     23
D1515V1, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZMYND8 MUTATED        3      1      1
  ZMYND8 WILD-TYPE     40     66     35
D1515V2, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZMYND8 MUTATED        3      5     16
  ZMYND8 WILD-TYPE     39    168    131
D1515V3, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              5              168
  CLUS_3             16              131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZMYND8 MUTATED        4      2     13
  ZMYND8 WILD-TYPE     58     71     62
D1515V4, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              2               71
  CLUS_3             13               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZMYND8 MUTATED        2      7      9
  ZMYND8 WILD-TYPE     68    113     91
D1515V5, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              7              113
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZMYND8 MUTATED        1      2      1      3      0      7      1      2
  ZMYND8 WILD-TYPE     40     24     29     26     39     62     19     12
                  vv
clus               CLUS_9
  ZMYND8 MUTATED        1
  ZMYND8 WILD-TYPE     21
D1515V6, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              0               39
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZMYND8 MUTATED        3     13      3      6
  ZMYND8 WILD-TYPE     97     59     69    115
D1515V7, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              3               97
  CLUS_2             13               59
  CLUS_3              3               69
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZMYND8 MUTATED        0      6     13      3      3
  ZMYND8 WILD-TYPE     59     69     61    116     35
D1515V8, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              6               69
  CLUS_3             13               61
  CLUS_4              3              116
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZMYND8 MUTATED        4      9      1      2      8
  ZMYND8 WILD-TYPE     47     67     60     69     87
D1515V9, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              9               67
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZMYND8 MUTATED        5      1      0      4      4      4      1      3
  ZMYND8 WILD-TYPE     64     47     39     12     49     16     20     35
                  vv
clus               CLUS_9
  ZMYND8 MUTATED        2
  ZMYND8 WILD-TYPE     48
D1515V10, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              4               12
  CLUS_5              4               49
  CLUS_6              4               16
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZMYND8 MUTATED        0      1      1      0      2      1
  ZMYND8 WILD-TYPE     13     15     13     11      9      8
D1515V11, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZMYND8 MUTATED        1      0      0      2      0      0      0      1
  ZMYND8 WILD-TYPE     10      7      7      7      8      7     11      8
                  vv
clus               CLUS_9
  ZMYND8 MUTATED        1
  ZMYND8 WILD-TYPE      4
D1515V12, multiclass
        clus
vv       ZMYND8 MUTATED ZMYND8 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              1                8
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1516) Variable = KIAA0319 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0319 MUTATED        3      1      1      1      0
  KIAA0319 WILD-TYPE     29     17     45     26     23
D1516V1, multiclass
        clus
vv       KIAA0319 MUTATED KIAA0319 WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                1                 17
  CLUS_3                1                 45
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0319 MUTATED        2      3      1
  KIAA0319 WILD-TYPE     41     64     35
D1516V2, multiclass
        clus
vv       KIAA0319 MUTATED KIAA0319 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                3                 64
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0319 MUTATED        0      4     11
  KIAA0319 WILD-TYPE     42    169    136
D1516V3, multiclass
        clus
vv       KIAA0319 MUTATED KIAA0319 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                4                169
  CLUS_3               11                136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0319 MUTATED        3      0      6
  KIAA0319 WILD-TYPE     59     73     69
D1516V4, multiclass
        clus
vv       KIAA0319 MUTATED KIAA0319 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                0                 73
  CLUS_3                6                 69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0319 MUTATED        1      5      6
  KIAA0319 WILD-TYPE     69    115     94
D1516V5, multiclass
        clus
vv       KIAA0319 MUTATED KIAA0319 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                5                115
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0319 MUTATED        2      1      2      0      1      4      2      0
  KIAA0319 WILD-TYPE     39     25     28     29     38     65     18     14
                    vv
clus                 CLUS_9
  KIAA0319 MUTATED        0
  KIAA0319 WILD-TYPE     22
D1516V6, multiclass
        clus
vv       KIAA0319 MUTATED KIAA0319 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                2                 28
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                4                 65
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0319 MUTATED        0      8      1      6
  KIAA0319 WILD-TYPE    100     64     71    115
D1516V7, multiclass
        clus
vv       KIAA0319 MUTATED KIAA0319 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                8                 64
  CLUS_3                1                 71
  CLUS_4                6                115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0319 MUTATED        1      3      5      4      2
  KIAA0319 WILD-TYPE     58     72     69    115     36
D1516V8, multiclass
        clus
vv       KIAA0319 MUTATED KIAA0319 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                3                 72
  CLUS_3                5                 69
  CLUS_4                4                115
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0319 MUTATED        0      7      1      3      4
  KIAA0319 WILD-TYPE     51     69     60     68     91
D1516V9, multiclass
        clus
vv       KIAA0319 MUTATED KIAA0319 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                7                 69
  CLUS_3                1                 60
  CLUS_4                3                 68
  CLUS_5                4                 91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0319 MUTATED        1      1      0      3      3      1      0      2
  KIAA0319 WILD-TYPE     68     47     39     13     50     19     21     36
                    vv
clus                 CLUS_9
  KIAA0319 MUTATED        4
  KIAA0319 WILD-TYPE     46
D1516V10, multiclass
        clus
vv       KIAA0319 MUTATED KIAA0319 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                3                 13
  CLUS_5                3                 50
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                4                 46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA0319 MUTATED        0      0      0      0      1      0
  KIAA0319 WILD-TYPE     13     16     14     11     10      9
D1516V11, multiclass
[1] "Remove cluster labels:" "KIAA0319 MUTATED"      
clus
  KIAA0319 MUTATED KIAA0319 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-G4-6628 
"KIAA0319 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0319 MUTATED        0      0      0      1      0      0      0      0
  KIAA0319 WILD-TYPE     11      7      7      8      8      7     11      9
                    vv
clus                 CLUS_9
  KIAA0319 MUTATED        0
  KIAA0319 WILD-TYPE      5
D1516V12, multiclass
[1] "Remove cluster labels:" "KIAA0319 MUTATED"      
clus
  KIAA0319 MUTATED KIAA0319 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" "KIAA0319 WILD-TYPE" 
        TCGA-G4-6628 
"KIAA0319 WILD-TYPE" 

Clustering(1517) Variable = PUS7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PUS7 MUTATED        5      0      0      1      1
  PUS7 WILD-TYPE     27     18     46     26     22
D1517V1, multiclass
        clus
vv       PUS7 MUTATED PUS7 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PUS7 MUTATED        5      1      1
  PUS7 WILD-TYPE     38     66     35
D1517V2, multiclass
        clus
vv       PUS7 MUTATED PUS7 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PUS7 MUTATED        0      1     11
  PUS7 WILD-TYPE     42    172    136
D1517V3, multiclass
        clus
vv       PUS7 MUTATED PUS7 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PUS7 MUTATED        4      0      3
  PUS7 WILD-TYPE     58     73     72
D1517V4, multiclass
        clus
vv       PUS7 MUTATED PUS7 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PUS7 MUTATED        0      4      7
  PUS7 WILD-TYPE     70    116     93
D1517V5, multiclass
        clus
vv       PUS7 MUTATED PUS7 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PUS7 MUTATED        1      1      2      0      1      5      1      0      0
  PUS7 WILD-TYPE     40     25     28     29     38     64     19     14     22
D1517V6, multiclass
        clus
vv       PUS7 MUTATED PUS7 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PUS7 MUTATED        0      2      4      7
  PUS7 WILD-TYPE    100     70     68    114
D1517V7, multiclass
        clus
vv       PUS7 MUTATED PUS7 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            4             68
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PUS7 MUTATED        1      0      5      2      5
  PUS7 WILD-TYPE     58     75     69    117     33
D1517V8, multiclass
        clus
vv       PUS7 MUTATED PUS7 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            5             69
  CLUS_4            2            117
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PUS7 MUTATED        0      3      3      1      4
  PUS7 WILD-TYPE     51     73     58     70     91
D1517V9, multiclass
        clus
vv       PUS7 MUTATED PUS7 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PUS7 MUTATED        0      4      0      2      0      1      0      3      1
  PUS7 WILD-TYPE     69     44     39     14     53     19     21     35     49
D1517V10, multiclass
        clus
vv       PUS7 MUTATED PUS7 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PUS7 MUTATED        0      0      0      0      2      0
  PUS7 WILD-TYPE     13     16     14     11      9      9
D1517V11, multiclass
[1] "Remove cluster labels:" "PUS7 MUTATED"          
clus
  PUS7 MUTATED PUS7 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PUS7 MUTATED        0      0      0      1      0      0      1      0      0
  PUS7 WILD-TYPE     11      7      7      8      8      7     10      9      5
D1517V12, multiclass
[1] "Remove cluster labels:" "PUS7 MUTATED"          
clus
  PUS7 MUTATED PUS7 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" "PUS7 WILD-TYPE" 

Clustering(1518) Variable = DCLRE1C MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCLRE1C MUTATED        1      0      0      0      0
  DCLRE1C WILD-TYPE     31     18     46     27     23
D1518V1, multiclass
[1] "Remove cluster labels:" "DCLRE1C MUTATED"       
clus
  DCLRE1C MUTATED DCLRE1C WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3949        TCGA-AA-3950 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AY-4071 
"DCLRE1C WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DCLRE1C MUTATED        1      0      0
  DCLRE1C WILD-TYPE     42     67     36
D1518V2, multiclass
[1] "Remove cluster labels:" "DCLRE1C MUTATED"       
clus
  DCLRE1C MUTATED DCLRE1C WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3949        TCGA-AA-3950 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AY-4071 
"DCLRE1C WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DCLRE1C MUTATED        1      1      7
  DCLRE1C WILD-TYPE     41    172    140
D1518V3, multiclass
        clus
vv       DCLRE1C MUTATED DCLRE1C WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DCLRE1C MUTATED        2      1      4
  DCLRE1C WILD-TYPE     60     72     71
D1518V4, multiclass
        clus
vv       DCLRE1C MUTATED DCLRE1C WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DCLRE1C MUTATED        2      4      3
  DCLRE1C WILD-TYPE     68    116     97
D1518V5, multiclass
        clus
vv       DCLRE1C MUTATED DCLRE1C WILD-TYPE
  CLUS_1               2                68
  CLUS_2               4               116
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCLRE1C MUTATED        1      1      1      2      2      1      0      0
  DCLRE1C WILD-TYPE     40     25     29     27     37     68     20     14
                   vv
clus                CLUS_9
  DCLRE1C MUTATED        1
  DCLRE1C WILD-TYPE     21
D1518V6, multiclass
        clus
vv       DCLRE1C MUTATED DCLRE1C WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               2                37
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DCLRE1C MUTATED        1      4      2      2
  DCLRE1C WILD-TYPE     99     68     70    119
D1518V7, multiclass
        clus
vv       DCLRE1C MUTATED DCLRE1C WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               2                70
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCLRE1C MUTATED        2      1      4      0      2
  DCLRE1C WILD-TYPE     57     74     70    119     36
D1518V8, multiclass
        clus
vv       DCLRE1C MUTATED DCLRE1C WILD-TYPE
  CLUS_1               2                57
  CLUS_2               1                74
  CLUS_3               4                70
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DCLRE1C MUTATED        2      3      1      0      3
  DCLRE1C WILD-TYPE     49     73     60     71     92
D1518V9, multiclass
        clus
vv       DCLRE1C MUTATED DCLRE1C WILD-TYPE
  CLUS_1               2                49
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCLRE1C MUTATED        3      1      1      1      0      0      0      3
  DCLRE1C WILD-TYPE     66     47     38     15     53     20     21     35
                   vv
clus                CLUS_9
  DCLRE1C MUTATED        0
  DCLRE1C WILD-TYPE     50
D1518V10, multiclass
        clus
vv       DCLRE1C MUTATED DCLRE1C WILD-TYPE
  CLUS_1               3                66
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DCLRE1C MUTATED        0      0      0      0      2      0
  DCLRE1C WILD-TYPE     13     16     14     11      9      9
D1518V11, multiclass
[1] "Remove cluster labels:" "DCLRE1C MUTATED"       
clus
  DCLRE1C MUTATED DCLRE1C WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6600 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DCLRE1C MUTATED        0      0      0      1      0      1      0      0
  DCLRE1C WILD-TYPE     11      7      7      8      8      6     11      9
                   vv
clus                CLUS_9
  DCLRE1C MUTATED        0
  DCLRE1C WILD-TYPE      5
D1518V12, multiclass
[1] "Remove cluster labels:" "DCLRE1C MUTATED"       
clus
  DCLRE1C MUTATED DCLRE1C WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6600 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" "DCLRE1C WILD-TYPE" 

Clustering(1519) Variable = TEX2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEX2 MUTATED        0      0      0      2      0
  TEX2 WILD-TYPE     32     18     46     25     23
D1519V1, multiclass
[1] "Remove cluster labels:" "TEX2 MUTATED"          
clus
  TEX2 MUTATED TEX2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TEX2 MUTATED        0      2      0
  TEX2 WILD-TYPE     43     65     36
D1519V2, multiclass
[1] "Remove cluster labels:" "TEX2 MUTATED"          
clus
  TEX2 MUTATED TEX2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" "TEX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TEX2 MUTATED        1      0     11
  TEX2 WILD-TYPE     41    173    136
D1519V3, multiclass
        clus
vv       TEX2 MUTATED TEX2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TEX2 MUTATED        4      0      6
  TEX2 WILD-TYPE     58     73     69
D1519V4, multiclass
        clus
vv       TEX2 MUTATED TEX2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TEX2 MUTATED        1      4      6
  TEX2 WILD-TYPE     69    116     94
D1519V5, multiclass
        clus
vv       TEX2 MUTATED TEX2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TEX2 MUTATED        1      1      1      1      0      5      2      0      0
  TEX2 WILD-TYPE     40     25     29     28     39     64     18     14     22
D1519V6, multiclass
        clus
vv       TEX2 MUTATED TEX2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TEX2 MUTATED        0      8      3      1
  TEX2 WILD-TYPE    100     64     69    120
D1519V7, multiclass
        clus
vv       TEX2 MUTATED TEX2 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            8             64
  CLUS_3            3             69
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEX2 MUTATED        1      1      8      2      0
  TEX2 WILD-TYPE     58     74     66    117     38
D1519V8, multiclass
        clus
vv       TEX2 MUTATED TEX2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            8             66
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEX2 MUTATED        0      7      1      0      4
  TEX2 WILD-TYPE     51     69     60     71     91
D1519V9, multiclass
        clus
vv       TEX2 MUTATED TEX2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            7             69
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TEX2 MUTATED        1      4      0      2      1      1      0      2      1
  TEX2 WILD-TYPE     68     44     39     14     52     19     21     36     49
D1519V10, multiclass
        clus
vv       TEX2 MUTATED TEX2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TEX2 MUTATED        0      0      0      0      3      0
  TEX2 WILD-TYPE     13     16     14     11      8      9
D1519V11, multiclass
        clus
vv       TEX2 MUTATED TEX2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TEX2 MUTATED        0      0      0      1      0      0      2      0      0
  TEX2 WILD-TYPE     11      7      7      8      8      7      9      9      5
D1519V12, multiclass
        clus
vv       TEX2 MUTATED TEX2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1520) Variable = BRD4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRD4 MUTATED        3      1      0      1      0
  BRD4 WILD-TYPE     29     17     46     26     23
D1520V1, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD4 MUTATED        4      0      1
  BRD4 WILD-TYPE     39     67     35
D1520V2, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD4 MUTATED        1      4     14
  BRD4 WILD-TYPE     41    169    133
D1520V3, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3           14            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD4 MUTATED        6      2      7
  BRD4 WILD-TYPE     56     71     68
D1520V4, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            2             71
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD4 MUTATED        2      6     10
  BRD4 WILD-TYPE     68    114     90
D1520V5, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            114
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRD4 MUTATED        2      3      1      1      2      8      1      0      0
  BRD4 WILD-TYPE     39     23     29     28     37     61     19     14     22
D1520V6, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            3             23
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            8             61
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRD4 MUTATED        3      5      5      7
  BRD4 WILD-TYPE     97     67     67    114
D1520V7, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            5             67
  CLUS_3            5             67
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRD4 MUTATED        1      3      9      3      4
  BRD4 WILD-TYPE     58     72     65    116     34
D1520V8, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            9             65
  CLUS_4            3            116
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRD4 MUTATED        2      9      2      2      5
  BRD4 WILD-TYPE     49     67     59     69     90
D1520V9, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            9             67
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRD4 MUTATED        4      4      0      2      4      1      1      3      1
  BRD4 WILD-TYPE     65     44     39     14     49     19     20     35     49
D1520V10, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRD4 MUTATED        1      1      1      0      2      0
  BRD4 WILD-TYPE     12     15     13     11      9      9
D1520V11, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BRD4 MUTATED        0      0      0      1      0      1      2      1      0
  BRD4 WILD-TYPE     11      7      7      8      8      6      9      8      5
D1520V12, multiclass
        clus
vv       BRD4 MUTATED BRD4 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1521) Variable = ZMIZ1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZMIZ1 MUTATED        2      0      0      0      0
  ZMIZ1 WILD-TYPE     30     18     46     27     23
D1521V1, multiclass
[1] "Remove cluster labels:" "ZMIZ1 MUTATED"         
clus
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2677      TCGA-A6-2678 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3809 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZMIZ1 MUTATED        2      0      0
  ZMIZ1 WILD-TYPE     41     67     36
D1521V2, multiclass
[1] "Remove cluster labels:" "ZMIZ1 MUTATED"         
clus
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2677      TCGA-A6-2678 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3809 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZMIZ1 MUTATED        0      2      7
  ZMIZ1 WILD-TYPE     42    171    140
D1521V3, multiclass
        clus
vv       ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZMIZ1 MUTATED        1      2      4
  ZMIZ1 WILD-TYPE     61     71     71
D1521V4, multiclass
        clus
vv       ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZMIZ1 MUTATED        1      1      5
  ZMIZ1 WILD-TYPE     69    119     95
D1521V5, multiclass
        clus
vv       ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZMIZ1 MUTATED        0      0      0      1      0      5      0      1
  ZMIZ1 WILD-TYPE     41     26     30     28     39     64     20     13
                 vv
clus              CLUS_9
  ZMIZ1 MUTATED        0
  ZMIZ1 WILD-TYPE     22
D1521V6, multiclass
        clus
vv       ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZMIZ1 MUTATED        2      4      1      2
  ZMIZ1 WILD-TYPE     98     68     71    119
D1521V7, multiclass
        clus
vv       ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZMIZ1 MUTATED        0      3      4      0      2
  ZMIZ1 WILD-TYPE     59     72     70    119     36
D1521V8, multiclass
        clus
vv       ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZMIZ1 MUTATED        1      5      1      0      2
  ZMIZ1 WILD-TYPE     50     71     60     71     93
D1521V9, multiclass
        clus
vv       ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZMIZ1 MUTATED        3      1      1      2      0      0      0      2
  ZMIZ1 WILD-TYPE     66     47     38     14     53     20     21     36
                 vv
clus              CLUS_9
  ZMIZ1 MUTATED        0
  ZMIZ1 WILD-TYPE     50
D1521V10, multiclass
        clus
vv       ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZMIZ1 MUTATED        1      0      0      0      0      0
  ZMIZ1 WILD-TYPE     12     16     14     11     11      9
D1521V11, multiclass
[1] "Remove cluster labels:" "ZMIZ1 MUTATED"         
clus
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-G4-6628 
"ZMIZ1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZMIZ1 MUTATED        0      0      0      0      0      0      0      1
  ZMIZ1 WILD-TYPE     11      7      7      9      8      7     11      8
                 vv
clus              CLUS_9
  ZMIZ1 MUTATED        0
  ZMIZ1 WILD-TYPE      5
D1521V12, multiclass
[1] "Remove cluster labels:" "ZMIZ1 MUTATED"         
clus
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" "ZMIZ1 WILD-TYPE" 
     TCGA-G4-6628 
"ZMIZ1 WILD-TYPE" 

Clustering(1522) Variable = SLC44A4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC44A4 MUTATED        2      0      0      1      0
  SLC44A4 WILD-TYPE     30     18     46     26     23
D1522V1, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A4 MUTATED        1      1      1
  SLC44A4 WILD-TYPE     42     66     35
D1522V2, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A4 MUTATED        2      0     10
  SLC44A4 WILD-TYPE     40    173    137
D1522V3, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               0               173
  CLUS_3              10               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A4 MUTATED        3      0      6
  SLC44A4 WILD-TYPE     59     73     69
D1522V4, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A4 MUTATED        0      6      5
  SLC44A4 WILD-TYPE     70    114     95
D1522V5, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               6               114
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC44A4 MUTATED        0      1      1      3      1      5      0      0
  SLC44A4 WILD-TYPE     41     25     29     26     38     64     20     14
                   vv
clus                CLUS_9
  SLC44A4 MUTATED        0
  SLC44A4 WILD-TYPE     22
D1522V6, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               3                26
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC44A4 MUTATED        0      6      3      3
  SLC44A4 WILD-TYPE    100     66     69    118
D1522V7, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               6                66
  CLUS_3               3                69
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC44A4 MUTATED        1      0      8      2      1
  SLC44A4 WILD-TYPE     58     75     66    117     37
D1522V8, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               8                66
  CLUS_4               2               117
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC44A4 MUTATED        0      8      1      2      1
  SLC44A4 WILD-TYPE     51     68     60     69     94
D1522V9, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               8                68
  CLUS_3               1                60
  CLUS_4               2                69
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC44A4 MUTATED        2      3      0      4      2      1      0      0
  SLC44A4 WILD-TYPE     67     45     39     12     51     19     21     38
                   vv
clus                CLUS_9
  SLC44A4 MUTATED        0
  SLC44A4 WILD-TYPE     50
D1522V10, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               4                12
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC44A4 MUTATED        0      0      0      0      4      0
  SLC44A4 WILD-TYPE     13     16     14     11      7      9
D1522V11, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               4                 7
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC44A4 MUTATED        0      0      0      2      0      1      1      0
  SLC44A4 WILD-TYPE     11      7      7      7      8      6     10      9
                   vv
clus                CLUS_9
  SLC44A4 MUTATED        0
  SLC44A4 WILD-TYPE      5
D1522V12, multiclass
        clus
vv       SLC44A4 MUTATED SLC44A4 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1523) Variable = NCF2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCF2 MUTATED        0      0      0      1      0
  NCF2 WILD-TYPE     32     18     46     26     23
D1523V1, multiclass
[1] "Remove cluster labels:" "NCF2 MUTATED"          
clus
  NCF2 MUTATED NCF2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AY-4071 
"NCF2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NCF2 MUTATED        1      0      0
  NCF2 WILD-TYPE     42     67     36
D1523V2, multiclass
[1] "Remove cluster labels:" "NCF2 MUTATED"          
clus
  NCF2 MUTATED NCF2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3866 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" "NCF2 WILD-TYPE" 
    TCGA-AY-4071 
"NCF2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NCF2 MUTATED        1      2      5
  NCF2 WILD-TYPE     41    171    142
D1523V3, multiclass
        clus
vv       NCF2 MUTATED NCF2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NCF2 MUTATED        4      1      2
  NCF2 WILD-TYPE     58     72     73
D1523V4, multiclass
        clus
vv       NCF2 MUTATED NCF2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NCF2 MUTATED        1      2      4
  NCF2 WILD-TYPE     69    118     96
D1523V5, multiclass
        clus
vv       NCF2 MUTATED NCF2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NCF2 MUTATED        1      0      0      0      2      3      1      0      0
  NCF2 WILD-TYPE     40     26     30     29     37     66     19     14     22
D1523V6, multiclass
        clus
vv       NCF2 MUTATED NCF2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NCF2 MUTATED        2      3      2      1
  NCF2 WILD-TYPE     98     69     70    120
D1523V7, multiclass
        clus
vv       NCF2 MUTATED NCF2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCF2 MUTATED        3      1      3      0      1
  NCF2 WILD-TYPE     56     74     71    119     37
D1523V8, multiclass
        clus
vv       NCF2 MUTATED NCF2 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCF2 MUTATED        1      3      3      0      1
  NCF2 WILD-TYPE     50     73     58     71     94
D1523V9, multiclass
        clus
vv       NCF2 MUTATED NCF2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NCF2 MUTATED        1      1      0      2      2      1      0      1      0
  NCF2 WILD-TYPE     68     47     39     14     51     19     21     37     50
D1523V10, multiclass
        clus
vv       NCF2 MUTATED NCF2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NCF2 MUTATED        0      0      0      0      0      0
  NCF2 WILD-TYPE     13     16     14     11     11      9
D1523V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NCF2 MUTATED        0      0      0      0      0      0      0      0      0
  NCF2 WILD-TYPE     11      7      7      9      8      7     11      9      5
D1523V12, multiclass

Clustering(1524) Variable = MFRP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFRP MUTATED        1      0      1      0      0
  MFRP WILD-TYPE     31     18     45     27     23
D1524V1, multiclass
[1] "Remove cluster labels:" "MFRP MUTATED"          
clus
  MFRP MUTATED MFRP WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3837 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MFRP MUTATED        1      1      0
  MFRP WILD-TYPE     42     66     36
D1524V2, multiclass
[1] "Remove cluster labels:" "MFRP MUTATED"          
clus
  MFRP MUTATED MFRP WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3837 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MFRP MUTATED        1      1      9
  MFRP WILD-TYPE     41    172    138
D1524V3, multiclass
        clus
vv       MFRP MUTATED MFRP WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MFRP MUTATED        5      0      4
  MFRP WILD-TYPE     57     73     71
D1524V4, multiclass
        clus
vv       MFRP MUTATED MFRP WILD-TYPE
  CLUS_1            5             57
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MFRP MUTATED        0      3      7
  MFRP WILD-TYPE     70    117     93
D1524V5, multiclass
        clus
vv       MFRP MUTATED MFRP WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MFRP MUTATED        1      1      1      1      1      4      1      0      0
  MFRP WILD-TYPE     40     25     29     28     38     65     19     14     22
D1524V6, multiclass
        clus
vv       MFRP MUTATED MFRP WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MFRP MUTATED        0      5      4      2
  MFRP WILD-TYPE    100     67     68    119
D1524V7, multiclass
        clus
vv       MFRP MUTATED MFRP WILD-TYPE
  CLUS_1            0            100
  CLUS_2            5             67
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFRP MUTATED        2      0      7      1      1
  MFRP WILD-TYPE     57     75     67    118     37
D1524V8, multiclass
        clus
vv       MFRP MUTATED MFRP WILD-TYPE
  CLUS_1            2             57
  CLUS_2            0             75
  CLUS_3            7             67
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFRP MUTATED        0      7      3      0      1
  MFRP WILD-TYPE     51     69     58     71     94
D1524V9, multiclass
        clus
vv       MFRP MUTATED MFRP WILD-TYPE
  CLUS_1            0             51
  CLUS_2            7             69
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MFRP MUTATED        4      3      1      2      0      0      1      0      0
  MFRP WILD-TYPE     65     45     38     14     53     20     20     38     50
D1524V10, multiclass
        clus
vv       MFRP MUTATED MFRP WILD-TYPE
  CLUS_1            4             65
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MFRP MUTATED        0      1      0      0      1      0
  MFRP WILD-TYPE     13     15     14     11     10      9
D1524V11, multiclass
[1] "Remove cluster labels:" "MFRP MUTATED"          
clus
  MFRP MUTATED MFRP WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3511 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901     TCGA-AD-6963 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MFRP MUTATED        1      0      0      1      0      0      0      0      0
  MFRP WILD-TYPE     10      7      7      8      8      7     11      9      5
D1524V12, multiclass
[1] "Remove cluster labels:" "MFRP MUTATED"          
clus
  MFRP MUTATED MFRP WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3511 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901     TCGA-AD-6963 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" "MFRP WILD-TYPE" 

Clustering(1525) Variable = PKHD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PKHD1 MUTATED       12      1      4      5      0
  PKHD1 WILD-TYPE     20     17     42     22     23
D1525V1, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1            12              20
  CLUS_2             1              17
  CLUS_3             4              42
  CLUS_4             5              22
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PKHD1 MUTATED       13      5      4
  PKHD1 WILD-TYPE     30     62     32
D1525V2, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1            13              30
  CLUS_2             5              62
  CLUS_3             4              32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PKHD1 MUTATED        7     20     30
  PKHD1 WILD-TYPE     35    153    117
D1525V3, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1             7              35
  CLUS_2            20             153
  CLUS_3            30             117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PKHD1 MUTATED       11     12     13
  PKHD1 WILD-TYPE     51     61     62
D1525V4, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1            11              51
  CLUS_2            12              61
  CLUS_3            13              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PKHD1 MUTATED        6     21     20
  PKHD1 WILD-TYPE     64     99     80
D1525V5, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1             6              64
  CLUS_2            21              99
  CLUS_3            20              80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PKHD1 MUTATED        7      1      6      5      8     13      3      0
  PKHD1 WILD-TYPE     34     25     24     24     31     56     17     14
                 vv
clus              CLUS_9
  PKHD1 MUTATED        4
  PKHD1 WILD-TYPE     18
D1525V6, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1             7              34
  CLUS_2             1              25
  CLUS_3             6              24
  CLUS_4             5              24
  CLUS_5             8              31
  CLUS_6            13              56
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             4              18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PKHD1 MUTATED       14     10     11     22
  PKHD1 WILD-TYPE     86     62     61     99
D1525V7, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1            14              86
  CLUS_2            10              62
  CLUS_3            11              61
  CLUS_4            22              99
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PKHD1 MUTATED       10     11     12     11     13
  PKHD1 WILD-TYPE     49     64     62    108     25
D1525V8, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1            10              49
  CLUS_2            11              64
  CLUS_3            12              62
  CLUS_4            11             108
  CLUS_5            13              25
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PKHD1 MUTATED        9     14      5      6     21
  PKHD1 WILD-TYPE     42     62     56     65     74
D1525V9, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1             9              42
  CLUS_2            14              62
  CLUS_3             5              56
  CLUS_4             6              65
  CLUS_5            21              74
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PKHD1 MUTATED       11      9      3      4      9      2      3     11
  PKHD1 WILD-TYPE     58     39     36     12     44     18     18     27
                 vv
clus              CLUS_9
  PKHD1 MUTATED        3
  PKHD1 WILD-TYPE     47
D1525V10, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1            11              58
  CLUS_2             9              39
  CLUS_3             3              36
  CLUS_4             4              12
  CLUS_5             9              44
  CLUS_6             2              18
  CLUS_7             3              18
  CLUS_8            11              27
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PKHD1 MUTATED        2      3      0      1      4      1
  PKHD1 WILD-TYPE     11     13     14     10      7      8
D1525V11, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             3              13
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             4               7
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PKHD1 MUTATED        3      0      1      2      1      1      2      1
  PKHD1 WILD-TYPE      8      7      6      7      7      6      9      8
                 vv
clus              CLUS_9
  PKHD1 MUTATED        0
  PKHD1 WILD-TYPE      5
D1525V12, multiclass
        clus
vv       PKHD1 MUTATED PKHD1 WILD-TYPE
  CLUS_1             3               8
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1526) Variable = TAF4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF4 MUTATED        2      0      0      0      1
  TAF4 WILD-TYPE     30     18     46     27     22
D1526V1, multiclass
        clus
vv       TAF4 MUTATED TAF4 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF4 MUTATED        2      1      0
  TAF4 WILD-TYPE     41     66     36
D1526V2, multiclass
        clus
vv       TAF4 MUTATED TAF4 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF4 MUTATED        1      4      4
  TAF4 WILD-TYPE     41    169    143
D1526V3, multiclass
        clus
vv       TAF4 MUTATED TAF4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF4 MUTATED        1      2      2
  TAF4 WILD-TYPE     61     71     73
D1526V4, multiclass
        clus
vv       TAF4 MUTATED TAF4 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF4 MUTATED        3      2      1
  TAF4 WILD-TYPE     67    118     99
D1526V5, multiclass
        clus
vv       TAF4 MUTATED TAF4 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            2            118
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF4 MUTATED        1      1      1      0      2      0      0      1      0
  TAF4 WILD-TYPE     40     25     29     29     37     69     20     13     22
D1526V6, multiclass
        clus
vv       TAF4 MUTATED TAF4 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            0             69
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAF4 MUTATED        2      2      1      4
  TAF4 WILD-TYPE     98     70     71    117
D1526V7, multiclass
        clus
vv       TAF4 MUTATED TAF4 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF4 MUTATED        1      2      2      1      3
  TAF4 WILD-TYPE     58     73     72    118     35
D1526V8, multiclass
        clus
vv       TAF4 MUTATED TAF4 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF4 MUTATED        2      1      0      2      4
  TAF4 WILD-TYPE     49     75     61     69     91
D1526V9, multiclass
        clus
vv       TAF4 MUTATED TAF4 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            1             75
  CLUS_3            0             61
  CLUS_4            2             69
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF4 MUTATED        0      1      0      1      2      1      0      3      1
  TAF4 WILD-TYPE     69     47     39     15     51     19     21     35     49
D1526V10, multiclass
        clus
vv       TAF4 MUTATED TAF4 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAF4 MUTATED        0      0      0      0      1      0
  TAF4 WILD-TYPE     13     16     14     11     10      9
D1526V11, multiclass
[1] "Remove cluster labels:" "TAF4 MUTATED"          
clus
  TAF4 MUTATED TAF4 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6625 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-G4-6628 
"TAF4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF4 MUTATED        0      0      0      1      0      0      0      0      0
  TAF4 WILD-TYPE     11      7      7      8      8      7     11      9      5
D1526V12, multiclass
[1] "Remove cluster labels:" "TAF4 MUTATED"          
clus
  TAF4 MUTATED TAF4 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6625 
"TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" "TAF4 WILD-TYPE" 
    TCGA-G4-6628 
"TAF4 WILD-TYPE" 

Clustering(1527) Variable = USP1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP1 MUTATED        0      0      0      0      0
  USP1 WILD-TYPE     32     18     46     27     23
D1527V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USP1 MUTATED        0      0      0
  USP1 WILD-TYPE     43     67     36
D1527V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USP1 MUTATED        0      0      9
  USP1 WILD-TYPE     42    173    138
D1527V3, multiclass
        clus
vv       USP1 MUTATED USP1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USP1 MUTATED        6      0      3
  USP1 WILD-TYPE     56     73     72
D1527V4, multiclass
        clus
vv       USP1 MUTATED USP1 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  USP1 MUTATED        2      2      5
  USP1 WILD-TYPE     68    118     95
D1527V5, multiclass
        clus
vv       USP1 MUTATED USP1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            2            118
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  USP1 MUTATED        1      1      0      1      0      4      2      0      0
  USP1 WILD-TYPE     40     25     30     28     39     65     18     14     22
D1527V6, multiclass
        clus
vv       USP1 MUTATED USP1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP1 MUTATED        0      2      6      1
  USP1 WILD-TYPE    100     70     66    120
D1527V7, multiclass
        clus
vv       USP1 MUTATED USP1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            6             66
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP1 MUTATED        1      0      7      1      0
  USP1 WILD-TYPE     58     75     67    118     38
D1527V8, multiclass
        clus
vv       USP1 MUTATED USP1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            7             67
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP1 MUTATED        0      7      1      0      1
  USP1 WILD-TYPE     51     69     60     71     94
D1527V9, multiclass
        clus
vv       USP1 MUTATED USP1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            7             69
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  USP1 MUTATED        2      4      0      2      0      0      0      0      1
  USP1 WILD-TYPE     67     44     39     14     53     20     21     38     49
D1527V10, multiclass
        clus
vv       USP1 MUTATED USP1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  USP1 MUTATED        0      1      0      0      2      0
  USP1 WILD-TYPE     13     15     14     11      9      9
D1527V11, multiclass
        clus
vv       USP1 MUTATED USP1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  USP1 MUTATED        1      0      0      0      1      0      1      0      0
  USP1 WILD-TYPE     10      7      7      9      7      7     10      9      5
D1527V12, multiclass
        clus
vv       USP1 MUTATED USP1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1528) Variable = TRHDE MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRHDE MUTATED        4      0      1      2      1
  TRHDE WILD-TYPE     28     18     45     25     22
D1528V1, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRHDE MUTATED        5      2      1
  TRHDE WILD-TYPE     38     65     35
D1528V2, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             5              38
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRHDE MUTATED        0      8     19
  TRHDE WILD-TYPE     42    165    128
D1528V3, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             0              42
  CLUS_2             8             165
  CLUS_3            19             128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRHDE MUTATED        8      2      9
  TRHDE WILD-TYPE     54     71     66
D1528V4, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             8              54
  CLUS_2             2              71
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRHDE MUTATED        4      5     12
  TRHDE WILD-TYPE     66    115     88
D1528V5, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             4              66
  CLUS_2             5             115
  CLUS_3            12              88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRHDE MUTATED        4      0      3      1      2      8      2      1
  TRHDE WILD-TYPE     37     26     27     28     37     61     18     13
                 vv
clus              CLUS_9
  TRHDE MUTATED        0
  TRHDE WILD-TYPE     22
D1528V6, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             4              37
  CLUS_2             0              26
  CLUS_3             3              27
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             8              61
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRHDE MUTATED        3      8      8      8
  TRHDE WILD-TYPE     97     64     64    113
D1528V7, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             3              97
  CLUS_2             8              64
  CLUS_3             8              64
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRHDE MUTATED        5      4     10      4      4
  TRHDE WILD-TYPE     54     71     64    115     34
D1528V8, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             5              54
  CLUS_2             4              71
  CLUS_3            10              64
  CLUS_4             4             115
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRHDE MUTATED        0      9      4      6      7
  TRHDE WILD-TYPE     51     67     57     65     88
D1528V9, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             0              51
  CLUS_2             9              67
  CLUS_3             4              57
  CLUS_4             6              65
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRHDE MUTATED        7      4      0      3      3      2      1      3
  TRHDE WILD-TYPE     62     44     39     13     50     18     20     35
                 vv
clus              CLUS_9
  TRHDE MUTATED        3
  TRHDE WILD-TYPE     47
D1528V10, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             7              62
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRHDE MUTATED        0      1      4      1      1      1
  TRHDE WILD-TYPE     13     15     10     10     10      8
D1528V11, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             4              10
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRHDE MUTATED        1      0      0      0      3      1      3      0
  TRHDE WILD-TYPE     10      7      7      9      5      6      8      9
                 vv
clus              CLUS_9
  TRHDE MUTATED        0
  TRHDE WILD-TYPE      5
D1528V12, multiclass
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             3               5
  CLUS_6             1               6
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1529) Variable = STK3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK3 MUTATED        2      0      0      0      0
  STK3 WILD-TYPE     30     18     46     27     23
D1529V1, multiclass
[1] "Remove cluster labels:" "STK3 MUTATED"          
clus
  STK3 MUTATED STK3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3867 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  STK3 MUTATED        2      0      0
  STK3 WILD-TYPE     41     67     36
D1529V2, multiclass
[1] "Remove cluster labels:" "STK3 MUTATED"          
clus
  STK3 MUTATED STK3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3867 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  STK3 MUTATED        1      1      7
  STK3 WILD-TYPE     41    172    140
D1529V3, multiclass
        clus
vv       STK3 MUTATED STK3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  STK3 MUTATED        2      1      3
  STK3 WILD-TYPE     60     72     72
D1529V4, multiclass
        clus
vv       STK3 MUTATED STK3 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  STK3 MUTATED        0      6      3
  STK3 WILD-TYPE     70    114     97
D1529V5, multiclass
        clus
vv       STK3 MUTATED STK3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            114
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  STK3 MUTATED        0      1      1      1      2      2      0      1      1
  STK3 WILD-TYPE     41     25     29     28     37     67     20     13     21
D1529V6, multiclass
        clus
vv       STK3 MUTATED STK3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK3 MUTATED        0      3      2      4
  STK3 WILD-TYPE    100     69     70    117
D1529V7, multiclass
        clus
vv       STK3 MUTATED STK3 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            3             69
  CLUS_3            2             70
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK3 MUTATED        0      2      3      1      3
  STK3 WILD-TYPE     59     73     71    118     35
D1529V8, multiclass
        clus
vv       STK3 MUTATED STK3 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK3 MUTATED        2      3      0      0      4
  STK3 WILD-TYPE     49     73     61     71     91
D1529V9, multiclass
        clus
vv       STK3 MUTATED STK3 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  STK3 MUTATED        0      1      0      1      2      1      0      3      1
  STK3 WILD-TYPE     69     47     39     15     51     19     21     35     49
D1529V10, multiclass
        clus
vv       STK3 MUTATED STK3 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK3 MUTATED        0      0      0      0      2      0
  STK3 WILD-TYPE     13     16     14     11      9      9
D1529V11, multiclass
[1] "Remove cluster labels:" "STK3 MUTATED"          
clus
  STK3 MUTATED STK3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  STK3 MUTATED        0      0      0      1      0      0      1      0      0
  STK3 WILD-TYPE     11      7      7      8      8      7     10      9      5
D1529V12, multiclass
[1] "Remove cluster labels:" "STK3 MUTATED"          
clus
  STK3 MUTATED STK3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" "STK3 WILD-TYPE" 

Clustering(1530) Variable = SEC14L1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEC14L1 MUTATED        1      0      0      1      0
  SEC14L1 WILD-TYPE     31     18     46     26     23
D1530V1, multiclass
[1] "Remove cluster labels:" "SEC14L1 MUTATED"       
clus
  SEC14L1 MUTATED SEC14L1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC14L1 MUTATED        2      0      0
  SEC14L1 WILD-TYPE     41     67     36
D1530V2, multiclass
[1] "Remove cluster labels:" "SEC14L1 MUTATED"       
clus
  SEC14L1 MUTATED SEC14L1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00O        TCGA-AA-A00Q 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC14L1 MUTATED        0      2      7
  SEC14L1 WILD-TYPE     42    171    140
D1530V3, multiclass
        clus
vv       SEC14L1 MUTATED SEC14L1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC14L1 MUTATED        2      1      4
  SEC14L1 WILD-TYPE     60     72     71
D1530V4, multiclass
        clus
vv       SEC14L1 MUTATED SEC14L1 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC14L1 MUTATED        1      1      7
  SEC14L1 WILD-TYPE     69    119     93
D1530V5, multiclass
        clus
vv       SEC14L1 MUTATED SEC14L1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEC14L1 MUTATED        0      0      2      0      0      5      2      0
  SEC14L1 WILD-TYPE     41     26     28     29     39     64     18     14
                   vv
clus                CLUS_9
  SEC14L1 MUTATED        0
  SEC14L1 WILD-TYPE     22
D1530V6, multiclass
        clus
vv       SEC14L1 MUTATED SEC14L1 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               5                64
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SEC14L1 MUTATED        1      4      2      3
  SEC14L1 WILD-TYPE     99     68     70    118
D1530V7, multiclass
        clus
vv       SEC14L1 MUTATED SEC14L1 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               2                70
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEC14L1 MUTATED        0      2      5      0      3
  SEC14L1 WILD-TYPE     59     73     69    119     35
D1530V8, multiclass
        clus
vv       SEC14L1 MUTATED SEC14L1 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               5                69
  CLUS_4               0               119
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEC14L1 MUTATED        0      6      1      0      2
  SEC14L1 WILD-TYPE     51     70     60     71     93
D1530V9, multiclass
        clus
vv       SEC14L1 MUTATED SEC14L1 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               6                70
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEC14L1 MUTATED        1      2      1      3      0      0      0      2
  SEC14L1 WILD-TYPE     68     46     38     13     53     20     21     36
                   vv
clus                CLUS_9
  SEC14L1 MUTATED        0
  SEC14L1 WILD-TYPE     50
D1530V10, multiclass
        clus
vv       SEC14L1 MUTATED SEC14L1 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               3                13
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SEC14L1 MUTATED        1      0      0      0      1      0
  SEC14L1 WILD-TYPE     12     16     14     11     10      9
D1530V11, multiclass
[1] "Remove cluster labels:" "SEC14L1 MUTATED"       
clus
  SEC14L1 MUTATED SEC14L1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6534        TCGA-D5-6536 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEC14L1 MUTATED        0      0      0      0      0      0      1      1
  SEC14L1 WILD-TYPE     11      7      7      9      8      7     10      8
                   vv
clus                CLUS_9
  SEC14L1 MUTATED        0
  SEC14L1 WILD-TYPE      5
D1530V12, multiclass
[1] "Remove cluster labels:" "SEC14L1 MUTATED"       
clus
  SEC14L1 MUTATED SEC14L1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6534        TCGA-D5-6536 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" "SEC14L1 WILD-TYPE" 

Clustering(1531) Variable = IL18R1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL18R1 MUTATED        4      0      1      1      1
  IL18R1 WILD-TYPE     28     18     45     26     22
D1531V1, multiclass
        clus
vv       IL18R1 MUTATED IL18R1 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IL18R1 MUTATED        4      1      2
  IL18R1 WILD-TYPE     39     66     34
D1531V2, multiclass
        clus
vv       IL18R1 MUTATED IL18R1 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IL18R1 MUTATED        1      3      8
  IL18R1 WILD-TYPE     41    170    139
D1531V3, multiclass
        clus
vv       IL18R1 MUTATED IL18R1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IL18R1 MUTATED        2      1      2
  IL18R1 WILD-TYPE     60     72     73
D1531V4, multiclass
        clus
vv       IL18R1 MUTATED IL18R1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IL18R1 MUTATED        2      3      6
  IL18R1 WILD-TYPE     68    117     94
D1531V5, multiclass
        clus
vv       IL18R1 MUTATED IL18R1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              117
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL18R1 MUTATED        0      1      2      0      3      4      1      0
  IL18R1 WILD-TYPE     41     25     28     29     36     65     19     14
                  vv
clus               CLUS_9
  IL18R1 MUTATED        0
  IL18R1 WILD-TYPE     22
D1531V6, multiclass
        clus
vv       IL18R1 MUTATED IL18R1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              3               36
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL18R1 MUTATED        2      2      1      8
  IL18R1 WILD-TYPE     98     70     71    113
D1531V7, multiclass
        clus
vv       IL18R1 MUTATED IL18R1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL18R1 MUTATED        0      1      3      6      3
  IL18R1 WILD-TYPE     59     74     71    113     35
D1531V8, multiclass
        clus
vv       IL18R1 MUTATED IL18R1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              6              113
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL18R1 MUTATED        0      1      1      3      8
  IL18R1 WILD-TYPE     51     75     60     68     87
D1531V9, multiclass
        clus
vv       IL18R1 MUTATED IL18R1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL18R1 MUTATED        2      1      0      0      0      1      2      3
  IL18R1 WILD-TYPE     67     47     39     16     53     19     19     35
                  vv
clus               CLUS_9
  IL18R1 MUTATED        4
  IL18R1 WILD-TYPE     46
D1531V10, multiclass
        clus
vv       IL18R1 MUTATED IL18R1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              2               19
  CLUS_8              3               35
  CLUS_9              4               46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL18R1 MUTATED        1      0      0      0      0      0
  IL18R1 WILD-TYPE     12     16     14     11     11      9
D1531V11, multiclass
[1] "Remove cluster labels:" "IL18R1 MUTATED"        
clus
  IL18R1 MUTATED IL18R1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6309       TCGA-G4-6625 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-G4-6628 
"IL18R1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IL18R1 MUTATED        0      0      0      1      0      0      0      0
  IL18R1 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  IL18R1 MUTATED        0
  IL18R1 WILD-TYPE      5
D1531V12, multiclass
[1] "Remove cluster labels:" "IL18R1 MUTATED"        
clus
  IL18R1 MUTATED IL18R1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6309       TCGA-G4-6625 
"IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" "IL18R1 WILD-TYPE" 
      TCGA-G4-6628 
"IL18R1 WILD-TYPE" 

Clustering(1532) Variable = TOX MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOX MUTATED        5      0      1      2      0
  TOX WILD-TYPE     27     18     45     25     23
D1532V1, multiclass
        clus
vv       TOX MUTATED TOX WILD-TYPE
  CLUS_1           5            27
  CLUS_2           0            18
  CLUS_3           1            45
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TOX MUTATED        5      2      1
  TOX WILD-TYPE     38     65     35
D1532V2, multiclass
        clus
vv       TOX MUTATED TOX WILD-TYPE
  CLUS_1           5            38
  CLUS_2           2            65
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TOX MUTATED        2      1     12
  TOX WILD-TYPE     40    172    135
D1532V3, multiclass
        clus
vv       TOX MUTATED TOX WILD-TYPE
  CLUS_1           2            40
  CLUS_2           1           172
  CLUS_3          12           135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TOX MUTATED        3      2      2
  TOX WILD-TYPE     59     71     73
D1532V4, multiclass
        clus
vv       TOX MUTATED TOX WILD-TYPE
  CLUS_1           3            59
  CLUS_2           2            71
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TOX MUTATED        2      4      7
  TOX WILD-TYPE     68    116     93
D1532V5, multiclass
        clus
vv       TOX MUTATED TOX WILD-TYPE
  CLUS_1           2            68
  CLUS_2           4           116
  CLUS_3           7            93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TOX MUTATED        1      1      1      0      3      7      0      0      0
  TOX WILD-TYPE     40     25     29     29     36     62     20     14     22
D1532V6, multiclass
        clus
vv       TOX MUTATED TOX WILD-TYPE
  CLUS_1           1            40
  CLUS_2           1            25
  CLUS_3           1            29
  CLUS_4           0            29
  CLUS_5           3            36
  CLUS_6           7            62
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TOX MUTATED        2      3      1      9
  TOX WILD-TYPE     98     69     71    112
D1532V7, multiclass
        clus
vv       TOX MUTATED TOX WILD-TYPE
  CLUS_1           2            98
  CLUS_2           3            69
  CLUS_3           1            71
  CLUS_4           9           112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOX MUTATED        0      4      2      4      5
  TOX WILD-TYPE     59     71     72    115     33
D1532V8, multiclass
        clus
vv       TOX MUTATED TOX WILD-TYPE
  CLUS_1           0            59
  CLUS_2           4            71
  CLUS_3           2            72
  CLUS_4           4           115
  CLUS_5           5            33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOX MUTATED        0      3      0      3      8
  TOX WILD-TYPE     51     73     61     68     87
D1532V9, multiclass
        clus
vv       TOX MUTATED TOX WILD-TYPE
  CLUS_1           0            51
  CLUS_2           3            73
  CLUS_3           0            61
  CLUS_4           3            68
  CLUS_5           8            87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TOX MUTATED        1      1      0      1      2      1      0      5      3
  TOX WILD-TYPE     68     47     39     15     51     19     21     33     47
D1532V10, multiclass
        clus
vv       TOX MUTATED TOX WILD-TYPE
  CLUS_1           1            68
  CLUS_2           1            47
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           2            51
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           5            33
  CLUS_9           3            47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TOX MUTATED        1      0      0      0      1      0
  TOX WILD-TYPE     12     16     14     11     10      9
D1532V11, multiclass
[1] "Remove cluster labels:" "TOX MUTATED"           
clus
  TOX MUTATED TOX WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-F4-6459    TCGA-F4-6460    TCGA-F4-6569 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"TOX WILD-TYPE" "TOX WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TOX MUTATED        0      0      0      1      0      0      1      0      0
  TOX WILD-TYPE     11      7      7      8      8      7     10      9      5
D1532V12, multiclass
[1] "Remove cluster labels:" "TOX MUTATED"           
clus
  TOX MUTATED TOX WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-F4-6459    TCGA-F4-6460    TCGA-F4-6569 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" "TOX WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"TOX WILD-TYPE" "TOX WILD-TYPE" 

Clustering(1533) Variable = ROCK1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ROCK1 MUTATED        3      1      1      2      0
  ROCK1 WILD-TYPE     29     17     45     25     23
D1533V1, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ROCK1 MUTATED        5      2      0
  ROCK1 WILD-TYPE     38     65     36
D1533V2, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ROCK1 MUTATED        1      1     15
  ROCK1 WILD-TYPE     41    172    132
D1533V3, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ROCK1 MUTATED        5      0      5
  ROCK1 WILD-TYPE     57     73     70
D1533V4, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ROCK1 MUTATED        2      6      6
  ROCK1 WILD-TYPE     68    114     94
D1533V5, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ROCK1 MUTATED        1      2      1      3      1      4      2      0
  ROCK1 WILD-TYPE     40     24     29     26     38     65     18     14
                 vv
clus              CLUS_9
  ROCK1 MUTATED        0
  ROCK1 WILD-TYPE     22
D1533V6, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ROCK1 MUTATED        0      5      5      7
  ROCK1 WILD-TYPE    100     67     67    114
D1533V7, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             5              67
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ROCK1 MUTATED        1      1      8      3      4
  ROCK1 WILD-TYPE     58     74     66    116     34
D1533V8, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ROCK1 MUTATED        0      8      1      0      8
  ROCK1 WILD-TYPE     51     68     60     71     87
D1533V9, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             8              68
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             8              87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ROCK1 MUTATED        1      4      0      4      0      2      0      5
  ROCK1 WILD-TYPE     68     44     39     12     53     18     21     33
                 vv
clus              CLUS_9
  ROCK1 MUTATED        1
  ROCK1 WILD-TYPE     49
D1533V10, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             5              33
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ROCK1 MUTATED        0      0      1      0      4      0
  ROCK1 WILD-TYPE     13     16     13     11      7      9
D1533V11, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ROCK1 MUTATED        0      0      0      2      1      0      2      0
  ROCK1 WILD-TYPE     11      7      7      7      7      7      9      9
                 vv
clus              CLUS_9
  ROCK1 MUTATED        0
  ROCK1 WILD-TYPE      5
D1533V12, multiclass
        clus
vv       ROCK1 MUTATED ROCK1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1534) Variable = CCDC158 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC158 MUTATED        3      0      0      2      0
  CCDC158 WILD-TYPE     29     18     46     25     23
D1534V1, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC158 MUTATED        3      1      1
  CCDC158 WILD-TYPE     40     66     35
D1534V2, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC158 MUTATED        0      1     15
  CCDC158 WILD-TYPE     42    172    132
D1534V3, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3              15               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC158 MUTATED        7      0      4
  CCDC158 WILD-TYPE     55     73     71
D1534V4, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               7                55
  CLUS_2               0                73
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC158 MUTATED        1      5      8
  CCDC158 WILD-TYPE     69    115     92
D1534V5, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               115
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC158 MUTATED        1      2      1      1      1      6      1      1
  CCDC158 WILD-TYPE     40     24     29     28     38     63     19     13
                   vv
clus                CLUS_9
  CCDC158 MUTATED        0
  CCDC158 WILD-TYPE     22
D1534V6, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               2                24
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               6                63
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC158 MUTATED        0      6      3      7
  CCDC158 WILD-TYPE    100     66     69    114
D1534V7, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               6                66
  CLUS_3               3                69
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC158 MUTATED        2      1      6      4      3
  CCDC158 WILD-TYPE     57     74     68    115     35
D1534V8, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               1                74
  CLUS_3               6                68
  CLUS_4               4               115
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC158 MUTATED        1      5      3      1      6
  CCDC158 WILD-TYPE     50     71     58     70     89
D1534V9, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               5                71
  CLUS_3               3                58
  CLUS_4               1                70
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC158 MUTATED        1      4      0      3      2      1      0      3
  CCDC158 WILD-TYPE     68     44     39     13     51     19     21     35
                   vv
clus                CLUS_9
  CCDC158 MUTATED        2
  CCDC158 WILD-TYPE     48
D1534V10, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC158 MUTATED        0      1      1      0      2      0
  CCDC158 WILD-TYPE     13     15     13     11      9      9
D1534V11, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC158 MUTATED        0      1      0      1      1      0      1      0
  CCDC158 WILD-TYPE     11      6      7      8      7      7     10      9
                   vv
clus                CLUS_9
  CCDC158 MUTATED        0
  CCDC158 WILD-TYPE      5
D1534V12, multiclass
        clus
vv       CCDC158 MUTATED CCDC158 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1535) Variable = XPO4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XPO4 MUTATED        2      0      0      1      0
  XPO4 WILD-TYPE     30     18     46     26     23
D1535V1, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  XPO4 MUTATED        1      1      1
  XPO4 WILD-TYPE     42     66     35
D1535V2, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  XPO4 MUTATED        1      3     14
  XPO4 WILD-TYPE     41    170    133
D1535V3, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3           14            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  XPO4 MUTATED        5      1      8
  XPO4 WILD-TYPE     57     72     67
D1535V4, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  XPO4 MUTATED        2      5      5
  XPO4 WILD-TYPE     68    115     95
D1535V5, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  XPO4 MUTATED        2      3      1      2      0      2      1      1      0
  XPO4 WILD-TYPE     39     23     29     27     39     67     19     13     22
D1535V6, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            3             23
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XPO4 MUTATED        3      6      5      4
  XPO4 WILD-TYPE     97     66     67    117
D1535V7, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            6             66
  CLUS_3            5             67
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XPO4 MUTATED        2      4      8      3      1
  XPO4 WILD-TYPE     57     71     66    116     37
D1535V8, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            4             71
  CLUS_3            8             66
  CLUS_4            3            116
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XPO4 MUTATED        2      7      4      1      4
  XPO4 WILD-TYPE     49     69     57     70     91
D1535V9, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            7             69
  CLUS_3            4             57
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  XPO4 MUTATED        2      5      1      2      3      2      1      1      1
  XPO4 WILD-TYPE     67     43     38     14     50     18     20     37     49
D1535V10, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XPO4 MUTATED        0      0      0      1      2      1
  XPO4 WILD-TYPE     13     16     14     10      9      8
D1535V11, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  XPO4 MUTATED        0      0      1      1      0      1      1      0      0
  XPO4 WILD-TYPE     11      7      6      8      8      6     10      9      5
D1535V12, multiclass
        clus
vv       XPO4 MUTATED XPO4 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1536) Variable = ULK2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ULK2 MUTATED        1      0      0      1      0
  ULK2 WILD-TYPE     31     18     46     26     23
D1536V1, multiclass
[1] "Remove cluster labels:" "ULK2 MUTATED"          
clus
  ULK2 MUTATED ULK2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3837 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ULK2 MUTATED        2      0      0
  ULK2 WILD-TYPE     41     67     36
D1536V2, multiclass
[1] "Remove cluster labels:" "ULK2 MUTATED"          
clus
  ULK2 MUTATED ULK2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3837 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O     TCGA-AA-A00Q 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ULK2 MUTATED        1      0     11
  ULK2 WILD-TYPE     41    173    136
D1536V3, multiclass
        clus
vv       ULK2 MUTATED ULK2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ULK2 MUTATED        4      0      5
  ULK2 WILD-TYPE     58     73     70
D1536V4, multiclass
        clus
vv       ULK2 MUTATED ULK2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ULK2 MUTATED        1      3      7
  ULK2 WILD-TYPE     69    117     93
D1536V5, multiclass
        clus
vv       ULK2 MUTATED ULK2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ULK2 MUTATED        0      0      1      2      1      7      0      0      0
  ULK2 WILD-TYPE     41     26     29     27     38     62     20     14     22
D1536V6, multiclass
        clus
vv       ULK2 MUTATED ULK2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            7             62
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ULK2 MUTATED        0      6      3      3
  ULK2 WILD-TYPE    100     66     69    118
D1536V7, multiclass
        clus
vv       ULK2 MUTATED ULK2 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            6             66
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ULK2 MUTATED        0      1      8      0      3
  ULK2 WILD-TYPE     59     74     66    119     35
D1536V8, multiclass
        clus
vv       ULK2 MUTATED ULK2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            8             66
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ULK2 MUTATED        0      6      2      0      3
  ULK2 WILD-TYPE     51     70     59     71     92
D1536V9, multiclass
        clus
vv       ULK2 MUTATED ULK2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ULK2 MUTATED        0      4      0      3      0      0      1      2      1
  ULK2 WILD-TYPE     69     44     39     13     53     20     20     36     49
D1536V10, multiclass
        clus
vv       ULK2 MUTATED ULK2 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ULK2 MUTATED        0      0      0      0      2      0
  ULK2 WILD-TYPE     13     16     14     11      9      9
D1536V11, multiclass
[1] "Remove cluster labels:" "ULK2 MUTATED"          
clus
  ULK2 MUTATED ULK2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ULK2 MUTATED        0      0      0      1      0      0      1      0      0
  ULK2 WILD-TYPE     11      7      7      8      8      7     10      9      5
D1536V12, multiclass
[1] "Remove cluster labels:" "ULK2 MUTATED"          
clus
  ULK2 MUTATED ULK2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" "ULK2 WILD-TYPE" 

Clustering(1537) Variable = TMEM62 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM62 MUTATED        1      0      0      1      0
  TMEM62 WILD-TYPE     31     18     46     26     23
D1537V1, multiclass
[1] "Remove cluster labels:" "TMEM62 MUTATED"        
clus
  TMEM62 MUTATED TMEM62 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM62 MUTATED        1      0      1
  TMEM62 WILD-TYPE     42     67     35
D1537V2, multiclass
[1] "Remove cluster labels:" "TMEM62 MUTATED"        
clus
  TMEM62 MUTATED TMEM62 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3866 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM62 MUTATED        0      1      5
  TMEM62 WILD-TYPE     42    172    142
D1537V3, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM62 MUTATED        1      2      1
  TMEM62 WILD-TYPE     61     71     74
D1537V4, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM62 MUTATED        0      3      1
  TMEM62 WILD-TYPE     70    117     99
D1537V5, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM62 MUTATED        1      0      1      1      1      0      0      0
  TMEM62 WILD-TYPE     40     26     29     28     38     69     20     14
                  vv
clus               CLUS_9
  TMEM62 MUTATED        0
  TMEM62 WILD-TYPE     22
D1537V6, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              0               69
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM62 MUTATED        2      1      1      2
  TMEM62 WILD-TYPE     98     71     71    119
D1537V7, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM62 MUTATED        1      2      1      1      1
  TMEM62 WILD-TYPE     58     73     73    118     37
D1537V8, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM62 MUTATED        0      1      1      3      1
  TMEM62 WILD-TYPE     51     75     60     68     94
D1537V9, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM62 MUTATED        2      1      0      0      1      1      0      1
  TMEM62 WILD-TYPE     67     47     39     16     52     19     21     37
                  vv
clus               CLUS_9
  TMEM62 MUTATED        0
  TMEM62 WILD-TYPE     50
D1537V10, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM62 MUTATED        0      0      0      0      0      0
  TMEM62 WILD-TYPE     13     16     14     11     11      9
D1537V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM62 MUTATED        0      0      0      0      0      0      0      0
  TMEM62 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  TMEM62 MUTATED        0
  TMEM62 WILD-TYPE      5
D1537V12, multiclass

Clustering(1538) Variable = ATR MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATR MUTATED        5      0      1      3      0
  ATR WILD-TYPE     27     18     45     24     23
D1538V1, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           5            27
  CLUS_2           0            18
  CLUS_3           1            45
  CLUS_4           3            24
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATR MUTATED        5      3      1
  ATR WILD-TYPE     38     64     35
D1538V2, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           5            38
  CLUS_2           3            64
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATR MUTATED        2      9     17
  ATR WILD-TYPE     40    164    130
D1538V3, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           2            40
  CLUS_2           9           164
  CLUS_3          17           130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATR MUTATED        5      7      7
  ATR WILD-TYPE     57     66     68
D1538V4, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           5            57
  CLUS_2           7            66
  CLUS_3           7            68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATR MUTATED        3     12      8
  ATR WILD-TYPE     67    108     92
D1538V5, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           3            67
  CLUS_2          12           108
  CLUS_3           8            92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATR MUTATED        2      1      2      3      5      5      2      0      3
  ATR WILD-TYPE     39     25     28     26     34     64     18     14     19
D1538V6, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           2            39
  CLUS_2           1            25
  CLUS_3           2            28
  CLUS_4           3            26
  CLUS_5           5            34
  CLUS_6           5            64
  CLUS_7           2            18
  CLUS_8           0            14
  CLUS_9           3            19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATR MUTATED        5      8      6      9
  ATR WILD-TYPE     95     64     66    112
D1538V7, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           5            95
  CLUS_2           8            64
  CLUS_3           6            66
  CLUS_4           9           112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATR MUTATED        3      7      9      3      6
  ATR WILD-TYPE     56     68     65    116     32
D1538V8, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           3            56
  CLUS_2           7            68
  CLUS_3           9            65
  CLUS_4           3           116
  CLUS_5           6            32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATR MUTATED        4     10      2      4      8
  ATR WILD-TYPE     47     66     59     67     87
D1538V9, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           4            47
  CLUS_2          10            66
  CLUS_3           2            59
  CLUS_4           4            67
  CLUS_5           8            87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATR MUTATED        7      4      1      1      6      4      0      5      0
  ATR WILD-TYPE     62     44     38     15     47     16     21     33     50
D1538V10, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           7            62
  CLUS_2           4            44
  CLUS_3           1            38
  CLUS_4           1            15
  CLUS_5           6            47
  CLUS_6           4            16
  CLUS_7           0            21
  CLUS_8           5            33
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATR MUTATED        1      0      0      1      1      0
  ATR WILD-TYPE     12     16     14     10     10      9
D1538V11, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           1            12
  CLUS_2           0            16
  CLUS_3           0            14
  CLUS_4           1            10
  CLUS_5           1            10
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ATR MUTATED        0      0      0      0      0      0      2      0      1
  ATR WILD-TYPE     11      7      7      9      8      7      9      9      4
D1538V12, multiclass
        clus
vv       ATR MUTATED ATR WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           0             9
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           2             9
  CLUS_8           0             9
  CLUS_9           1             4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1539) Variable = FABP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FABP2 MUTATED        1      0      0      0      0
  FABP2 WILD-TYPE     31     18     46     27     23
D1539V1, multiclass
[1] "Remove cluster labels:" "FABP2 MUTATED"         
clus
  FABP2 MUTATED FABP2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AY-4071 
"FABP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FABP2 MUTATED        1      0      0
  FABP2 WILD-TYPE     42     67     36
D1539V2, multiclass
[1] "Remove cluster labels:" "FABP2 MUTATED"         
clus
  FABP2 MUTATED FABP2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" "FABP2 WILD-TYPE" 
     TCGA-AY-4071 
"FABP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FABP2 MUTATED        1      2      4
  FABP2 WILD-TYPE     41    171    143
D1539V3, multiclass
        clus
vv       FABP2 MUTATED FABP2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FABP2 MUTATED        1      2      3
  FABP2 WILD-TYPE     61     71     72
D1539V4, multiclass
        clus
vv       FABP2 MUTATED FABP2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FABP2 MUTATED        0      4      2
  FABP2 WILD-TYPE     70    116     98
D1539V5, multiclass
        clus
vv       FABP2 MUTATED FABP2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FABP2 MUTATED        1      0      0      0      0      1      1      2
  FABP2 WILD-TYPE     40     26     30     29     39     68     19     12
                 vv
clus              CLUS_9
  FABP2 MUTATED        1
  FABP2 WILD-TYPE     21
D1539V6, multiclass
        clus
vv       FABP2 MUTATED FABP2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FABP2 MUTATED        2      3      1      1
  FABP2 WILD-TYPE     98     69     71    120
D1539V7, multiclass
        clus
vv       FABP2 MUTATED FABP2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FABP2 MUTATED        1      2      3      0      1
  FABP2 WILD-TYPE     58     73     71    119     37
D1539V8, multiclass
        clus
vv       FABP2 MUTATED FABP2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FABP2 MUTATED        3      2      0      1      1
  FABP2 WILD-TYPE     48     74     61     70     94
D1539V9, multiclass
        clus
vv       FABP2 MUTATED FABP2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FABP2 MUTATED        1      0      1      2      1      1      0      1
  FABP2 WILD-TYPE     68     48     38     14     52     19     21     37
                 vv
clus              CLUS_9
  FABP2 MUTATED        0
  FABP2 WILD-TYPE     50
D1539V10, multiclass
        clus
vv       FABP2 MUTATED FABP2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FABP2 MUTATED        1      0      1      0      1      0
  FABP2 WILD-TYPE     12     16     13     11     10      9
D1539V11, multiclass
        clus
vv       FABP2 MUTATED FABP2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FABP2 MUTATED        1      0      0      2      0      0      0      0
  FABP2 WILD-TYPE     10      7      7      7      8      7     11      9
                 vv
clus              CLUS_9
  FABP2 MUTATED        0
  FABP2 WILD-TYPE      5
D1539V12, multiclass
        clus
vv       FABP2 MUTATED FABP2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1540) Variable = CTNND1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNND1 MUTATED        1      0      0      1      0
  CTNND1 WILD-TYPE     31     18     46     26     23
D1540V1, multiclass
[1] "Remove cluster labels:" "CTNND1 MUTATED"        
clus
  CTNND1 MUTATED CTNND1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNND1 MUTATED        0      1      1
  CTNND1 WILD-TYPE     43     66     35
D1540V2, multiclass
[1] "Remove cluster labels:" "CTNND1 MUTATED"        
clus
  CTNND1 MUTATED CTNND1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" "CTNND1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNND1 MUTATED        2      1     15
  CTNND1 WILD-TYPE     40    172    132
D1540V3, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1              172
  CLUS_3             15              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNND1 MUTATED        7      3      6
  CTNND1 WILD-TYPE     55     70     69
D1540V4, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              3               70
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNND1 MUTATED        2      5      8
  CTNND1 WILD-TYPE     68    115     92
D1540V5, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTNND1 MUTATED        1      0      1      4      2      6      1      0
  CTNND1 WILD-TYPE     40     26     29     25     37     63     19     14
                  vv
clus               CLUS_9
  CTNND1 MUTATED        0
  CTNND1 WILD-TYPE     22
D1540V6, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              4               25
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNND1 MUTATED        2      9      5      2
  CTNND1 WILD-TYPE     98     63     67    119
D1540V7, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              9               63
  CLUS_3              5               67
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNND1 MUTATED        1      4     11      2      0
  CTNND1 WILD-TYPE     58     71     63    117     38
D1540V8, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3             11               63
  CLUS_4              2              117
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNND1 MUTATED        1     10      3      2      2
  CTNND1 WILD-TYPE     50     66     58     69     93
D1540V9, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2             10               66
  CLUS_3              3               58
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTNND1 MUTATED        6      4      0      4      2      1      0      0
  CTNND1 WILD-TYPE     63     44     39     12     51     19     21     38
                  vv
clus               CLUS_9
  CTNND1 MUTATED        1
  CTNND1 WILD-TYPE     49
D1540V10, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              4               12
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTNND1 MUTATED        0      0      0      0      3      1
  CTNND1 WILD-TYPE     13     16     14     11      8      8
D1540V11, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTNND1 MUTATED        0      0      0      1      0      1      1      1
  CTNND1 WILD-TYPE     11      7      7      8      8      6     10      8
                  vv
clus               CLUS_9
  CTNND1 MUTATED        0
  CTNND1 WILD-TYPE      5
D1540V12, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1541) Variable = NEDD9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEDD9 MUTATED        4      0      0      1      0
  NEDD9 WILD-TYPE     28     18     46     26     23
D1541V1, multiclass
        clus
vv       NEDD9 MUTATED NEDD9 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NEDD9 MUTATED        4      1      0
  NEDD9 WILD-TYPE     39     66     36
D1541V2, multiclass
        clus
vv       NEDD9 MUTATED NEDD9 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NEDD9 MUTATED        0      0     12
  NEDD9 WILD-TYPE     42    173    135
D1541V3, multiclass
        clus
vv       NEDD9 MUTATED NEDD9 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NEDD9 MUTATED        2      0      5
  NEDD9 WILD-TYPE     60     73     70
D1541V4, multiclass
        clus
vv       NEDD9 MUTATED NEDD9 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NEDD9 MUTATED        0      4      5
  NEDD9 WILD-TYPE     70    116     95
D1541V5, multiclass
        clus
vv       NEDD9 MUTATED NEDD9 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NEDD9 MUTATED        0      0      1      2      1      5      0      0
  NEDD9 WILD-TYPE     41     26     29     27     38     64     20     14
                 vv
clus              CLUS_9
  NEDD9 MUTATED        0
  NEDD9 WILD-TYPE     22
D1541V6, multiclass
        clus
vv       NEDD9 MUTATED NEDD9 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEDD9 MUTATED        0      6      1      5
  NEDD9 WILD-TYPE    100     66     71    116
D1541V7, multiclass
        clus
vv       NEDD9 MUTATED NEDD9 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             1              71
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEDD9 MUTATED        1      1      5      1      4
  NEDD9 WILD-TYPE     58     74     69    118     34
D1541V8, multiclass
        clus
vv       NEDD9 MUTATED NEDD9 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEDD9 MUTATED        0      5      1      0      6
  NEDD9 WILD-TYPE     51     71     60     71     89
D1541V9, multiclass
        clus
vv       NEDD9 MUTATED NEDD9 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NEDD9 MUTATED        2      1      0      3      0      2      2      1
  NEDD9 WILD-TYPE     67     47     39     13     53     18     19     37
                 vv
clus              CLUS_9
  NEDD9 MUTATED        1
  NEDD9 WILD-TYPE     49
D1541V10, multiclass
        clus
vv       NEDD9 MUTATED NEDD9 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NEDD9 MUTATED        0      1      0      0      0      0
  NEDD9 WILD-TYPE     13     15     14     11     11      9
D1541V11, multiclass
[1] "Remove cluster labels:" "NEDD9 MUTATED"         
clus
  NEDD9 MUTATED NEDD9 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-G4-6628 
"NEDD9 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NEDD9 MUTATED        0      1      0      0      0      0      0      0
  NEDD9 WILD-TYPE     11      6      7      9      8      7     11      9
                 vv
clus              CLUS_9
  NEDD9 MUTATED        0
  NEDD9 WILD-TYPE      5
D1541V12, multiclass
[1] "Remove cluster labels:" "NEDD9 MUTATED"         
clus
  NEDD9 MUTATED NEDD9 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" "NEDD9 WILD-TYPE" 
     TCGA-G4-6628 
"NEDD9 WILD-TYPE" 

Clustering(1542) Variable = HCFC1R1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HCFC1R1 MUTATED        1      0      0      0      0
  HCFC1R1 WILD-TYPE     31     18     46     27     23
D1542V1, multiclass
[1] "Remove cluster labels:" "HCFC1R1 MUTATED"       
clus
  HCFC1R1 MUTATED HCFC1R1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3846 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AY-4071 
"HCFC1R1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HCFC1R1 MUTATED        1      0      0
  HCFC1R1 WILD-TYPE     42     67     36
D1542V2, multiclass
[1] "Remove cluster labels:" "HCFC1R1 MUTATED"       
clus
  HCFC1R1 MUTATED HCFC1R1 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3846 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AY-4071 
"HCFC1R1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HCFC1R1 MUTATED        0      1      4
  HCFC1R1 WILD-TYPE     42    172    143
D1542V3, multiclass
        clus
vv       HCFC1R1 MUTATED HCFC1R1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HCFC1R1 MUTATED        1      1      2
  HCFC1R1 WILD-TYPE     61     72     73
D1542V4, multiclass
        clus
vv       HCFC1R1 MUTATED HCFC1R1 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HCFC1R1 MUTATED        0      2      3
  HCFC1R1 WILD-TYPE     70    118     97
D1542V5, multiclass
        clus
vv       HCFC1R1 MUTATED HCFC1R1 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HCFC1R1 MUTATED        0      0      0      2      1      2      0      0
  HCFC1R1 WILD-TYPE     41     26     30     27     38     67     20     14
                   vv
clus                CLUS_9
  HCFC1R1 MUTATED        0
  HCFC1R1 WILD-TYPE     22
D1542V6, multiclass
        clus
vv       HCFC1R1 MUTATED HCFC1R1 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HCFC1R1 MUTATED        1      2      1      1
  HCFC1R1 WILD-TYPE     99     70     71    120
D1542V7, multiclass
        clus
vv       HCFC1R1 MUTATED HCFC1R1 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               2                70
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HCFC1R1 MUTATED        0      1      3      0      1
  HCFC1R1 WILD-TYPE     59     74     71    119     37
D1542V8, multiclass
        clus
vv       HCFC1R1 MUTATED HCFC1R1 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HCFC1R1 MUTATED        0      3      0      1      1
  HCFC1R1 WILD-TYPE     51     73     61     70     94
D1542V9, multiclass
        clus
vv       HCFC1R1 MUTATED HCFC1R1 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HCFC1R1 MUTATED        4      0      0      0      1      0      0      0
  HCFC1R1 WILD-TYPE     65     48     39     16     52     20     21     38
                   vv
clus                CLUS_9
  HCFC1R1 MUTATED        0
  HCFC1R1 WILD-TYPE     50
D1542V10, multiclass
        clus
vv       HCFC1R1 MUTATED HCFC1R1 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HCFC1R1 MUTATED        0      0      0      0      1      1
  HCFC1R1 WILD-TYPE     13     16     14     11     10      8
D1542V11, multiclass
[1] "Remove cluster labels:" "HCFC1R1 MUTATED"       
clus
  HCFC1R1 MUTATED HCFC1R1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D8        TCGA-DM-A1D9 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HCFC1R1 MUTATED        0      0      0      0      0      1      0      1
  HCFC1R1 WILD-TYPE     11      7      7      9      8      6     11      8
                   vv
clus                CLUS_9
  HCFC1R1 MUTATED        0
  HCFC1R1 WILD-TYPE      5
D1542V12, multiclass
[1] "Remove cluster labels:" "HCFC1R1 MUTATED"       
clus
  HCFC1R1 MUTATED HCFC1R1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D8        TCGA-DM-A1D9 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" "HCFC1R1 WILD-TYPE" 

Clustering(1543) Variable = PRKCQ MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCQ MUTATED        3      0      0      1      0
  PRKCQ WILD-TYPE     29     18     46     26     23
D1543V1, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCQ MUTATED        4      0      0
  PRKCQ WILD-TYPE     39     67     36
D1543V2, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCQ MUTATED        2      4      9
  PRKCQ WILD-TYPE     40    169    138
D1543V3, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4             169
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCQ MUTATED        6      3      2
  PRKCQ WILD-TYPE     56     70     73
D1543V4, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             6              56
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKCQ MUTATED        0      5      7
  PRKCQ WILD-TYPE     70    115     93
D1543V5, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCQ MUTATED        3      1      2      0      1      4      0      0
  PRKCQ WILD-TYPE     38     25     28     29     38     65     20     14
                 vv
clus              CLUS_9
  PRKCQ MUTATED        1
  PRKCQ WILD-TYPE     21
D1543V6, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRKCQ MUTATED        5      2      4      4
  PRKCQ WILD-TYPE     95     70     68    117
D1543V7, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             5              95
  CLUS_2             2              70
  CLUS_3             4              68
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCQ MUTATED        2      5      4      0      4
  PRKCQ WILD-TYPE     57     70     70    119     34
D1543V8, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             2              57
  CLUS_2             5              70
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKCQ MUTATED        2      5      4      0      2
  PRKCQ WILD-TYPE     49     71     57     71     93
D1543V9, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             4              57
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCQ MUTATED        2      5      1      0      2      1      1      1
  PRKCQ WILD-TYPE     67     43     38     16     51     19     20     37
                 vv
clus              CLUS_9
  PRKCQ MUTATED        0
  PRKCQ WILD-TYPE     50
D1543V10, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             2              67
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRKCQ MUTATED        0      1      1      0      0      1
  PRKCQ WILD-TYPE     13     15     13     11     11      8
D1543V11, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKCQ MUTATED        1      0      0      0      0      2      0      0
  PRKCQ WILD-TYPE     10      7      7      9      8      5     11      9
                 vv
clus              CLUS_9
  PRKCQ MUTATED        0
  PRKCQ WILD-TYPE      5
D1543V12, multiclass
        clus
vv       PRKCQ MUTATED PRKCQ WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             2               5
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1544) Variable = CAMK1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAMK1 MUTATED        1      0      0      1      0
  CAMK1 WILD-TYPE     31     18     46     26     23
D1544V1, multiclass
[1] "Remove cluster labels:" "CAMK1 MUTATED"         
clus
  CAMK1 MUTATED CAMK1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CAMK1 MUTATED        2      0      0
  CAMK1 WILD-TYPE     41     67     36
D1544V2, multiclass
[1] "Remove cluster labels:" "CAMK1 MUTATED"         
clus
  CAMK1 MUTATED CAMK1 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CAMK1 MUTATED        0      1      6
  CAMK1 WILD-TYPE     42    172    141
D1544V3, multiclass
        clus
vv       CAMK1 MUTATED CAMK1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CAMK1 MUTATED        2      1      2
  CAMK1 WILD-TYPE     60     72     73
D1544V4, multiclass
        clus
vv       CAMK1 MUTATED CAMK1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CAMK1 MUTATED        1      2      4
  CAMK1 WILD-TYPE     69    118     96
D1544V5, multiclass
        clus
vv       CAMK1 MUTATED CAMK1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAMK1 MUTATED        0      1      0      1      0      3      1      1
  CAMK1 WILD-TYPE     41     25     30     28     39     66     19     13
                 vv
clus              CLUS_9
  CAMK1 MUTATED        0
  CAMK1 WILD-TYPE     22
D1544V6, multiclass
        clus
vv       CAMK1 MUTATED CAMK1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CAMK1 MUTATED        1      3      1      2
  CAMK1 WILD-TYPE     99     69     71    119
D1544V7, multiclass
        clus
vv       CAMK1 MUTATED CAMK1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAMK1 MUTATED        0      2      3      0      2
  CAMK1 WILD-TYPE     59     73     71    119     36
D1544V8, multiclass
        clus
vv       CAMK1 MUTATED CAMK1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAMK1 MUTATED        0      5      0      0      1
  CAMK1 WILD-TYPE     51     71     61     71     94
D1544V9, multiclass
        clus
vv       CAMK1 MUTATED CAMK1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAMK1 MUTATED        1      1      1      1      0      1      0      1
  CAMK1 WILD-TYPE     68     47     38     15     53     19     21     37
                 vv
clus              CLUS_9
  CAMK1 MUTATED        0
  CAMK1 WILD-TYPE     50
D1544V10, multiclass
        clus
vv       CAMK1 MUTATED CAMK1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CAMK1 MUTATED        0      0      0      0      2      0
  CAMK1 WILD-TYPE     13     16     14     11      9      9
D1544V11, multiclass
[1] "Remove cluster labels:" "CAMK1 MUTATED"         
clus
  CAMK1 MUTATED CAMK1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAMK1 MUTATED        0      0      0      1      0      0      1      0
  CAMK1 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  CAMK1 MUTATED        0
  CAMK1 WILD-TYPE      5
D1544V12, multiclass
[1] "Remove cluster labels:" "CAMK1 MUTATED"         
clus
  CAMK1 MUTATED CAMK1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" "CAMK1 WILD-TYPE" 

Clustering(1545) Variable = VCX3A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VCX3A MUTATED        0      0      0      0      0
  VCX3A WILD-TYPE     32     18     46     27     23
D1545V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VCX3A MUTATED        0      0      0
  VCX3A WILD-TYPE     43     67     36
D1545V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VCX3A MUTATED        0      4      1
  VCX3A WILD-TYPE     42    169    146
D1545V3, multiclass
        clus
vv       VCX3A MUTATED VCX3A WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             1             146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VCX3A MUTATED        0      3      2
  VCX3A WILD-TYPE     62     70     73
D1545V4, multiclass
        clus
vv       VCX3A MUTATED VCX3A WILD-TYPE
  CLUS_1             0              62
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VCX3A MUTATED        2      0      1
  VCX3A WILD-TYPE     68    120     99
D1545V5, multiclass
        clus
vv       VCX3A MUTATED VCX3A WILD-TYPE
  CLUS_1             2              68
  CLUS_2             0             120
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VCX3A MUTATED        2      0      0      0      0      0      0      1
  VCX3A WILD-TYPE     39     26     30     29     39     69     20     13
                 vv
clus              CLUS_9
  VCX3A MUTATED        0
  VCX3A WILD-TYPE     22
D1545V6, multiclass
        clus
vv       VCX3A MUTATED VCX3A WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             0              69
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VCX3A MUTATED        1      1      1      2
  VCX3A WILD-TYPE     99     71     71    119
D1545V7, multiclass
        clus
vv       VCX3A MUTATED VCX3A WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VCX3A MUTATED        1      2      0      2      0
  VCX3A WILD-TYPE     58     73     74    117     38
D1545V8, multiclass
        clus
vv       VCX3A MUTATED VCX3A WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             0              74
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VCX3A MUTATED        2      1      1      0      1
  VCX3A WILD-TYPE     49     75     60     71     94
D1545V9, multiclass
        clus
vv       VCX3A MUTATED VCX3A WILD-TYPE
  CLUS_1             2              49
  CLUS_2             1              75
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VCX3A MUTATED        1      1      0      0      1      0      1      0
  VCX3A WILD-TYPE     68     47     39     16     52     20     20     38
                 vv
clus              CLUS_9
  VCX3A MUTATED        1
  VCX3A WILD-TYPE     49
D1545V10, multiclass
        clus
vv       VCX3A MUTATED VCX3A WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VCX3A MUTATED        0      0      0      1      0      0
  VCX3A WILD-TYPE     13     16     14     10     11      9
D1545V11, multiclass
[1] "Remove cluster labels:" "VCX3A MUTATED"         
clus
  VCX3A MUTATED VCX3A WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6924      TCGA-DM-A0XD 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-G4-6628 
"VCX3A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VCX3A MUTATED        0      0      1      0      0      0      0      0
  VCX3A WILD-TYPE     11      7      6      9      8      7     11      9
                 vv
clus              CLUS_9
  VCX3A MUTATED        0
  VCX3A WILD-TYPE      5
D1545V12, multiclass
[1] "Remove cluster labels:" "VCX3A MUTATED"         
clus
  VCX3A MUTATED VCX3A WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6924      TCGA-DM-A0XD 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" "VCX3A WILD-TYPE" 
     TCGA-G4-6628 
"VCX3A WILD-TYPE" 

Clustering(1546) Variable = ATAD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD1 MUTATED        1      0      0      0      0
  ATAD1 WILD-TYPE     31     18     46     27     23
D1546V1, multiclass
[1] "Remove cluster labels:" "ATAD1 MUTATED"         
clus
  ATAD1 MUTATED ATAD1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AY-4071 
"ATAD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD1 MUTATED        1      0      0
  ATAD1 WILD-TYPE     42     67     36
D1546V2, multiclass
[1] "Remove cluster labels:" "ATAD1 MUTATED"         
clus
  ATAD1 MUTATED ATAD1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AY-4071 
"ATAD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD1 MUTATED        0      1      7
  ATAD1 WILD-TYPE     42    172    140
D1546V3, multiclass
        clus
vv       ATAD1 MUTATED ATAD1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD1 MUTATED        4      1      2
  ATAD1 WILD-TYPE     58     72     73
D1546V4, multiclass
        clus
vv       ATAD1 MUTATED ATAD1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD1 MUTATED        0      2      5
  ATAD1 WILD-TYPE     70    118     95
D1546V5, multiclass
        clus
vv       ATAD1 MUTATED ATAD1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATAD1 MUTATED        0      1      0      0      1      5      0      0
  ATAD1 WILD-TYPE     41     25     30     29     38     64     20     14
                 vv
clus              CLUS_9
  ATAD1 MUTATED        0
  ATAD1 WILD-TYPE     22
D1546V6, multiclass
        clus
vv       ATAD1 MUTATED ATAD1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATAD1 MUTATED        1      3      3      1
  ATAD1 WILD-TYPE     99     69     69    120
D1546V7, multiclass
        clus
vv       ATAD1 MUTATED ATAD1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD1 MUTATED        1      2      4      0      1
  ATAD1 WILD-TYPE     58     73     70    119     37
D1546V8, multiclass
        clus
vv       ATAD1 MUTATED ATAD1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD1 MUTATED        0      3      2      1      2
  ATAD1 WILD-TYPE     51     73     59     70     93
D1546V9, multiclass
        clus
vv       ATAD1 MUTATED ATAD1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATAD1 MUTATED        1      3      0      1      1      0      0      1
  ATAD1 WILD-TYPE     68     45     39     15     52     20     21     37
                 vv
clus              CLUS_9
  ATAD1 MUTATED        1
  ATAD1 WILD-TYPE     49
D1546V10, multiclass
        clus
vv       ATAD1 MUTATED ATAD1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATAD1 MUTATED        1      0      0      0      1      0
  ATAD1 WILD-TYPE     12     16     14     11     10      9
D1546V11, multiclass
[1] "Remove cluster labels:" "ATAD1 MUTATED"         
clus
  ATAD1 MUTATED ATAD1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATAD1 MUTATED        0      0      0      1      0      0      1      0
  ATAD1 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  ATAD1 MUTATED        0
  ATAD1 WILD-TYPE      5
D1546V12, multiclass
[1] "Remove cluster labels:" "ATAD1 MUTATED"         
clus
  ATAD1 MUTATED ATAD1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" "ATAD1 WILD-TYPE" 

Clustering(1547) Variable = C6ORF150 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF150 MUTATED        1      0      0      2      0
  C6ORF150 WILD-TYPE     31     18     46     25     23
D1547V1, multiclass
        clus
vv       C6ORF150 MUTATED C6ORF150 WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF150 MUTATED        2      1      0
  C6ORF150 WILD-TYPE     41     66     36
D1547V2, multiclass
        clus
vv       C6ORF150 MUTATED C6ORF150 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF150 MUTATED        0      3      6
  C6ORF150 WILD-TYPE     42    170    141
D1547V3, multiclass
        clus
vv       C6ORF150 MUTATED C6ORF150 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3                6                141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF150 MUTATED        4      1      1
  C6ORF150 WILD-TYPE     58     72     74
D1547V4, multiclass
        clus
vv       C6ORF150 MUTATED C6ORF150 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                1                 72
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF150 MUTATED        1      4      4
  C6ORF150 WILD-TYPE     69    116     96
D1547V5, multiclass
        clus
vv       C6ORF150 MUTATED C6ORF150 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                4                116
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF150 MUTATED        0      1      1      0      1      3      1      0
  C6ORF150 WILD-TYPE     41     25     29     29     38     66     19     14
                    vv
clus                 CLUS_9
  C6ORF150 MUTATED        2
  C6ORF150 WILD-TYPE     20
D1547V6, multiclass
        clus
vv       C6ORF150 MUTATED C6ORF150 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                3                 66
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                2                 20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C6ORF150 MUTATED        0      0      5      4
  C6ORF150 WILD-TYPE    100     72     67    117
D1547V7, multiclass
        clus
vv       C6ORF150 MUTATED C6ORF150 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                0                 72
  CLUS_3                5                 67
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF150 MUTATED        1      2      2      3      1
  C6ORF150 WILD-TYPE     58     73     72    116     37
D1547V8, multiclass
        clus
vv       C6ORF150 MUTATED C6ORF150 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                2                 73
  CLUS_3                2                 72
  CLUS_4                3                116
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF150 MUTATED        2      3      0      0      3
  C6ORF150 WILD-TYPE     49     73     61     71     92
D1547V9, multiclass
        clus
vv       C6ORF150 MUTATED C6ORF150 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                3                 73
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF150 MUTATED        0      3      0      0      2      1      0      1
  C6ORF150 WILD-TYPE     69     45     39     16     51     19     21     37
                    vv
clus                 CLUS_9
  C6ORF150 MUTATED        1
  C6ORF150 WILD-TYPE     49
D1547V10, multiclass
        clus
vv       C6ORF150 MUTATED C6ORF150 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C6ORF150 MUTATED        0      0      0      0      1      0
  C6ORF150 WILD-TYPE     13     16     14     11     10      9
D1547V11, multiclass
[1] "Remove cluster labels:" "C6ORF150 MUTATED"      
clus
  C6ORF150 MUTATED C6ORF150 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6603 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-G4-6628 
"C6ORF150 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF150 MUTATED        0      0      0      0      0      0      1      0
  C6ORF150 WILD-TYPE     11      7      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  C6ORF150 MUTATED        0
  C6ORF150 WILD-TYPE      5
D1547V12, multiclass
[1] "Remove cluster labels:" "C6ORF150 MUTATED"      
clus
  C6ORF150 MUTATED C6ORF150 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6603 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" "C6ORF150 WILD-TYPE" 
        TCGA-G4-6628 
"C6ORF150 WILD-TYPE" 

Clustering(1548) Variable = IGFN1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGFN1 MUTATED        3      1      0      0      0
  IGFN1 WILD-TYPE     29     17     46     27     23
D1548V1, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGFN1 MUTATED        3      0      1
  IGFN1 WILD-TYPE     40     67     35
D1548V2, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGFN1 MUTATED        1      2     12
  IGFN1 WILD-TYPE     41    171    135
D1548V3, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGFN1 MUTATED        3      1      8
  IGFN1 WILD-TYPE     59     72     67
D1548V4, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGFN1 MUTATED        2      6      7
  IGFN1 WILD-TYPE     68    114     93
D1548V5, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGFN1 MUTATED        1      1      2      1      2      5      2      1
  IGFN1 WILD-TYPE     40     25     28     28     37     64     18     13
                 vv
clus              CLUS_9
  IGFN1 MUTATED        0
  IGFN1 WILD-TYPE     22
D1548V6, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IGFN1 MUTATED        1      9      2      4
  IGFN1 WILD-TYPE     99     63     70    117
D1548V7, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             9              63
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGFN1 MUTATED        1      2      9      1      3
  IGFN1 WILD-TYPE     58     73     65    118     35
D1548V8, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             9              65
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGFN1 MUTATED        1      9      1      2      2
  IGFN1 WILD-TYPE     50     67     60     69     93
D1548V9, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             9              67
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGFN1 MUTATED        1      2      1      4      2      2      1      2
  IGFN1 WILD-TYPE     68     46     38     12     51     18     20     36
                 vv
clus              CLUS_9
  IGFN1 MUTATED        0
  IGFN1 WILD-TYPE     50
D1548V10, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IGFN1 MUTATED        1      0      0      0      2      0
  IGFN1 WILD-TYPE     12     16     14     11      9      9
D1548V11, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGFN1 MUTATED        0      0      0      1      0      0      1      1
  IGFN1 WILD-TYPE     11      7      7      8      8      7     10      8
                 vv
clus              CLUS_9
  IGFN1 MUTATED        0
  IGFN1 WILD-TYPE      5
D1548V12, multiclass
        clus
vv       IGFN1 MUTATED IGFN1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1549) Variable = CCDC14 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC14 MUTATED        2      0      0      1      0
  CCDC14 WILD-TYPE     30     18     46     26     23
D1549V1, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC14 MUTATED        3      0      0
  CCDC14 WILD-TYPE     40     67     36
D1549V2, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC14 MUTATED        0      1     10
  CCDC14 WILD-TYPE     42    172    137
D1549V3, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC14 MUTATED        5      0      3
  CCDC14 WILD-TYPE     57     73     72
D1549V4, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC14 MUTATED        3      1      5
  CCDC14 WILD-TYPE     67    119     95
D1549V5, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              1              119
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC14 MUTATED        2      1      0      0      2      3      1      0
  CCDC14 WILD-TYPE     39     25     30     29     37     66     19     14
                  vv
clus               CLUS_9
  CCDC14 MUTATED        0
  CCDC14 WILD-TYPE     22
D1549V6, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC14 MUTATED        1      2      4      4
  CCDC14 WILD-TYPE     99     70     68    117
D1549V7, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              4               68
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC14 MUTATED        2      1      4      1      3
  CCDC14 WILD-TYPE     57     74     70    118     35
D1549V8, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC14 MUTATED        1      3      2      0      4
  CCDC14 WILD-TYPE     50     73     59     71     91
D1549V9, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC14 MUTATED        1      3      0      1      2      0      0      1
  CCDC14 WILD-TYPE     68     45     39     15     51     20     21     37
                  vv
clus               CLUS_9
  CCDC14 MUTATED        2
  CCDC14 WILD-TYPE     48
D1549V10, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC14 MUTATED        0      0      1      0      2      0
  CCDC14 WILD-TYPE     13     16     13     11      9      9
D1549V11, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC14 MUTATED        0      0      0      0      2      0      1      0
  CCDC14 WILD-TYPE     11      7      7      9      6      7     10      9
                  vv
clus               CLUS_9
  CCDC14 MUTATED        0
  CCDC14 WILD-TYPE      5
D1549V12, multiclass
        clus
vv       CCDC14 MUTATED CCDC14 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1550) Variable = ENPP3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENPP3 MUTATED        1      0      0      1      0
  ENPP3 WILD-TYPE     31     18     46     26     23
D1550V1, multiclass
[1] "Remove cluster labels:" "ENPP3 MUTATED"         
clus
  ENPP3 MUTATED ENPP3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPP3 MUTATED        2      0      0
  ENPP3 WILD-TYPE     41     67     36
D1550V2, multiclass
[1] "Remove cluster labels:" "ENPP3 MUTATED"         
clus
  ENPP3 MUTATED ENPP3 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O      TCGA-AA-A00Q 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPP3 MUTATED        1      1      7
  ENPP3 WILD-TYPE     41    172    140
D1550V3, multiclass
        clus
vv       ENPP3 MUTATED ENPP3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPP3 MUTATED        4      0      3
  ENPP3 WILD-TYPE     58     73     72
D1550V4, multiclass
        clus
vv       ENPP3 MUTATED ENPP3 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ENPP3 MUTATED        1      3      4
  ENPP3 WILD-TYPE     69    117     96
D1550V5, multiclass
        clus
vv       ENPP3 MUTATED ENPP3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENPP3 MUTATED        1      0      0      1      2      3      0      0
  ENPP3 WILD-TYPE     40     26     30     28     37     66     20     14
                 vv
clus              CLUS_9
  ENPP3 MUTATED        1
  ENPP3 WILD-TYPE     21
D1550V6, multiclass
        clus
vv       ENPP3 MUTATED ENPP3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ENPP3 MUTATED        1      3      3      2
  ENPP3 WILD-TYPE     99     69     69    119
D1550V7, multiclass
        clus
vv       ENPP3 MUTATED ENPP3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENPP3 MUTATED        2      0      5      0      2
  ENPP3 WILD-TYPE     57     75     69    119     36
D1550V8, multiclass
        clus
vv       ENPP3 MUTATED ENPP3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENPP3 MUTATED        0      4      3      0      1
  ENPP3 WILD-TYPE     51     72     58     71     94
D1550V9, multiclass
        clus
vv       ENPP3 MUTATED ENPP3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENPP3 MUTATED        1      3      0      2      1      0      0      1
  ENPP3 WILD-TYPE     68     45     39     14     52     20     21     37
                 vv
clus              CLUS_9
  ENPP3 MUTATED        0
  ENPP3 WILD-TYPE     50
D1550V10, multiclass
        clus
vv       ENPP3 MUTATED ENPP3 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ENPP3 MUTATED        0      0      1      0      1      0
  ENPP3 WILD-TYPE     13     16     13     11     10      9
D1550V11, multiclass
[1] "Remove cluster labels:" "ENPP3 MUTATED"         
clus
  ENPP3 MUTATED ENPP3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENPP3 MUTATED        0      0      0      1      1      0      0      0
  ENPP3 WILD-TYPE     11      7      7      8      7      7     11      9
                 vv
clus              CLUS_9
  ENPP3 MUTATED        0
  ENPP3 WILD-TYPE      5
D1550V12, multiclass
[1] "Remove cluster labels:" "ENPP3 MUTATED"         
clus
  ENPP3 MUTATED ENPP3 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6600 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" "ENPP3 WILD-TYPE" 

Clustering(1551) Variable = TAB1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAB1 MUTATED        1      0      0      0      0
  TAB1 WILD-TYPE     31     18     46     27     23
D1551V1, multiclass
[1] "Remove cluster labels:" "TAB1 MUTATED"          
clus
  TAB1 MUTATED TAB1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AY-4071 
"TAB1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAB1 MUTATED        1      0      0
  TAB1 WILD-TYPE     42     67     36
D1551V2, multiclass
[1] "Remove cluster labels:" "TAB1 MUTATED"          
clus
  TAB1 MUTATED TAB1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AY-4071 
"TAB1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAB1 MUTATED        0      0      3
  TAB1 WILD-TYPE     42    173    144
D1551V3, multiclass
        clus
vv       TAB1 MUTATED TAB1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAB1 MUTATED        0      0      2
  TAB1 WILD-TYPE     62     73     73
D1551V4, multiclass
[1] "Remove cluster labels:" "TAB1 MUTATED"          
clus
  TAB1 MUTATED TAB1 WILD-TYPE 
             2            208 
    TCGA-A6-2671     TCGA-A6-2677     TCGA-A6-3809     TCGA-A6-3810 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-4105     TCGA-A6-5656     TCGA-A6-5657     TCGA-A6-5659 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662     TCGA-A6-5664 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137     TCGA-A6-6138 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648     TCGA-A6-6649 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653     TCGA-A6-6654 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502     TCGA-AA-3510 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AA-3655     TCGA-AA-3660     TCGA-AA-3662 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3663     TCGA-AA-3697     TCGA-AA-3712     TCGA-AA-3713 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6888     TCGA-AD-6890 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AD-6895     TCGA-AD-6899     TCGA-AD-6901     TCGA-AD-6963 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AU-3779     TCGA-AU-6004 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197     TCGA-AY-6386 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-4681 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AZ-4682     TCGA-AZ-5403     TCGA-AZ-5407     TCGA-AZ-6598 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AZ-6599     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6606     TCGA-AZ-6607     TCGA-AZ-6608 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CA-5254     TCGA-CA-5255     TCGA-CA-5796     TCGA-CA-5797 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CA-6715     TCGA-CA-6716     TCGA-CA-6717     TCGA-CA-6718 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CA-6719     TCGA-CK-4947     TCGA-CK-4948     TCGA-CK-4950 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CK-4952     TCGA-CK-5912     TCGA-CK-5913     TCGA-CK-5914 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CK-5915     TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-4746     TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-5344     TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-5861     TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-5868     TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-6164     TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-6168     TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6172 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6534 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537     TCGA-D5-6538 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541     TCGA-D5-6898 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923     TCGA-D5-6924 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-D5-6926     TCGA-D5-6927     TCGA-D5-6928     TCGA-D5-6929 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932     TCGA-D5-7000 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28C 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A28E     TCGA-DM-A28F     TCGA-DM-A28G     TCGA-DM-A28H 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A28K     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAB1 MUTATED        0      1      2
  TAB1 WILD-TYPE     70    119     98
D1551V5, multiclass
        clus
vv       TAB1 MUTATED TAB1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAB1 MUTATED        0      1      0      0      0      2      0      0      0
  TAB1 WILD-TYPE     41     25     30     29     39     67     20     14     22
D1551V6, multiclass
        clus
vv       TAB1 MUTATED TAB1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            2             67
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAB1 MUTATED        0      2      0      1
  TAB1 WILD-TYPE    100     70     72    120
D1551V7, multiclass
        clus
vv       TAB1 MUTATED TAB1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            0             72
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAB1 MUTATED        0      0      2      1      0
  TAB1 WILD-TYPE     59     75     72    118     38
D1551V8, multiclass
        clus
vv       TAB1 MUTATED TAB1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAB1 MUTATED        0      2      0      0      1
  TAB1 WILD-TYPE     51     74     61     71     94
D1551V9, multiclass
        clus
vv       TAB1 MUTATED TAB1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAB1 MUTATED        0      0      0      2      0      0      1      0      0
  TAB1 WILD-TYPE     69     48     39     14     53     20     20     38     50
D1551V10, multiclass
        clus
vv       TAB1 MUTATED TAB1 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAB1 MUTATED        0      0      0      0      1      0
  TAB1 WILD-TYPE     13     16     14     11     10      9
D1551V11, multiclass
[1] "Remove cluster labels:" "TAB1 MUTATED"          
clus
  TAB1 MUTATED TAB1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-G4-6628 
"TAB1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAB1 MUTATED        0      0      0      1      0      0      0      0      0
  TAB1 WILD-TYPE     11      7      7      8      8      7     11      9      5
D1551V12, multiclass
[1] "Remove cluster labels:" "TAB1 MUTATED"          
clus
  TAB1 MUTATED TAB1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" "TAB1 WILD-TYPE" 
    TCGA-G4-6628 
"TAB1 WILD-TYPE" 

Clustering(1552) Variable = CDK5RAP2 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK5RAP2 MUTATED        1      0      0      2      0
  CDK5RAP2 WILD-TYPE     31     18     46     25     23
D1552V1, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CDK5RAP2 MUTATED        2      1      0
  CDK5RAP2 WILD-TYPE     41     66     36
D1552V2, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CDK5RAP2 MUTATED        1      2     20
  CDK5RAP2 WILD-TYPE     41    171    127
D1552V3, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                2                171
  CLUS_3               20                127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CDK5RAP2 MUTATED        9      1      9
  CDK5RAP2 WILD-TYPE     53     72     66
D1552V4, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                9                 53
  CLUS_2                1                 72
  CLUS_3                9                 66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CDK5RAP2 MUTATED        3      8     11
  CDK5RAP2 WILD-TYPE     67    112     89
D1552V5, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                8                112
  CLUS_3               11                 89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK5RAP2 MUTATED        4      2      2      3      0      9      1      1
  CDK5RAP2 WILD-TYPE     37     24     28     26     39     60     19     13
                    vv
clus                 CLUS_9
  CDK5RAP2 MUTATED        0
  CDK5RAP2 WILD-TYPE     22
D1552V6, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                4                 37
  CLUS_2                2                 24
  CLUS_3                2                 28
  CLUS_4                3                 26
  CLUS_5                0                 39
  CLUS_6                9                 60
  CLUS_7                1                 19
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDK5RAP2 MUTATED        3      8      7      5
  CDK5RAP2 WILD-TYPE     97     64     65    116
D1552V7, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                3                 97
  CLUS_2                8                 64
  CLUS_3                7                 65
  CLUS_4                5                116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK5RAP2 MUTATED        4      3     11      2      3
  CDK5RAP2 WILD-TYPE     55     72     63    117     35
D1552V8, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                4                 55
  CLUS_2                3                 72
  CLUS_3               11                 63
  CLUS_4                2                117
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK5RAP2 MUTATED        5      9      3      0      5
  CDK5RAP2 WILD-TYPE     46     67     58     71     90
D1552V9, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                5                 46
  CLUS_2                9                 67
  CLUS_3                3                 58
  CLUS_4                0                 71
  CLUS_5                5                 90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK5RAP2 MUTATED        3      8      0      2      2      3      0      2
  CDK5RAP2 WILD-TYPE     66     40     39     14     51     17     21     36
                    vv
clus                 CLUS_9
  CDK5RAP2 MUTATED        2
  CDK5RAP2 WILD-TYPE     48
D1552V10, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                8                 40
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                2                 51
  CLUS_6                3                 17
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                2                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDK5RAP2 MUTATED        0      1      2      0      2      0
  CDK5RAP2 WILD-TYPE     13     15     12     11      9      9
D1552V11, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                2                 12
  CLUS_4                0                 11
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDK5RAP2 MUTATED        0      0      0      2      0      1      2      0
  CDK5RAP2 WILD-TYPE     11      7      7      7      8      6      9      9
                    vv
clus                 CLUS_9
  CDK5RAP2 MUTATED        0
  CDK5RAP2 WILD-TYPE      5
D1552V12, multiclass
        clus
vv       CDK5RAP2 MUTATED CDK5RAP2 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                2                  7
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1553) Variable = CASP5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP5 MUTATED        3      0      0      1      0
  CASP5 WILD-TYPE     29     18     46     26     23
D1553V1, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP5 MUTATED        3      0      1
  CASP5 WILD-TYPE     40     67     35
D1553V2, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP5 MUTATED        1      4      8
  CASP5 WILD-TYPE     41    169    139
D1553V3, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP5 MUTATED        3      3      3
  CASP5 WILD-TYPE     59     70     72
D1553V4, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP5 MUTATED        0      5      4
  CASP5 WILD-TYPE     70    115     96
D1553V5, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP5 MUTATED        0      1      1      1      0      4      0      2
  CASP5 WILD-TYPE     41     25     29     28     39     65     20     12
                 vv
clus              CLUS_9
  CASP5 MUTATED        0
  CASP5 WILD-TYPE     22
D1553V6, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP5 MUTATED        4      2      2      5
  CASP5 WILD-TYPE     96     70     70    116
D1553V7, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP5 MUTATED        3      1      4      2      3
  CASP5 WILD-TYPE     56     74     70    117     35
D1553V8, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP5 MUTATED        0      3      4      3      2
  CASP5 WILD-TYPE     51     73     57     68     93
D1553V9, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             4              57
  CLUS_4             3              68
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP5 MUTATED        2      4      0      2      1      0      1      1
  CASP5 WILD-TYPE     67     44     39     14     52     20     20     37
                 vv
clus              CLUS_9
  CASP5 MUTATED        1
  CASP5 WILD-TYPE     49
D1553V10, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CASP5 MUTATED        0      1      0      1      1      0
  CASP5 WILD-TYPE     13     15     14     10     10      9
D1553V11, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASP5 MUTATED        1      0      0      1      0      0      0      1
  CASP5 WILD-TYPE     10      7      7      8      8      7     11      8
                 vv
clus              CLUS_9
  CASP5 MUTATED        0
  CASP5 WILD-TYPE      5
D1553V12, multiclass
        clus
vv       CASP5 MUTATED CASP5 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1554) Variable = NONO MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NONO MUTATED        0      0      0      1      0
  NONO WILD-TYPE     32     18     46     26     23
D1554V1, multiclass
[1] "Remove cluster labels:" "NONO MUTATED"          
clus
  NONO MUTATED NONO WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AY-4071 
"NONO WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NONO MUTATED        0      1      0
  NONO WILD-TYPE     43     66     36
D1554V2, multiclass
[1] "Remove cluster labels:" "NONO MUTATED"          
clus
  NONO MUTATED NONO WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" "NONO WILD-TYPE" 
    TCGA-AY-4071 
"NONO WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NONO MUTATED        2      3      6
  NONO WILD-TYPE     40    170    141
D1554V3, multiclass
        clus
vv       NONO MUTATED NONO WILD-TYPE
  CLUS_1            2             40
  CLUS_2            3            170
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NONO MUTATED        5      2      3
  NONO WILD-TYPE     57     71     72
D1554V4, multiclass
        clus
vv       NONO MUTATED NONO WILD-TYPE
  CLUS_1            5             57
  CLUS_2            2             71
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NONO MUTATED        1      2      6
  NONO WILD-TYPE     69    118     94
D1554V5, multiclass
        clus
vv       NONO MUTATED NONO WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NONO MUTATED        1      1      1      0      0      5      0      1      0
  NONO WILD-TYPE     40     25     29     29     39     64     20     13     22
D1554V6, multiclass
        clus
vv       NONO MUTATED NONO WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NONO MUTATED        3      5      2      1
  NONO WILD-TYPE     97     67     70    120
D1554V7, multiclass
        clus
vv       NONO MUTATED NONO WILD-TYPE
  CLUS_1            3             97
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NONO MUTATED        0      5      5      1      0
  NONO WILD-TYPE     59     70     69    118     38
D1554V8, multiclass
        clus
vv       NONO MUTATED NONO WILD-TYPE
  CLUS_1            0             59
  CLUS_2            5             70
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NONO MUTATED        1      4      2      2      2
  NONO WILD-TYPE     50     72     59     69     93
D1554V9, multiclass
        clus
vv       NONO MUTATED NONO WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NONO MUTATED        5      1      0      1      1      2      0      0      1
  NONO WILD-TYPE     64     47     39     15     52     18     21     38     49
D1554V10, multiclass
        clus
vv       NONO MUTATED NONO WILD-TYPE
  CLUS_1            5             64
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NONO MUTATED        1      0      2      0      1      0
  NONO WILD-TYPE     12     16     12     11     10      9
D1554V11, multiclass
        clus
vv       NONO MUTATED NONO WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NONO MUTATED        1      0      0      2      1      0      0      0      0
  NONO WILD-TYPE     10      7      7      7      7      7     11      9      5
D1554V12, multiclass
        clus
vv       NONO MUTATED NONO WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1555) Variable = SLC16A5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC16A5 MUTATED        3      0      1      0      0
  SLC16A5 WILD-TYPE     29     18     45     27     23
D1555V1, multiclass
        clus
vv       SLC16A5 MUTATED SLC16A5 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC16A5 MUTATED        3      0      1
  SLC16A5 WILD-TYPE     40     67     35
D1555V2, multiclass
        clus
vv       SLC16A5 MUTATED SLC16A5 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC16A5 MUTATED        1      3      5
  SLC16A5 WILD-TYPE     41    170    142
D1555V3, multiclass
        clus
vv       SLC16A5 MUTATED SLC16A5 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3               170
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC16A5 MUTATED        2      2      1
  SLC16A5 WILD-TYPE     60     71     74
D1555V4, multiclass
        clus
vv       SLC16A5 MUTATED SLC16A5 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               2                71
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC16A5 MUTATED        1      1      7
  SLC16A5 WILD-TYPE     69    119     93
D1555V5, multiclass
        clus
vv       SLC16A5 MUTATED SLC16A5 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1               119
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC16A5 MUTATED        2      0      1      0      1      4      1      0
  SLC16A5 WILD-TYPE     39     26     29     29     38     65     19     14
                   vv
clus                CLUS_9
  SLC16A5 MUTATED        0
  SLC16A5 WILD-TYPE     22
D1555V6, multiclass
        clus
vv       SLC16A5 MUTATED SLC16A5 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               4                65
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC16A5 MUTATED        3      1      2      4
  SLC16A5 WILD-TYPE     97     71     70    117
D1555V7, multiclass
        clus
vv       SLC16A5 MUTATED SLC16A5 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               1                71
  CLUS_3               2                70
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC16A5 MUTATED        2      2      1      2      3
  SLC16A5 WILD-TYPE     57     73     73    117     35
D1555V8, multiclass
        clus
vv       SLC16A5 MUTATED SLC16A5 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               1                73
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC16A5 MUTATED        1      0      3      1      5
  SLC16A5 WILD-TYPE     50     76     58     70     90
D1555V9, multiclass
        clus
vv       SLC16A5 MUTATED SLC16A5 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               0                76
  CLUS_3               3                58
  CLUS_4               1                70
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC16A5 MUTATED        1      2      1      0      1      1      1      3
  SLC16A5 WILD-TYPE     68     46     38     16     52     19     20     35
                   vv
clus                CLUS_9
  SLC16A5 MUTATED        0
  SLC16A5 WILD-TYPE     50
D1555V10, multiclass
        clus
vv       SLC16A5 MUTATED SLC16A5 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               3                35
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC16A5 MUTATED        1      1      0      0      0      0
  SLC16A5 WILD-TYPE     12     15     14     11     11      9
D1555V11, multiclass
[1] "Remove cluster labels:" "SLC16A5 MUTATED"       
clus
  SLC16A5 MUTATED SLC16A5 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6653        TCGA-A6-6654 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC16A5 MUTATED        0      1      0      0      0      0      0      0
  SLC16A5 WILD-TYPE     11      6      7      9      8      7     11      9
                   vv
clus                CLUS_9
  SLC16A5 MUTATED        1
  SLC16A5 WILD-TYPE      4
D1555V12, multiclass
[1] "Remove cluster labels:" "SLC16A5 MUTATED"       
clus
  SLC16A5 MUTATED SLC16A5 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6653        TCGA-A6-6654 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" "SLC16A5 WILD-TYPE" 

Clustering(1556) Variable = GUCY2F MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GUCY2F MUTATED        4      0      0      1      0
  GUCY2F WILD-TYPE     28     18     46     26     23
D1556V1, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GUCY2F MUTATED        4      0      1
  GUCY2F WILD-TYPE     39     67     35
D1556V2, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GUCY2F MUTATED        0      7     12
  GUCY2F WILD-TYPE     42    166    135
D1556V3, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              0               42
  CLUS_2              7              166
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GUCY2F MUTATED        2      4      7
  GUCY2F WILD-TYPE     60     69     68
D1556V4, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              2               60
  CLUS_2              4               69
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GUCY2F MUTATED        2      6      5
  GUCY2F WILD-TYPE     68    114     95
D1556V5, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              2               68
  CLUS_2              6              114
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GUCY2F MUTATED        1      1      2      1      1      5      0      1
  GUCY2F WILD-TYPE     40     25     28     28     38     64     20     13
                  vv
clus               CLUS_9
  GUCY2F MUTATED        1
  GUCY2F WILD-TYPE     21
D1556V6, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GUCY2F MUTATED        6      5      3      5
  GUCY2F WILD-TYPE     94     67     69    116
D1556V7, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              6               94
  CLUS_2              5               67
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GUCY2F MUTATED        2      5      7      1      4
  GUCY2F WILD-TYPE     57     70     67    118     34
D1556V8, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              2               57
  CLUS_2              5               70
  CLUS_3              7               67
  CLUS_4              1              118
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GUCY2F MUTATED        4      6      1      3      5
  GUCY2F WILD-TYPE     47     70     60     68     90
D1556V9, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              4               47
  CLUS_2              6               70
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GUCY2F MUTATED        5      1      1      2      3      2      2      3
  GUCY2F WILD-TYPE     64     47     38     14     50     18     19     35
                  vv
clus               CLUS_9
  GUCY2F MUTATED        0
  GUCY2F WILD-TYPE     50
D1556V10, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              5               64
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              2               19
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GUCY2F MUTATED        3      0      1      0      0      2
  GUCY2F WILD-TYPE     10     16     13     11     11      7
D1556V11, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              3               10
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GUCY2F MUTATED        1      0      0      0      1      0      0      2
  GUCY2F WILD-TYPE     10      7      7      9      7      7     11      7
                  vv
clus               CLUS_9
  GUCY2F MUTATED        2
  GUCY2F WILD-TYPE      3
D1556V12, multiclass
        clus
vv       GUCY2F MUTATED GUCY2F WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              2                7
  CLUS_9              2                3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1557) Variable = CXCR7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CXCR7 MUTATED        1      1      0      1      1
  CXCR7 WILD-TYPE     31     17     46     26     22
D1557V1, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXCR7 MUTATED        0      2      2
  CXCR7 WILD-TYPE     43     65     34
D1557V2, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             0              43
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXCR7 MUTATED        2      7     10
  CXCR7 WILD-TYPE     40    166    137
D1557V3, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             7             166
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXCR7 MUTATED        4      4      5
  CXCR7 WILD-TYPE     58     69     70
D1557V4, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             4              69
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXCR7 MUTATED        4      3      7
  CXCR7 WILD-TYPE     66    117     93
D1557V5, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CXCR7 MUTATED        1      0      2      1      2      6      2      0
  CXCR7 WILD-TYPE     40     26     28     28     37     63     18     14
                 vv
clus              CLUS_9
  CXCR7 MUTATED        0
  CXCR7 WILD-TYPE     22
D1557V6, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CXCR7 MUTATED        4      6      4      4
  CXCR7 WILD-TYPE     96     66     68    117
D1557V7, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             6              66
  CLUS_3             4              68
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CXCR7 MUTATED        3      3      7      4      1
  CXCR7 WILD-TYPE     56     72     67    115     37
D1557V8, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             7              67
  CLUS_4             4             115
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CXCR7 MUTATED        3      9      1      3      3
  CXCR7 WILD-TYPE     48     67     60     68     92
D1557V9, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             9              67
  CLUS_3             1              60
  CLUS_4             3              68
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CXCR7 MUTATED        5      3      1      3      3      1      1      2
  CXCR7 WILD-TYPE     64     45     38     13     50     19     20     36
                 vv
clus              CLUS_9
  CXCR7 MUTATED        0
  CXCR7 WILD-TYPE     50
D1557V10, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CXCR7 MUTATED        0      1      0      1      2      0
  CXCR7 WILD-TYPE     13     15     14     10      9      9
D1557V11, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CXCR7 MUTATED        1      0      1      1      0      1      0      0
  CXCR7 WILD-TYPE     10      7      6      8      8      6     11      9
                 vv
clus              CLUS_9
  CXCR7 MUTATED        0
  CXCR7 WILD-TYPE      5
D1557V12, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1558) Variable = RELA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RELA MUTATED        1      0      0      0      0
  RELA WILD-TYPE     31     18     46     27     23
D1558V1, multiclass
[1] "Remove cluster labels:" "RELA MUTATED"          
clus
  RELA MUTATED RELA WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AY-4071 
"RELA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RELA MUTATED        1      0      0
  RELA WILD-TYPE     42     67     36
D1558V2, multiclass
[1] "Remove cluster labels:" "RELA MUTATED"          
clus
  RELA MUTATED RELA WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AY-4071 
"RELA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RELA MUTATED        2      2      5
  RELA WILD-TYPE     40    171    142
D1558V3, multiclass
        clus
vv       RELA MUTATED RELA WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2            171
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RELA MUTATED        0      2      5
  RELA WILD-TYPE     62     71     70
D1558V4, multiclass
        clus
vv       RELA MUTATED RELA WILD-TYPE
  CLUS_1            0             62
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RELA MUTATED        1      4      3
  RELA WILD-TYPE     69    116     97
D1558V5, multiclass
        clus
vv       RELA MUTATED RELA WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RELA MUTATED        0      0      2      1      0      4      0      1      0
  RELA WILD-TYPE     41     26     28     28     39     65     20     13     22
D1558V6, multiclass
        clus
vv       RELA MUTATED RELA WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RELA MUTATED        2      5      0      2
  RELA WILD-TYPE     98     67     72    119
D1558V7, multiclass
        clus
vv       RELA MUTATED RELA WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            0             72
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RELA MUTATED        1      3      3      0      2
  RELA WILD-TYPE     58     72     71    119     36
D1558V8, multiclass
        clus
vv       RELA MUTATED RELA WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            3             71
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RELA MUTATED        0      5      0      3      1
  RELA WILD-TYPE     51     71     61     68     94
D1558V9, multiclass
        clus
vv       RELA MUTATED RELA WILD-TYPE
  CLUS_1            0             51
  CLUS_2            5             71
  CLUS_3            0             61
  CLUS_4            3             68
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RELA MUTATED        4      0      0      3      0      0      0      2      0
  RELA WILD-TYPE     65     48     39     13     53     20     21     36     50
D1558V10, multiclass
        clus
vv       RELA MUTATED RELA WILD-TYPE
  CLUS_1            4             65
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RELA MUTATED        0      0      0      0      1      1
  RELA WILD-TYPE     13     16     14     11     10      8
D1558V11, multiclass
[1] "Remove cluster labels:" "RELA MUTATED"          
clus
  RELA MUTATED RELA WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RELA MUTATED        0      0      0      1      0      0      0      1      0
  RELA WILD-TYPE     11      7      7      8      8      7     11      8      5
D1558V12, multiclass
[1] "Remove cluster labels:" "RELA MUTATED"          
clus
  RELA MUTATED RELA WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6600 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" "RELA WILD-TYPE" 

Clustering(1559) Variable = WDR65 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR65 MUTATED        2      0      0      0      0
  WDR65 WILD-TYPE     30     18     46     27     23
D1559V1, multiclass
[1] "Remove cluster labels:" "WDR65 MUTATED"         
clus
  WDR65 MUTATED WDR65 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR65 MUTATED        2      0      0
  WDR65 WILD-TYPE     41     67     36
D1559V2, multiclass
[1] "Remove cluster labels:" "WDR65 MUTATED"         
clus
  WDR65 MUTATED WDR65 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" "WDR65 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR65 MUTATED        0      0      6
  WDR65 WILD-TYPE     42    173    141
D1559V3, multiclass
        clus
vv       WDR65 MUTATED WDR65 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR65 MUTATED        2      0      2
  WDR65 WILD-TYPE     60     73     73
D1559V4, multiclass
        clus
vv       WDR65 MUTATED WDR65 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR65 MUTATED        1      1      4
  WDR65 WILD-TYPE     69    119     96
D1559V5, multiclass
        clus
vv       WDR65 MUTATED WDR65 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR65 MUTATED        1      1      0      0      0      4      0      0
  WDR65 WILD-TYPE     40     25     30     29     39     65     20     14
                 vv
clus              CLUS_9
  WDR65 MUTATED        0
  WDR65 WILD-TYPE     22
D1559V6, multiclass
        clus
vv       WDR65 MUTATED WDR65 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WDR65 MUTATED        0      2      2      2
  WDR65 WILD-TYPE    100     70     70    119
D1559V7, multiclass
        clus
vv       WDR65 MUTATED WDR65 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR65 MUTATED        0      1      3      0      2
  WDR65 WILD-TYPE     59     74     71    119     36
D1559V8, multiclass
        clus
vv       WDR65 MUTATED WDR65 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR65 MUTATED        0      4      0      0      2
  WDR65 WILD-TYPE     51     72     61     71     93
D1559V9, multiclass
        clus
vv       WDR65 MUTATED WDR65 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR65 MUTATED        1      1      0      1      1      0      0      2
  WDR65 WILD-TYPE     68     47     39     15     52     20     21     36
                 vv
clus              CLUS_9
  WDR65 MUTATED        0
  WDR65 WILD-TYPE     50
D1559V10, multiclass
        clus
vv       WDR65 MUTATED WDR65 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WDR65 MUTATED        0      0      1      0      2      0
  WDR65 WILD-TYPE     13     16     13     11      9      9
D1559V11, multiclass
        clus
vv       WDR65 MUTATED WDR65 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR65 MUTATED        0      0      0      1      0      0      2      0
  WDR65 WILD-TYPE     11      7      7      8      8      7      9      9
                 vv
clus              CLUS_9
  WDR65 MUTATED        0
  WDR65 WILD-TYPE      5
D1559V12, multiclass
        clus
vv       WDR65 MUTATED WDR65 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1560) Variable = DTX3L MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DTX3L MUTATED        2      0      0      1      0
  DTX3L WILD-TYPE     30     18     46     26     23
D1560V1, multiclass
        clus
vv       DTX3L MUTATED DTX3L WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DTX3L MUTATED        1      1      1
  DTX3L WILD-TYPE     42     66     35
D1560V2, multiclass
        clus
vv       DTX3L MUTATED DTX3L WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DTX3L MUTATED        0      3      7
  DTX3L WILD-TYPE     42    170    140
D1560V3, multiclass
        clus
vv       DTX3L MUTATED DTX3L WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DTX3L MUTATED        2      2      3
  DTX3L WILD-TYPE     60     71     72
D1560V4, multiclass
        clus
vv       DTX3L MUTATED DTX3L WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DTX3L MUTATED        0      3      3
  DTX3L WILD-TYPE     70    117     97
D1560V5, multiclass
        clus
vv       DTX3L MUTATED DTX3L WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DTX3L MUTATED        0      0      1      1      0      3      1      0
  DTX3L WILD-TYPE     41     26     29     28     39     66     19     14
                 vv
clus              CLUS_9
  DTX3L MUTATED        0
  DTX3L WILD-TYPE     22
D1560V6, multiclass
        clus
vv       DTX3L MUTATED DTX3L WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DTX3L MUTATED        3      3      1      3
  DTX3L WILD-TYPE     97     69     71    118
D1560V7, multiclass
        clus
vv       DTX3L MUTATED DTX3L WILD-TYPE
  CLUS_1             3              97
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DTX3L MUTATED        0      3      4      2      1
  DTX3L WILD-TYPE     59     72     70    117     37
D1560V8, multiclass
        clus
vv       DTX3L MUTATED DTX3L WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DTX3L MUTATED        2      3      1      2      2
  DTX3L WILD-TYPE     49     73     60     69     93
D1560V9, multiclass
        clus
vv       DTX3L MUTATED DTX3L WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DTX3L MUTATED        2      0      1      1      3      2      0      1
  DTX3L WILD-TYPE     67     48     38     15     50     18     21     37
                 vv
clus              CLUS_9
  DTX3L MUTATED        0
  DTX3L WILD-TYPE     50
D1560V10, multiclass
        clus
vv       DTX3L MUTATED DTX3L WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DTX3L MUTATED        1      0      1      0      0      0
  DTX3L WILD-TYPE     12     16     13     11     11      9
D1560V11, multiclass
[1] "Remove cluster labels:" "DTX3L MUTATED"         
clus
  DTX3L MUTATED DTX3L WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DTX3L MUTATED        0      0      0      0      1      0      0      1
  DTX3L WILD-TYPE     11      7      7      9      7      7     11      8
                 vv
clus              CLUS_9
  DTX3L MUTATED        0
  DTX3L WILD-TYPE      5
D1560V12, multiclass
[1] "Remove cluster labels:" "DTX3L MUTATED"         
clus
  DTX3L MUTATED DTX3L WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" "DTX3L WILD-TYPE" 

Clustering(1561) Variable = ARID4B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID4B MUTATED        1      0      0      1      0
  ARID4B WILD-TYPE     31     18     46     26     23
D1561V1, multiclass
[1] "Remove cluster labels:" "ARID4B MUTATED"        
clus
  ARID4B MUTATED ARID4B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID4B MUTATED        1      0      1
  ARID4B WILD-TYPE     42     67     35
D1561V2, multiclass
[1] "Remove cluster labels:" "ARID4B MUTATED"        
clus
  ARID4B MUTATED ARID4B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O       TCGA-AA-A00Q 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" "ARID4B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID4B MUTATED        1      3      7
  ARID4B WILD-TYPE     41    170    140
D1561V3, multiclass
        clus
vv       ARID4B MUTATED ARID4B WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID4B MUTATED        4      0      5
  ARID4B WILD-TYPE     58     73     70
D1561V4, multiclass
        clus
vv       ARID4B MUTATED ARID4B WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID4B MUTATED        2      2      5
  ARID4B WILD-TYPE     68    118     95
D1561V5, multiclass
        clus
vv       ARID4B MUTATED ARID4B WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID4B MUTATED        0      0      0      1      1      4      2      1
  ARID4B WILD-TYPE     41     26     30     28     38     65     18     13
                  vv
clus               CLUS_9
  ARID4B MUTATED        0
  ARID4B WILD-TYPE     22
D1561V6, multiclass
        clus
vv       ARID4B MUTATED ARID4B WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID4B MUTATED        2      2      5      2
  ARID4B WILD-TYPE     98     70     67    119
D1561V7, multiclass
        clus
vv       ARID4B MUTATED ARID4B WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              5               67
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID4B MUTATED        2      1      6      1      1
  ARID4B WILD-TYPE     57     74     68    118     37
D1561V8, multiclass
        clus
vv       ARID4B MUTATED ARID4B WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID4B MUTATED        1      6      2      1      0
  ARID4B WILD-TYPE     50     70     59     70     95
D1561V9, multiclass
        clus
vv       ARID4B MUTATED ARID4B WILD-TYPE
  CLUS_1              1               50
  CLUS_2              6               70
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID4B MUTATED        2      4      1      1      2      0      0      0
  ARID4B WILD-TYPE     67     44     38     15     51     20     21     38
                  vv
clus               CLUS_9
  ARID4B MUTATED        0
  ARID4B WILD-TYPE     50
D1561V10, multiclass
        clus
vv       ARID4B MUTATED ARID4B WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID4B MUTATED        0      1      0      1      1      0
  ARID4B WILD-TYPE     13     15     14     10     10      9
D1561V11, multiclass
        clus
vv       ARID4B MUTATED ARID4B WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID4B MUTATED        1      0      0      1      0      0      1      0
  ARID4B WILD-TYPE     10      7      7      8      8      7     10      9
                  vv
clus               CLUS_9
  ARID4B MUTATED        0
  ARID4B WILD-TYPE      5
D1561V12, multiclass
        clus
vv       ARID4B MUTATED ARID4B WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1562) Variable = ZNF295 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF295 MUTATED        3      0      0      1      1
  ZNF295 WILD-TYPE     29     18     46     26     22
D1562V1, multiclass
        clus
vv       ZNF295 MUTATED ZNF295 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF295 MUTATED        2      1      2
  ZNF295 WILD-TYPE     41     66     34
D1562V2, multiclass
        clus
vv       ZNF295 MUTATED ZNF295 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF295 MUTATED        0      3      7
  ZNF295 WILD-TYPE     42    170    140
D1562V3, multiclass
        clus
vv       ZNF295 MUTATED ZNF295 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF295 MUTATED        1      2      2
  ZNF295 WILD-TYPE     61     71     73
D1562V4, multiclass
        clus
vv       ZNF295 MUTATED ZNF295 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF295 MUTATED        0      5      2
  ZNF295 WILD-TYPE     70    115     98
D1562V5, multiclass
        clus
vv       ZNF295 MUTATED ZNF295 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              115
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF295 MUTATED        0      0      1      3      0      1      1      0
  ZNF295 WILD-TYPE     41     26     29     26     39     68     19     14
                  vv
clus               CLUS_9
  ZNF295 MUTATED        1
  ZNF295 WILD-TYPE     21
D1562V6, multiclass
        clus
vv       ZNF295 MUTATED ZNF295 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF295 MUTATED        1      3      1      5
  ZNF295 WILD-TYPE     99     69     71    116
D1562V7, multiclass
        clus
vv       ZNF295 MUTATED ZNF295 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF295 MUTATED        1      1      3      3      2
  ZNF295 WILD-TYPE     58     74     71    116     36
D1562V8, multiclass
        clus
vv       ZNF295 MUTATED ZNF295 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF295 MUTATED        3      2      0      2      3
  ZNF295 WILD-TYPE     48     74     61     69     92
D1562V9, multiclass
        clus
vv       ZNF295 MUTATED ZNF295 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF295 MUTATED        1      0      1      0      4      1      0      2
  ZNF295 WILD-TYPE     68     48     38     16     49     19     21     36
                  vv
clus               CLUS_9
  ZNF295 MUTATED        1
  ZNF295 WILD-TYPE     49
D1562V10, multiclass
        clus
vv       ZNF295 MUTATED ZNF295 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              4               49
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF295 MUTATED        0      0      0      1      0      0
  ZNF295 WILD-TYPE     13     16     14     10     11      9
D1562V11, multiclass
[1] "Remove cluster labels:" "ZNF295 MUTATED"        
clus
  ZNF295 MUTATED ZNF295 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-DM-A0XD 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF295 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF295 MUTATED        0      0      0      0      0      0      0      1
  ZNF295 WILD-TYPE     11      7      7      9      8      7     11      8
                  vv
clus               CLUS_9
  ZNF295 MUTATED        0
  ZNF295 WILD-TYPE      5
D1562V12, multiclass
[1] "Remove cluster labels:" "ZNF295 MUTATED"        
clus
  ZNF295 MUTATED ZNF295 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-DM-A0XD 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" "ZNF295 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF295 WILD-TYPE" 

Clustering(1563) Variable = FBLIM1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBLIM1 MUTATED        0      0      0      1      0
  FBLIM1 WILD-TYPE     32     18     46     26     23
D1563V1, multiclass
[1] "Remove cluster labels:" "FBLIM1 MUTATED"        
clus
  FBLIM1 MUTATED FBLIM1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AY-4071 
"FBLIM1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBLIM1 MUTATED        0      1      0
  FBLIM1 WILD-TYPE     43     66     36
D1563V2, multiclass
[1] "Remove cluster labels:" "FBLIM1 MUTATED"        
clus
  FBLIM1 MUTATED FBLIM1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AY-4071 
"FBLIM1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBLIM1 MUTATED        1      0      4
  FBLIM1 WILD-TYPE     41    173    143
D1563V3, multiclass
        clus
vv       FBLIM1 MUTATED FBLIM1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBLIM1 MUTATED        0      0      4
  FBLIM1 WILD-TYPE     62     73     71
D1563V4, multiclass
        clus
vv       FBLIM1 MUTATED FBLIM1 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBLIM1 MUTATED        1      2      2
  FBLIM1 WILD-TYPE     69    118     98
D1563V5, multiclass
        clus
vv       FBLIM1 MUTATED FBLIM1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBLIM1 MUTATED        0      0      0      2      2      1      0      0
  FBLIM1 WILD-TYPE     41     26     30     27     37     68     20     14
                  vv
clus               CLUS_9
  FBLIM1 MUTATED        0
  FBLIM1 WILD-TYPE     22
D1563V6, multiclass
        clus
vv       FBLIM1 MUTATED FBLIM1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBLIM1 MUTATED        0      4      0      1
  FBLIM1 WILD-TYPE    100     68     72    120
D1563V7, multiclass
        clus
vv       FBLIM1 MUTATED FBLIM1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              0               72
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBLIM1 MUTATED        0      0      4      1      0
  FBLIM1 WILD-TYPE     59     75     70    118     38
D1563V8, multiclass
        clus
vv       FBLIM1 MUTATED FBLIM1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBLIM1 MUTATED        0      4      0      0      1
  FBLIM1 WILD-TYPE     51     72     61     71     94
D1563V9, multiclass
        clus
vv       FBLIM1 MUTATED FBLIM1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBLIM1 MUTATED        1      1      0      2      1      0      0      0
  FBLIM1 WILD-TYPE     68     47     39     14     52     20     21     38
                  vv
clus               CLUS_9
  FBLIM1 MUTATED        0
  FBLIM1 WILD-TYPE     50
D1563V10, multiclass
        clus
vv       FBLIM1 MUTATED FBLIM1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FBLIM1 MUTATED        0      0      0      0      1      0
  FBLIM1 WILD-TYPE     13     16     14     11     10      9
D1563V11, multiclass
[1] "Remove cluster labels:" "FBLIM1 MUTATED"        
clus
  FBLIM1 MUTATED FBLIM1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-G4-6628 
"FBLIM1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBLIM1 MUTATED        0      0      0      1      0      0      0      0
  FBLIM1 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  FBLIM1 MUTATED        0
  FBLIM1 WILD-TYPE      5
D1563V12, multiclass
[1] "Remove cluster labels:" "FBLIM1 MUTATED"        
clus
  FBLIM1 MUTATED FBLIM1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" "FBLIM1 WILD-TYPE" 
      TCGA-G4-6628 
"FBLIM1 WILD-TYPE" 

Clustering(1564) Variable = WFDC10B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WFDC10B MUTATED        0      0      0      0      0
  WFDC10B WILD-TYPE     32     18     46     27     23
D1564V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  WFDC10B MUTATED        0      0      0
  WFDC10B WILD-TYPE     43     67     36
D1564V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  WFDC10B MUTATED        0      3      2
  WFDC10B WILD-TYPE     42    170    145
D1564V3, multiclass
        clus
vv       WFDC10B MUTATED WFDC10B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  WFDC10B MUTATED        0      3      2
  WFDC10B WILD-TYPE     62     70     73
D1564V4, multiclass
        clus
vv       WFDC10B MUTATED WFDC10B WILD-TYPE
  CLUS_1               0                62
  CLUS_2               3                70
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  WFDC10B MUTATED        1      3      1
  WFDC10B WILD-TYPE     69    117     99
D1564V5, multiclass
        clus
vv       WFDC10B MUTATED WFDC10B WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WFDC10B MUTATED        1      0      0      1      0      1      0      2
  WFDC10B WILD-TYPE     40     26     30     28     39     68     20     12
                   vv
clus                CLUS_9
  WFDC10B MUTATED        0
  WFDC10B WILD-TYPE     22
D1564V6, multiclass
        clus
vv       WFDC10B MUTATED WFDC10B WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               2                12
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WFDC10B MUTATED        2      3      0      0
  WFDC10B WILD-TYPE     98     69     72    121
D1564V7, multiclass
        clus
vv       WFDC10B MUTATED WFDC10B WILD-TYPE
  CLUS_1               2                98
  CLUS_2               3                69
  CLUS_3               0                72
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WFDC10B MUTATED        2      1      2      0      0
  WFDC10B WILD-TYPE     57     74     72    119     38
D1564V8, multiclass
        clus
vv       WFDC10B MUTATED WFDC10B WILD-TYPE
  CLUS_1               2                57
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WFDC10B MUTATED        1      2      1      1      0
  WFDC10B WILD-TYPE     50     74     60     70     95
D1564V9, multiclass
        clus
vv       WFDC10B MUTATED WFDC10B WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WFDC10B MUTATED        2      1      0      1      0      1      0      0
  WFDC10B WILD-TYPE     67     47     39     15     53     19     21     38
                   vv
clus                CLUS_9
  WFDC10B MUTATED        0
  WFDC10B WILD-TYPE     50
D1564V10, multiclass
        clus
vv       WFDC10B MUTATED WFDC10B WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WFDC10B MUTATED        0      0      0      2      0      0
  WFDC10B WILD-TYPE     13     16     14      9     11      9
D1564V11, multiclass
[1] "Remove cluster labels:" "WFDC10B MUTATED"       
clus
  WFDC10B MUTATED WFDC10B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6460        TCGA-F4-6569 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WFDC10B MUTATED        0      0      1      0      0      0      0      1
  WFDC10B WILD-TYPE     11      7      6      9      8      7     11      8
                   vv
clus                CLUS_9
  WFDC10B MUTATED        0
  WFDC10B WILD-TYPE      5
D1564V12, multiclass
[1] "Remove cluster labels:" "WFDC10B MUTATED"       
clus
  WFDC10B MUTATED WFDC10B WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6460        TCGA-F4-6569 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" "WFDC10B WILD-TYPE" 

Clustering(1565) Variable = NAA15 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAA15 MUTATED        2      0      0      2      0
  NAA15 WILD-TYPE     30     18     46     25     23
D1565V1, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NAA15 MUTATED        3      1      0
  NAA15 WILD-TYPE     40     66     36
D1565V2, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NAA15 MUTATED        1      2     12
  NAA15 WILD-TYPE     41    171    135
D1565V3, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NAA15 MUTATED        5      1      3
  NAA15 WILD-TYPE     57     72     72
D1565V4, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NAA15 MUTATED        0      4     10
  NAA15 WILD-TYPE     70    116     90
D1565V5, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3            10              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NAA15 MUTATED        2      0      2      2      2      5      1      0
  NAA15 WILD-TYPE     39     26     28     27     37     64     19     14
                 vv
clus              CLUS_9
  NAA15 MUTATED        0
  NAA15 WILD-TYPE     22
D1565V6, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NAA15 MUTATED        1      5      4      5
  NAA15 WILD-TYPE     99     67     68    116
D1565V7, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAA15 MUTATED        2      3      5      1      4
  NAA15 WILD-TYPE     57     72     69    118     34
D1565V8, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAA15 MUTATED        2      4      2      1      5
  NAA15 WILD-TYPE     49     72     59     70     90
D1565V9, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NAA15 MUTATED        1      4      0      3      2      1      0      2
  NAA15 WILD-TYPE     68     44     39     13     51     19     21     36
                 vv
clus              CLUS_9
  NAA15 MUTATED        1
  NAA15 WILD-TYPE     49
D1565V10, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NAA15 MUTATED        0      0      0      0      1      0
  NAA15 WILD-TYPE     13     16     14     11     10      9
D1565V11, multiclass
[1] "Remove cluster labels:" "NAA15 MUTATED"         
clus
  NAA15 MUTATED NAA15 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-G4-6628 
"NAA15 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NAA15 MUTATED        0      0      0      0      0      0      1      0
  NAA15 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  NAA15 MUTATED        0
  NAA15 WILD-TYPE      5
D1565V12, multiclass
[1] "Remove cluster labels:" "NAA15 MUTATED"         
clus
  NAA15 MUTATED NAA15 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" "NAA15 WILD-TYPE" 
     TCGA-G4-6628 
"NAA15 WILD-TYPE" 

Clustering(1566) Variable = ACTL7B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL7B MUTATED        0      0      0      2      0
  ACTL7B WILD-TYPE     32     18     46     25     23
D1566V1, multiclass
[1] "Remove cluster labels:" "ACTL7B MUTATED"        
clus
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-A004       TCGA-AA-A00A 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL7B MUTATED        1      1      0
  ACTL7B WILD-TYPE     42     66     36
D1566V2, multiclass
[1] "Remove cluster labels:" "ACTL7B MUTATED"        
clus
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-A004       TCGA-AA-A00A 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL7B MUTATED        0      1      3
  ACTL7B WILD-TYPE     42    172    144
D1566V3, multiclass
        clus
vv       ACTL7B MUTATED ACTL7B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL7B MUTATED        1      0      1
  ACTL7B WILD-TYPE     61     73     74
D1566V4, multiclass
[1] "Remove cluster labels:" "ACTL7B MUTATED"        
clus
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               2              208 
      TCGA-A6-2671       TCGA-A6-2677       TCGA-A6-3809       TCGA-A6-3810 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-4105       TCGA-A6-5656       TCGA-A6-5657       TCGA-A6-5659 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662       TCGA-A6-5664 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137       TCGA-A6-6138 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648       TCGA-A6-6649 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653       TCGA-A6-6654 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502       TCGA-AA-3510 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3511       TCGA-AA-3655       TCGA-AA-3660       TCGA-AA-3662 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3663       TCGA-AA-3697       TCGA-AA-3712       TCGA-AA-3713 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6888       TCGA-AD-6890 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AD-6895       TCGA-AD-6899       TCGA-AD-6901       TCGA-AD-6963 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AU-3779       TCGA-AU-6004 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4681 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AZ-4682       TCGA-AZ-5403       TCGA-AZ-5407       TCGA-AZ-6598 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AZ-6599       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6606       TCGA-AZ-6607       TCGA-AZ-6608 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796       TCGA-CA-5797 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6717       TCGA-CA-6718 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CA-6719       TCGA-CK-4947       TCGA-CK-4948       TCGA-CK-4950 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CK-4952       TCGA-CK-5912       TCGA-CK-5913       TCGA-CK-5914 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CK-5915       TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-4746       TCGA-CM-4747       TCGA-CM-5341       TCGA-CM-5344 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D5-5538       TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D5-6529       TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D5-6535       TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D5-6539       TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D5-6920       TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D5-6926       TCGA-D5-6927       TCGA-D5-6928       TCGA-D5-6929 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932       TCGA-D5-7000 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A1D4       TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A1HB       TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28C 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A28E       TCGA-DM-A28F       TCGA-DM-A28G       TCGA-DM-A28H 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A28K       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL7B MUTATED        0      2      1
  ACTL7B WILD-TYPE     70    118     99
D1566V5, multiclass
        clus
vv       ACTL7B MUTATED ACTL7B WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL7B MUTATED        0      1      1      0      0      1      0      0
  ACTL7B WILD-TYPE     41     25     29     29     39     68     20     14
                  vv
clus               CLUS_9
  ACTL7B MUTATED        0
  ACTL7B WILD-TYPE     22
D1566V6, multiclass
        clus
vv       ACTL7B MUTATED ACTL7B WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACTL7B MUTATED        0      1      0      3
  ACTL7B WILD-TYPE    100     71     72    118
D1566V7, multiclass
        clus
vv       ACTL7B MUTATED ACTL7B WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              0               72
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL7B MUTATED        0      0      1      2      1
  ACTL7B WILD-TYPE     59     75     73    117     37
D1566V8, multiclass
        clus
vv       ACTL7B MUTATED ACTL7B WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              1               73
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL7B MUTATED        1      1      1      0      1
  ACTL7B WILD-TYPE     50     75     60     71     94
D1566V9, multiclass
        clus
vv       ACTL7B MUTATED ACTL7B WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL7B MUTATED        0      0      0      1      1      1      1      0
  ACTL7B WILD-TYPE     69     48     39     15     52     19     20     38
                  vv
clus               CLUS_9
  ACTL7B MUTATED        0
  ACTL7B WILD-TYPE     50
D1566V10, multiclass
        clus
vv       ACTL7B MUTATED ACTL7B WILD-TYPE
  CLUS_1              0               69
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACTL7B MUTATED        0      0      0      0      1      0
  ACTL7B WILD-TYPE     13     16     14     11     10      9
D1566V11, multiclass
[1] "Remove cluster labels:" "ACTL7B MUTATED"        
clus
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-G4-6628 
"ACTL7B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL7B MUTATED        0      0      0      1      0      0      0      0
  ACTL7B WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  ACTL7B MUTATED        0
  ACTL7B WILD-TYPE      5
D1566V12, multiclass
[1] "Remove cluster labels:" "ACTL7B MUTATED"        
clus
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-G4-6628 
"ACTL7B WILD-TYPE" 

Clustering(1567) Variable = COL4A6 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL4A6 MUTATED        3      1      2      3      1
  COL4A6 WILD-TYPE     29     17     44     24     22
D1567V1, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              1               17
  CLUS_3              2               44
  CLUS_4              3               24
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL4A6 MUTATED        3      4      3
  COL4A6 WILD-TYPE     40     63     33
D1567V2, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              4               63
  CLUS_3              3               33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL4A6 MUTATED        1      7     13
  COL4A6 WILD-TYPE     41    166    134
D1567V3, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              7              166
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL4A6 MUTATED        5      2      4
  COL4A6 WILD-TYPE     57     71     71
D1567V4, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              2               71
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL4A6 MUTATED        3      3     10
  COL4A6 WILD-TYPE     67    117     90
D1567V5, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              3              117
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL4A6 MUTATED        3      1      1      2      0      5      3      0
  COL4A6 WILD-TYPE     38     25     29     27     39     64     17     14
                  vv
clus               CLUS_9
  COL4A6 MUTATED        1
  COL4A6 WILD-TYPE     21
D1567V6, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL4A6 MUTATED        3      3      6      9
  COL4A6 WILD-TYPE     97     69     66    112
D1567V7, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              3               69
  CLUS_3              6               66
  CLUS_4              9              112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL4A6 MUTATED        4      2      5      8      2
  COL4A6 WILD-TYPE     55     73     69    111     36
D1567V8, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              8              111
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL4A6 MUTATED        1      6      3      3      3
  COL4A6 WILD-TYPE     50     70     58     68     92
D1567V9, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              6               70
  CLUS_3              3               58
  CLUS_4              3               68
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL4A6 MUTATED        0      4      1      2      5      2      1      0
  COL4A6 WILD-TYPE     69     44     38     14     48     18     20     38
                  vv
clus               CLUS_9
  COL4A6 MUTATED        1
  COL4A6 WILD-TYPE     49
D1567V10, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              5               48
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  COL4A6 MUTATED        0      2      2      0      0      0
  COL4A6 WILD-TYPE     13     14     12     11     11      9
D1567V11, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL4A6 MUTATED        0      1      0      0      0      0      2      0
  COL4A6 WILD-TYPE     11      6      7      9      8      7      9      9
                  vv
clus               CLUS_9
  COL4A6 MUTATED        1
  COL4A6 WILD-TYPE      4
D1567V12, multiclass
        clus
vv       COL4A6 MUTATED COL4A6 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1568) Variable = FGD3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGD3 MUTATED        2      0      0      0      0
  FGD3 WILD-TYPE     30     18     46     27     23
D1568V1, multiclass
[1] "Remove cluster labels:" "FGD3 MUTATED"          
clus
  FGD3 MUTATED FGD3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3968 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD3 MUTATED        2      0      0
  FGD3 WILD-TYPE     41     67     36
D1568V2, multiclass
[1] "Remove cluster labels:" "FGD3 MUTATED"          
clus
  FGD3 MUTATED FGD3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3968 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" "FGD3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD3 MUTATED        3      1      8
  FGD3 WILD-TYPE     39    172    139
D1568V3, multiclass
        clus
vv       FGD3 MUTATED FGD3 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            1            172
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD3 MUTATED        8      0      3
  FGD3 WILD-TYPE     54     73     72
D1568V4, multiclass
        clus
vv       FGD3 MUTATED FGD3 WILD-TYPE
  CLUS_1            8             54
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD3 MUTATED        1      2      8
  FGD3 WILD-TYPE     69    118     92
D1568V5, multiclass
        clus
vv       FGD3 MUTATED FGD3 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FGD3 MUTATED        1      0      0      1      1      5      2      1      0
  FGD3 WILD-TYPE     40     26     30     28     38     64     18     13     22
D1568V6, multiclass
        clus
vv       FGD3 MUTATED FGD3 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FGD3 MUTATED        1      5      5      2
  FGD3 WILD-TYPE     99     67     67    119
D1568V7, multiclass
        clus
vv       FGD3 MUTATED FGD3 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            5             67
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGD3 MUTATED        1      1      9      0      2
  FGD3 WILD-TYPE     58     74     65    119     36
D1568V8, multiclass
        clus
vv       FGD3 MUTATED FGD3 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            9             65
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGD3 MUTATED        0      8      3      0      2
  FGD3 WILD-TYPE     51     68     58     71     93
D1568V9, multiclass
        clus
vv       FGD3 MUTATED FGD3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            8             68
  CLUS_3            3             58
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FGD3 MUTATED        2      3      0      4      2      0      0      2      0
  FGD3 WILD-TYPE     67     45     39     12     51     20     21     36     50
D1568V10, multiclass
        clus
vv       FGD3 MUTATED FGD3 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            4             12
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FGD3 MUTATED        0      1      0      0      3      1
  FGD3 WILD-TYPE     13     15     14     11      8      8
D1568V11, multiclass
        clus
vv       FGD3 MUTATED FGD3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FGD3 MUTATED        1      0      0      2      0      2      0      0      0
  FGD3 WILD-TYPE     10      7      7      7      8      5     11      9      5
D1568V12, multiclass
        clus
vv       FGD3 MUTATED FGD3 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            2              5
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1569) Variable = PHKB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHKB MUTATED        0      0      0      2      0
  PHKB WILD-TYPE     32     18     46     25     23
D1569V1, multiclass
[1] "Remove cluster labels:" "PHKB MUTATED"          
clus
  PHKB MUTATED PHKB WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHKB MUTATED        1      1      0
  PHKB WILD-TYPE     42     66     36
D1569V2, multiclass
[1] "Remove cluster labels:" "PHKB MUTATED"          
clus
  PHKB MUTATED PHKB WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHKB MUTATED        0      2     10
  PHKB WILD-TYPE     42    171    137
D1569V3, multiclass
        clus
vv       PHKB MUTATED PHKB WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHKB MUTATED        2      2      5
  PHKB WILD-TYPE     60     71     70
D1569V4, multiclass
        clus
vv       PHKB MUTATED PHKB WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PHKB MUTATED        2      4      5
  PHKB WILD-TYPE     68    116     95
D1569V5, multiclass
        clus
vv       PHKB MUTATED PHKB WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4            116
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PHKB MUTATED        2      2      1      1      1      4      0      0      0
  PHKB WILD-TYPE     39     24     29     28     38     65     20     14     22
D1569V6, multiclass
        clus
vv       PHKB MUTATED PHKB WILD-TYPE
  CLUS_1            2             39
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PHKB MUTATED        2      6      2      2
  PHKB WILD-TYPE     98     66     70    119
D1569V7, multiclass
        clus
vv       PHKB MUTATED PHKB WILD-TYPE
  CLUS_1            2             98
  CLUS_2            6             66
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHKB MUTATED        2      3      4      2      1
  PHKB WILD-TYPE     57     72     70    117     37
D1569V8, multiclass
        clus
vv       PHKB MUTATED PHKB WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHKB MUTATED        1      4      2      0      4
  PHKB WILD-TYPE     50     72     59     71     91
D1569V9, multiclass
        clus
vv       PHKB MUTATED PHKB WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PHKB MUTATED        1      3      0      2      1      1      0      2      1
  PHKB WILD-TYPE     68     45     39     14     52     19     21     36     49
D1569V10, multiclass
        clus
vv       PHKB MUTATED PHKB WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PHKB MUTATED        0      0      0      1      1      0
  PHKB WILD-TYPE     13     16     14     10     10      9
D1569V11, multiclass
[1] "Remove cluster labels:" "PHKB MUTATED"          
clus
  PHKB MUTATED PHKB WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PHKB MUTATED        0      0      1      1      0      0      0      0      0
  PHKB WILD-TYPE     11      7      6      8      8      7     11      9      5
D1569V12, multiclass
[1] "Remove cluster labels:" "PHKB MUTATED"          
clus
  PHKB MUTATED PHKB WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6901 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" "PHKB WILD-TYPE" 

Clustering(1570) Variable = CHD5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD5 MUTATED        8      0      0      1      0
  CHD5 WILD-TYPE     24     18     46     26     23
D1570V1, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            8             24
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD5 MUTATED        8      0      1
  CHD5 WILD-TYPE     35     67     35
D1570V2, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            8             35
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD5 MUTATED        1      3     23
  CHD5 WILD-TYPE     41    170    124
D1570V3, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3           23            124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD5 MUTATED        7      3      8
  CHD5 WILD-TYPE     55     70     67
D1570V4, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            7             55
  CLUS_2            3             70
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD5 MUTATED        3      6     13
  CHD5 WILD-TYPE     67    114     87
D1570V5, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            6            114
  CLUS_3           13             87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD5 MUTATED        3      2      1      2      3      8      2      1      0
  CHD5 WILD-TYPE     38     24     29     27     36     61     18     13     22
D1570V6, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            3             36
  CLUS_6            8             61
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD5 MUTATED        3      9      5     11
  CHD5 WILD-TYPE     97     63     67    110
D1570V7, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            9             63
  CLUS_3            5             67
  CLUS_4           11            110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD5 MUTATED        2      4     10      4      8
  CHD5 WILD-TYPE     57     71     64    115     30
D1570V8, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            4             71
  CLUS_3           10             64
  CLUS_4            4            115
  CLUS_5            8             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD5 MUTATED        2      7      5      1     13
  CHD5 WILD-TYPE     49     69     56     70     82
D1570V9, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            7             69
  CLUS_3            5             56
  CLUS_4            1             70
  CLUS_5           13             82
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD5 MUTATED        3      5      0      1      3      4      1      9      2
  CHD5 WILD-TYPE     66     43     39     15     50     16     20     29     48
D1570V10, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            5             43
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            3             50
  CLUS_6            4             16
  CLUS_7            1             20
  CLUS_8            9             29
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHD5 MUTATED        1      0      2      0      2      0
  CHD5 WILD-TYPE     12     16     12     11      9      9
D1570V11, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHD5 MUTATED        0      0      0      1      2      0      1      0      1
  CHD5 WILD-TYPE     11      7      7      8      6      7     10      9      4
D1570V12, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            2              6
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1571) Variable = GSTA5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSTA5 MUTATED        1      0      0      0      0
  GSTA5 WILD-TYPE     31     18     46     27     23
D1571V1, multiclass
[1] "Remove cluster labels:" "GSTA5 MUTATED"         
clus
  GSTA5 MUTATED GSTA5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AY-4071 
"GSTA5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSTA5 MUTATED        1      0      0
  GSTA5 WILD-TYPE     42     67     36
D1571V2, multiclass
[1] "Remove cluster labels:" "GSTA5 MUTATED"         
clus
  GSTA5 MUTATED GSTA5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AY-4071 
"GSTA5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSTA5 MUTATED        1      2      3
  GSTA5 WILD-TYPE     41    171    144
D1571V3, multiclass
        clus
vv       GSTA5 MUTATED GSTA5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSTA5 MUTATED        3      2      0
  GSTA5 WILD-TYPE     59     71     75
D1571V4, multiclass
        clus
vv       GSTA5 MUTATED GSTA5 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSTA5 MUTATED        1      1      3
  GSTA5 WILD-TYPE     69    119     97
D1571V5, multiclass
        clus
vv       GSTA5 MUTATED GSTA5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GSTA5 MUTATED        2      0      0      0      2      1      0      0
  GSTA5 WILD-TYPE     39     26     30     29     37     68     20     14
                 vv
clus              CLUS_9
  GSTA5 MUTATED        0
  GSTA5 WILD-TYPE     22
D1571V6, multiclass
        clus
vv       GSTA5 MUTATED GSTA5 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GSTA5 MUTATED        1      1      3      1
  GSTA5 WILD-TYPE     99     71     69    120
D1571V7, multiclass
        clus
vv       GSTA5 MUTATED GSTA5 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSTA5 MUTATED        3      2      0      0      1
  GSTA5 WILD-TYPE     56     73     74    119     37
D1571V8, multiclass
        clus
vv       GSTA5 MUTATED GSTA5 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             2              73
  CLUS_3             0              74
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSTA5 MUTATED        0      1      3      0      2
  GSTA5 WILD-TYPE     51     75     58     71     93
D1571V9, multiclass
        clus
vv       GSTA5 MUTATED GSTA5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GSTA5 MUTATED        1      2      0      0      1      0      0      1
  GSTA5 WILD-TYPE     68     46     39     16     52     20     21     37
                 vv
clus              CLUS_9
  GSTA5 MUTATED        1
  GSTA5 WILD-TYPE     49
D1571V10, multiclass
        clus
vv       GSTA5 MUTATED GSTA5 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GSTA5 MUTATED        0      1      0      1      0      0
  GSTA5 WILD-TYPE     13     15     14     10     11      9
D1571V11, multiclass
[1] "Remove cluster labels:" "GSTA5 MUTATED"         
clus
  GSTA5 MUTATED GSTA5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GSTA5 MUTATED        0      0      1      0      0      1      0      0
  GSTA5 WILD-TYPE     11      7      6      9      8      6     11      9
                 vv
clus              CLUS_9
  GSTA5 MUTATED        0
  GSTA5 WILD-TYPE      5
D1571V12, multiclass
[1] "Remove cluster labels:" "GSTA5 MUTATED"         
clus
  GSTA5 MUTATED GSTA5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" "GSTA5 WILD-TYPE" 

Clustering(1572) Variable = C5ORF42 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5ORF42 MUTATED        6      0      0      3      0
  C5ORF42 WILD-TYPE     26     18     46     24     23
D1572V1, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1               6                26
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               3                24
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF42 MUTATED        6      2      1
  C5ORF42 WILD-TYPE     37     65     35
D1572V2, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1               6                37
  CLUS_2               2                65
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF42 MUTATED        1      5     26
  C5ORF42 WILD-TYPE     41    168    121
D1572V3, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               5               168
  CLUS_3              26               121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF42 MUTATED       12      3      8
  C5ORF42 WILD-TYPE     50     70     67
D1572V4, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1              12                50
  CLUS_2               3                70
  CLUS_3               8                67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C5ORF42 MUTATED        4      7     16
  C5ORF42 WILD-TYPE     66    113     84
D1572V5, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1               4                66
  CLUS_2               7               113
  CLUS_3              16                84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C5ORF42 MUTATED        3      1      1      1      5     13      1      2
  C5ORF42 WILD-TYPE     38     25     29     28     34     56     19     12
                   vv
clus                CLUS_9
  C5ORF42 MUTATED        0
  C5ORF42 WILD-TYPE     22
D1572V6, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1               3                38
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               5                34
  CLUS_6              13                56
  CLUS_7               1                19
  CLUS_8               2                12
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C5ORF42 MUTATED        5      9      9      9
  C5ORF42 WILD-TYPE     95     63     63    112
D1572V7, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1               5                95
  CLUS_2               9                63
  CLUS_3               9                63
  CLUS_4               9               112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5ORF42 MUTATED        4      5     14      2      7
  C5ORF42 WILD-TYPE     55     70     60    117     31
D1572V8, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               5                70
  CLUS_3              14                60
  CLUS_4               2               117
  CLUS_5               7                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5ORF42 MUTATED        2     12      6      2      9
  C5ORF42 WILD-TYPE     49     64     55     69     86
D1572V9, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1               2                49
  CLUS_2              12                64
  CLUS_3               6                55
  CLUS_4               2                69
  CLUS_5               9                86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C5ORF42 MUTATED        7      7      1      4      3      1      1      6
  C5ORF42 WILD-TYPE     62     41     38     12     50     19     20     32
                   vv
clus                CLUS_9
  C5ORF42 MUTATED        1
  C5ORF42 WILD-TYPE     49
D1572V10, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1               7                62
  CLUS_2               7                41
  CLUS_3               1                38
  CLUS_4               4                12
  CLUS_5               3                50
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               6                32
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C5ORF42 MUTATED        1      3      3      0      4      1
  C5ORF42 WILD-TYPE     12     13     11     11      7      8
D1572V11, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               3                13
  CLUS_3               3                11
  CLUS_4               0                11
  CLUS_5               4                 7
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C5ORF42 MUTATED        2      0      0      2      2      0      4      1
  C5ORF42 WILD-TYPE      9      7      7      7      6      7      7      8
                   vv
clus                CLUS_9
  C5ORF42 MUTATED        1
  C5ORF42 WILD-TYPE      4
D1572V12, multiclass
        clus
vv       C5ORF42 MUTATED C5ORF42 WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               2                 6
  CLUS_6               0                 7
  CLUS_7               4                 7
  CLUS_8               1                 8
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1573) Variable = ESYT1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESYT1 MUTATED        0      0      0      1      0
  ESYT1 WILD-TYPE     32     18     46     26     23
D1573V1, multiclass
[1] "Remove cluster labels:" "ESYT1 MUTATED"         
clus
  ESYT1 MUTATED ESYT1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AY-4071 
"ESYT1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESYT1 MUTATED        1      0      0
  ESYT1 WILD-TYPE     42     67     36
D1573V2, multiclass
[1] "Remove cluster labels:" "ESYT1 MUTATED"         
clus
  ESYT1 MUTATED ESYT1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" "ESYT1 WILD-TYPE" 
     TCGA-AY-4071 
"ESYT1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESYT1 MUTATED        1      3      5
  ESYT1 WILD-TYPE     41    170    142
D1573V3, multiclass
        clus
vv       ESYT1 MUTATED ESYT1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESYT1 MUTATED        1      1      6
  ESYT1 WILD-TYPE     61     72     69
D1573V4, multiclass
        clus
vv       ESYT1 MUTATED ESYT1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESYT1 MUTATED        1      5      2
  ESYT1 WILD-TYPE     69    115     98
D1573V5, multiclass
        clus
vv       ESYT1 MUTATED ESYT1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESYT1 MUTATED        0      0      2      2      1      2      0      0
  ESYT1 WILD-TYPE     41     26     28     27     38     67     20     14
                 vv
clus              CLUS_9
  ESYT1 MUTATED        1
  ESYT1 WILD-TYPE     21
D1573V6, multiclass
        clus
vv       ESYT1 MUTATED ESYT1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESYT1 MUTATED        1      6      1      1
  ESYT1 WILD-TYPE     99     66     71    120
D1573V7, multiclass
        clus
vv       ESYT1 MUTATED ESYT1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESYT1 MUTATED        1      3      4      0      1
  ESYT1 WILD-TYPE     58     72     70    119     37
D1573V8, multiclass
        clus
vv       ESYT1 MUTATED ESYT1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESYT1 MUTATED        2      5      1      0      1
  ESYT1 WILD-TYPE     49     71     60     71     94
D1573V9, multiclass
        clus
vv       ESYT1 MUTATED ESYT1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESYT1 MUTATED        0      1      0      4      2      1      0      1
  ESYT1 WILD-TYPE     69     47     39     12     51     19     21     37
                 vv
clus              CLUS_9
  ESYT1 MUTATED        0
  ESYT1 WILD-TYPE     50
D1573V10, multiclass
        clus
vv       ESYT1 MUTATED ESYT1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ESYT1 MUTATED        2      1      0      0      1      0
  ESYT1 WILD-TYPE     11     15     14     11     10      9
D1573V11, multiclass
        clus
vv       ESYT1 MUTATED ESYT1 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ESYT1 MUTATED        0      1      0      2      0      0      0      0
  ESYT1 WILD-TYPE     11      6      7      7      8      7     11      9
                 vv
clus              CLUS_9
  ESYT1 MUTATED        1
  ESYT1 WILD-TYPE      4
D1573V12, multiclass
        clus
vv       ESYT1 MUTATED ESYT1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1574) Variable = ADAM30 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAM30 MUTATED        3      0      0      0      0
  ADAM30 WILD-TYPE     29     18     46     27     23
D1574V1, multiclass
        clus
vv       ADAM30 MUTATED ADAM30 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM30 MUTATED        3      0      0
  ADAM30 WILD-TYPE     40     67     36
D1574V2, multiclass
        clus
vv       ADAM30 MUTATED ADAM30 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM30 MUTATED        0      1      7
  ADAM30 WILD-TYPE     42    172    140
D1574V3, multiclass
        clus
vv       ADAM30 MUTATED ADAM30 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM30 MUTATED        3      1      1
  ADAM30 WILD-TYPE     59     72     74
D1574V4, multiclass
        clus
vv       ADAM30 MUTATED ADAM30 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM30 MUTATED        0      1      4
  ADAM30 WILD-TYPE     70    119     96
D1574V5, multiclass
        clus
vv       ADAM30 MUTATED ADAM30 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAM30 MUTATED        0      0      0      1      0      3      1      0
  ADAM30 WILD-TYPE     41     26     30     28     39     66     19     14
                  vv
clus               CLUS_9
  ADAM30 MUTATED        0
  ADAM30 WILD-TYPE     22
D1574V6, multiclass
        clus
vv       ADAM30 MUTATED ADAM30 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAM30 MUTATED        1      2      2      3
  ADAM30 WILD-TYPE     99     70     70    118
D1574V7, multiclass
        clus
vv       ADAM30 MUTATED ADAM30 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAM30 MUTATED        0      1      4      0      3
  ADAM30 WILD-TYPE     59     74     70    119     35
D1574V8, multiclass
        clus
vv       ADAM30 MUTATED ADAM30 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADAM30 MUTATED        0      3      1      2      2
  ADAM30 WILD-TYPE     51     73     60     69     93
D1574V9, multiclass
        clus
vv       ADAM30 MUTATED ADAM30 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAM30 MUTATED        2      2      0      1      0      0      1      2
  ADAM30 WILD-TYPE     67     46     39     15     53     20     20     36
                  vv
clus               CLUS_9
  ADAM30 MUTATED        0
  ADAM30 WILD-TYPE     50
D1574V10, multiclass
        clus
vv       ADAM30 MUTATED ADAM30 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADAM30 MUTATED        0      0      1      0      0      1
  ADAM30 WILD-TYPE     13     16     13     11     11      8
D1574V11, multiclass
[1] "Remove cluster labels:" "ADAM30 MUTATED"        
clus
  ADAM30 MUTATED ADAM30 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADAM30 MUTATED        0      0      0      0      0      1      0      1
  ADAM30 WILD-TYPE     11      7      7      9      8      6     11      8
                  vv
clus               CLUS_9
  ADAM30 MUTATED        0
  ADAM30 WILD-TYPE      5
D1574V12, multiclass
[1] "Remove cluster labels:" "ADAM30 MUTATED"        
clus
  ADAM30 MUTATED ADAM30 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" "ADAM30 WILD-TYPE" 

Clustering(1575) Variable = PNPLA5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PNPLA5 MUTATED        1      0      0      0      0
  PNPLA5 WILD-TYPE     31     18     46     27     23
D1575V1, multiclass
[1] "Remove cluster labels:" "PNPLA5 MUTATED"        
clus
  PNPLA5 MUTATED PNPLA5 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AY-4071 
"PNPLA5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PNPLA5 MUTATED        1      0      0
  PNPLA5 WILD-TYPE     42     67     36
D1575V2, multiclass
[1] "Remove cluster labels:" "PNPLA5 MUTATED"        
clus
  PNPLA5 MUTATED PNPLA5 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AY-4071 
"PNPLA5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PNPLA5 MUTATED        2      0      8
  PNPLA5 WILD-TYPE     40    173    139
D1575V3, multiclass
        clus
vv       PNPLA5 MUTATED PNPLA5 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              0              173
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PNPLA5 MUTATED        3      0      5
  PNPLA5 WILD-TYPE     59     73     70
D1575V4, multiclass
        clus
vv       PNPLA5 MUTATED PNPLA5 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PNPLA5 MUTATED        2      3      3
  PNPLA5 WILD-TYPE     68    117     97
D1575V5, multiclass
        clus
vv       PNPLA5 MUTATED PNPLA5 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              117
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PNPLA5 MUTATED        0      1      0      2      2      3      0      0
  PNPLA5 WILD-TYPE     41     25     30     27     37     66     20     14
                  vv
clus               CLUS_9
  PNPLA5 MUTATED        0
  PNPLA5 WILD-TYPE     22
D1575V6, multiclass
        clus
vv       PNPLA5 MUTATED PNPLA5 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PNPLA5 MUTATED        0      5      2      2
  PNPLA5 WILD-TYPE    100     67     70    119
D1575V7, multiclass
        clus
vv       PNPLA5 MUTATED PNPLA5 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              5               67
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PNPLA5 MUTATED        0      0      7      1      1
  PNPLA5 WILD-TYPE     59     75     67    118     37
D1575V8, multiclass
        clus
vv       PNPLA5 MUTATED PNPLA5 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              7               67
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PNPLA5 MUTATED        0      6      0      1      3
  PNPLA5 WILD-TYPE     51     70     61     70     92
D1575V9, multiclass
        clus
vv       PNPLA5 MUTATED PNPLA5 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              6               70
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PNPLA5 MUTATED        3      1      1      2      0      0      1      1
  PNPLA5 WILD-TYPE     66     47     38     14     53     20     20     37
                  vv
clus               CLUS_9
  PNPLA5 MUTATED        1
  PNPLA5 WILD-TYPE     49
D1575V10, multiclass
        clus
vv       PNPLA5 MUTATED PNPLA5 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PNPLA5 MUTATED        0      0      1      0      0      0
  PNPLA5 WILD-TYPE     13     16     13     11     11      9
D1575V11, multiclass
[1] "Remove cluster labels:" "PNPLA5 MUTATED"        
clus
  PNPLA5 MUTATED PNPLA5 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-G4-6625 
"PNPLA5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PNPLA5 MUTATED        0      0      0      0      0      0      1      0
  PNPLA5 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  PNPLA5 MUTATED        0
  PNPLA5 WILD-TYPE      5
D1575V12, multiclass
[1] "Remove cluster labels:" "PNPLA5 MUTATED"        
clus
  PNPLA5 MUTATED PNPLA5 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309 
"PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" "PNPLA5 WILD-TYPE" 
      TCGA-G4-6625 
"PNPLA5 WILD-TYPE" 

Clustering(1576) Variable = TMPRSS5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMPRSS5 MUTATED        2      0      0      0      0
  TMPRSS5 WILD-TYPE     30     18     46     27     23
D1576V1, multiclass
[1] "Remove cluster labels:" "TMPRSS5 MUTATED"       
clus
  TMPRSS5 MUTATED TMPRSS5 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979        TCGA-AA-3980 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMPRSS5 MUTATED        2      0      0
  TMPRSS5 WILD-TYPE     41     67     36
D1576V2, multiclass
[1] "Remove cluster labels:" "TMPRSS5 MUTATED"       
clus
  TMPRSS5 MUTATED TMPRSS5 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3811        TCGA-AA-3812 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3979        TCGA-AA-3980 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" "TMPRSS5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMPRSS5 MUTATED        1      1      5
  TMPRSS5 WILD-TYPE     41    172    142
D1576V3, multiclass
        clus
vv       TMPRSS5 MUTATED TMPRSS5 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMPRSS5 MUTATED        3      0      2
  TMPRSS5 WILD-TYPE     59     73     73
D1576V4, multiclass
        clus
vv       TMPRSS5 MUTATED TMPRSS5 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMPRSS5 MUTATED        1      2      3
  TMPRSS5 WILD-TYPE     69    118     97
D1576V5, multiclass
        clus
vv       TMPRSS5 MUTATED TMPRSS5 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMPRSS5 MUTATED        1      0      0      1      1      1      1      1
  TMPRSS5 WILD-TYPE     40     26     30     28     38     68     19     13
                   vv
clus                CLUS_9
  TMPRSS5 MUTATED        0
  TMPRSS5 WILD-TYPE     22
D1576V6, multiclass
        clus
vv       TMPRSS5 MUTATED TMPRSS5 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               1                68
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMPRSS5 MUTATED        0      2      3      2
  TMPRSS5 WILD-TYPE    100     70     69    119
D1576V7, multiclass
        clus
vv       TMPRSS5 MUTATED TMPRSS5 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMPRSS5 MUTATED        1      0      4      0      2
  TMPRSS5 WILD-TYPE     58     75     70    119     36
D1576V8, multiclass
        clus
vv       TMPRSS5 MUTATED TMPRSS5 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               4                70
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMPRSS5 MUTATED        1      3      1      0      2
  TMPRSS5 WILD-TYPE     50     73     60     71     93
D1576V9, multiclass
        clus
vv       TMPRSS5 MUTATED TMPRSS5 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMPRSS5 MUTATED        2      2      0      1      0      0      0      2
  TMPRSS5 WILD-TYPE     67     46     39     15     53     20     21     36
                   vv
clus                CLUS_9
  TMPRSS5 MUTATED        0
  TMPRSS5 WILD-TYPE     50
D1576V10, multiclass
        clus
vv       TMPRSS5 MUTATED TMPRSS5 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMPRSS5 MUTATED        0      0      1      0      1      1
  TMPRSS5 WILD-TYPE     13     16     13     11     10      8
D1576V11, multiclass
        clus
vv       TMPRSS5 MUTATED TMPRSS5 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMPRSS5 MUTATED        1      0      0      1      1      0      0      0
  TMPRSS5 WILD-TYPE     10      7      7      8      7      7     11      9
                   vv
clus                CLUS_9
  TMPRSS5 MUTATED        0
  TMPRSS5 WILD-TYPE      5
D1576V12, multiclass
        clus
vv       TMPRSS5 MUTATED TMPRSS5 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1577) Variable = CSF3R MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSF3R MUTATED        2      0      0      3      1
  CSF3R WILD-TYPE     30     18     46     24     22
D1577V1, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSF3R MUTATED        4      1      1
  CSF3R WILD-TYPE     39     66     35
D1577V2, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSF3R MUTATED        2      0     12
  CSF3R WILD-TYPE     40    173    135
D1577V3, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0             173
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSF3R MUTATED        1      0      6
  CSF3R WILD-TYPE     61     73     69
D1577V4, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSF3R MUTATED        5      4      3
  CSF3R WILD-TYPE     65    116     97
D1577V5, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             5              65
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSF3R MUTATED        2      1      1      2      1      3      2      0
  CSF3R WILD-TYPE     39     25     29     27     38     66     18     14
                 vv
clus              CLUS_9
  CSF3R MUTATED        0
  CSF3R WILD-TYPE     22
D1577V6, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSF3R MUTATED        0      5      3      6
  CSF3R WILD-TYPE    100     67     69    115
D1577V7, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSF3R MUTATED        0      0      8      2      4
  CSF3R WILD-TYPE     59     75     66    117     34
D1577V8, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             8              66
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSF3R MUTATED        0      7      0      0      6
  CSF3R WILD-TYPE     51     69     61     71     89
D1577V9, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             0              51
  CLUS_2             7              69
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSF3R MUTATED        0      2      0      5      0      1      1      3
  CSF3R WILD-TYPE     69     46     39     11     53     19     20     35
                 vv
clus              CLUS_9
  CSF3R MUTATED        1
  CSF3R WILD-TYPE     49
D1577V10, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             5              11
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CSF3R MUTATED        1      1      0      0      1      0
  CSF3R WILD-TYPE     12     15     14     11     10      9
D1577V11, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CSF3R MUTATED        0      0      0      1      1      0      1      0
  CSF3R WILD-TYPE     11      7      7      8      7      7     10      9
                 vv
clus              CLUS_9
  CSF3R MUTATED        0
  CSF3R WILD-TYPE      5
D1577V12, multiclass
        clus
vv       CSF3R MUTATED CSF3R WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1578) Variable = VANGL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VANGL1 MUTATED        2      0      0      0      0
  VANGL1 WILD-TYPE     30     18     46     27     23
D1578V1, multiclass
[1] "Remove cluster labels:" "VANGL1 MUTATED"        
clus
  VANGL1 MUTATED VANGL1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00K 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VANGL1 MUTATED        2      0      0
  VANGL1 WILD-TYPE     41     67     36
D1578V2, multiclass
[1] "Remove cluster labels:" "VANGL1 MUTATED"        
clus
  VANGL1 MUTATED VANGL1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00K 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VANGL1 MUTATED        1      3      6
  VANGL1 WILD-TYPE     41    170    141
D1578V3, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VANGL1 MUTATED        3      1      4
  VANGL1 WILD-TYPE     59     72     71
D1578V4, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VANGL1 MUTATED        1      4      4
  VANGL1 WILD-TYPE     69    116     96
D1578V5, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VANGL1 MUTATED        2      2      1      0      1      3      0      0
  VANGL1 WILD-TYPE     39     24     29     29     38     66     20     14
                  vv
clus               CLUS_9
  VANGL1 MUTATED        0
  VANGL1 WILD-TYPE     22
D1578V6, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VANGL1 MUTATED        2      4      1      3
  VANGL1 WILD-TYPE     98     68     71    118
D1578V7, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VANGL1 MUTATED        0      3      3      2      2
  VANGL1 WILD-TYPE     59     72     71    117     36
D1578V8, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              3               71
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VANGL1 MUTATED        1      6      0      0      3
  VANGL1 WILD-TYPE     50     70     61     71     92
D1578V9, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              6               70
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VANGL1 MUTATED        2      1      0      1      2      1      0      3
  VANGL1 WILD-TYPE     67     47     39     15     51     19     21     35
                  vv
clus               CLUS_9
  VANGL1 MUTATED        0
  VANGL1 WILD-TYPE     50
D1578V10, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VANGL1 MUTATED        0      1      0      0      1      0
  VANGL1 WILD-TYPE     13     15     14     11     10      9
D1578V11, multiclass
[1] "Remove cluster labels:" "VANGL1 MUTATED"        
clus
  VANGL1 MUTATED VANGL1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VANGL1 MUTATED        1      0      0      0      0      0      1      0
  VANGL1 WILD-TYPE     10      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  VANGL1 MUTATED        0
  VANGL1 WILD-TYPE      5
D1578V12, multiclass
[1] "Remove cluster labels:" "VANGL1 MUTATED"        
clus
  VANGL1 MUTATED VANGL1 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 

Clustering(1579) Variable = MST1R MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MST1R MUTATED        1      0      0      0      0
  MST1R WILD-TYPE     31     18     46     27     23
D1579V1, multiclass
[1] "Remove cluster labels:" "MST1R MUTATED"         
clus
  MST1R MUTATED MST1R WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AY-4071 
"MST1R WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MST1R MUTATED        1      0      0
  MST1R WILD-TYPE     42     67     36
D1579V2, multiclass
[1] "Remove cluster labels:" "MST1R MUTATED"         
clus
  MST1R MUTATED MST1R WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3846 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" "MST1R WILD-TYPE" 
     TCGA-AY-4071 
"MST1R WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MST1R MUTATED        1      2     11
  MST1R WILD-TYPE     41    171    136
D1579V3, multiclass
        clus
vv       MST1R MUTATED MST1R WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MST1R MUTATED        5      1      7
  MST1R WILD-TYPE     57     72     68
D1579V4, multiclass
        clus
vv       MST1R MUTATED MST1R WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MST1R MUTATED        2      4      6
  MST1R WILD-TYPE     68    116     94
D1579V5, multiclass
        clus
vv       MST1R MUTATED MST1R WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MST1R MUTATED        3      0      0      2      1      6      0      0
  MST1R WILD-TYPE     38     26     30     27     38     63     20     14
                 vv
clus              CLUS_9
  MST1R MUTATED        0
  MST1R WILD-TYPE     22
D1579V6, multiclass
        clus
vv       MST1R MUTATED MST1R WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MST1R MUTATED        1      6      6      1
  MST1R WILD-TYPE     99     66     66    120
D1579V7, multiclass
        clus
vv       MST1R MUTATED MST1R WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             6              66
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MST1R MUTATED        1      1     11      0      1
  MST1R WILD-TYPE     58     74     63    119     37
D1579V8, multiclass
        clus
vv       MST1R MUTATED MST1R WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3            11              63
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MST1R MUTATED        0      9      3      1      1
  MST1R WILD-TYPE     51     67     58     70     94
D1579V9, multiclass
        clus
vv       MST1R MUTATED MST1R WILD-TYPE
  CLUS_1             0              51
  CLUS_2             9              67
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MST1R MUTATED        4      5      1      2      1      1      0      0
  MST1R WILD-TYPE     65     43     38     14     52     19     21     38
                 vv
clus              CLUS_9
  MST1R MUTATED        0
  MST1R WILD-TYPE     50
D1579V10, multiclass
        clus
vv       MST1R MUTATED MST1R WILD-TYPE
  CLUS_1             4              65
  CLUS_2             5              43
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MST1R MUTATED        0      3      3      0      0      0
  MST1R WILD-TYPE     13     13     11     11     11      9
D1579V11, multiclass
        clus
vv       MST1R MUTATED MST1R WILD-TYPE
  CLUS_1             0              13
  CLUS_2             3              13
  CLUS_3             3              11
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MST1R MUTATED        1      0      0      0      1      2      1      0
  MST1R WILD-TYPE     10      7      7      9      7      5     10      9
                 vv
clus              CLUS_9
  MST1R MUTATED        1
  MST1R WILD-TYPE      4
D1579V12, multiclass
        clus
vv       MST1R MUTATED MST1R WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             2               5
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1580) Variable = OR5H1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5H1 MUTATED        3      0      0      0      0
  OR5H1 WILD-TYPE     29     18     46     27     23
D1580V1, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5H1 MUTATED        2      0      1
  OR5H1 WILD-TYPE     41     67     35
D1580V2, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5H1 MUTATED        2      2      6
  OR5H1 WILD-TYPE     40    171    141
D1580V3, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5H1 MUTATED        2      1      4
  OR5H1 WILD-TYPE     60     72     71
D1580V4, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5H1 MUTATED        1      3      4
  OR5H1 WILD-TYPE     69    117     96
D1580V5, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5H1 MUTATED        2      1      0      2      0      2      1      0
  OR5H1 WILD-TYPE     39     25     30     27     39     67     19     14
                 vv
clus              CLUS_9
  OR5H1 MUTATED        0
  OR5H1 WILD-TYPE     22
D1580V6, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR5H1 MUTATED        2      4      1      3
  OR5H1 WILD-TYPE     98     68     71    118
D1580V7, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5H1 MUTATED        1      2      4      1      2
  OR5H1 WILD-TYPE     58     73     70    118     36
D1580V8, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5H1 MUTATED        2      5      0      1      1
  OR5H1 WILD-TYPE     49     71     61     70     94
D1580V9, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5H1 MUTATED        2      1      0      3      2      0      1      0
  OR5H1 WILD-TYPE     67     47     39     13     51     20     20     38
                 vv
clus              CLUS_9
  OR5H1 MUTATED        0
  OR5H1 WILD-TYPE     50
D1580V10, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR5H1 MUTATED        0      1      0      0      2      0
  OR5H1 WILD-TYPE     13     15     14     11      9      9
D1580V11, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5H1 MUTATED        1      0      0      2      0      0      0      0
  OR5H1 WILD-TYPE     10      7      7      7      8      7     11      9
                 vv
clus              CLUS_9
  OR5H1 MUTATED        0
  OR5H1 WILD-TYPE      5
D1580V12, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1581) Variable = VWA5A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VWA5A MUTATED        3      0      1      2      0
  VWA5A WILD-TYPE     29     18     45     25     23
D1581V1, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VWA5A MUTATED        3      3      0
  VWA5A WILD-TYPE     40     64     36
D1581V2, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             3              40
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VWA5A MUTATED        1      3      8
  VWA5A WILD-TYPE     41    170    139
D1581V3, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VWA5A MUTATED        1      2      3
  VWA5A WILD-TYPE     61     71     72
D1581V4, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VWA5A MUTATED        2      3      5
  VWA5A WILD-TYPE     68    117     95
D1581V5, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VWA5A MUTATED        1      0      1      2      1      4      1      0
  VWA5A WILD-TYPE     40     26     29     27     38     65     19     14
                 vv
clus              CLUS_9
  VWA5A MUTATED        0
  VWA5A WILD-TYPE     22
D1581V6, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VWA5A MUTATED        1      4      2      5
  VWA5A WILD-TYPE     99     68     70    116
D1581V7, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VWA5A MUTATED        2      1      3      4      2
  VWA5A WILD-TYPE     57     74     71    115     36
D1581V8, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             4             115
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VWA5A MUTATED        0      4      2      1      5
  VWA5A WILD-TYPE     51     72     59     70     90
D1581V9, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VWA5A MUTATED        0      2      0      3      1      1      1      4
  VWA5A WILD-TYPE     69     46     39     13     52     19     20     34
                 vv
clus              CLUS_9
  VWA5A MUTATED        0
  VWA5A WILD-TYPE     50
D1581V10, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VWA5A MUTATED        0      0      0      1      2      0
  VWA5A WILD-TYPE     13     16     14     10      9      9
D1581V11, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VWA5A MUTATED        0      0      1      2      0      0      0      0
  VWA5A WILD-TYPE     11      7      6      7      8      7     11      9
                 vv
clus              CLUS_9
  VWA5A MUTATED        0
  VWA5A WILD-TYPE      5
D1581V12, multiclass
        clus
vv       VWA5A MUTATED VWA5A WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1582) Variable = ABCF3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCF3 MUTATED        2      0      0      1      0
  ABCF3 WILD-TYPE     30     18     46     26     23
D1582V1, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCF3 MUTATED        3      0      0
  ABCF3 WILD-TYPE     40     67     36
D1582V2, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCF3 MUTATED        2      2     10
  ABCF3 WILD-TYPE     40    171    137
D1582V3, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCF3 MUTATED        4      3      5
  ABCF3 WILD-TYPE     58     70     70
D1582V4, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCF3 MUTATED        3      6      6
  ABCF3 WILD-TYPE     67    114     94
D1582V5, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             6             114
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCF3 MUTATED        2      2      1      1      1      4      2      1
  ABCF3 WILD-TYPE     39     24     29     28     38     65     18     13
                 vv
clus              CLUS_9
  ABCF3 MUTATED        1
  ABCF3 WILD-TYPE     21
D1582V6, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCF3 MUTATED        2      7      3      3
  ABCF3 WILD-TYPE     98     65     69    118
D1582V7, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             7              65
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCF3 MUTATED        2      4      5      1      3
  ABCF3 WILD-TYPE     57     71     69    118     35
D1582V8, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCF3 MUTATED        2      6      2      0      5
  ABCF3 WILD-TYPE     49     70     59     71     90
D1582V9, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             6              70
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCF3 MUTATED        2      3      1      3      1      1      0      3
  ABCF3 WILD-TYPE     67     45     38     13     52     19     21     35
                 vv
clus              CLUS_9
  ABCF3 MUTATED        1
  ABCF3 WILD-TYPE     49
D1582V10, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABCF3 MUTATED        0      0      0      0      3      0
  ABCF3 WILD-TYPE     13     16     14     11      8      9
D1582V11, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ABCF3 MUTATED        0      0      0      1      0      1      1      0
  ABCF3 WILD-TYPE     11      7      7      8      8      6     10      9
                 vv
clus              CLUS_9
  ABCF3 MUTATED        0
  ABCF3 WILD-TYPE      5
D1582V12, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1583) Variable = CUBN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUBN MUTATED        6      2      1      8      2
  CUBN WILD-TYPE     26     16     45     19     21
D1583V1, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1            6             26
  CLUS_2            2             16
  CLUS_3            1             45
  CLUS_4            8             19
  CLUS_5            2             21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUBN MUTATED        8      9      2
  CUBN WILD-TYPE     35     58     34
D1583V2, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1            8             35
  CLUS_2            9             58
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUBN MUTATED        3     14     34
  CUBN WILD-TYPE     39    159    113
D1583V3, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1            3             39
  CLUS_2           14            159
  CLUS_3           34            113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUBN MUTATED        8      6     17
  CUBN WILD-TYPE     54     67     58
D1583V4, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1            8             54
  CLUS_2            6             67
  CLUS_3           17             58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUBN MUTATED       10     17     15
  CUBN WILD-TYPE     60    103     85
D1583V5, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1           10             60
  CLUS_2           17            103
  CLUS_3           15             85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUBN MUTATED        6      1      6      7      4     11      3      2      2
  CUBN WILD-TYPE     35     25     24     22     35     58     17     12     20
D1583V6, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1            6             35
  CLUS_2            1             25
  CLUS_3            6             24
  CLUS_4            7             22
  CLUS_5            4             35
  CLUS_6           11             58
  CLUS_7            3             17
  CLUS_8            2             12
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CUBN MUTATED        8     11     14     18
  CUBN WILD-TYPE     92     61     58    103
D1583V7, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1            8             92
  CLUS_2           11             61
  CLUS_3           14             58
  CLUS_4           18            103
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUBN MUTATED        7      6     18     12      8
  CUBN WILD-TYPE     52     69     56    107     30
D1583V8, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1            7             52
  CLUS_2            6             69
  CLUS_3           18             56
  CLUS_4           12            107
  CLUS_5            8             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUBN MUTATED        2     16     10      5     16
  CUBN WILD-TYPE     49     60     51     66     79
D1583V9, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1            2             49
  CLUS_2           16             60
  CLUS_3           10             51
  CLUS_4            5             66
  CLUS_5           16             79
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUBN MUTATED        9     10      3      6      5      3      2      9      2
  CUBN WILD-TYPE     60     38     36     10     48     17     19     29     48
D1583V10, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1            9             60
  CLUS_2           10             38
  CLUS_3            3             36
  CLUS_4            6             10
  CLUS_5            5             48
  CLUS_6            3             17
  CLUS_7            2             19
  CLUS_8            9             29
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CUBN MUTATED        1      2      4      1      5      1
  CUBN WILD-TYPE     12     14     10     10      6      8
D1583V11, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1            1             12
  CLUS_2            2             14
  CLUS_3            4             10
  CLUS_4            1             10
  CLUS_5            5              6
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUBN MUTATED        1      0      1      2      4      1      3      1      1
  CUBN WILD-TYPE     10      7      6      7      4      6      8      8      4
D1583V12, multiclass
        clus
vv       CUBN MUTATED CUBN WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            2              7
  CLUS_5            4              4
  CLUS_6            1              6
  CLUS_7            3              8
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1584) Variable = LIPH MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIPH MUTATED        1      0      0      1      0
  LIPH WILD-TYPE     31     18     46     26     23
D1584V1, multiclass
[1] "Remove cluster labels:" "LIPH MUTATED"          
clus
  LIPH MUTATED LIPH WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIPH MUTATED        1      1      0
  LIPH WILD-TYPE     42     66     36
D1584V2, multiclass
[1] "Remove cluster labels:" "LIPH MUTATED"          
clus
  LIPH MUTATED LIPH WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIPH MUTATED        1      1      7
  LIPH WILD-TYPE     41    172    140
D1584V3, multiclass
        clus
vv       LIPH MUTATED LIPH WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIPH MUTATED        2      2      3
  LIPH WILD-TYPE     60     71     72
D1584V4, multiclass
        clus
vv       LIPH MUTATED LIPH WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIPH MUTATED        1      2      5
  LIPH WILD-TYPE     69    118     95
D1584V5, multiclass
        clus
vv       LIPH MUTATED LIPH WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LIPH MUTATED        1      0      1      1      1      3      0      1      0
  LIPH WILD-TYPE     40     26     29     28     38     66     20     13     22
D1584V6, multiclass
        clus
vv       LIPH MUTATED LIPH WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LIPH MUTATED        2      4      1      2
  LIPH WILD-TYPE     98     68     71    119
D1584V7, multiclass
        clus
vv       LIPH MUTATED LIPH WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIPH MUTATED        1      2      4      1      1
  LIPH WILD-TYPE     58     73     70    118     37
D1584V8, multiclass
        clus
vv       LIPH MUTATED LIPH WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIPH MUTATED        1      3      2      1      2
  LIPH WILD-TYPE     50     73     59     70     93
D1584V9, multiclass
        clus
vv       LIPH MUTATED LIPH WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LIPH MUTATED        4      1      0      2      0      1      0      1      0
  LIPH WILD-TYPE     65     47     39     14     53     19     21     37     50
D1584V10, multiclass
        clus
vv       LIPH MUTATED LIPH WILD-TYPE
  CLUS_1            4             65
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LIPH MUTATED        0      0      1      0      0      0
  LIPH WILD-TYPE     13     16     13     11     11      9
D1584V11, multiclass
[1] "Remove cluster labels:" "LIPH MUTATED"          
clus
  LIPH MUTATED LIPH WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6142 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-G4-6628 
"LIPH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LIPH MUTATED        0      0      0      0      1      0      0      0      0
  LIPH WILD-TYPE     11      7      7      9      7      7     11      9      5
D1584V12, multiclass
[1] "Remove cluster labels:" "LIPH MUTATED"          
clus
  LIPH MUTATED LIPH WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6142 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" "LIPH WILD-TYPE" 
    TCGA-G4-6628 
"LIPH WILD-TYPE" 

Clustering(1585) Variable = SHQ1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SHQ1 MUTATED        0      0      0      1      1
  SHQ1 WILD-TYPE     32     18     46     26     22
D1585V1, multiclass
[1] "Remove cluster labels:" "SHQ1 MUTATED"          
clus
  SHQ1 MUTATED SHQ1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3984     TCGA-AA-3986 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SHQ1 MUTATED        0      1      1
  SHQ1 WILD-TYPE     43     66     35
D1585V2, multiclass
[1] "Remove cluster labels:" "SHQ1 MUTATED"          
clus
  SHQ1 MUTATED SHQ1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3984     TCGA-AA-3986 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SHQ1 MUTATED        0      5      3
  SHQ1 WILD-TYPE     42    168    144
D1585V3, multiclass
        clus
vv       SHQ1 MUTATED SHQ1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            5            168
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SHQ1 MUTATED        3      1      1
  SHQ1 WILD-TYPE     59     72     74
D1585V4, multiclass
        clus
vv       SHQ1 MUTATED SHQ1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SHQ1 MUTATED        2      3      2
  SHQ1 WILD-TYPE     68    117     98
D1585V5, multiclass
        clus
vv       SHQ1 MUTATED SHQ1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SHQ1 MUTATED        0      2      1      0      1      1      1      0      1
  SHQ1 WILD-TYPE     41     24     29     29     38     68     19     14     21
D1585V6, multiclass
        clus
vv       SHQ1 MUTATED SHQ1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SHQ1 MUTATED        1      1      4      2
  SHQ1 WILD-TYPE     99     71     68    119
D1585V7, multiclass
        clus
vv       SHQ1 MUTATED SHQ1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            1             71
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SHQ1 MUTATED        2      3      1      2      0
  SHQ1 WILD-TYPE     57     72     73    117     38
D1585V8, multiclass
        clus
vv       SHQ1 MUTATED SHQ1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            1             73
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SHQ1 MUTATED        2      1      1      0      4
  SHQ1 WILD-TYPE     49     75     60     71     91
D1585V9, multiclass
        clus
vv       SHQ1 MUTATED SHQ1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            1             75
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SHQ1 MUTATED        0      2      0      0      1      2      1      0      2
  SHQ1 WILD-TYPE     69     46     39     16     52     18     20     38     48
D1585V10, multiclass
        clus
vv       SHQ1 MUTATED SHQ1 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SHQ1 MUTATED        0      1      0      1      0      0
  SHQ1 WILD-TYPE     13     15     14     10     11      9
D1585V11, multiclass
[1] "Remove cluster labels:" "SHQ1 MUTATED"          
clus
  SHQ1 MUTATED SHQ1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SHQ1 MUTATED        0      1      0      0      0      0      1      0      0
  SHQ1 WILD-TYPE     11      6      7      9      8      7     10      9      5
D1585V12, multiclass
[1] "Remove cluster labels:" "SHQ1 MUTATED"          
clus
  SHQ1 MUTATED SHQ1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" "SHQ1 WILD-TYPE" 

Clustering(1586) Variable = DAB2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DAB2 MUTATED        0      0      1      1      1
  DAB2 WILD-TYPE     32     18     45     26     22
D1586V1, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            0             32
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DAB2 MUTATED        0      1      2
  DAB2 WILD-TYPE     43     66     34
D1586V2, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            0             43
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DAB2 MUTATED        1      3      9
  DAB2 WILD-TYPE     41    170    138
D1586V3, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DAB2 MUTATED        5      1      4
  DAB2 WILD-TYPE     57     72     71
D1586V4, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DAB2 MUTATED        4      1      5
  DAB2 WILD-TYPE     66    119     95
D1586V5, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            4             66
  CLUS_2            1            119
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DAB2 MUTATED        1      1      0      0      1      4      1      1      1
  DAB2 WILD-TYPE     40     25     30     29     38     65     19     13     21
D1586V6, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DAB2 MUTATED        2      4      4      3
  DAB2 WILD-TYPE     98     68     68    118
D1586V7, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            4             68
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DAB2 MUTATED        2      3      5      3      0
  DAB2 WILD-TYPE     57     72     69    116     38
D1586V8, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            5             69
  CLUS_4            3            116
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DAB2 MUTATED        0      5      3      2      3
  DAB2 WILD-TYPE     51     71     58     69     92
D1586V9, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            5             71
  CLUS_3            3             58
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DAB2 MUTATED        3      3      1      1      1      0      0      0      4
  DAB2 WILD-TYPE     66     45     38     15     52     20     21     38     46
D1586V10, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            4             46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DAB2 MUTATED        0      1      1      0      1      0
  DAB2 WILD-TYPE     13     15     13     11     10      9
D1586V11, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DAB2 MUTATED        0      1      0      0      2      0      0      0      0
  DAB2 WILD-TYPE     11      6      7      9      6      7     11      9      5
D1586V12, multiclass
        clus
vv       DAB2 MUTATED DAB2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            2              6
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1587) Variable = IFLTD1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFLTD1 MUTATED        2      0      1      1      0
  IFLTD1 WILD-TYPE     30     18     45     26     23
D1587V1, multiclass
        clus
vv       IFLTD1 MUTATED IFLTD1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFLTD1 MUTATED        3      1      0
  IFLTD1 WILD-TYPE     40     66     36
D1587V2, multiclass
        clus
vv       IFLTD1 MUTATED IFLTD1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFLTD1 MUTATED        0      4      8
  IFLTD1 WILD-TYPE     42    169    139
D1587V3, multiclass
        clus
vv       IFLTD1 MUTATED IFLTD1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFLTD1 MUTATED        2      2      4
  IFLTD1 WILD-TYPE     60     71     71
D1587V4, multiclass
        clus
vv       IFLTD1 MUTATED IFLTD1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IFLTD1 MUTATED        1      5      4
  IFLTD1 WILD-TYPE     69    115     96
D1587V5, multiclass
        clus
vv       IFLTD1 MUTATED IFLTD1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFLTD1 MUTATED        1      1      0      3      2      1      1      1
  IFLTD1 WILD-TYPE     40     25     30     26     37     68     19     13
                  vv
clus               CLUS_9
  IFLTD1 MUTATED        0
  IFLTD1 WILD-TYPE     22
D1587V6, multiclass
        clus
vv       IFLTD1 MUTATED IFLTD1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFLTD1 MUTATED        2      4      2      4
  IFLTD1 WILD-TYPE     98     68     70    117
D1587V7, multiclass
        clus
vv       IFLTD1 MUTATED IFLTD1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFLTD1 MUTATED        2      3      3      1      3
  IFLTD1 WILD-TYPE     57     72     71    118     35
D1587V8, multiclass
        clus
vv       IFLTD1 MUTATED IFLTD1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFLTD1 MUTATED        1      6      1      0      4
  IFLTD1 WILD-TYPE     50     70     60     71     91
D1587V9, multiclass
        clus
vv       IFLTD1 MUTATED IFLTD1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              6               70
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFLTD1 MUTATED        3      3      1      0      0      1      0      3
  IFLTD1 WILD-TYPE     66     45     38     16     53     19     21     35
                  vv
clus               CLUS_9
  IFLTD1 MUTATED        1
  IFLTD1 WILD-TYPE     49
D1587V10, multiclass
        clus
vv       IFLTD1 MUTATED IFLTD1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               45
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IFLTD1 MUTATED        0      0      0      0      0      0
  IFLTD1 WILD-TYPE     13     16     14     11     11      9
D1587V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFLTD1 MUTATED        0      0      0      0      0      0      0      0
  IFLTD1 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  IFLTD1 MUTATED        0
  IFLTD1 WILD-TYPE      5
D1587V12, multiclass

Clustering(1588) Variable = TEX11 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEX11 MUTATED        2      0      0      2      0
  TEX11 WILD-TYPE     30     18     46     25     23
D1588V1, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TEX11 MUTATED        3      1      0
  TEX11 WILD-TYPE     40     66     36
D1588V2, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TEX11 MUTATED        1      7      9
  TEX11 WILD-TYPE     41    166    138
D1588V3, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             7             166
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TEX11 MUTATED        2      3      8
  TEX11 WILD-TYPE     60     70     67
D1588V4, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             3              70
  CLUS_3             8              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TEX11 MUTATED        1      6      7
  TEX11 WILD-TYPE     69    114     93
D1588V5, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TEX11 MUTATED        1      1      1      2      0      7      1      0
  TEX11 WILD-TYPE     40     25     29     27     39     62     19     14
                 vv
clus              CLUS_9
  TEX11 MUTATED        1
  TEX11 WILD-TYPE     21
D1588V6, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TEX11 MUTATED        5      7      1      4
  TEX11 WILD-TYPE     95     65     71    117
D1588V7, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             7              65
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEX11 MUTATED        3      3      7      2      2
  TEX11 WILD-TYPE     56     72     67    117     36
D1588V8, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             7              67
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEX11 MUTATED        3      8      2      0      3
  TEX11 WILD-TYPE     48     68     59     71     92
D1588V9, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             8              68
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TEX11 MUTATED        2      1      1      5      4      1      1      1
  TEX11 WILD-TYPE     67     47     38     11     49     19     20     37
                 vv
clus              CLUS_9
  TEX11 MUTATED        0
  TEX11 WILD-TYPE     50
D1588V10, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             5              11
  CLUS_5             4              49
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TEX11 MUTATED        0      1      0      0      1      1
  TEX11 WILD-TYPE     13     15     14     11     10      8
D1588V11, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TEX11 MUTATED        0      0      1      1      0      1      0      0
  TEX11 WILD-TYPE     11      7      6      8      8      6     11      9
                 vv
clus              CLUS_9
  TEX11 MUTATED        0
  TEX11 WILD-TYPE      5
D1588V12, multiclass
        clus
vv       TEX11 MUTATED TEX11 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1589) Variable = GOLGA1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLGA1 MUTATED        2      0      0      1      0
  GOLGA1 WILD-TYPE     30     18     46     26     23
D1589V1, multiclass
        clus
vv       GOLGA1 MUTATED GOLGA1 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGA1 MUTATED        2      0      1
  GOLGA1 WILD-TYPE     41     67     35
D1589V2, multiclass
        clus
vv       GOLGA1 MUTATED GOLGA1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGA1 MUTATED        1      1      5
  GOLGA1 WILD-TYPE     41    172    142
D1589V3, multiclass
        clus
vv       GOLGA1 MUTATED GOLGA1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGA1 MUTATED        1      0      3
  GOLGA1 WILD-TYPE     61     73     72
D1589V4, multiclass
        clus
vv       GOLGA1 MUTATED GOLGA1 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGA1 MUTATED        1      1      2
  GOLGA1 WILD-TYPE     69    119     98
D1589V5, multiclass
        clus
vv       GOLGA1 MUTATED GOLGA1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLGA1 MUTATED        1      0      0      1      0      1      0      0
  GOLGA1 WILD-TYPE     40     26     30     28     39     68     20     14
                  vv
clus               CLUS_9
  GOLGA1 MUTATED        1
  GOLGA1 WILD-TYPE     21
D1589V6, multiclass
        clus
vv       GOLGA1 MUTATED GOLGA1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GOLGA1 MUTATED        0      3      1      3
  GOLGA1 WILD-TYPE    100     69     71    118
D1589V7, multiclass
        clus
vv       GOLGA1 MUTATED GOLGA1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLGA1 MUTATED        0      1      3      1      2
  GOLGA1 WILD-TYPE     59     74     71    118     36
D1589V8, multiclass
        clus
vv       GOLGA1 MUTATED GOLGA1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GOLGA1 MUTATED        1      3      0      1      1
  GOLGA1 WILD-TYPE     50     73     61     70     94
D1589V9, multiclass
        clus
vv       GOLGA1 MUTATED GOLGA1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLGA1 MUTATED        2      0      0      1      2      0      1      0
  GOLGA1 WILD-TYPE     67     48     39     15     51     20     20     38
                  vv
clus               CLUS_9
  GOLGA1 MUTATED        0
  GOLGA1 WILD-TYPE     50
D1589V10, multiclass
        clus
vv       GOLGA1 MUTATED GOLGA1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GOLGA1 MUTATED        0      1      0      0      0      0
  GOLGA1 WILD-TYPE     13     15     14     11     11      9
D1589V11, multiclass
[1] "Remove cluster labels:" "GOLGA1 MUTATED"        
clus
  GOLGA1 MUTATED GOLGA1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-G4-6628 
"GOLGA1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GOLGA1 MUTATED        1      0      0      0      0      0      0      0
  GOLGA1 WILD-TYPE     10      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  GOLGA1 MUTATED        0
  GOLGA1 WILD-TYPE      5
D1589V12, multiclass
[1] "Remove cluster labels:" "GOLGA1 MUTATED"        
clus
  GOLGA1 MUTATED GOLGA1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" "GOLGA1 WILD-TYPE" 
      TCGA-G4-6628 
"GOLGA1 WILD-TYPE" 

Clustering(1590) Variable = ZHX2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZHX2 MUTATED        4      0      2      1      0
  ZHX2 WILD-TYPE     28     18     44     26     23
D1590V1, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            2             44
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZHX2 MUTATED        4      3      0
  ZHX2 WILD-TYPE     39     64     36
D1590V2, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            3             64
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZHX2 MUTATED        0      2     15
  ZHX2 WILD-TYPE     42    171    132
D1590V3, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3           15            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZHX2 MUTATED        4      0      5
  ZHX2 WILD-TYPE     58     73     70
D1590V4, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZHX2 MUTATED        2      4      7
  ZHX2 WILD-TYPE     68    116     93
D1590V5, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4            116
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZHX2 MUTATED        1      1      2      1      2      4      2      0      0
  ZHX2 WILD-TYPE     40     25     28     28     37     65     18     14     22
D1590V6, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            4             65
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZHX2 MUTATED        1      5      3      8
  ZHX2 WILD-TYPE     99     67     69    113
D1590V7, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            3             69
  CLUS_4            8            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZHX2 MUTATED        1      0      7      5      4
  ZHX2 WILD-TYPE     58     75     67    114     34
D1590V8, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            7             67
  CLUS_4            5            114
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZHX2 MUTATED        0      6      1      2      6
  ZHX2 WILD-TYPE     51     70     60     69     89
D1590V9, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZHX2 MUTATED        0      3      1      4      0      1      0      4      2
  ZHX2 WILD-TYPE     69     45     38     12     53     19     21     34     48
D1590V10, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            4             12
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            4             34
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZHX2 MUTATED        0      0      0      0      0      0
  ZHX2 WILD-TYPE     13     16     14     11     11      9
D1590V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZHX2 MUTATED        0      0      0      0      0      0      0      0      0
  ZHX2 WILD-TYPE     11      7      7      9      8      7     11      9      5
D1590V12, multiclass

Clustering(1591) Variable = FAM167B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM167B MUTATED        1      0      0      0      0
  FAM167B WILD-TYPE     31     18     46     27     23
D1591V1, multiclass
[1] "Remove cluster labels:" "FAM167B MUTATED"       
clus
  FAM167B MUTATED FAM167B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AY-4071 
"FAM167B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM167B MUTATED        0      0      1
  FAM167B WILD-TYPE     43     67     35
D1591V2, multiclass
[1] "Remove cluster labels:" "FAM167B MUTATED"       
clus
  FAM167B MUTATED FAM167B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AY-4071 
"FAM167B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM167B MUTATED        0      1      3
  FAM167B WILD-TYPE     42    172    144
D1591V3, multiclass
        clus
vv       FAM167B MUTATED FAM167B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM167B MUTATED        0      1      2
  FAM167B WILD-TYPE     62     72     73
D1591V4, multiclass
        clus
vv       FAM167B MUTATED FAM167B WILD-TYPE
  CLUS_1               0                62
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM167B MUTATED        0      1      1
  FAM167B WILD-TYPE     70    119     99
D1591V5, multiclass
[1] "Remove cluster labels:" "FAM167B MUTATED"       
clus
  FAM167B MUTATED FAM167B WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517        TCGA-AA-3519 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3525 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552        TCGA-AA-3553 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558        TCGA-AA-3560 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655        TCGA-AA-3664 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681        TCGA-AA-3688 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697        TCGA-AA-3710 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715        TCGA-AA-3811 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848        TCGA-AA-3850 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3861 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3955 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E        TCGA-AA-A00F 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965        TCGA-AU-6004 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4682 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5914 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5538 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6932        TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA        TCGA-DM-A1HB 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM167B MUTATED        0      0      0      1      0      1      0      0
  FAM167B WILD-TYPE     41     26     30     28     39     68     20     14
                   vv
clus                CLUS_9
  FAM167B MUTATED        0
  FAM167B WILD-TYPE     22
D1591V6, multiclass
[1] "Remove cluster labels:" "FAM167B MUTATED"       
clus
  FAM167B MUTATED FAM167B WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517        TCGA-AA-3519 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3525 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552        TCGA-AA-3553 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558        TCGA-AA-3560 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655        TCGA-AA-3664 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681        TCGA-AA-3688 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697        TCGA-AA-3710 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715        TCGA-AA-3811 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848        TCGA-AA-3850 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3861 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3955 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E        TCGA-AA-A00F 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965        TCGA-AU-6004 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4682 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5914 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-4747        TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-5348        TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-5862        TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6161        TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6165        TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6169        TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5538 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6932        TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA        TCGA-DM-A1HB 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM167B MUTATED        1      2      0      1
  FAM167B WILD-TYPE     99     70     72    120
D1591V7, multiclass
        clus
vv       FAM167B MUTATED FAM167B WILD-TYPE
  CLUS_1               1                99
  CLUS_2               2                70
  CLUS_3               0                72
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM167B MUTATED        0      2      1      1      0
  FAM167B WILD-TYPE     59     73     73    118     38
D1591V8, multiclass
        clus
vv       FAM167B MUTATED FAM167B WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               1                73
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM167B MUTATED        0      2      0      2      0
  FAM167B WILD-TYPE     51     74     61     69     95
D1591V9, multiclass
        clus
vv       FAM167B MUTATED FAM167B WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               2                69
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM167B MUTATED        1      0      0      1      2      0      0      0
  FAM167B WILD-TYPE     68     48     39     15     51     20     21     38
                   vv
clus                CLUS_9
  FAM167B MUTATED        0
  FAM167B WILD-TYPE     50
D1591V10, multiclass
        clus
vv       FAM167B MUTATED FAM167B WILD-TYPE
  CLUS_1               1                68
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM167B MUTATED        0      0      0      0      0      1
  FAM167B WILD-TYPE     13     16     14     11     11      8
D1591V11, multiclass
[1] "Remove cluster labels:" "FAM167B MUTATED"       
clus
  FAM167B MUTATED FAM167B WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D8 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6628 
"FAM167B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM167B MUTATED        0      0      0      0      0      0      0      1
  FAM167B WILD-TYPE     11      7      7      9      8      7     11      8
                   vv
clus                CLUS_9
  FAM167B MUTATED        0
  FAM167B WILD-TYPE      5
D1591V12, multiclass
[1] "Remove cluster labels:" "FAM167B MUTATED"       
clus
  FAM167B MUTATED FAM167B WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D8 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" "FAM167B WILD-TYPE" 
       TCGA-G4-6628 
"FAM167B WILD-TYPE" 

Clustering(1592) Variable = UFSP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UFSP2 MUTATED        0      0      0      1      0
  UFSP2 WILD-TYPE     32     18     46     26     23
D1592V1, multiclass
[1] "Remove cluster labels:" "UFSP2 MUTATED"         
clus
  UFSP2 MUTATED UFSP2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AY-4071 
"UFSP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UFSP2 MUTATED        1      0      0
  UFSP2 WILD-TYPE     42     67     36
D1592V2, multiclass
[1] "Remove cluster labels:" "UFSP2 MUTATED"         
clus
  UFSP2 MUTATED UFSP2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AY-4071 
"UFSP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UFSP2 MUTATED        0      0      4
  UFSP2 WILD-TYPE     42    173    143
D1592V3, multiclass
        clus
vv       UFSP2 MUTATED UFSP2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UFSP2 MUTATED        1      0      2
  UFSP2 WILD-TYPE     61     73     73
D1592V4, multiclass
        clus
vv       UFSP2 MUTATED UFSP2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UFSP2 MUTATED        0      2      1
  UFSP2 WILD-TYPE     70    118     99
D1592V5, multiclass
        clus
vv       UFSP2 MUTATED UFSP2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UFSP2 MUTATED        0      2      0      0      0      1      0      0
  UFSP2 WILD-TYPE     41     24     30     29     39     68     20     14
                 vv
clus              CLUS_9
  UFSP2 MUTATED        0
  UFSP2 WILD-TYPE     22
D1592V6, multiclass
        clus
vv       UFSP2 MUTATED UFSP2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UFSP2 MUTATED        0      2      0      2
  UFSP2 WILD-TYPE    100     70     72    119
D1592V7, multiclass
        clus
vv       UFSP2 MUTATED UFSP2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UFSP2 MUTATED        0      0      2      1      1
  UFSP2 WILD-TYPE     59     75     72    118     37
D1592V8, multiclass
        clus
vv       UFSP2 MUTATED UFSP2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UFSP2 MUTATED        0      2      0      0      1
  UFSP2 WILD-TYPE     51     74     61     71     94
D1592V9, multiclass
        clus
vv       UFSP2 MUTATED UFSP2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UFSP2 MUTATED        0      0      0      2      0      0      0      0
  UFSP2 WILD-TYPE     69     48     39     14     53     20     21     38
                 vv
clus              CLUS_9
  UFSP2 MUTATED        1
  UFSP2 WILD-TYPE     49
D1592V10, multiclass
        clus
vv       UFSP2 MUTATED UFSP2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UFSP2 MUTATED        0      0      0      0      1      0
  UFSP2 WILD-TYPE     13     16     14     11     10      9
D1592V11, multiclass
[1] "Remove cluster labels:" "UFSP2 MUTATED"         
clus
  UFSP2 MUTATED UFSP2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-G4-6628 
"UFSP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UFSP2 MUTATED        0      0      0      1      0      0      0      0
  UFSP2 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  UFSP2 MUTATED        0
  UFSP2 WILD-TYPE      5
D1592V12, multiclass
[1] "Remove cluster labels:" "UFSP2 MUTATED"         
clus
  UFSP2 MUTATED UFSP2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" "UFSP2 WILD-TYPE" 
     TCGA-G4-6628 
"UFSP2 WILD-TYPE" 

Clustering(1593) Variable = BTBD11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTBD11 MUTATED        7      1      0      0      0
  BTBD11 WILD-TYPE     25     17     46     27     23
D1593V1, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              7               25
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BTBD11 MUTATED        6      1      1
  BTBD11 WILD-TYPE     37     66     35
D1593V2, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              6               37
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BTBD11 MUTATED        2      1     19
  BTBD11 WILD-TYPE     40    172    128
D1593V3, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1              172
  CLUS_3             19              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BTBD11 MUTATED        7      2      5
  BTBD11 WILD-TYPE     55     71     70
D1593V4, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BTBD11 MUTATED        2      8      8
  BTBD11 WILD-TYPE     68    112     92
D1593V5, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              8              112
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTBD11 MUTATED        1      1      1      2      4      7      1      0
  BTBD11 WILD-TYPE     40     25     29     27     35     62     19     14
                  vv
clus               CLUS_9
  BTBD11 MUTATED        1
  BTBD11 WILD-TYPE     21
D1593V6, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              4               35
  CLUS_6              7               62
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BTBD11 MUTATED        2      7      5      8
  BTBD11 WILD-TYPE     98     65     67    113
D1593V7, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              7               65
  CLUS_3              5               67
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTBD11 MUTATED        1      4      8      3      6
  BTBD11 WILD-TYPE     58     71     66    116     32
D1593V8, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3              8               66
  CLUS_4              3              116
  CLUS_5              6               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTBD11 MUTATED        1      8      1      4      8
  BTBD11 WILD-TYPE     50     68     60     67     87
D1593V9, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              8               68
  CLUS_3              1               60
  CLUS_4              4               67
  CLUS_5              8               87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTBD11 MUTATED        2      5      0      2      4      0      0      6
  BTBD11 WILD-TYPE     67     43     39     14     49     20     21     32
                  vv
clus               CLUS_9
  BTBD11 MUTATED        3
  BTBD11 WILD-TYPE     47
D1593V10, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              5               43
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              4               49
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              6               32
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BTBD11 MUTATED        0      0      1      0      3      0
  BTBD11 WILD-TYPE     13     16     13     11      8      9
D1593V11, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTBD11 MUTATED        0      0      0      0      0      1      3      0
  BTBD11 WILD-TYPE     11      7      7      9      8      6      8      9
                  vv
clus               CLUS_9
  BTBD11 MUTATED        0
  BTBD11 WILD-TYPE      5
D1593V12, multiclass
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              3                8
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1594) Variable = BFAR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BFAR MUTATED        1      0      0      0      0
  BFAR WILD-TYPE     31     18     46     27     23
D1594V1, multiclass
[1] "Remove cluster labels:" "BFAR MUTATED"          
clus
  BFAR MUTATED BFAR WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AY-4071 
"BFAR WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BFAR MUTATED        1      0      0
  BFAR WILD-TYPE     42     67     36
D1594V2, multiclass
[1] "Remove cluster labels:" "BFAR MUTATED"          
clus
  BFAR MUTATED BFAR WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AY-4071 
"BFAR WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BFAR MUTATED        0      2      6
  BFAR WILD-TYPE     42    171    141
D1594V3, multiclass
        clus
vv       BFAR MUTATED BFAR WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BFAR MUTATED        4      1      2
  BFAR WILD-TYPE     58     72     73
D1594V4, multiclass
        clus
vv       BFAR MUTATED BFAR WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BFAR MUTATED        0      0      5
  BFAR WILD-TYPE     70    120     95
D1594V5, multiclass
        clus
vv       BFAR MUTATED BFAR WILD-TYPE
  CLUS_1            0             70
  CLUS_2            0            120
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BFAR MUTATED        1      0      0      0      0      4      0      0      0
  BFAR WILD-TYPE     40     26     30     29     39     65     20     14     22
D1594V6, multiclass
        clus
vv       BFAR MUTATED BFAR WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BFAR MUTATED        1      2      3      2
  BFAR WILD-TYPE     99     70     69    119
D1594V7, multiclass
        clus
vv       BFAR MUTATED BFAR WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            3             69
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BFAR MUTATED        1      2      3      2      0
  BFAR WILD-TYPE     58     73     71    117     38
D1594V8, multiclass
        clus
vv       BFAR MUTATED BFAR WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BFAR MUTATED        0      5      1      0      2
  BFAR WILD-TYPE     51     71     60     71     93
D1594V9, multiclass
        clus
vv       BFAR MUTATED BFAR WILD-TYPE
  CLUS_1            0             51
  CLUS_2            5             71
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BFAR MUTATED        3      3      0      0      0      0      1      0      1
  BFAR WILD-TYPE     66     45     39     16     53     20     20     38     49
D1594V10, multiclass
        clus
vv       BFAR MUTATED BFAR WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BFAR MUTATED        0      0      1      0      1      0
  BFAR WILD-TYPE     13     16     13     11     10      9
D1594V11, multiclass
[1] "Remove cluster labels:" "BFAR MUTATED"          
clus
  BFAR MUTATED BFAR WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BFAR MUTATED        0      0      0      0      1      0      1      0      0
  BFAR WILD-TYPE     11      7      7      9      7      7     10      9      5
D1594V12, multiclass
[1] "Remove cluster labels:" "BFAR MUTATED"          
clus
  BFAR MUTATED BFAR WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" "BFAR WILD-TYPE" 

Clustering(1595) Variable = SBNO1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBNO1 MUTATED        1      0      1      2      0
  SBNO1 WILD-TYPE     31     18     45     25     23
D1595V1, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SBNO1 MUTATED        2      1      1
  SBNO1 WILD-TYPE     41     66     35
D1595V2, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SBNO1 MUTATED        0      4     11
  SBNO1 WILD-TYPE     42    169    136
D1595V3, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SBNO1 MUTATED        6      1      4
  SBNO1 WILD-TYPE     56     72     71
D1595V4, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SBNO1 MUTATED        0      5      9
  SBNO1 WILD-TYPE     70    115     91
D1595V5, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SBNO1 MUTATED        1      0      1      0      3      7      1      1
  SBNO1 WILD-TYPE     40     26     29     29     36     62     19     13
                 vv
clus              CLUS_9
  SBNO1 MUTATED        0
  SBNO1 WILD-TYPE     22
D1595V6, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             3              36
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SBNO1 MUTATED        3      5      4      3
  SBNO1 WILD-TYPE     97     67     68    118
D1595V7, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBNO1 MUTATED        3      0      8      3      1
  SBNO1 WILD-TYPE     56     75     66    116     37
D1595V8, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             0              75
  CLUS_3             8              66
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBNO1 MUTATED        1      9      1      1      3
  SBNO1 WILD-TYPE     50     67     60     70     92
D1595V9, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             9              67
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SBNO1 MUTATED        1      5      0      4      0      2      1      1
  SBNO1 WILD-TYPE     68     43     39     12     53     18     20     37
                 vv
clus              CLUS_9
  SBNO1 MUTATED        1
  SBNO1 WILD-TYPE     49
D1595V10, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SBNO1 MUTATED        0      0      0      0      4      0
  SBNO1 WILD-TYPE     13     16     14     11      7      9
D1595V11, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SBNO1 MUTATED        0      0      0      1      0      1      2      0
  SBNO1 WILD-TYPE     11      7      7      8      8      6      9      9
                 vv
clus              CLUS_9
  SBNO1 MUTATED        0
  SBNO1 WILD-TYPE      5
D1595V12, multiclass
        clus
vv       SBNO1 MUTATED SBNO1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1596) Variable = MR1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MR1 MUTATED        1      0      0      0      0
  MR1 WILD-TYPE     31     18     46     27     23
D1596V1, multiclass
[1] "Remove cluster labels:" "MR1 MUTATED"           
clus
  MR1 MUTATED MR1 WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MR1 MUTATED        1      0      0
  MR1 WILD-TYPE     42     67     36
D1596V2, multiclass
[1] "Remove cluster labels:" "MR1 MUTATED"           
clus
  MR1 MUTATED MR1 WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3966    TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3975    TCGA-AA-3976    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MR1 MUTATED        0      1      4
  MR1 WILD-TYPE     42    172    143
D1596V3, multiclass
        clus
vv       MR1 MUTATED MR1 WILD-TYPE
  CLUS_1           0            42
  CLUS_2           1           172
  CLUS_3           4           143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MR1 MUTATED        3      1      0
  MR1 WILD-TYPE     59     72     75
D1596V4, multiclass
        clus
vv       MR1 MUTATED MR1 WILD-TYPE
  CLUS_1           3            59
  CLUS_2           1            72
  CLUS_3           0            75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MR1 MUTATED        1      1      2
  MR1 WILD-TYPE     69    119     98
D1596V5, multiclass
        clus
vv       MR1 MUTATED MR1 WILD-TYPE
  CLUS_1           1            69
  CLUS_2           1           119
  CLUS_3           2            98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MR1 MUTATED        1      1      0      0      0      1      0      0      1
  MR1 WILD-TYPE     40     25     30     29     39     68     20     14     21
D1596V6, multiclass
        clus
vv       MR1 MUTATED MR1 WILD-TYPE
  CLUS_1           1            40
  CLUS_2           1            25
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           0            39
  CLUS_6           1            68
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           1            21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MR1 MUTATED        0      0      3      2
  MR1 WILD-TYPE    100     72     69    119
D1596V7, multiclass
        clus
vv       MR1 MUTATED MR1 WILD-TYPE
  CLUS_1           0           100
  CLUS_2           0            72
  CLUS_3           3            69
  CLUS_4           2           119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MR1 MUTATED        2      0      1      1      1
  MR1 WILD-TYPE     57     75     73    118     37
D1596V8, multiclass
        clus
vv       MR1 MUTATED MR1 WILD-TYPE
  CLUS_1           2            57
  CLUS_2           0            75
  CLUS_3           1            73
  CLUS_4           1           118
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MR1 MUTATED        0      1      2      0      2
  MR1 WILD-TYPE     51     75     59     71     93
D1596V9, multiclass
        clus
vv       MR1 MUTATED MR1 WILD-TYPE
  CLUS_1           0            51
  CLUS_2           1            75
  CLUS_3           2            59
  CLUS_4           0            71
  CLUS_5           2            93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MR1 MUTATED        1      2      0      0      0      0      0      1      1
  MR1 WILD-TYPE     68     46     39     16     53     20     21     37     49
D1596V10, multiclass
        clus
vv       MR1 MUTATED MR1 WILD-TYPE
  CLUS_1           1            68
  CLUS_2           2            46
  CLUS_3           0            39
  CLUS_4           0            16
  CLUS_5           0            53
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MR1 MUTATED        0      0      0      0      1      1
  MR1 WILD-TYPE     13     16     14     11     10      8
D1596V11, multiclass
[1] "Remove cluster labels:" "MR1 MUTATED"           
clus
  MR1 MUTATED MR1 WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548    TCGA-AD-6889 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6719 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167    TCGA-CM-6674 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679    TCGA-CM-6680 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536    TCGA-D5-6922 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0    TCGA-DM-A1D7 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA    TCGA-DM-A282 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460    TCGA-F4-6569 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MR1 MUTATED        1      0      0      0      0      0      1      0      0
  MR1 WILD-TYPE     10      7      7      9      8      7     10      9      5
D1596V12, multiclass
[1] "Remove cluster labels:" "MR1 MUTATED"           
clus
  MR1 MUTATED MR1 WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548    TCGA-AD-6889 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6719 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167    TCGA-CM-6674 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679    TCGA-CM-6680 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536    TCGA-D5-6922 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0    TCGA-DM-A1D7 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA    TCGA-DM-A282 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460    TCGA-F4-6569 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" "MR1 WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"MR1 WILD-TYPE" "MR1 WILD-TYPE" 

Clustering(1597) Variable = OR5R1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5R1 MUTATED        3      0      1      0      0
  OR5R1 WILD-TYPE     29     18     45     27     23
D1597V1, multiclass
        clus
vv       OR5R1 MUTATED OR5R1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5R1 MUTATED        2      0      2
  OR5R1 WILD-TYPE     41     67     34
D1597V2, multiclass
        clus
vv       OR5R1 MUTATED OR5R1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5R1 MUTATED        2      5      7
  OR5R1 WILD-TYPE     40    168    140
D1597V3, multiclass
        clus
vv       OR5R1 MUTATED OR5R1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5R1 MUTATED        3      4      3
  OR5R1 WILD-TYPE     59     69     72
D1597V4, multiclass
        clus
vv       OR5R1 MUTATED OR5R1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5R1 MUTATED        1      3      6
  OR5R1 WILD-TYPE     69    117     94
D1597V5, multiclass
        clus
vv       OR5R1 MUTATED OR5R1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5R1 MUTATED        2      1      0      1      2      3      1      0
  OR5R1 WILD-TYPE     39     25     30     28     37     66     19     14
                 vv
clus              CLUS_9
  OR5R1 MUTATED        0
  OR5R1 WILD-TYPE     22
D1597V6, multiclass
        clus
vv       OR5R1 MUTATED OR5R1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR5R1 MUTATED        5      3      1      5
  OR5R1 WILD-TYPE     95     69     71    116
D1597V7, multiclass
        clus
vv       OR5R1 MUTATED OR5R1 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5R1 MUTATED        2      4      2      4      2
  OR5R1 WILD-TYPE     57     71     72    115     36
D1597V8, multiclass
        clus
vv       OR5R1 MUTATED OR5R1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             2              72
  CLUS_4             4             115
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5R1 MUTATED        2      3      2      3      4
  OR5R1 WILD-TYPE     49     73     59     68     91
D1597V9, multiclass
        clus
vv       OR5R1 MUTATED OR5R1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5R1 MUTATED        2      2      2      1      3      0      0      1
  OR5R1 WILD-TYPE     67     46     37     15     50     20     21     37
                 vv
clus              CLUS_9
  OR5R1 MUTATED        3
  OR5R1 WILD-TYPE     47
D1597V10, multiclass
        clus
vv       OR5R1 MUTATED OR5R1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR5R1 MUTATED        1      0      0      0      1      0
  OR5R1 WILD-TYPE     12     16     14     11     10      9
D1597V11, multiclass
[1] "Remove cluster labels:" "OR5R1 MUTATED"         
clus
  OR5R1 MUTATED OR5R1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5R1 MUTATED        0      0      0      1      0      0      0      1
  OR5R1 WILD-TYPE     11      7      7      8      8      7     11      8
                 vv
clus              CLUS_9
  OR5R1 MUTATED        0
  OR5R1 WILD-TYPE      5
D1597V12, multiclass
[1] "Remove cluster labels:" "OR5R1 MUTATED"         
clus
  OR5R1 MUTATED OR5R1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" "OR5R1 WILD-TYPE" 

Clustering(1598) Variable = RIMS2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIMS2 MUTATED        6      0      0      4      1
  RIMS2 WILD-TYPE     26     18     46     23     22
D1598V1, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             4              23
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RIMS2 MUTATED        6      3      2
  RIMS2 WILD-TYPE     37     64     34
D1598V2, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             3              64
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RIMS2 MUTATED        3      8     25
  RIMS2 WILD-TYPE     39    165    122
D1598V3, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             8             165
  CLUS_3            25             122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RIMS2 MUTATED       10      5     10
  RIMS2 WILD-TYPE     52     68     65
D1598V4, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1            10              52
  CLUS_2             5              68
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RIMS2 MUTATED        4      9     14
  RIMS2 WILD-TYPE     66    111     86
D1598V5, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             9             111
  CLUS_3            14              86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RIMS2 MUTATED        2      2      2      3      0     12      0      5
  RIMS2 WILD-TYPE     39     24     28     26     39     57     20      9
                 vv
clus              CLUS_9
  RIMS2 MUTATED        1
  RIMS2 WILD-TYPE     21
D1598V6, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6            12              57
  CLUS_7             0              20
  CLUS_8             5               9
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RIMS2 MUTATED        7     14      6      9
  RIMS2 WILD-TYPE     93     58     66    112
D1598V7, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1             7              93
  CLUS_2            14              58
  CLUS_3             6              66
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIMS2 MUTATED        2     10     13      7      4
  RIMS2 WILD-TYPE     57     65     61    112     34
D1598V8, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2            10              65
  CLUS_3            13              61
  CLUS_4             7             112
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIMS2 MUTATED        4     15      5      4      7
  RIMS2 WILD-TYPE     47     61     56     67     88
D1598V9, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1             4              47
  CLUS_2            15              61
  CLUS_3             5              56
  CLUS_4             4              67
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RIMS2 MUTATED        6      4      5      5      5      2      2      3
  RIMS2 WILD-TYPE     63     44     34     11     48     18     19     35
                 vv
clus              CLUS_9
  RIMS2 MUTATED        3
  RIMS2 WILD-TYPE     47
D1598V10, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             4              44
  CLUS_3             5              34
  CLUS_4             5              11
  CLUS_5             5              48
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             3              35
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RIMS2 MUTATED        1      1      3      0      3      0
  RIMS2 WILD-TYPE     12     15     11     11      8      9
D1598V11, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             3              11
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RIMS2 MUTATED        1      0      0      2      2      1      1      1
  RIMS2 WILD-TYPE     10      7      7      7      6      6     10      8
                 vv
clus              CLUS_9
  RIMS2 MUTATED        0
  RIMS2 WILD-TYPE      5
D1598V12, multiclass
        clus
vv       RIMS2 MUTATED RIMS2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             2               6
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1599) Variable = ZNF660 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF660 MUTATED        1      0      0      0      0
  ZNF660 WILD-TYPE     31     18     46     27     23
D1599V1, multiclass
[1] "Remove cluster labels:" "ZNF660 MUTATED"        
clus
  ZNF660 MUTATED ZNF660 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF660 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF660 MUTATED        1      0      0
  ZNF660 WILD-TYPE     42     67     36
D1599V2, multiclass
[1] "Remove cluster labels:" "ZNF660 MUTATED"        
clus
  ZNF660 MUTATED ZNF660 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" "ZNF660 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF660 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF660 MUTATED        0      0      7
  ZNF660 WILD-TYPE     42    173    140
D1599V3, multiclass
        clus
vv       ZNF660 MUTATED ZNF660 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF660 MUTATED        2      0      4
  ZNF660 WILD-TYPE     60     73     71
D1599V4, multiclass
        clus
vv       ZNF660 MUTATED ZNF660 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF660 MUTATED        0      3      4
  ZNF660 WILD-TYPE     70    117     96
D1599V5, multiclass
        clus
vv       ZNF660 MUTATED ZNF660 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF660 MUTATED        0      1      0      2      0      3      0      0
  ZNF660 WILD-TYPE     41     25     30     27     39     66     20     14
                  vv
clus               CLUS_9
  ZNF660 MUTATED        1
  ZNF660 WILD-TYPE     21
D1599V6, multiclass
        clus
vv       ZNF660 MUTATED ZNF660 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF660 MUTATED        0      2      3      2
  ZNF660 WILD-TYPE    100     70     69    119
D1599V7, multiclass
        clus
vv       ZNF660 MUTATED ZNF660 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF660 MUTATED        0      0      5      1      1
  ZNF660 WILD-TYPE     59     75     69    118     37
D1599V8, multiclass
        clus
vv       ZNF660 MUTATED ZNF660 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF660 MUTATED        0      4      0      1      2
  ZNF660 WILD-TYPE     51     72     61     70     93
D1599V9, multiclass
        clus
vv       ZNF660 MUTATED ZNF660 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF660 MUTATED        0      3      0      1      1      0      0      1
  ZNF660 WILD-TYPE     69     45     39     15     52     20     21     37
                  vv
clus               CLUS_9
  ZNF660 MUTATED        1
  ZNF660 WILD-TYPE     49
D1599V10, multiclass
        clus
vv       ZNF660 MUTATED ZNF660 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF660 MUTATED        0      0      1      0      2      0
  ZNF660 WILD-TYPE     13     16     13     11      9      9
D1599V11, multiclass
        clus
vv       ZNF660 MUTATED ZNF660 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF660 MUTATED        0      0      0      0      1      0      2      0
  ZNF660 WILD-TYPE     11      7      7      9      7      7      9      9
                  vv
clus               CLUS_9
  ZNF660 MUTATED        0
  ZNF660 WILD-TYPE      5
D1599V12, multiclass
        clus
vv       ZNF660 MUTATED ZNF660 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1600) Variable = GSS MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSS MUTATED        1      0      0      2      0
  GSS WILD-TYPE     31     18     46     25     23
D1600V1, multiclass
        clus
vv       GSS MUTATED GSS WILD-TYPE
  CLUS_1           1            31
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GSS MUTATED        2      1      0
  GSS WILD-TYPE     41     66     36
D1600V2, multiclass
        clus
vv       GSS MUTATED GSS WILD-TYPE
  CLUS_1           2            41
  CLUS_2           1            66
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GSS MUTATED        0      2      6
  GSS WILD-TYPE     42    171    141
D1600V3, multiclass
        clus
vv       GSS MUTATED GSS WILD-TYPE
  CLUS_1           0            42
  CLUS_2           2           171
  CLUS_3           6           141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GSS MUTATED        2      0      2
  GSS WILD-TYPE     60     73     73
D1600V4, multiclass
        clus
vv       GSS MUTATED GSS WILD-TYPE
  CLUS_1           2            60
  CLUS_2           0            73
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GSS MUTATED        1      2      4
  GSS WILD-TYPE     69    118     96
D1600V5, multiclass
        clus
vv       GSS MUTATED GSS WILD-TYPE
  CLUS_1           1            69
  CLUS_2           2           118
  CLUS_3           4            96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GSS MUTATED        0      0      2      1      0      4      0      0      0
  GSS WILD-TYPE     41     26     28     28     39     65     20     14     22
D1600V6, multiclass
        clus
vv       GSS MUTATED GSS WILD-TYPE
  CLUS_1           0            41
  CLUS_2           0            26
  CLUS_3           2            28
  CLUS_4           1            28
  CLUS_5           0            39
  CLUS_6           4            65
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GSS MUTATED        1      2      1      4
  GSS WILD-TYPE     99     70     71    117
D1600V7, multiclass
        clus
vv       GSS MUTATED GSS WILD-TYPE
  CLUS_1           1            99
  CLUS_2           2            70
  CLUS_3           1            71
  CLUS_4           4           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSS MUTATED        1      1      2      2      2
  GSS WILD-TYPE     58     74     72    117     36
D1600V8, multiclass
        clus
vv       GSS MUTATED GSS WILD-TYPE
  CLUS_1           1            58
  CLUS_2           1            74
  CLUS_3           2            72
  CLUS_4           2           117
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSS MUTATED        1      2      1      0      2
  GSS WILD-TYPE     50     74     60     71     93
D1600V9, multiclass
        clus
vv       GSS MUTATED GSS WILD-TYPE
  CLUS_1           1            50
  CLUS_2           2            74
  CLUS_3           1            60
  CLUS_4           0            71
  CLUS_5           2            93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GSS MUTATED        2      0      1      1      0      1      0      1      0
  GSS WILD-TYPE     67     48     38     15     53     19     21     37     50
D1600V10, multiclass
        clus
vv       GSS MUTATED GSS WILD-TYPE
  CLUS_1           2            67
  CLUS_2           0            48
  CLUS_3           1            38
  CLUS_4           1            15
  CLUS_5           0            53
  CLUS_6           1            19
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GSS MUTATED        0      0      1      0      0      0
  GSS WILD-TYPE     13     16     13     11     11      9
D1600V11, multiclass
[1] "Remove cluster labels:" "GSS MUTATED"           
clus
  GSS MUTATED GSS WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6607    TCGA-CA-6718 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GSS MUTATED        1      0      0      0      0      0      0      0      0
  GSS WILD-TYPE     10      7      7      9      8      7     11      9      5
D1600V12, multiclass
[1] "Remove cluster labels:" "GSS MUTATED"           
clus
  GSS MUTATED GSS WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6607    TCGA-CA-6718 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"GSS WILD-TYPE" "GSS WILD-TYPE" "GSS WILD-TYPE" 

Clustering(1601) Variable = SLC38A9 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC38A9 MUTATED        2      0      0      1      0
  SLC38A9 WILD-TYPE     30     18     46     26     23
D1601V1, multiclass
        clus
vv       SLC38A9 MUTATED SLC38A9 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A9 MUTATED        2      0      1
  SLC38A9 WILD-TYPE     41     67     35
D1601V2, multiclass
        clus
vv       SLC38A9 MUTATED SLC38A9 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A9 MUTATED        0      0     10
  SLC38A9 WILD-TYPE     42    173    137
D1601V3, multiclass
        clus
vv       SLC38A9 MUTATED SLC38A9 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3              10               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A9 MUTATED        5      0      3
  SLC38A9 WILD-TYPE     57     73     72
D1601V4, multiclass
        clus
vv       SLC38A9 MUTATED SLC38A9 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A9 MUTATED        0      3      6
  SLC38A9 WILD-TYPE     70    117     94
D1601V5, multiclass
        clus
vv       SLC38A9 MUTATED SLC38A9 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               117
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC38A9 MUTATED        0      1      0      1      1      5      1      0
  SLC38A9 WILD-TYPE     41     25     30     28     38     64     19     14
                   vv
clus                CLUS_9
  SLC38A9 MUTATED        0
  SLC38A9 WILD-TYPE     22
D1601V6, multiclass
        clus
vv       SLC38A9 MUTATED SLC38A9 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC38A9 MUTATED        0      5      3      3
  SLC38A9 WILD-TYPE    100     67     69    118
D1601V7, multiclass
        clus
vv       SLC38A9 MUTATED SLC38A9 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               5                67
  CLUS_3               3                69
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC38A9 MUTATED        0      1      6      2      2
  SLC38A9 WILD-TYPE     59     74     68    117     36
D1601V8, multiclass
        clus
vv       SLC38A9 MUTATED SLC38A9 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               6                68
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC38A9 MUTATED        0      5      1      1      4
  SLC38A9 WILD-TYPE     51     71     60     70     91
D1601V9, multiclass
        clus
vv       SLC38A9 MUTATED SLC38A9 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               5                71
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC38A9 MUTATED        1      3      0      2      1      0      0      3
  SLC38A9 WILD-TYPE     68     45     39     14     52     20     21     35
                   vv
clus                CLUS_9
  SLC38A9 MUTATED        1
  SLC38A9 WILD-TYPE     49
D1601V10, multiclass
        clus
vv       SLC38A9 MUTATED SLC38A9 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC38A9 MUTATED        0      0      0      0      1      0
  SLC38A9 WILD-TYPE     13     16     14     11     10      9
D1601V11, multiclass
[1] "Remove cluster labels:" "SLC38A9 MUTATED"       
clus
  SLC38A9 MUTATED SLC38A9 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-G4-6628 
"SLC38A9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC38A9 MUTATED        0      0      0      0      0      0      1      0
  SLC38A9 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  SLC38A9 MUTATED        0
  SLC38A9 WILD-TYPE      5
D1601V12, multiclass
[1] "Remove cluster labels:" "SLC38A9 MUTATED"       
clus
  SLC38A9 MUTATED SLC38A9 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" "SLC38A9 WILD-TYPE" 
       TCGA-G4-6628 
"SLC38A9 WILD-TYPE" 

Clustering(1602) Variable = VPS72 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS72 MUTATED        0      0      0      1      0
  VPS72 WILD-TYPE     32     18     46     26     23
D1602V1, multiclass
[1] "Remove cluster labels:" "VPS72 MUTATED"         
clus
  VPS72 MUTATED VPS72 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AY-4071 
"VPS72 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPS72 MUTATED        1      0      0
  VPS72 WILD-TYPE     42     67     36
D1602V2, multiclass
[1] "Remove cluster labels:" "VPS72 MUTATED"         
clus
  VPS72 MUTATED VPS72 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AY-4071 
"VPS72 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPS72 MUTATED        1      0      7
  VPS72 WILD-TYPE     41    173    140
D1602V3, multiclass
        clus
vv       VPS72 MUTATED VPS72 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPS72 MUTATED        3      0      4
  VPS72 WILD-TYPE     59     73     71
D1602V4, multiclass
        clus
vv       VPS72 MUTATED VPS72 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPS72 MUTATED        2      4      2
  VPS72 WILD-TYPE     68    116     98
D1602V5, multiclass
        clus
vv       VPS72 MUTATED VPS72 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS72 MUTATED        1      0      0      2      2      2      0      1
  VPS72 WILD-TYPE     40     26     30     27     37     67     20     13
                 vv
clus              CLUS_9
  VPS72 MUTATED        0
  VPS72 WILD-TYPE     22
D1602V6, multiclass
        clus
vv       VPS72 MUTATED VPS72 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VPS72 MUTATED        0      4      3      1
  VPS72 WILD-TYPE    100     68     69    120
D1602V7, multiclass
        clus
vv       VPS72 MUTATED VPS72 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS72 MUTATED        1      0      6      0      1
  VPS72 WILD-TYPE     58     75     68    119     37
D1602V8, multiclass
        clus
vv       VPS72 MUTATED VPS72 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             6              68
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS72 MUTATED        0      6      1      0      1
  VPS72 WILD-TYPE     51     70     60     71     94
D1602V9, multiclass
        clus
vv       VPS72 MUTATED VPS72 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS72 MUTATED        1      2      0      2      2      0      0      1
  VPS72 WILD-TYPE     68     46     39     14     51     20     21     37
                 vv
clus              CLUS_9
  VPS72 MUTATED        0
  VPS72 WILD-TYPE     50
D1602V10, multiclass
        clus
vv       VPS72 MUTATED VPS72 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VPS72 MUTATED        0      1      0      0      1      0
  VPS72 WILD-TYPE     13     15     14     11     10      9
D1602V11, multiclass
[1] "Remove cluster labels:" "VPS72 MUTATED"         
clus
  VPS72 MUTATED VPS72 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625      TCGA-G4-6628 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VPS72 MUTATED        0      0      0      1      0      0      1      0
  VPS72 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  VPS72 MUTATED        0
  VPS72 WILD-TYPE      5
D1602V12, multiclass
[1] "Remove cluster labels:" "VPS72 MUTATED"         
clus
  VPS72 MUTATED VPS72 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625      TCGA-G4-6628 
"VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" "VPS72 WILD-TYPE" 

Clustering(1603) Variable = LCK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LCK MUTATED        2      0      0      0      0
  LCK WILD-TYPE     30     18     46     27     23
D1603V1, multiclass
[1] "Remove cluster labels:" "LCK MUTATED"           
clus
  LCK MUTATED LCK WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2677    TCGA-A6-2678    TCGA-A6-2683 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810    TCGA-AA-3514 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519    TCGA-AA-3520 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525    TCGA-AA-3526 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531    TCGA-AA-3532 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543    TCGA-AA-3544 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553    TCGA-AA-3554 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560    TCGA-AA-3561 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667    TCGA-AA-3672 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680    TCGA-AA-3681 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692    TCGA-AA-3693 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811    TCGA-AA-3812 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819    TCGA-AA-3821 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842    TCGA-AA-3844 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004    TCGA-AA-A00A 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J    TCGA-AA-A00K 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q    TCGA-AA-A00R 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCK MUTATED        1      0      1
  LCK WILD-TYPE     42     67     35
D1603V2, multiclass
[1] "Remove cluster labels:" "LCK MUTATED"           
clus
  LCK MUTATED LCK WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2677    TCGA-A6-2678    TCGA-A6-2683 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810    TCGA-AA-3514 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519    TCGA-AA-3520 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525    TCGA-AA-3526 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531    TCGA-AA-3532 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543    TCGA-AA-3544 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553    TCGA-AA-3554 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560    TCGA-AA-3561 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667    TCGA-AA-3672 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680    TCGA-AA-3681 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692    TCGA-AA-3693 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811    TCGA-AA-3812 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819    TCGA-AA-3821 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842    TCGA-AA-3844 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850    TCGA-AA-3851 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856    TCGA-AA-3858 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866    TCGA-AA-3867 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875    TCGA-AA-3877 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947    TCGA-AA-3949 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004    TCGA-AA-A00A 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J    TCGA-AA-A00K 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q    TCGA-AA-A00R 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCK MUTATED        0      1      7
  LCK WILD-TYPE     42    172    140
D1603V3, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           0            42
  CLUS_2           1           172
  CLUS_3           7           140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCK MUTATED        2      1      3
  LCK WILD-TYPE     60     72     72
D1603V4, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           2            60
  CLUS_2           1            72
  CLUS_3           3            72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCK MUTATED        0      4      3
  LCK WILD-TYPE     70    116     97
D1603V5, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           0            70
  CLUS_2           4           116
  CLUS_3           3            97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LCK MUTATED        0      1      1      1      0      3      1      0      0
  LCK WILD-TYPE     41     25     29     28     39     66     19     14     22
D1603V6, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           0            41
  CLUS_2           1            25
  CLUS_3           1            29
  CLUS_4           1            28
  CLUS_5           0            39
  CLUS_6           3            66
  CLUS_7           1            19
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LCK MUTATED        2      2      2      2
  LCK WILD-TYPE     98     70     70    119
D1603V7, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           2            98
  CLUS_2           2            70
  CLUS_3           2            70
  CLUS_4           2           119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LCK MUTATED        1      1      4      1      1
  LCK WILD-TYPE     58     74     70    118     37
D1603V8, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           1            58
  CLUS_2           1            74
  CLUS_3           4            70
  CLUS_4           1           118
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LCK MUTATED        0      3      1      3      1
  LCK WILD-TYPE     51     73     60     68     94
D1603V9, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           0            51
  CLUS_2           3            73
  CLUS_3           1            60
  CLUS_4           3            68
  CLUS_5           1            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LCK MUTATED        4      1      0      0      2      0      0      1      0
  LCK WILD-TYPE     65     47     39     16     51     20     21     37     50
D1603V10, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           4            65
  CLUS_2           1            47
  CLUS_3           0            39
  CLUS_4           0            16
  CLUS_5           2            51
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LCK MUTATED        1      0      1      1      1      0
  LCK WILD-TYPE     12     16     13     10     10      9
D1603V11, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           1            12
  CLUS_2           0            16
  CLUS_3           1            13
  CLUS_4           1            10
  CLUS_5           1            10
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LCK MUTATED        0      0      0      0      0      1      2      1      0
  LCK WILD-TYPE     11      7      7      9      8      6      9      8      5
D1603V12, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           0             9
  CLUS_5           0             8
  CLUS_6           1             6
  CLUS_7           2             9
  CLUS_8           1             8
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1604) Variable = AGTPBP1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGTPBP1 MUTATED        1      0      1      0      0
  AGTPBP1 WILD-TYPE     31     18     45     27     23
D1604V1, multiclass
[1] "Remove cluster labels:" "AGTPBP1 MUTATED"       
clus
  AGTPBP1 MUTATED AGTPBP1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  AGTPBP1 MUTATED        1      1      0
  AGTPBP1 WILD-TYPE     42     66     36
D1604V2, multiclass
[1] "Remove cluster labels:" "AGTPBP1 MUTATED"       
clus
  AGTPBP1 MUTATED AGTPBP1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" "AGTPBP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  AGTPBP1 MUTATED        0      5     12
  AGTPBP1 WILD-TYPE     42    168    135
D1604V3, multiclass
        clus
vv       AGTPBP1 MUTATED AGTPBP1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               5               168
  CLUS_3              12               135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  AGTPBP1 MUTATED        7      2      5
  AGTPBP1 WILD-TYPE     55     71     70
D1604V4, multiclass
        clus
vv       AGTPBP1 MUTATED AGTPBP1 WILD-TYPE
  CLUS_1               7                55
  CLUS_2               2                71
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  AGTPBP1 MUTATED        4      6      6
  AGTPBP1 WILD-TYPE     66    114     94
D1604V5, multiclass
        clus
vv       AGTPBP1 MUTATED AGTPBP1 WILD-TYPE
  CLUS_1               4                66
  CLUS_2               6               114
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGTPBP1 MUTATED        4      1      2      2      0      2      4      1
  AGTPBP1 WILD-TYPE     37     25     28     27     39     67     16     13
                   vv
clus                CLUS_9
  AGTPBP1 MUTATED        0
  AGTPBP1 WILD-TYPE     22
D1604V6, multiclass
        clus
vv       AGTPBP1 MUTATED AGTPBP1 WILD-TYPE
  CLUS_1               4                37
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               2                27
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               4                16
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AGTPBP1 MUTATED        4      5      5      3
  AGTPBP1 WILD-TYPE     96     67     67    118
D1604V7, multiclass
        clus
vv       AGTPBP1 MUTATED AGTPBP1 WILD-TYPE
  CLUS_1               4                96
  CLUS_2               5                67
  CLUS_3               5                67
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGTPBP1 MUTATED        4      3      6      2      2
  AGTPBP1 WILD-TYPE     55     72     68    117     36
D1604V8, multiclass
        clus
vv       AGTPBP1 MUTATED AGTPBP1 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               3                72
  CLUS_3               6                68
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGTPBP1 MUTATED        2      5      5      1      4
  AGTPBP1 WILD-TYPE     49     71     56     70     91
D1604V9, multiclass
        clus
vv       AGTPBP1 MUTATED AGTPBP1 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               5                71
  CLUS_3               5                56
  CLUS_4               1                70
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGTPBP1 MUTATED        0      5      1      2      5      0      0      2
  AGTPBP1 WILD-TYPE     69     43     38     14     48     20     21     36
                   vv
clus                CLUS_9
  AGTPBP1 MUTATED        2
  AGTPBP1 WILD-TYPE     48
D1604V10, multiclass
        clus
vv       AGTPBP1 MUTATED AGTPBP1 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               5                43
  CLUS_3               1                38
  CLUS_4               2                14
  CLUS_5               5                48
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AGTPBP1 MUTATED        0      1      1      1      2      0
  AGTPBP1 WILD-TYPE     13     15     13     10      9      9
D1604V11, multiclass
        clus
vv       AGTPBP1 MUTATED AGTPBP1 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGTPBP1 MUTATED        0      0      0      1      2      1      1      0
  AGTPBP1 WILD-TYPE     11      7      7      8      6      6     10      9
                   vv
clus                CLUS_9
  AGTPBP1 MUTATED        0
  AGTPBP1 WILD-TYPE      5
D1604V12, multiclass
        clus
vv       AGTPBP1 MUTATED AGTPBP1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               2                 6
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1605) Variable = GRIN2A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRIN2A MUTATED        6      1      3      2      1
  GRIN2A WILD-TYPE     26     17     43     25     22
D1605V1, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1              6               26
  CLUS_2              1               17
  CLUS_3              3               43
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GRIN2A MUTATED        7      4      2
  GRIN2A WILD-TYPE     36     63     34
D1605V2, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1              7               36
  CLUS_2              4               63
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GRIN2A MUTATED        3     13     25
  GRIN2A WILD-TYPE     39    160    122
D1605V3, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1              3               39
  CLUS_2             13              160
  CLUS_3             25              122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GRIN2A MUTATED        8      7     11
  GRIN2A WILD-TYPE     54     66     64
D1605V4, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1              8               54
  CLUS_2              7               66
  CLUS_3             11               64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GRIN2A MUTATED        3     18     15
  GRIN2A WILD-TYPE     67    102     85
D1605V5, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1              3               67
  CLUS_2             18              102
  CLUS_3             15               85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRIN2A MUTATED        2      5      3      2      5     13      0      4
  GRIN2A WILD-TYPE     39     21     27     27     34     56     20     10
                  vv
clus               CLUS_9
  GRIN2A MUTATED        2
  GRIN2A WILD-TYPE     20
D1605V6, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1              2               39
  CLUS_2              5               21
  CLUS_3              3               27
  CLUS_4              2               27
  CLUS_5              5               34
  CLUS_6             13               56
  CLUS_7              0               20
  CLUS_8              4               10
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRIN2A MUTATED       12      9      8     12
  GRIN2A WILD-TYPE     88     63     64    109
D1605V7, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1             12               88
  CLUS_2              9               63
  CLUS_3              8               64
  CLUS_4             12              109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRIN2A MUTATED        6      8     11      9      7
  GRIN2A WILD-TYPE     53     67     63    110     31
D1605V8, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1              6               53
  CLUS_2              8               67
  CLUS_3             11               63
  CLUS_4              9              110
  CLUS_5              7               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRIN2A MUTATED        5     11      9      3     10
  GRIN2A WILD-TYPE     46     65     52     68     85
D1605V9, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1              5               46
  CLUS_2             11               65
  CLUS_3              9               52
  CLUS_4              3               68
  CLUS_5             10               85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRIN2A MUTATED        6      8      4      5      1      3      4      3
  GRIN2A WILD-TYPE     63     40     35     11     52     17     17     35
                  vv
clus               CLUS_9
  GRIN2A MUTATED        4
  GRIN2A WILD-TYPE     46
D1605V10, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1              6               63
  CLUS_2              8               40
  CLUS_3              4               35
  CLUS_4              5               11
  CLUS_5              1               52
  CLUS_6              3               17
  CLUS_7              4               17
  CLUS_8              3               35
  CLUS_9              4               46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GRIN2A MUTATED        0      1      1      0      2      0
  GRIN2A WILD-TYPE     13     15     13     11      9      9
D1605V11, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRIN2A MUTATED        1      0      0      1      0      0      2      0
  GRIN2A WILD-TYPE     10      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  GRIN2A MUTATED        0
  GRIN2A WILD-TYPE      5
D1605V12, multiclass
        clus
vv       GRIN2A MUTATED GRIN2A WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1606) Variable = FGD1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGD1 MUTATED        2      0      1      1      1
  FGD1 WILD-TYPE     30     18     45     26     22
D1606V1, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD1 MUTATED        2      3      0
  FGD1 WILD-TYPE     41     64     36
D1606V2, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            3             64
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD1 MUTATED        3      3     10
  FGD1 WILD-TYPE     39    170    137
D1606V3, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            3            170
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD1 MUTATED        3      1      7
  FGD1 WILD-TYPE     59     72     68
D1606V4, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FGD1 MUTATED        5      3      6
  FGD1 WILD-TYPE     65    117     94
D1606V5, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            5             65
  CLUS_2            3            117
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FGD1 MUTATED        2      2      1      0      3      5      1      0      0
  FGD1 WILD-TYPE     39     24     29     29     36     64     19     14     22
D1606V6, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            3             36
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FGD1 MUTATED        1      5      5      5
  FGD1 WILD-TYPE     99     67     67    116
D1606V7, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            5             67
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGD1 MUTATED        1      0     10      3      2
  FGD1 WILD-TYPE     58     75     64    116     36
D1606V8, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3           10             64
  CLUS_4            3            116
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGD1 MUTATED        0      9      1      3      2
  FGD1 WILD-TYPE     51     67     60     68     93
D1606V9, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            9             67
  CLUS_3            1             60
  CLUS_4            3             68
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FGD1 MUTATED        2      5      1      3      1      0      0      2      1
  FGD1 WILD-TYPE     67     43     38     13     52     20     21     36     49
D1606V10, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FGD1 MUTATED        0      1      0      1      4      0
  FGD1 WILD-TYPE     13     15     14     10      7      9
D1606V11, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FGD1 MUTATED        0      0      1      1      1      0      3      0      0
  FGD1 WILD-TYPE     11      7      6      8      7      7      8      9      5
D1606V12, multiclass
        clus
vv       FGD1 MUTATED FGD1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            3              8
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1607) Variable = ZNF286A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF286A MUTATED        1      0      0      1      0
  ZNF286A WILD-TYPE     31     18     46     26     23
D1607V1, multiclass
[1] "Remove cluster labels:" "ZNF286A MUTATED"       
clus
  ZNF286A MUTATED ZNF286A WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF286A MUTATED        0      1      1
  ZNF286A WILD-TYPE     43     66     35
D1607V2, multiclass
[1] "Remove cluster labels:" "ZNF286A MUTATED"       
clus
  ZNF286A MUTATED ZNF286A WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3986 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" "ZNF286A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF286A MUTATED        0      0      7
  ZNF286A WILD-TYPE     42    173    140
D1607V3, multiclass
        clus
vv       ZNF286A MUTATED ZNF286A WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF286A MUTATED        4      0      1
  ZNF286A WILD-TYPE     58     73     74
D1607V4, multiclass
        clus
vv       ZNF286A MUTATED ZNF286A WILD-TYPE
  CLUS_1               4                58
  CLUS_2               0                73
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF286A MUTATED        2      1      3
  ZNF286A WILD-TYPE     68    119     97
D1607V5, multiclass
        clus
vv       ZNF286A MUTATED ZNF286A WILD-TYPE
  CLUS_1               2                68
  CLUS_2               1               119
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF286A MUTATED        2      0      1      0      0      2      0      1
  ZNF286A WILD-TYPE     39     26     29     29     39     67     20     13
                   vv
clus                CLUS_9
  ZNF286A MUTATED        0
  ZNF286A WILD-TYPE     22
D1607V6, multiclass
        clus
vv       ZNF286A MUTATED ZNF286A WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF286A MUTATED        0      2      3      2
  ZNF286A WILD-TYPE    100     70     69    119
D1607V7, multiclass
        clus
vv       ZNF286A MUTATED ZNF286A WILD-TYPE
  CLUS_1               0               100
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF286A MUTATED        1      1      3      2      0
  ZNF286A WILD-TYPE     58     74     71    117     38
D1607V8, multiclass
        clus
vv       ZNF286A MUTATED ZNF286A WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               2               117
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF286A MUTATED        0      2      2      1      2
  ZNF286A WILD-TYPE     51     74     59     70     93
D1607V9, multiclass
        clus
vv       ZNF286A MUTATED ZNF286A WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF286A MUTATED        1      3      0      0      1      1      0      0
  ZNF286A WILD-TYPE     68     45     39     16     52     19     21     38
                   vv
clus                CLUS_9
  ZNF286A MUTATED        1
  ZNF286A WILD-TYPE     49
D1607V10, multiclass
        clus
vv       ZNF286A MUTATED ZNF286A WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF286A MUTATED        0      1      1      0      1      0
  ZNF286A WILD-TYPE     13     15     13     11     10      9
D1607V11, multiclass
        clus
vv       ZNF286A MUTATED ZNF286A WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF286A MUTATED        0      0      0      0      1      0      2      0
  ZNF286A WILD-TYPE     11      7      7      9      7      7      9      9
                   vv
clus                CLUS_9
  ZNF286A MUTATED        0
  ZNF286A WILD-TYPE      5
D1607V12, multiclass
        clus
vv       ZNF286A MUTATED ZNF286A WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1608) Variable = BRCA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRCA1 MUTATED        5      0      0      1      0
  BRCA1 WILD-TYPE     27     18     46     26     23
D1608V1, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        4      1      1
  BRCA1 WILD-TYPE     39     66     35
D1608V2, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        3      7     16
  BRCA1 WILD-TYPE     39    166    131
D1608V3, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             7             166
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        5      6     10
  BRCA1 WILD-TYPE     57     67     65
D1608V4, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             6              67
  CLUS_3            10              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        3     11      7
  BRCA1 WILD-TYPE     67    109     93
D1608V5, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2            11             109
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BRCA1 MUTATED        3      2      2      2      3      5      2      0
  BRCA1 WILD-TYPE     38     24     28     27     36     64     18     14
                 vv
clus              CLUS_9
  BRCA1 MUTATED        2
  BRCA1 WILD-TYPE     20
D1608V6, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRCA1 MUTATED        6      8      5      7
  BRCA1 WILD-TYPE     94     64     67    114
D1608V7, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             6              94
  CLUS_2             8              64
  CLUS_3             5              67
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRCA1 MUTATED        4      5     10      3      4
  BRCA1 WILD-TYPE     55     70     64    116     34
D1608V8, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             5              70
  CLUS_3            10              64
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRCA1 MUTATED        7      7      3      2      6
  BRCA1 WILD-TYPE     44     69     58     69     89
D1608V9, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             7              44
  CLUS_2             7              69
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BRCA1 MUTATED        4      2      0      6      7      1      0      4
  BRCA1 WILD-TYPE     65     46     39     10     46     19     21     34
                 vv
clus              CLUS_9
  BRCA1 MUTATED        1
  BRCA1 WILD-TYPE     49
D1608V10, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             6              10
  CLUS_5             7              46
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRCA1 MUTATED        1      0      0      0      3      1
  BRCA1 WILD-TYPE     12     16     14     11      8      8
D1608V11, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BRCA1 MUTATED        1      0      0      2      1      0      0      0
  BRCA1 WILD-TYPE     10      7      7      7      7      7     11      9
                 vv
clus              CLUS_9
  BRCA1 MUTATED        1
  BRCA1 WILD-TYPE      4
D1608V12, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1609) Variable = AOX1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AOX1 MUTATED        4      0      0      1      0
  AOX1 WILD-TYPE     28     18     46     26     23
D1609V1, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AOX1 MUTATED        5      0      0
  AOX1 WILD-TYPE     38     67     36
D1609V2, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            5             38
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AOX1 MUTATED        0      2     10
  AOX1 WILD-TYPE     42    171    137
D1609V3, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AOX1 MUTATED        2      2      3
  AOX1 WILD-TYPE     60     71     72
D1609V4, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            2             71
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AOX1 MUTATED        0      4      5
  AOX1 WILD-TYPE     70    116     95
D1609V5, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AOX1 MUTATED        1      1      0      1      2      3      1      0      0
  AOX1 WILD-TYPE     40     25     30     28     37     66     19     14     22
D1609V6, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AOX1 MUTATED        2      2      3      5
  AOX1 WILD-TYPE     98     70     69    116
D1609V7, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            3             69
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AOX1 MUTATED        2      1      4      0      5
  AOX1 WILD-TYPE     57     74     70    119     33
D1609V8, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AOX1 MUTATED        1      4      1      1      5
  AOX1 WILD-TYPE     50     72     60     70     90
D1609V9, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AOX1 MUTATED        2      3      0      1      1      0      1      4      0
  AOX1 WILD-TYPE     67     45     39     15     52     20     20     34     50
D1609V10, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            4             34
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AOX1 MUTATED        1      0      0      0      2      0
  AOX1 WILD-TYPE     12     16     14     11      9      9
D1609V11, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  AOX1 MUTATED        0      0      0      2      0      0      1      0      0
  AOX1 WILD-TYPE     11      7      7      7      8      7     10      9      5
D1609V12, multiclass
        clus
vv       AOX1 MUTATED AOX1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1610) Variable = ZNF323 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF323 MUTATED        1      0      0      1      0
  ZNF323 WILD-TYPE     31     18     46     26     23
D1610V1, multiclass
[1] "Remove cluster labels:" "ZNF323 MUTATED"        
clus
  ZNF323 MUTATED ZNF323 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF323 MUTATED        1      1      0
  ZNF323 WILD-TYPE     42     66     36
D1610V2, multiclass
[1] "Remove cluster labels:" "ZNF323 MUTATED"        
clus
  ZNF323 MUTATED ZNF323 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" "ZNF323 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF323 MUTATED        1      2      7
  ZNF323 WILD-TYPE     41    171    140
D1610V3, multiclass
        clus
vv       ZNF323 MUTATED ZNF323 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF323 MUTATED        2      2      4
  ZNF323 WILD-TYPE     60     71     71
D1610V4, multiclass
        clus
vv       ZNF323 MUTATED ZNF323 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF323 MUTATED        1      4      3
  ZNF323 WILD-TYPE     69    116     97
D1610V5, multiclass
        clus
vv       ZNF323 MUTATED ZNF323 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF323 MUTATED        1      0      2      0      1      3      0      0
  ZNF323 WILD-TYPE     40     26     28     29     38     66     20     14
                  vv
clus               CLUS_9
  ZNF323 MUTATED        1
  ZNF323 WILD-TYPE     21
D1610V6, multiclass
        clus
vv       ZNF323 MUTATED ZNF323 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF323 MUTATED        1      3      3      3
  ZNF323 WILD-TYPE     99     69     69    118
D1610V7, multiclass
        clus
vv       ZNF323 MUTATED ZNF323 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF323 MUTATED        1      1      5      2      1
  ZNF323 WILD-TYPE     58     74     69    117     37
D1610V8, multiclass
        clus
vv       ZNF323 MUTATED ZNF323 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              5               69
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF323 MUTATED        1      5      0      0      4
  ZNF323 WILD-TYPE     50     71     61     71     91
D1610V9, multiclass
        clus
vv       ZNF323 MUTATED ZNF323 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              5               71
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF323 MUTATED        1      1      1      2      1      2      0      1
  ZNF323 WILD-TYPE     68     47     38     14     52     18     21     37
                  vv
clus               CLUS_9
  ZNF323 MUTATED        1
  ZNF323 WILD-TYPE     49
D1610V10, multiclass
        clus
vv       ZNF323 MUTATED ZNF323 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF323 MUTATED        1      0      1      0      1      0
  ZNF323 WILD-TYPE     12     16     13     11     10      9
D1610V11, multiclass
        clus
vv       ZNF323 MUTATED ZNF323 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF323 MUTATED        0      0      0      0      0      0      2      1
  ZNF323 WILD-TYPE     11      7      7      9      8      7      9      8
                  vv
clus               CLUS_9
  ZNF323 MUTATED        0
  ZNF323 WILD-TYPE      5
D1610V12, multiclass
        clus
vv       ZNF323 MUTATED ZNF323 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1611) Variable = ESR1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESR1 MUTATED        5      0      0      2      2
  ESR1 WILD-TYPE     27     18     46     25     21
D1611V1, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            2             21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ESR1 MUTATED        6      1      2
  ESR1 WILD-TYPE     37     66     34
D1611V2, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ESR1 MUTATED        0      3     16
  ESR1 WILD-TYPE     42    170    131
D1611V3, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3           16            131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ESR1 MUTATED        4      1      4
  ESR1 WILD-TYPE     58     72     71
D1611V4, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ESR1 MUTATED        2      6      8
  ESR1 WILD-TYPE     68    114     92
D1611V5, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            114
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ESR1 MUTATED        0      0      2      3      3      7      1      0      0
  ESR1 WILD-TYPE     41     26     28     26     36     62     19     14     22
D1611V6, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            3             26
  CLUS_5            3             36
  CLUS_6            7             62
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESR1 MUTATED        1      6      3      9
  ESR1 WILD-TYPE     99     66     69    112
D1611V7, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            6             66
  CLUS_3            3             69
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESR1 MUTATED        0      1      8      3      7
  ESR1 WILD-TYPE     59     74     66    116     31
D1611V8, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            8             66
  CLUS_4            3            116
  CLUS_5            7             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESR1 MUTATED        0      7      1      1      8
  ESR1 WILD-TYPE     51     69     60     70     87
D1611V9, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            7             69
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ESR1 MUTATED        2      3      1      2      0      1      1      5      2
  ESR1 WILD-TYPE     67     45     38     14     53     19     20     33     48
D1611V10, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            5             33
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ESR1 MUTATED        0      1      0      0      2      0
  ESR1 WILD-TYPE     13     15     14     11      9      9
D1611V11, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ESR1 MUTATED        1      0      0      0      0      1      1      0      0
  ESR1 WILD-TYPE     10      7      7      9      8      6     10      9      5
D1611V12, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1612) Variable = LDLRAD3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LDLRAD3 MUTATED        1      0      0      1      0
  LDLRAD3 WILD-TYPE     31     18     46     26     23
D1612V1, multiclass
[1] "Remove cluster labels:" "LDLRAD3 MUTATED"       
clus
  LDLRAD3 MUTATED LDLRAD3 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3866 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3952 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LDLRAD3 MUTATED        2      0      0
  LDLRAD3 WILD-TYPE     41     67     36
D1612V2, multiclass
[1] "Remove cluster labels:" "LDLRAD3 MUTATED"       
clus
  LDLRAD3 MUTATED LDLRAD3 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3866 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3952 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" "LDLRAD3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LDLRAD3 MUTATED        0      0      5
  LDLRAD3 WILD-TYPE     42    173    142
D1612V3, multiclass
        clus
vv       LDLRAD3 MUTATED LDLRAD3 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LDLRAD3 MUTATED        1      0      2
  LDLRAD3 WILD-TYPE     61     73     73
D1612V4, multiclass
        clus
vv       LDLRAD3 MUTATED LDLRAD3 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               0                73
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LDLRAD3 MUTATED        1      2      1
  LDLRAD3 WILD-TYPE     69    118     99
D1612V5, multiclass
        clus
vv       LDLRAD3 MUTATED LDLRAD3 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LDLRAD3 MUTATED        0      0      0      1      2      1      0      0
  LDLRAD3 WILD-TYPE     41     26     30     28     37     68     20     14
                   vv
clus                CLUS_9
  LDLRAD3 MUTATED        0
  LDLRAD3 WILD-TYPE     22
D1612V6, multiclass
        clus
vv       LDLRAD3 MUTATED LDLRAD3 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LDLRAD3 MUTATED        0      3      0      2
  LDLRAD3 WILD-TYPE    100     69     72    119
D1612V7, multiclass
        clus
vv       LDLRAD3 MUTATED LDLRAD3 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               0                72
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LDLRAD3 MUTATED        0      1      2      0      2
  LDLRAD3 WILD-TYPE     59     74     72    119     36
D1612V8, multiclass
        clus
vv       LDLRAD3 MUTATED LDLRAD3 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LDLRAD3 MUTATED        0      1      0      0      4
  LDLRAD3 WILD-TYPE     51     75     61     71     91
D1612V9, multiclass
        clus
vv       LDLRAD3 MUTATED LDLRAD3 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               1                75
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LDLRAD3 MUTATED        0      0      0      1      0      0      1      2
  LDLRAD3 WILD-TYPE     69     48     39     15     53     20     20     36
                   vv
clus                CLUS_9
  LDLRAD3 MUTATED        1
  LDLRAD3 WILD-TYPE     49
D1612V10, multiclass
        clus
vv       LDLRAD3 MUTATED LDLRAD3 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LDLRAD3 MUTATED        0      0      0      0      0      0
  LDLRAD3 WILD-TYPE     13     16     14     11     11      9
D1612V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LDLRAD3 MUTATED        0      0      0      0      0      0      0      0
  LDLRAD3 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  LDLRAD3 MUTATED        0
  LDLRAD3 WILD-TYPE      5
D1612V12, multiclass

Clustering(1613) Variable = BAZ1B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAZ1B MUTATED        4      0      0      1      0
  BAZ1B WILD-TYPE     28     18     46     26     23
D1613V1, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BAZ1B MUTATED        4      0      1
  BAZ1B WILD-TYPE     39     67     35
D1613V2, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BAZ1B MUTATED        1      5     15
  BAZ1B WILD-TYPE     41    168    132
D1613V3, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BAZ1B MUTATED        5      4      7
  BAZ1B WILD-TYPE     57     69     68
D1613V4, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             5              57
  CLUS_2             4              69
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BAZ1B MUTATED        2      4     13
  BAZ1B WILD-TYPE     68    116     87
D1613V5, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3            13              87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BAZ1B MUTATED        4      0      0      3      2      8      1      0
  BAZ1B WILD-TYPE     37     26     30     26     37     61     19     14
                 vv
clus              CLUS_9
  BAZ1B MUTATED        1
  BAZ1B WILD-TYPE     21
D1613V6, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             4              37
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             2              37
  CLUS_6             8              61
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BAZ1B MUTATED        1      7      8      5
  BAZ1B WILD-TYPE     99     65     64    116
D1613V7, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             1              99
  CLUS_2             7              65
  CLUS_3             8              64
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAZ1B MUTATED        3      1     12      3      2
  BAZ1B WILD-TYPE     56     74     62    116     36
D1613V8, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3            12              62
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAZ1B MUTATED        1     10      4      3      1
  BAZ1B WILD-TYPE     50     66     57     68     94
D1613V9, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             1              50
  CLUS_2            10              66
  CLUS_3             4              57
  CLUS_4             3              68
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BAZ1B MUTATED        3      8      0      5      1      0      0      2
  BAZ1B WILD-TYPE     66     40     39     11     52     20     21     36
                 vv
clus              CLUS_9
  BAZ1B MUTATED        0
  BAZ1B WILD-TYPE     50
D1613V10, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             3              66
  CLUS_2             8              40
  CLUS_3             0              39
  CLUS_4             5              11
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BAZ1B MUTATED        0      1      0      0      3      0
  BAZ1B WILD-TYPE     13     15     14     11      8      9
D1613V11, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BAZ1B MUTATED        0      0      0      1      0      0      3      0
  BAZ1B WILD-TYPE     11      7      7      8      8      7      8      9
                 vv
clus              CLUS_9
  BAZ1B MUTATED        0
  BAZ1B WILD-TYPE      5
D1613V12, multiclass
        clus
vv       BAZ1B MUTATED BAZ1B WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1614) Variable = SLAMF9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLAMF9 MUTATED        2      0      0      0      0
  SLAMF9 WILD-TYPE     30     18     46     27     23
D1614V1, multiclass
[1] "Remove cluster labels:" "SLAMF9 MUTATED"        
clus
  SLAMF9 MUTATED SLAMF9 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950       TCGA-AA-3952 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF9 MUTATED        2      0      0
  SLAMF9 WILD-TYPE     41     67     36
D1614V2, multiclass
[1] "Remove cluster labels:" "SLAMF9 MUTATED"        
clus
  SLAMF9 MUTATED SLAMF9 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950       TCGA-AA-3952 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF9 MUTATED        1      1      4
  SLAMF9 WILD-TYPE     41    172    143
D1614V3, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF9 MUTATED        2      2      0
  SLAMF9 WILD-TYPE     60     71     75
D1614V4, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF9 MUTATED        0      2      3
  SLAMF9 WILD-TYPE     70    118     97
D1614V5, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLAMF9 MUTATED        1      0      0      0      0      2      0      1
  SLAMF9 WILD-TYPE     40     26     30     29     39     67     20     13
                  vv
clus               CLUS_9
  SLAMF9 MUTATED        1
  SLAMF9 WILD-TYPE     21
D1614V6, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLAMF9 MUTATED        2      1      1      2
  SLAMF9 WILD-TYPE     98     71     71    119
D1614V7, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLAMF9 MUTATED        2      1      1      0      2
  SLAMF9 WILD-TYPE     57     74     73    119     36
D1614V8, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLAMF9 MUTATED        0      1      2      1      2
  SLAMF9 WILD-TYPE     51     75     59     70     93
D1614V9, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              1               75
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLAMF9 MUTATED        1      2      0      1      0      0      1      1
  SLAMF9 WILD-TYPE     68     46     39     15     53     20     20     37
                  vv
clus               CLUS_9
  SLAMF9 MUTATED        0
  SLAMF9 WILD-TYPE     50
D1614V10, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLAMF9 MUTATED        0      0      0      0      0      0
  SLAMF9 WILD-TYPE     13     16     14     11     11      9
D1614V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLAMF9 MUTATED        0      0      0      0      0      0      0      0
  SLAMF9 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  SLAMF9 MUTATED        0
  SLAMF9 WILD-TYPE      5
D1614V12, multiclass

Clustering(1615) Variable = C6ORF203 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF203 MUTATED        0      0      0      2      0
  C6ORF203 WILD-TYPE     32     18     46     25     23
D1615V1, multiclass
[1] "Remove cluster labels:" "C6ORF203 MUTATED"      
clus
  C6ORF203 MUTATED C6ORF203 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3866 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF203 MUTATED        1      1      0
  C6ORF203 WILD-TYPE     42     66     36
D1615V2, multiclass
[1] "Remove cluster labels:" "C6ORF203 MUTATED"      
clus
  C6ORF203 MUTATED C6ORF203 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3866 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF203 MUTATED        0      0      4
  C6ORF203 WILD-TYPE     42    173    143
D1615V3, multiclass
        clus
vv       C6ORF203 MUTATED C6ORF203 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                4                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF203 MUTATED        1      0      1
  C6ORF203 WILD-TYPE     61     73     74
D1615V4, multiclass
[1] "Remove cluster labels:" "C6ORF203 MUTATED"      
clus
  C6ORF203 MUTATED C6ORF203 WILD-TYPE 
                 2                208 
        TCGA-A6-2671         TCGA-A6-2677         TCGA-A6-3809 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-3810         TCGA-A6-4105         TCGA-A6-5656 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-5657         TCGA-A6-5659         TCGA-A6-5660 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-5661         TCGA-A6-5662         TCGA-A6-5664 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-5665         TCGA-A6-5666         TCGA-A6-6137 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-6138         TCGA-A6-6141         TCGA-A6-6142 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-6648         TCGA-A6-6649         TCGA-A6-6651 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-6652         TCGA-A6-6653         TCGA-A6-6654 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-A6-6780         TCGA-A6-6781         TCGA-A6-6782 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3489         TCGA-AA-3492         TCGA-AA-3496 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3502         TCGA-AA-3510         TCGA-AA-3511 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3655         TCGA-AA-3660         TCGA-AA-3662 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AA-3697         TCGA-AA-3712         TCGA-AA-3713 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6888 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6890         TCGA-AD-6895 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AD-6899         TCGA-AD-6901         TCGA-AD-6963 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AU-3779 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AU-6004         TCGA-AY-5543         TCGA-AY-6196 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AY-6197         TCGA-AY-6386         TCGA-AZ-4315 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-4681 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AZ-4682         TCGA-AZ-5403         TCGA-AZ-5407 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6599         TCGA-AZ-6600 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AZ-6601         TCGA-AZ-6603         TCGA-AZ-6605 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-AZ-6606         TCGA-AZ-6607         TCGA-AZ-6608 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CA-5254         TCGA-CA-5255         TCGA-CA-5796 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CA-5797         TCGA-CA-6715         TCGA-CA-6716 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CA-6717         TCGA-CA-6718         TCGA-CA-6719 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CK-4947         TCGA-CK-4948         TCGA-CK-4950 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CK-4952         TCGA-CK-5912         TCGA-CK-5913 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CK-5914         TCGA-CK-5915         TCGA-CK-5916 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CK-6746         TCGA-CK-6747         TCGA-CK-6748 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CK-6751         TCGA-CM-4744         TCGA-CM-4746 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CM-4747         TCGA-CM-4752         TCGA-CM-5341 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CM-5344         TCGA-CM-5348         TCGA-CM-5349 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-5861         TCGA-CM-5862 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CM-5863         TCGA-CM-5864         TCGA-CM-5868 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CM-6161         TCGA-CM-6162         TCGA-CM-6163 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CM-6164         TCGA-CM-6165         TCGA-CM-6166 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6168         TCGA-CM-6169 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CM-6170         TCGA-CM-6171         TCGA-CM-6172 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6675         TCGA-CM-6676 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-5538 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-D5-5539         TCGA-D5-5540         TCGA-D5-5541 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-D5-6529         TCGA-D5-6532         TCGA-D5-6533 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6535         TCGA-D5-6536 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-D5-6537         TCGA-D5-6538         TCGA-D5-6539 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-D5-6540         TCGA-D5-6541         TCGA-D5-6898 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-D5-6920         TCGA-D5-6922         TCGA-D5-6923 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-D5-6924         TCGA-D5-6926         TCGA-D5-6927 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-D5-6928         TCGA-D5-6929         TCGA-D5-6930 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-D5-6931         TCGA-D5-6932         TCGA-D5-7000 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-DM-A0X9         TCGA-DM-A0XD         TCGA-DM-A0XF 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D4         TCGA-DM-A1D6 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-DM-A1D7         TCGA-DM-A1D8         TCGA-DM-A1D9 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-DM-A1DA         TCGA-DM-A1DB         TCGA-DM-A1HA 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-DM-A1HB         TCGA-DM-A282         TCGA-DM-A285 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-DM-A28C         TCGA-DM-A28E         TCGA-DM-A28F 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-DM-A28G         TCGA-DM-A28H         TCGA-DM-A28K 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6703         TCGA-F4-6704 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6806         TCGA-F4-6807 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-F4-6808         TCGA-F4-6809         TCGA-F4-6854 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-F4-6855         TCGA-F4-6856         TCGA-G4-6293 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6304 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6307         TCGA-G4-6309 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-G4-6310         TCGA-G4-6315         TCGA-G4-6317 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-G4-6321         TCGA-G4-6323         TCGA-G4-6586 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-G4-6588         TCGA-G4-6625         TCGA-G4-6626 
"C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" "C6ORF203 WILD-TYPE" 
        TCGA-G4-6628 
"C6ORF203 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C6ORF203 MUTATED        0      2      1
  C6ORF203 WILD-TYPE     70    118     99
D1615V5, multiclass
        clus
vv       C6ORF203 MUTATED C6ORF203 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                118
  CLUS_3                1                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF203 MUTATED        0      0      1      0      1      1      0      0
  C6ORF203 WILD-TYPE     41     26     29     29     38     68     20     14
                    vv
clus                 CLUS_9
  C6ORF203 MUTATED        0
  C6ORF203 WILD-TYPE     22
D1615V6, multiclass
        clus
vv       C6ORF203 MUTATED C6ORF203 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                1                 68
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C6ORF203 MUTATED        0      2      0      2
  C6ORF203 WILD-TYPE    100     70     72    119
D1615V7, multiclass
        clus
vv       C6ORF203 MUTATED C6ORF203 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                2                 70
  CLUS_3                0                 72
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF203 MUTATED        0      0      2      1      1
  C6ORF203 WILD-TYPE     59     75     72    118     37
D1615V8, multiclass
        clus
vv       C6ORF203 MUTATED C6ORF203 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                2                 72
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF203 MUTATED        0      2      0      0      2
  C6ORF203 WILD-TYPE     51     74     61     71     93
D1615V9, multiclass
        clus
vv       C6ORF203 MUTATED C6ORF203 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                2                 74
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF203 MUTATED        0      0      0      2      0      1      0      1
  C6ORF203 WILD-TYPE     69     48     39     14     53     19     21     37
                    vv
clus                 CLUS_9
  C6ORF203 MUTATED        0
  C6ORF203 WILD-TYPE     50
D1615V10, multiclass
        clus
vv       C6ORF203 MUTATED C6ORF203 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                0                 48
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C6ORF203 MUTATED        0      0      0      0      0      0
  C6ORF203 WILD-TYPE     13     16     14     11     11      9
D1615V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF203 MUTATED        0      0      0      0      0      0      0      0
  C6ORF203 WILD-TYPE     11      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  C6ORF203 MUTATED        0
  C6ORF203 WILD-TYPE      5
D1615V12, multiclass

Clustering(1616) Variable = CCPG1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCPG1 MUTATED        2      0      0      2      1
  CCPG1 WILD-TYPE     30     18     46     25     22
D1616V1, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCPG1 MUTATED        3      1      1
  CCPG1 WILD-TYPE     40     66     35
D1616V2, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCPG1 MUTATED        0      1     10
  CCPG1 WILD-TYPE     42    172    137
D1616V3, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCPG1 MUTATED        4      0      2
  CCPG1 WILD-TYPE     58     73     73
D1616V4, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCPG1 MUTATED        0      1      6
  CCPG1 WILD-TYPE     70    119     94
D1616V5, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCPG1 MUTATED        0      0      1      0      0      6      0      0
  CCPG1 WILD-TYPE     41     26     29     29     39     63     20     14
                 vv
clus              CLUS_9
  CCPG1 MUTATED        0
  CCPG1 WILD-TYPE     22
D1616V6, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCPG1 MUTATED        0      3      3      5
  CCPG1 WILD-TYPE    100     69     69    116
D1616V7, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCPG1 MUTATED        0      1      5      3      2
  CCPG1 WILD-TYPE     59     74     69    116     36
D1616V8, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCPG1 MUTATED        0      4      1      1      4
  CCPG1 WILD-TYPE     51     72     60     70     91
D1616V9, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCPG1 MUTATED        1      1      0      2      1      1      1      1
  CCPG1 WILD-TYPE     68     47     39     14     52     19     20     37
                 vv
clus              CLUS_9
  CCPG1 MUTATED        2
  CCPG1 WILD-TYPE     48
D1616V10, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCPG1 MUTATED        0      0      1      0      2      0
  CCPG1 WILD-TYPE     13     16     13     11      9      9
D1616V11, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCPG1 MUTATED        0      0      0      0      1      1      1      0
  CCPG1 WILD-TYPE     11      7      7      9      7      6     10      9
                 vv
clus              CLUS_9
  CCPG1 MUTATED        0
  CCPG1 WILD-TYPE      5
D1616V12, multiclass
        clus
vv       CCPG1 MUTATED CCPG1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1617) Variable = RIC8B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIC8B MUTATED        2      0      0      0      0
  RIC8B WILD-TYPE     30     18     46     27     23
D1617V1, multiclass
[1] "Remove cluster labels:" "RIC8B MUTATED"         
clus
  RIC8B MUTATED RIC8B WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RIC8B MUTATED        2      0      0
  RIC8B WILD-TYPE     41     67     36
D1617V2, multiclass
[1] "Remove cluster labels:" "RIC8B MUTATED"         
clus
  RIC8B MUTATED RIC8B WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00K 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RIC8B MUTATED        2      2      5
  RIC8B WILD-TYPE     40    171    142
D1617V3, multiclass
        clus
vv       RIC8B MUTATED RIC8B WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RIC8B MUTATED        3      1      3
  RIC8B WILD-TYPE     59     72     72
D1617V4, multiclass
        clus
vv       RIC8B MUTATED RIC8B WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RIC8B MUTATED        1      2      4
  RIC8B WILD-TYPE     69    118     96
D1617V5, multiclass
        clus
vv       RIC8B MUTATED RIC8B WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RIC8B MUTATED        3      1      0      1      0      1      1      0
  RIC8B WILD-TYPE     38     25     30     28     39     68     19     14
                 vv
clus              CLUS_9
  RIC8B MUTATED        0
  RIC8B WILD-TYPE     22
D1617V6, multiclass
        clus
vv       RIC8B MUTATED RIC8B WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RIC8B MUTATED        1      2      3      3
  RIC8B WILD-TYPE     99     70     69    118
D1617V7, multiclass
        clus
vv       RIC8B MUTATED RIC8B WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIC8B MUTATED        3      1      2      1      2
  RIC8B WILD-TYPE     56     74     72    118     36
D1617V8, multiclass
        clus
vv       RIC8B MUTATED RIC8B WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIC8B MUTATED        1      3      1      1      3
  RIC8B WILD-TYPE     50     73     60     70     92
D1617V9, multiclass
        clus
vv       RIC8B MUTATED RIC8B WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RIC8B MUTATED        2      2      0      2      0      1      0      1
  RIC8B WILD-TYPE     67     46     39     14     53     19     21     37
                 vv
clus              CLUS_9
  RIC8B MUTATED        1
  RIC8B WILD-TYPE     49
D1617V10, multiclass
        clus
vv       RIC8B MUTATED RIC8B WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RIC8B MUTATED        0      0      0      0      1      1
  RIC8B WILD-TYPE     13     16     14     11     10      8
D1617V11, multiclass
[1] "Remove cluster labels:" "RIC8B MUTATED"         
clus
  RIC8B MUTATED RIC8B WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RIC8B MUTATED        1      0      0      1      0      0      0      0
  RIC8B WILD-TYPE     10      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  RIC8B MUTATED        0
  RIC8B WILD-TYPE      5
D1617V12, multiclass
[1] "Remove cluster labels:" "RIC8B MUTATED"         
clus
  RIC8B MUTATED RIC8B WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" "RIC8B WILD-TYPE" 

Clustering(1618) Variable = KIAA1429 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1429 MUTATED        4      0      0      3      0
  KIAA1429 WILD-TYPE     28     18     46     24     23
D1618V1, multiclass
        clus
vv       KIAA1429 MUTATED KIAA1429 WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                3                 24
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1429 MUTATED        5      1      1
  KIAA1429 WILD-TYPE     38     66     35
D1618V2, multiclass
        clus
vv       KIAA1429 MUTATED KIAA1429 WILD-TYPE
  CLUS_1                5                 38
  CLUS_2                1                 66
  CLUS_3                1                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1429 MUTATED        0      1     16
  KIAA1429 WILD-TYPE     42    172    131
D1618V3, multiclass
        clus
vv       KIAA1429 MUTATED KIAA1429 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                1                172
  CLUS_3               16                131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1429 MUTATED        6      1      2
  KIAA1429 WILD-TYPE     56     72     73
D1618V4, multiclass
        clus
vv       KIAA1429 MUTATED KIAA1429 WILD-TYPE
  CLUS_1                6                 56
  CLUS_2                1                 72
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1429 MUTATED        2      4      9
  KIAA1429 WILD-TYPE     68    116     91
D1618V5, multiclass
        clus
vv       KIAA1429 MUTATED KIAA1429 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                4                116
  CLUS_3                9                 91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1429 MUTATED        0      0      2      1      2      8      1      0
  KIAA1429 WILD-TYPE     41     26     28     28     37     61     19     14
                    vv
clus                 CLUS_9
  KIAA1429 MUTATED        1
  KIAA1429 WILD-TYPE     21
D1618V6, multiclass
        clus
vv       KIAA1429 MUTATED KIAA1429 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                2                 28
  CLUS_4                1                 28
  CLUS_5                2                 37
  CLUS_6                8                 61
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1429 MUTATED        0      3      6      8
  KIAA1429 WILD-TYPE    100     69     66    113
D1618V7, multiclass
        clus
vv       KIAA1429 MUTATED KIAA1429 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                3                 69
  CLUS_3                6                 66
  CLUS_4                8                113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1429 MUTATED        0      2      7      3      5
  KIAA1429 WILD-TYPE     59     73     67    116     33
D1618V8, multiclass
        clus
vv       KIAA1429 MUTATED KIAA1429 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                2                 73
  CLUS_3                7                 67
  CLUS_4                3                116
  CLUS_5                5                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1429 MUTATED        1      7      0      1      7
  KIAA1429 WILD-TYPE     50     69     61     70     88
D1618V9, multiclass
        clus
vv       KIAA1429 MUTATED KIAA1429 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                7                 69
  CLUS_3                0                 61
  CLUS_4                1                 70
  CLUS_5                7                 88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1429 MUTATED        2      5      0      0      2      1      1      4
  KIAA1429 WILD-TYPE     67     43     39     16     51     19     20     34
                    vv
clus                 CLUS_9
  KIAA1429 MUTATED        1
  KIAA1429 WILD-TYPE     49
D1618V10, multiclass
        clus
vv       KIAA1429 MUTATED KIAA1429 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                5                 43
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                1                 20
  CLUS_8                4                 34
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA1429 MUTATED        0      0      0      0      2      0
  KIAA1429 WILD-TYPE     13     16     14     11      9      9
D1618V11, multiclass
[1] "Remove cluster labels:" "KIAA1429 MUTATED"      
clus
  KIAA1429 MUTATED KIAA1429 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6603 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6719 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1429 MUTATED        0      0      0      0      0      0      2      0
  KIAA1429 WILD-TYPE     11      7      7      9      8      7      9      9
                    vv
clus                 CLUS_9
  KIAA1429 MUTATED        0
  KIAA1429 WILD-TYPE      5
D1618V12, multiclass
[1] "Remove cluster labels:" "KIAA1429 MUTATED"      
clus
  KIAA1429 MUTATED KIAA1429 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6603 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6719 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-5860 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A285         TCGA-DM-A28F 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" "KIAA1429 WILD-TYPE" 

Clustering(1619) Variable = SPATA6 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPATA6 MUTATED        1      0      0      0      0
  SPATA6 WILD-TYPE     31     18     46     27     23
D1619V1, multiclass
[1] "Remove cluster labels:" "SPATA6 MUTATED"        
clus
  SPATA6 MUTATED SPATA6 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AY-4071 
"SPATA6 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPATA6 MUTATED        1      0      0
  SPATA6 WILD-TYPE     42     67     36
D1619V2, multiclass
[1] "Remove cluster labels:" "SPATA6 MUTATED"        
clus
  SPATA6 MUTATED SPATA6 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AY-4071 
"SPATA6 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPATA6 MUTATED        0      2      4
  SPATA6 WILD-TYPE     42    171    143
D1619V3, multiclass
        clus
vv       SPATA6 MUTATED SPATA6 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPATA6 MUTATED        1      3      1
  SPATA6 WILD-TYPE     61     70     74
D1619V4, multiclass
        clus
vv       SPATA6 MUTATED SPATA6 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              3               70
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPATA6 MUTATED        1      2      2
  SPATA6 WILD-TYPE     69    118     98
D1619V5, multiclass
        clus
vv       SPATA6 MUTATED SPATA6 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPATA6 MUTATED        1      0      0      0      0      2      0      0
  SPATA6 WILD-TYPE     40     26     30     29     39     67     20     14
                  vv
clus               CLUS_9
  SPATA6 MUTATED        2
  SPATA6 WILD-TYPE     20
D1619V6, multiclass
        clus
vv       SPATA6 MUTATED SPATA6 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPATA6 MUTATED        1      2      2      1
  SPATA6 WILD-TYPE     99     70     70    120
D1619V7, multiclass
        clus
vv       SPATA6 MUTATED SPATA6 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPATA6 MUTATED        1      2      2      0      1
  SPATA6 WILD-TYPE     58     73     72    119     37
D1619V8, multiclass
        clus
vv       SPATA6 MUTATED SPATA6 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPATA6 MUTATED        1      3      1      0      1
  SPATA6 WILD-TYPE     50     73     60     71     94
D1619V9, multiclass
        clus
vv       SPATA6 MUTATED SPATA6 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPATA6 MUTATED        3      1      0      0      1      0      1      0
  SPATA6 WILD-TYPE     66     47     39     16     52     20     20     38
                  vv
clus               CLUS_9
  SPATA6 MUTATED        0
  SPATA6 WILD-TYPE     50
D1619V10, multiclass
        clus
vv       SPATA6 MUTATED SPATA6 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPATA6 MUTATED        0      0      0      1      0      0
  SPATA6 WILD-TYPE     13     16     14     10     11      9
D1619V11, multiclass
[1] "Remove cluster labels:" "SPATA6 MUTATED"        
clus
  SPATA6 MUTATED SPATA6 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-G4-6628 
"SPATA6 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPATA6 MUTATED        0      0      1      0      0      0      0      0
  SPATA6 WILD-TYPE     11      7      6      9      8      7     11      9
                  vv
clus               CLUS_9
  SPATA6 MUTATED        0
  SPATA6 WILD-TYPE      5
D1619V12, multiclass
[1] "Remove cluster labels:" "SPATA6 MUTATED"        
clus
  SPATA6 MUTATED SPATA6 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" "SPATA6 WILD-TYPE" 
      TCGA-G4-6628 
"SPATA6 WILD-TYPE" 

Clustering(1620) Variable = PIGN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIGN MUTATED        2      0      0      0      0
  PIGN WILD-TYPE     30     18     46     27     23
D1620V1, multiclass
[1] "Remove cluster labels:" "PIGN MUTATED"          
clus
  PIGN MUTATED PIGN WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3968 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGN MUTATED        2      0      0
  PIGN WILD-TYPE     41     67     36
D1620V2, multiclass
[1] "Remove cluster labels:" "PIGN MUTATED"          
clus
  PIGN MUTATED PIGN WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3968 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGN MUTATED        1      0      6
  PIGN WILD-TYPE     41    173    141
D1620V3, multiclass
        clus
vv       PIGN MUTATED PIGN WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGN MUTATED        4      0      1
  PIGN WILD-TYPE     58     73     74
D1620V4, multiclass
        clus
vv       PIGN MUTATED PIGN WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PIGN MUTATED        1      1      3
  PIGN WILD-TYPE     69    119     97
D1620V5, multiclass
        clus
vv       PIGN MUTATED PIGN WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PIGN MUTATED        0      0      0      1      1      3      0      0      0
  PIGN WILD-TYPE     41     26     30     28     38     66     20     14     22
D1620V6, multiclass
        clus
vv       PIGN MUTATED PIGN WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIGN MUTATED        0      1      4      2
  PIGN WILD-TYPE    100     71     68    119
D1620V7, multiclass
        clus
vv       PIGN MUTATED PIGN WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIGN MUTATED        1      0      4      0      2
  PIGN WILD-TYPE     58     75     70    119     36
D1620V8, multiclass
        clus
vv       PIGN MUTATED PIGN WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIGN MUTATED        0      1      4      0      2
  PIGN WILD-TYPE     51     75     57     71     93
D1620V9, multiclass
        clus
vv       PIGN MUTATED PIGN WILD-TYPE
  CLUS_1            0             51
  CLUS_2            1             75
  CLUS_3            4             57
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PIGN MUTATED        0      3      0      0      2      0      0      2      0
  PIGN WILD-TYPE     69     45     39     16     51     20     21     36     50
D1620V10, multiclass
        clus
vv       PIGN MUTATED PIGN WILD-TYPE
  CLUS_1            0             69
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIGN MUTATED        0      0      1      0      0      0
  PIGN WILD-TYPE     13     16     13     11     11      9
D1620V11, multiclass
[1] "Remove cluster labels:" "PIGN MUTATED"          
clus
  PIGN MUTATED PIGN WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-G4-6628 
"PIGN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PIGN MUTATED        0      0      0      0      1      0      0      0      0
  PIGN WILD-TYPE     11      7      7      9      7      7     11      9      5
D1620V12, multiclass
[1] "Remove cluster labels:" "PIGN MUTATED"          
clus
  PIGN MUTATED PIGN WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6965     TCGA-AY-6196 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" "PIGN WILD-TYPE" 
    TCGA-G4-6628 
"PIGN WILD-TYPE" 

Clustering(1621) Variable = OR4N2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4N2 MUTATED        1      0      0      0      1
  OR4N2 WILD-TYPE     31     18     46     27     22
D1621V1, multiclass
[1] "Remove cluster labels:" "OR4N2 MUTATED"         
clus
  OR4N2 MUTATED OR4N2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3860 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4N2 MUTATED        1      0      1
  OR4N2 WILD-TYPE     42     67     35
D1621V2, multiclass
[1] "Remove cluster labels:" "OR4N2 MUTATED"         
clus
  OR4N2 MUTATED OR4N2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3860 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4N2 MUTATED        0      2      8
  OR4N2 WILD-TYPE     42    171    139
D1621V3, multiclass
        clus
vv       OR4N2 MUTATED OR4N2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4N2 MUTATED        2      1      5
  OR4N2 WILD-TYPE     60     72     70
D1621V4, multiclass
        clus
vv       OR4N2 MUTATED OR4N2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR4N2 MUTATED        1      5      2
  OR4N2 WILD-TYPE     69    115     98
D1621V5, multiclass
        clus
vv       OR4N2 MUTATED OR4N2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4N2 MUTATED        0      0      0      2      1      3      1      1
  OR4N2 WILD-TYPE     41     26     30     27     38     66     19     13
                 vv
clus              CLUS_9
  OR4N2 MUTATED        0
  OR4N2 WILD-TYPE     22
D1621V6, multiclass
        clus
vv       OR4N2 MUTATED OR4N2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR4N2 MUTATED        2      5      1      2
  OR4N2 WILD-TYPE     98     67     71    119
D1621V7, multiclass
        clus
vv       OR4N2 MUTATED OR4N2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4N2 MUTATED        0      3      5      1      1
  OR4N2 WILD-TYPE     59     72     69    118     37
D1621V8, multiclass
        clus
vv       OR4N2 MUTATED OR4N2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR4N2 MUTATED        0      6      0      2      2
  OR4N2 WILD-TYPE     51     70     61     69     93
D1621V9, multiclass
        clus
vv       OR4N2 MUTATED OR4N2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4N2 MUTATED        3      0      0      3      1      0      0      1
  OR4N2 WILD-TYPE     66     48     39     13     52     20     21     37
                 vv
clus              CLUS_9
  OR4N2 MUTATED        2
  OR4N2 WILD-TYPE     48
D1621V10, multiclass
        clus
vv       OR4N2 MUTATED OR4N2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR4N2 MUTATED        0      0      0      0      2      0
  OR4N2 WILD-TYPE     13     16     14     11      9      9
D1621V11, multiclass
[1] "Remove cluster labels:" "OR4N2 MUTATED"         
clus
  OR4N2 MUTATED OR4N2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625      TCGA-G4-6628 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR4N2 MUTATED        0      0      0      1      1      0      0      0
  OR4N2 WILD-TYPE     11      7      7      8      7      7     11      9
                 vv
clus              CLUS_9
  OR4N2 MUTATED        0
  OR4N2 WILD-TYPE      5
D1621V12, multiclass
[1] "Remove cluster labels:" "OR4N2 MUTATED"         
clus
  OR4N2 MUTATED OR4N2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625      TCGA-G4-6628 
"OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" "OR4N2 WILD-TYPE" 

Clustering(1622) Variable = RALA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RALA MUTATED        0      0      0      0      0
  RALA WILD-TYPE     32     18     46     27     23
D1622V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RALA MUTATED        0      0      0
  RALA WILD-TYPE     43     67     36
D1622V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RALA MUTATED        0      3      4
  RALA WILD-TYPE     42    170    143
D1622V3, multiclass
        clus
vv       RALA MUTATED RALA WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RALA MUTATED        5      1      1
  RALA WILD-TYPE     57     72     74
D1622V4, multiclass
        clus
vv       RALA MUTATED RALA WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RALA MUTATED        0      2      4
  RALA WILD-TYPE     70    118     96
D1622V5, multiclass
        clus
vv       RALA MUTATED RALA WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RALA MUTATED        0      1      0      0      1      4      0      0      0
  RALA WILD-TYPE     41     25     30     29     38     65     20     14     22
D1622V6, multiclass
        clus
vv       RALA MUTATED RALA WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RALA MUTATED        2      1      2      2
  RALA WILD-TYPE     98     71     70    119
D1622V7, multiclass
        clus
vv       RALA MUTATED RALA WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RALA MUTATED        1      1      3      2      0
  RALA WILD-TYPE     58     74     71    117     38
D1622V8, multiclass
        clus
vv       RALA MUTATED RALA WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RALA MUTATED        1      4      1      0      1
  RALA WILD-TYPE     50     72     60     71     94
D1622V9, multiclass
        clus
vv       RALA MUTATED RALA WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RALA MUTATED        2      2      0      1      1      0      0      0      1
  RALA WILD-TYPE     67     46     39     15     52     20     21     38     49
D1622V10, multiclass
        clus
vv       RALA MUTATED RALA WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RALA MUTATED        0      0      0      0      1      0
  RALA WILD-TYPE     13     16     14     11     10      9
D1622V11, multiclass
[1] "Remove cluster labels:" "RALA MUTATED"          
clus
  RALA MUTATED RALA WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-G4-6628 
"RALA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RALA MUTATED        0      0      0      0      0      0      1      0      0
  RALA WILD-TYPE     11      7      7      9      8      7     10      9      5
D1622V12, multiclass
[1] "Remove cluster labels:" "RALA MUTATED"          
clus
  RALA MUTATED RALA WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" "RALA WILD-TYPE" 
    TCGA-G4-6628 
"RALA WILD-TYPE" 

Clustering(1623) Variable = MUS81 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUS81 MUTATED        1      0      0      0      0
  MUS81 WILD-TYPE     31     18     46     27     23
D1623V1, multiclass
[1] "Remove cluster labels:" "MUS81 MUTATED"         
clus
  MUS81 MUTATED MUS81 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3930      TCGA-AA-3939 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AY-4071 
"MUS81 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUS81 MUTATED        1      0      0
  MUS81 WILD-TYPE     42     67     36
D1623V2, multiclass
[1] "Remove cluster labels:" "MUS81 MUTATED"         
clus
  MUS81 MUTATED MUS81 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3930      TCGA-AA-3939 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AY-4071 
"MUS81 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUS81 MUTATED        1      0      6
  MUS81 WILD-TYPE     41    173    141
D1623V3, multiclass
        clus
vv       MUS81 MUTATED MUS81 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUS81 MUTATED        0      1      5
  MUS81 WILD-TYPE     62     72     70
D1623V4, multiclass
        clus
vv       MUS81 MUTATED MUS81 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUS81 MUTATED        0      5      0
  MUS81 WILD-TYPE     70    115    100
D1623V5, multiclass
        clus
vv       MUS81 MUTATED MUS81 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             115
  CLUS_3             0             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MUS81 MUTATED        0      1      0      3      0      0      1      0
  MUS81 WILD-TYPE     41     25     30     26     39     69     19     14
                 vv
clus              CLUS_9
  MUS81 MUTATED        0
  MUS81 WILD-TYPE     22
D1623V6, multiclass
        clus
vv       MUS81 MUTATED MUS81 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             0              69
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUS81 MUTATED        1      5      0      1
  MUS81 WILD-TYPE     99     67     72    120
D1623V7, multiclass
        clus
vv       MUS81 MUTATED MUS81 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUS81 MUTATED        0      2      4      0      1
  MUS81 WILD-TYPE     59     73     70    119     37
D1623V8, multiclass
        clus
vv       MUS81 MUTATED MUS81 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUS81 MUTATED        1      5      0      0      1
  MUS81 WILD-TYPE     50     71     61     71     94
D1623V9, multiclass
        clus
vv       MUS81 MUTATED MUS81 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MUS81 MUTATED        2      1      0      1      2      0      1      0
  MUS81 WILD-TYPE     67     47     39     15     51     20     20     38
                 vv
clus              CLUS_9
  MUS81 MUTATED        0
  MUS81 WILD-TYPE     50
D1623V10, multiclass
        clus
vv       MUS81 MUTATED MUS81 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MUS81 MUTATED        0      0      0      0      1      0
  MUS81 WILD-TYPE     13     16     14     11     10      9
D1623V11, multiclass
[1] "Remove cluster labels:" "MUS81 MUTATED"         
clus
  MUS81 MUTATED MUS81 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-G4-6628 
"MUS81 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MUS81 MUTATED        0      0      0      1      0      0      0      0
  MUS81 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  MUS81 MUTATED        0
  MUS81 WILD-TYPE      5
D1623V12, multiclass
[1] "Remove cluster labels:" "MUS81 MUTATED"         
clus
  MUS81 MUTATED MUS81 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" "MUS81 WILD-TYPE" 
     TCGA-G4-6628 
"MUS81 WILD-TYPE" 

Clustering(1624) Variable = CDHR5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDHR5 MUTATED        3      0      1      1      0
  CDHR5 WILD-TYPE     29     18     45     26     23
D1624V1, multiclass
        clus
vv       CDHR5 MUTATED CDHR5 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDHR5 MUTATED        4      0      1
  CDHR5 WILD-TYPE     39     67     35
D1624V2, multiclass
        clus
vv       CDHR5 MUTATED CDHR5 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDHR5 MUTATED        2      0      8
  CDHR5 WILD-TYPE     40    173    139
D1624V3, multiclass
        clus
vv       CDHR5 MUTATED CDHR5 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0             173
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDHR5 MUTATED        1      0      4
  CDHR5 WILD-TYPE     61     73     71
D1624V4, multiclass
        clus
vv       CDHR5 MUTATED CDHR5 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDHR5 MUTATED        1      3      6
  CDHR5 WILD-TYPE     69    117     94
D1624V5, multiclass
        clus
vv       CDHR5 MUTATED CDHR5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDHR5 MUTATED        0      0      0      1      2      5      2      0
  CDHR5 WILD-TYPE     41     26     30     28     37     64     18     14
                 vv
clus              CLUS_9
  CDHR5 MUTATED        0
  CDHR5 WILD-TYPE     22
D1624V6, multiclass
        clus
vv       CDHR5 MUTATED CDHR5 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDHR5 MUTATED        0      5      1      5
  CDHR5 WILD-TYPE    100     67     71    116
D1624V7, multiclass
        clus
vv       CDHR5 MUTATED CDHR5 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDHR5 MUTATED        0      1      4      2      4
  CDHR5 WILD-TYPE     59     74     70    117     34
D1624V8, multiclass
        clus
vv       CDHR5 MUTATED CDHR5 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDHR5 MUTATED        1      4      0      1      5
  CDHR5 WILD-TYPE     50     72     61     70     90
D1624V9, multiclass
        clus
vv       CDHR5 MUTATED CDHR5 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDHR5 MUTATED        2      0      0      1      1      1      1      4
  CDHR5 WILD-TYPE     67     48     39     15     52     19     20     34
                 vv
clus              CLUS_9
  CDHR5 MUTATED        1
  CDHR5 WILD-TYPE     49
D1624V10, multiclass
        clus
vv       CDHR5 MUTATED CDHR5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDHR5 MUTATED        0      0      0      0      2      0
  CDHR5 WILD-TYPE     13     16     14     11      9      9
D1624V11, multiclass
[1] "Remove cluster labels:" "CDHR5 MUTATED"         
clus
  CDHR5 MUTATED CDHR5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511      TCGA-AD-5900 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901      TCGA-AD-6963 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDHR5 MUTATED        0      0      0      1      0      1      0      0
  CDHR5 WILD-TYPE     11      7      7      8      8      6     11      9
                 vv
clus              CLUS_9
  CDHR5 MUTATED        0
  CDHR5 WILD-TYPE      5
D1624V12, multiclass
[1] "Remove cluster labels:" "CDHR5 MUTATED"         
clus
  CDHR5 MUTATED CDHR5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6654 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511      TCGA-AD-5900 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901      TCGA-AD-6963 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196      TCGA-AZ-4323 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598      TCGA-AZ-6600 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" "CDHR5 WILD-TYPE" 

Clustering(1625) Variable = ZNF318 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF318 MUTATED        7      0      0      2      0
  ZNF318 WILD-TYPE     25     18     46     25     23
D1625V1, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              7               25
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF318 MUTATED        9      0      0
  ZNF318 WILD-TYPE     34     67     36
D1625V2, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              9               34
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF318 MUTATED        1      5     21
  ZNF318 WILD-TYPE     41    168    126
D1625V3, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3             21              126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF318 MUTATED        9      3      6
  ZNF318 WILD-TYPE     53     70     69
D1625V4, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              9               53
  CLUS_2              3               70
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF318 MUTATED        1      8     15
  ZNF318 WILD-TYPE     69    112     85
D1625V5, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              8              112
  CLUS_3             15               85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF318 MUTATED        1      2      0      0      3     10      4      1
  ZNF318 WILD-TYPE     40     24     30     29     36     59     16     13
                  vv
clus               CLUS_9
  ZNF318 MUTATED        3
  ZNF318 WILD-TYPE     19
D1625V6, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              3               36
  CLUS_6             10               59
  CLUS_7              4               16
  CLUS_8              1               13
  CLUS_9              3               19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF318 MUTATED        3      9      7      9
  ZNF318 WILD-TYPE     97     63     65    112
D1625V7, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              9               63
  CLUS_3              7               65
  CLUS_4              9              112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF318 MUTATED        7      3      7      2      9
  ZNF318 WILD-TYPE     52     72     67    117     29
D1625V8, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              7               52
  CLUS_2              3               72
  CLUS_3              7               67
  CLUS_4              2              117
  CLUS_5              9               29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF318 MUTATED        1      8      4      2     12
  ZNF318 WILD-TYPE     50     68     57     69     83
D1625V9, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              8               68
  CLUS_3              4               57
  CLUS_4              2               69
  CLUS_5             12               83
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF318 MUTATED        4      4      0      4      3      1      0      9
  ZNF318 WILD-TYPE     65     44     39     12     50     19     21     29
                  vv
clus               CLUS_9
  ZNF318 MUTATED        2
  ZNF318 WILD-TYPE     48
D1625V10, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              4               12
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              9               29
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF318 MUTATED        0      1      1      2      2      0
  ZNF318 WILD-TYPE     13     15     13      9      9      9
D1625V11, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              2                9
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF318 MUTATED        0      1      0      1      1      1      1      1
  ZNF318 WILD-TYPE     11      6      7      8      7      6     10      8
                  vv
clus               CLUS_9
  ZNF318 MUTATED        0
  ZNF318 WILD-TYPE      5
D1625V12, multiclass
        clus
vv       ZNF318 MUTATED ZNF318 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1626) Variable = IL7R MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL7R MUTATED        0      0      1      1      0
  IL7R WILD-TYPE     32     18     45     26     23
D1626V1, multiclass
[1] "Remove cluster labels:" "IL7R MUTATED"          
clus
  IL7R MUTATED IL7R WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL7R MUTATED        1      1      0
  IL7R WILD-TYPE     42     66     36
D1626V2, multiclass
[1] "Remove cluster labels:" "IL7R MUTATED"          
clus
  IL7R MUTATED IL7R WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00O 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL7R MUTATED        1      4      6
  IL7R WILD-TYPE     41    169    141
D1626V3, multiclass
        clus
vv       IL7R MUTATED IL7R WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL7R MUTATED        6      2      1
  IL7R WILD-TYPE     56     71     74
D1626V4, multiclass
        clus
vv       IL7R MUTATED IL7R WILD-TYPE
  CLUS_1            6             56
  CLUS_2            2             71
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL7R MUTATED        1      3      5
  IL7R WILD-TYPE     69    117     95
D1626V5, multiclass
        clus
vv       IL7R MUTATED IL7R WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL7R MUTATED        1      2      1      0      0      5      0      0      0
  IL7R WILD-TYPE     40     24     29     29     39     64     20     14     22
D1626V6, multiclass
        clus
vv       IL7R MUTATED IL7R WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL7R MUTATED        4      1      3      3
  IL7R WILD-TYPE     96     71     69    118
D1626V7, multiclass
        clus
vv       IL7R MUTATED IL7R WILD-TYPE
  CLUS_1            4             96
  CLUS_2            1             71
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL7R MUTATED        3      2      3      2      1
  IL7R WILD-TYPE     56     73     71    117     37
D1626V8, multiclass
        clus
vv       IL7R MUTATED IL7R WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL7R MUTATED        3      2      3      1      1
  IL7R WILD-TYPE     48     74     58     70     94
D1626V9, multiclass
        clus
vv       IL7R MUTATED IL7R WILD-TYPE
  CLUS_1            3             48
  CLUS_2            2             74
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL7R MUTATED        2      5      1      0      0      0      0      0      2
  IL7R WILD-TYPE     67     43     38     16     53     20     21     38     48
D1626V10, multiclass
        clus
vv       IL7R MUTATED IL7R WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             43
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL7R MUTATED        0      1      0      0      1      0
  IL7R WILD-TYPE     13     15     14     11     10      9
D1626V11, multiclass
[1] "Remove cluster labels:" "IL7R MUTATED"          
clus
  IL7R MUTATED IL7R WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6598 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL7R MUTATED        1      0      0      0      0      0      1      0      0
  IL7R WILD-TYPE     10      7      7      9      8      7     10      9      5
D1626V12, multiclass
[1] "Remove cluster labels:" "IL7R MUTATED"          
clus
  IL7R MUTATED IL7R WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-6598 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" "IL7R WILD-TYPE" 

Clustering(1627) Variable = LRRTM2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRTM2 MUTATED        1      0      0      0      0
  LRRTM2 WILD-TYPE     31     18     46     27     23
D1627V1, multiclass
[1] "Remove cluster labels:" "LRRTM2 MUTATED"        
clus
  LRRTM2 MUTATED LRRTM2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3837 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AY-4071 
"LRRTM2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRTM2 MUTATED        1      0      0
  LRRTM2 WILD-TYPE     42     67     36
D1627V2, multiclass
[1] "Remove cluster labels:" "LRRTM2 MUTATED"        
clus
  LRRTM2 MUTATED LRRTM2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3837 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" "LRRTM2 WILD-TYPE" 
      TCGA-AY-4071 
"LRRTM2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRTM2 MUTATED        0      1      4
  LRRTM2 WILD-TYPE     42    172    143
D1627V3, multiclass
        clus
vv       LRRTM2 MUTATED LRRTM2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRTM2 MUTATED        3      1      0
  LRRTM2 WILD-TYPE     59     72     75
D1627V4, multiclass
        clus
vv       LRRTM2 MUTATED LRRTM2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LRRTM2 MUTATED        0      0      4
  LRRTM2 WILD-TYPE     70    120     96
D1627V5, multiclass
        clus
vv       LRRTM2 MUTATED LRRTM2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              0              120
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRTM2 MUTATED        0      0      0      0      0      3      1      0
  LRRTM2 WILD-TYPE     41     26     30     29     39     66     19     14
                  vv
clus               CLUS_9
  LRRTM2 MUTATED        0
  LRRTM2 WILD-TYPE     22
D1627V6, multiclass
        clus
vv       LRRTM2 MUTATED LRRTM2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRRTM2 MUTATED        1      2      1      1
  LRRTM2 WILD-TYPE     99     70     71    120
D1627V7, multiclass
        clus
vv       LRRTM2 MUTATED LRRTM2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRTM2 MUTATED        0      2      2      0      1
  LRRTM2 WILD-TYPE     59     73     72    119     37
D1627V8, multiclass
        clus
vv       LRRTM2 MUTATED LRRTM2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRTM2 MUTATED        1      3      1      0      0
  LRRTM2 WILD-TYPE     50     73     60     71     95
D1627V9, multiclass
        clus
vv       LRRTM2 MUTATED LRRTM2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRTM2 MUTATED        3      0      0      0      0      1      1      0
  LRRTM2 WILD-TYPE     66     48     39     16     53     19     20     38
                  vv
clus               CLUS_9
  LRRTM2 MUTATED        0
  LRRTM2 WILD-TYPE     50
D1627V10, multiclass
        clus
vv       LRRTM2 MUTATED LRRTM2 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LRRTM2 MUTATED        0      0      0      0      0      0
  LRRTM2 WILD-TYPE     13     16     14     11     11      9
D1627V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRTM2 MUTATED        0      0      0      0      0      0      0      0
  LRRTM2 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  LRRTM2 MUTATED        0
  LRRTM2 WILD-TYPE      5
D1627V12, multiclass

Clustering(1628) Variable = IGSF1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGSF1 MUTATED        5      0      2      2      0
  IGSF1 WILD-TYPE     27     18     44     25     23
D1628V1, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGSF1 MUTATED        5      2      2
  IGSF1 WILD-TYPE     38     65     34
D1628V2, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGSF1 MUTATED        1      4     16
  IGSF1 WILD-TYPE     41    169    131
D1628V3, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGSF1 MUTATED        5      1      7
  IGSF1 WILD-TYPE     57     72     68
D1628V4, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IGSF1 MUTATED        0      7      7
  IGSF1 WILD-TYPE     70    113     93
D1628V5, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             7             113
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGSF1 MUTATED        1      0      1      4      2      5      1      0
  IGSF1 WILD-TYPE     40     26     29     25     37     64     19     14
                 vv
clus              CLUS_9
  IGSF1 MUTATED        0
  IGSF1 WILD-TYPE     22
D1628V6, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IGSF1 MUTATED        2      6      4      9
  IGSF1 WILD-TYPE     98     66     68    112
D1628V7, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             4              68
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGSF1 MUTATED        1      2      9      4      5
  IGSF1 WILD-TYPE     58     73     65    115     33
D1628V8, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             9              65
  CLUS_4             4             115
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IGSF1 MUTATED        0      9      3      2      6
  IGSF1 WILD-TYPE     51     67     58     69     89
D1628V9, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             9              67
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGSF1 MUTATED        5      3      1      1      3      1      1      4
  IGSF1 WILD-TYPE     64     45     38     15     50     19     20     34
                 vv
clus              CLUS_9
  IGSF1 MUTATED        1
  IGSF1 WILD-TYPE     49
D1628V10, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IGSF1 MUTATED        0      0      2      0      1      1
  IGSF1 WILD-TYPE     13     16     12     11     10      8
D1628V11, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IGSF1 MUTATED        0      0      0      1      1      1      1      0
  IGSF1 WILD-TYPE     11      7      7      8      7      6     10      9
                 vv
clus              CLUS_9
  IGSF1 MUTATED        0
  IGSF1 WILD-TYPE      5
D1628V12, multiclass
        clus
vv       IGSF1 MUTATED IGSF1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1629) Variable = GCC2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GCC2 MUTATED        2      0      0      1      0
  GCC2 WILD-TYPE     30     18     46     26     23
D1629V1, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GCC2 MUTATED        2      1      0
  GCC2 WILD-TYPE     41     66     36
D1629V2, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GCC2 MUTATED        0      1      9
  GCC2 WILD-TYPE     42    172    138
D1629V3, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GCC2 MUTATED        4      1      2
  GCC2 WILD-TYPE     58     72     73
D1629V4, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GCC2 MUTATED        3      2      3
  GCC2 WILD-TYPE     67    118     97
D1629V5, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            2            118
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GCC2 MUTATED        2      0      1      0      1      3      0      0      1
  GCC2 WILD-TYPE     39     26     29     29     38     66     20     14     21
D1629V6, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GCC2 MUTATED        0      1      6      3
  GCC2 WILD-TYPE    100     71     66    118
D1629V7, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            6             66
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GCC2 MUTATED        1      1      5      1      2
  GCC2 WILD-TYPE     58     74     69    118     36
D1629V8, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GCC2 MUTATED        1      4      2      1      2
  GCC2 WILD-TYPE     50     72     59     70     93
D1629V9, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GCC2 MUTATED        2      4      0      0      1      1      0      2      0
  GCC2 WILD-TYPE     67     44     39     16     52     19     21     36     50
D1629V10, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GCC2 MUTATED        0      3      1      0      0      0
  GCC2 WILD-TYPE     13     13     13     11     11      9
D1629V11, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            3             13
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            0             11
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GCC2 MUTATED        2      0      0      0      0      1      1      0      0
  GCC2 WILD-TYPE      9      7      7      9      8      6     10      9      5
D1629V12, multiclass
        clus
vv       GCC2 MUTATED GCC2 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1630) Variable = ATRNL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATRNL1 MUTATED        4      0      0      1      0
  ATRNL1 WILD-TYPE     28     18     46     26     23
D1630V1, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATRNL1 MUTATED        4      0      1
  ATRNL1 WILD-TYPE     39     67     35
D1630V2, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATRNL1 MUTATED        1      4     17
  ATRNL1 WILD-TYPE     41    169    130
D1630V3, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             17              130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATRNL1 MUTATED        7      2      7
  ATRNL1 WILD-TYPE     55     71     68
D1630V4, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              2               71
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATRNL1 MUTATED        2      4     11
  ATRNL1 WILD-TYPE     68    116     89
D1630V5, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3             11               89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATRNL1 MUTATED        2      0      3      0      0      8      2      0
  ATRNL1 WILD-TYPE     39     26     27     29     39     61     18     14
                  vv
clus               CLUS_9
  ATRNL1 MUTATED        2
  ATRNL1 WILD-TYPE     20
D1630V6, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              3               27
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              8               61
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATRNL1 MUTATED        5      7      4      6
  ATRNL1 WILD-TYPE     95     65     68    115
D1630V7, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              7               65
  CLUS_3              4               68
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATRNL1 MUTATED        2      6      8      1      5
  ATRNL1 WILD-TYPE     57     69     66    118     33
D1630V8, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              6               69
  CLUS_3              8               66
  CLUS_4              1              118
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATRNL1 MUTATED        2      8      4      3      4
  ATRNL1 WILD-TYPE     49     68     57     68     91
D1630V9, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              8               68
  CLUS_3              4               57
  CLUS_4              3               68
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATRNL1 MUTATED        5      2      1      4      4      0      1      3
  ATRNL1 WILD-TYPE     64     46     38     12     49     20     20     35
                  vv
clus               CLUS_9
  ATRNL1 MUTATED        1
  ATRNL1 WILD-TYPE     49
D1630V10, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              4               12
  CLUS_5              4               49
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATRNL1 MUTATED        0      1      1      0      0      2
  ATRNL1 WILD-TYPE     13     15     13     11     11      7
D1630V11, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATRNL1 MUTATED        1      0      0      0      0      1      1      1
  ATRNL1 WILD-TYPE     10      7      7      9      8      6     10      8
                  vv
clus               CLUS_9
  ATRNL1 MUTATED        0
  ATRNL1 WILD-TYPE      5
D1630V12, multiclass
        clus
vv       ATRNL1 MUTATED ATRNL1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1631) Variable = ERN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERN1 MUTATED        0      0      1      0      0
  ERN1 WILD-TYPE     32     18     45     27     23
D1631V1, multiclass
[1] "Remove cluster labels:" "ERN1 MUTATED"          
clus
  ERN1 MUTATED ERN1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AY-4071 
"ERN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ERN1 MUTATED        0      0      1
  ERN1 WILD-TYPE     43     67     35
D1631V2, multiclass
[1] "Remove cluster labels:" "ERN1 MUTATED"          
clus
  ERN1 MUTATED ERN1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AY-4071 
"ERN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ERN1 MUTATED        1      1      1
  ERN1 WILD-TYPE     41    172    146
D1631V3, multiclass
        clus
vv       ERN1 MUTATED ERN1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            1            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ERN1 MUTATED        1      0      1
  ERN1 WILD-TYPE     61     73     74
D1631V4, multiclass
[1] "Remove cluster labels:" "ERN1 MUTATED"          
clus
  ERN1 MUTATED ERN1 WILD-TYPE 
             2            208 
    TCGA-A6-2671     TCGA-A6-2677     TCGA-A6-3809     TCGA-A6-3810 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-4105     TCGA-A6-5656     TCGA-A6-5657     TCGA-A6-5659 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662     TCGA-A6-5664 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137     TCGA-A6-6138 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648     TCGA-A6-6649 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653     TCGA-A6-6654 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502     TCGA-AA-3510 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AA-3655     TCGA-AA-3660     TCGA-AA-3662 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3663     TCGA-AA-3697     TCGA-AA-3712     TCGA-AA-3713 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6888     TCGA-AD-6889 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AD-6890     TCGA-AD-6895     TCGA-AD-6899     TCGA-AD-6901 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AU-3779 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AU-6004     TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AY-6386     TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AZ-4681     TCGA-AZ-4682     TCGA-AZ-5403     TCGA-AZ-5407 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6599     TCGA-AZ-6600     TCGA-AZ-6603 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6606     TCGA-AZ-6607     TCGA-AZ-6608 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CA-5254     TCGA-CA-5255     TCGA-CA-5796     TCGA-CA-5797 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CA-6715     TCGA-CA-6716     TCGA-CA-6717     TCGA-CA-6718 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CA-6719     TCGA-CK-4947     TCGA-CK-4948     TCGA-CK-4950 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CK-4952     TCGA-CK-5912     TCGA-CK-5913     TCGA-CK-5914 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CK-5915     TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CM-4746     TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CM-5344     TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5861 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864     TCGA-CM-5868 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163     TCGA-CM-6164 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167     TCGA-CM-6168 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171     TCGA-CM-6172 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6534 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537     TCGA-D5-6538 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541     TCGA-D5-6898 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923     TCGA-D5-6924 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-D5-6926     TCGA-D5-6927     TCGA-D5-6928     TCGA-D5-6929 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932     TCGA-D5-7000 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28C 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A28E     TCGA-DM-A28F     TCGA-DM-A28G     TCGA-DM-A28H 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A28K     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ERN1 MUTATED        1      0      2
  ERN1 WILD-TYPE     69    120     98
D1631V5, multiclass
        clus
vv       ERN1 MUTATED ERN1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            0            120
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ERN1 MUTATED        1      0      0      0      1      1      0      0      0
  ERN1 WILD-TYPE     40     26     30     29     38     68     20     14     22
D1631V6, multiclass
        clus
vv       ERN1 MUTATED ERN1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERN1 MUTATED        0      0      2      1
  ERN1 WILD-TYPE    100     72     70    120
D1631V7, multiclass
        clus
vv       ERN1 MUTATED ERN1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            0             72
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERN1 MUTATED        1      0      1      1      0
  ERN1 WILD-TYPE     58     75     73    118     38
D1631V8, multiclass
        clus
vv       ERN1 MUTATED ERN1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0             75
  CLUS_3            1             73
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERN1 MUTATED        1      1      0      1      0
  ERN1 WILD-TYPE     50     75     61     70     95
D1631V9, multiclass
        clus
vv       ERN1 MUTATED ERN1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ERN1 MUTATED        1      1      0      0      0      0      0      0      1
  ERN1 WILD-TYPE     68     47     39     16     53     20     21     38     49
D1631V10, multiclass
        clus
vv       ERN1 MUTATED ERN1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERN1 MUTATED        0      0      0      0      1      1
  ERN1 WILD-TYPE     13     16     14     11     10      8
D1631V11, multiclass
[1] "Remove cluster labels:" "ERN1 MUTATED"          
clus
  ERN1 MUTATED ERN1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ERN1 MUTATED        1      0      0      0      0      0      1      0      0
  ERN1 WILD-TYPE     10      7      7      9      8      7     10      9      5
D1631V12, multiclass
[1] "Remove cluster labels:" "ERN1 MUTATED"          
clus
  ERN1 MUTATED ERN1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" "ERN1 WILD-TYPE" 

Clustering(1632) Variable = BTBD7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTBD7 MUTATED        3      1      0      1      0
  BTBD7 WILD-TYPE     29     17     46     26     23
D1632V1, multiclass
        clus
vv       BTBD7 MUTATED BTBD7 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTBD7 MUTATED        2      2      1
  BTBD7 WILD-TYPE     41     65     35
D1632V2, multiclass
        clus
vv       BTBD7 MUTATED BTBD7 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTBD7 MUTATED        1      1     10
  BTBD7 WILD-TYPE     41    172    137
D1632V3, multiclass
        clus
vv       BTBD7 MUTATED BTBD7 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTBD7 MUTATED        2      2      4
  BTBD7 WILD-TYPE     60     71     71
D1632V4, multiclass
        clus
vv       BTBD7 MUTATED BTBD7 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTBD7 MUTATED        1      4      6
  BTBD7 WILD-TYPE     69    116     94
D1632V5, multiclass
        clus
vv       BTBD7 MUTATED BTBD7 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTBD7 MUTATED        0      0      2      2      1      6      0      0
  BTBD7 WILD-TYPE     41     26     28     27     38     63     20     14
                 vv
clus              CLUS_9
  BTBD7 MUTATED        0
  BTBD7 WILD-TYPE     22
D1632V6, multiclass
        clus
vv       BTBD7 MUTATED BTBD7 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BTBD7 MUTATED        1      5      2      4
  BTBD7 WILD-TYPE     99     67     70    117
D1632V7, multiclass
        clus
vv       BTBD7 MUTATED BTBD7 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTBD7 MUTATED        0      2      5      3      2
  BTBD7 WILD-TYPE     59     73     69    116     36
D1632V8, multiclass
        clus
vv       BTBD7 MUTATED BTBD7 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BTBD7 MUTATED        0      6      0      3      1
  BTBD7 WILD-TYPE     51     70     61     68     94
D1632V9, multiclass
        clus
vv       BTBD7 MUTATED BTBD7 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             3              68
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTBD7 MUTATED        5      0      0      1      2      1      1      0
  BTBD7 WILD-TYPE     64     48     39     15     51     19     20     38
                 vv
clus              CLUS_9
  BTBD7 MUTATED        0
  BTBD7 WILD-TYPE     50
D1632V10, multiclass
        clus
vv       BTBD7 MUTATED BTBD7 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BTBD7 MUTATED        0      0      0      0      1      0
  BTBD7 WILD-TYPE     13     16     14     11     10      9
D1632V11, multiclass
[1] "Remove cluster labels:" "BTBD7 MUTATED"         
clus
  BTBD7 MUTATED BTBD7 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-G4-6628 
"BTBD7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BTBD7 MUTATED        0      0      0      0      0      1      0      0
  BTBD7 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  BTBD7 MUTATED        0
  BTBD7 WILD-TYPE      5
D1632V12, multiclass
[1] "Remove cluster labels:" "BTBD7 MUTATED"         
clus
  BTBD7 MUTATED BTBD7 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" "BTBD7 WILD-TYPE" 
     TCGA-G4-6628 
"BTBD7 WILD-TYPE" 

Clustering(1633) Variable = COL11A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL11A1 MUTATED        7      0      2      2      2
  COL11A1 WILD-TYPE     25     18     44     25     21
D1633V1, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1               7                25
  CLUS_2               0                18
  CLUS_3               2                44
  CLUS_4               2                25
  CLUS_5               2                21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL11A1 MUTATED        6      3      4
  COL11A1 WILD-TYPE     37     64     32
D1633V2, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1               6                37
  CLUS_2               3                64
  CLUS_3               4                32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL11A1 MUTATED        4     10     31
  COL11A1 WILD-TYPE     38    163    116
D1633V3, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1               4                38
  CLUS_2              10               163
  CLUS_3              31               116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL11A1 MUTATED       10      5     16
  COL11A1 WILD-TYPE     52     68     59
D1633V4, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1              10                52
  CLUS_2               5                68
  CLUS_3              16                59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL11A1 MUTATED        6     12     19
  COL11A1 WILD-TYPE     64    108     81
D1633V5, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1               6                64
  CLUS_2              12               108
  CLUS_3              19                81
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL11A1 MUTATED        5      3      2      2      6     12      4      2
  COL11A1 WILD-TYPE     36     23     28     27     33     57     16     12
                   vv
clus                CLUS_9
  COL11A1 MUTATED        1
  COL11A1 WILD-TYPE     21
D1633V6, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1               5                36
  CLUS_2               3                23
  CLUS_3               2                28
  CLUS_4               2                27
  CLUS_5               6                33
  CLUS_6              12                57
  CLUS_7               4                16
  CLUS_8               2                12
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL11A1 MUTATED        8     14     10     13
  COL11A1 WILD-TYPE     92     58     62    108
D1633V7, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1               8                92
  CLUS_2              14                58
  CLUS_3              10                62
  CLUS_4              13               108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL11A1 MUTATED        6      7     18      8      6
  COL11A1 WILD-TYPE     53     68     56    111     32
D1633V8, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1               6                53
  CLUS_2               7                68
  CLUS_3              18                56
  CLUS_4               8               111
  CLUS_5               6                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL11A1 MUTATED        6     15      6      4     12
  COL11A1 WILD-TYPE     45     61     55     67     83
D1633V9, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1               6                45
  CLUS_2              15                61
  CLUS_3               6                55
  CLUS_4               4                67
  CLUS_5              12                83
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL11A1 MUTATED        9      6      1      5      6      4      1      6
  COL11A1 WILD-TYPE     60     42     38     11     47     16     20     32
                   vv
clus                CLUS_9
  COL11A1 MUTATED        5
  COL11A1 WILD-TYPE     45
D1633V10, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1               9                60
  CLUS_2               6                42
  CLUS_3               1                38
  CLUS_4               5                11
  CLUS_5               6                47
  CLUS_6               4                16
  CLUS_7               1                20
  CLUS_8               6                32
  CLUS_9               5                45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  COL11A1 MUTATED        0      1      4      1      2      1
  COL11A1 WILD-TYPE     13     15     10     10      9      8
D1633V11, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               4                10
  CLUS_4               1                10
  CLUS_5               2                 9
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL11A1 MUTATED        1      0      0      2      2      0      3      1
  COL11A1 WILD-TYPE     10      7      7      7      6      7      8      8
                   vv
clus                CLUS_9
  COL11A1 MUTATED        0
  COL11A1 WILD-TYPE      5
D1633V12, multiclass
        clus
vv       COL11A1 MUTATED COL11A1 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               2                 6
  CLUS_6               0                 7
  CLUS_7               3                 8
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1634) Variable = TTLL13 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTLL13 MUTATED        2      0      0      0      0
  TTLL13 WILD-TYPE     30     18     46     27     23
D1634V1, multiclass
[1] "Remove cluster labels:" "TTLL13 MUTATED"        
clus
  TTLL13 MUTATED TTLL13 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TTLL13 MUTATED        2      0      0
  TTLL13 WILD-TYPE     41     67     36
D1634V2, multiclass
[1] "Remove cluster labels:" "TTLL13 MUTATED"        
clus
  TTLL13 MUTATED TTLL13 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" "TTLL13 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TTLL13 MUTATED        0      0      4
  TTLL13 WILD-TYPE     42    173    143
D1634V3, multiclass
        clus
vv       TTLL13 MUTATED TTLL13 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TTLL13 MUTATED        1      0      2
  TTLL13 WILD-TYPE     61     73     73
D1634V4, multiclass
        clus
vv       TTLL13 MUTATED TTLL13 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TTLL13 MUTATED        1      0      4
  TTLL13 WILD-TYPE     69    120     96
D1634V5, multiclass
        clus
vv       TTLL13 MUTATED TTLL13 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              0              120
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TTLL13 MUTATED        1      0      0      0      2      0      2      0
  TTLL13 WILD-TYPE     40     26     30     29     37     69     18     14
                  vv
clus               CLUS_9
  TTLL13 MUTATED        0
  TTLL13 WILD-TYPE     22
D1634V6, multiclass
        clus
vv       TTLL13 MUTATED TTLL13 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              0               69
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TTLL13 MUTATED        0      2      1      2
  TTLL13 WILD-TYPE    100     70     71    119
D1634V7, multiclass
        clus
vv       TTLL13 MUTATED TTLL13 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTLL13 MUTATED        1      0      2      0      2
  TTLL13 WILD-TYPE     58     75     72    119     36
D1634V8, multiclass
        clus
vv       TTLL13 MUTATED TTLL13 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTLL13 MUTATED        0      2      1      0      2
  TTLL13 WILD-TYPE     51     74     60     71     93
D1634V9, multiclass
        clus
vv       TTLL13 MUTATED TTLL13 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TTLL13 MUTATED        1      1      0      1      0      0      0      2
  TTLL13 WILD-TYPE     68     47     39     15     53     20     21     36
                  vv
clus               CLUS_9
  TTLL13 MUTATED        0
  TTLL13 WILD-TYPE     50
D1634V10, multiclass
        clus
vv       TTLL13 MUTATED TTLL13 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TTLL13 MUTATED        0      0      0      0      0      0
  TTLL13 WILD-TYPE     13     16     14     11     11      9
D1634V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TTLL13 MUTATED        0      0      0      0      0      0      0      0
  TTLL13 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  TTLL13 MUTATED        0
  TTLL13 WILD-TYPE      5
D1634V12, multiclass

Clustering(1635) Variable = RPS6KC1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPS6KC1 MUTATED        2      0      0      2      0
  RPS6KC1 WILD-TYPE     30     18     46     25     23
D1635V1, multiclass
        clus
vv       RPS6KC1 MUTATED RPS6KC1 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RPS6KC1 MUTATED        3      1      0
  RPS6KC1 WILD-TYPE     40     66     36
D1635V2, multiclass
        clus
vv       RPS6KC1 MUTATED RPS6KC1 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RPS6KC1 MUTATED        0      3     11
  RPS6KC1 WILD-TYPE     42    170    136
D1635V3, multiclass
        clus
vv       RPS6KC1 MUTATED RPS6KC1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3              11               136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RPS6KC1 MUTATED        1      2      7
  RPS6KC1 WILD-TYPE     61     71     68
D1635V4, multiclass
        clus
vv       RPS6KC1 MUTATED RPS6KC1 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               2                71
  CLUS_3               7                68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RPS6KC1 MUTATED        2      8      3
  RPS6KC1 WILD-TYPE     68    112     97
D1635V5, multiclass
        clus
vv       RPS6KC1 MUTATED RPS6KC1 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               8               112
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPS6KC1 MUTATED        1      2      1      3      3      1      2      0
  RPS6KC1 WILD-TYPE     40     24     29     26     36     68     18     14
                   vv
clus                CLUS_9
  RPS6KC1 MUTATED        0
  RPS6KC1 WILD-TYPE     22
D1635V6, multiclass
        clus
vv       RPS6KC1 MUTATED RPS6KC1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               2                24
  CLUS_3               1                29
  CLUS_4               3                26
  CLUS_5               3                36
  CLUS_6               1                68
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPS6KC1 MUTATED        4      6      1      4
  RPS6KC1 WILD-TYPE     96     66     71    117
D1635V7, multiclass
        clus
vv       RPS6KC1 MUTATED RPS6KC1 WILD-TYPE
  CLUS_1               4                96
  CLUS_2               6                66
  CLUS_3               1                71
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPS6KC1 MUTATED        1      5      5      1      3
  RPS6KC1 WILD-TYPE     58     70     69    118     35
D1635V8, multiclass
        clus
vv       RPS6KC1 MUTATED RPS6KC1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               5                70
  CLUS_3               5                69
  CLUS_4               1               118
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPS6KC1 MUTATED        2      7      1      0      5
  RPS6KC1 WILD-TYPE     49     69     60     71     90
D1635V9, multiclass
        clus
vv       RPS6KC1 MUTATED RPS6KC1 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               7                69
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPS6KC1 MUTATED        3      2      0      2      3      2      0      3
  RPS6KC1 WILD-TYPE     66     46     39     14     50     18     21     35
                   vv
clus                CLUS_9
  RPS6KC1 MUTATED        0
  RPS6KC1 WILD-TYPE     50
D1635V10, multiclass
        clus
vv       RPS6KC1 MUTATED RPS6KC1 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               3                50
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RPS6KC1 MUTATED        1      0      0      0      1      0
  RPS6KC1 WILD-TYPE     12     16     14     11     10      9
D1635V11, multiclass
[1] "Remove cluster labels:" "RPS6KC1 MUTATED"       
clus
  RPS6KC1 MUTATED RPS6KC1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6901 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPS6KC1 MUTATED        0      0      0      1      0      0      0      0
  RPS6KC1 WILD-TYPE     11      7      7      8      8      7     11      9
                   vv
clus                CLUS_9
  RPS6KC1 MUTATED        1
  RPS6KC1 WILD-TYPE      4
D1635V12, multiclass
[1] "Remove cluster labels:" "RPS6KC1 MUTATED"       
clus
  RPS6KC1 MUTATED RPS6KC1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6901 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" "RPS6KC1 WILD-TYPE" 

Clustering(1636) Variable = ZNF350 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF350 MUTATED        3      0      1      1      0
  ZNF350 WILD-TYPE     29     18     45     26     23
D1636V1, multiclass
        clus
vv       ZNF350 MUTATED ZNF350 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF350 MUTATED        3      2      0
  ZNF350 WILD-TYPE     40     65     36
D1636V2, multiclass
        clus
vv       ZNF350 MUTATED ZNF350 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF350 MUTATED        0      0      9
  ZNF350 WILD-TYPE     42    173    138
D1636V3, multiclass
        clus
vv       ZNF350 MUTATED ZNF350 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF350 MUTATED        3      0      1
  ZNF350 WILD-TYPE     59     73     74
D1636V4, multiclass
        clus
vv       ZNF350 MUTATED ZNF350 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF350 MUTATED        1      2      4
  ZNF350 WILD-TYPE     69    118     96
D1636V5, multiclass
        clus
vv       ZNF350 MUTATED ZNF350 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF350 MUTATED        1      1      1      0      0      3      1      0
  ZNF350 WILD-TYPE     40     25     29     29     39     66     19     14
                  vv
clus               CLUS_9
  ZNF350 MUTATED        0
  ZNF350 WILD-TYPE     22
D1636V6, multiclass
        clus
vv       ZNF350 MUTATED ZNF350 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF350 MUTATED        0      2      2      5
  ZNF350 WILD-TYPE    100     70     70    116
D1636V7, multiclass
        clus
vv       ZNF350 MUTATED ZNF350 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF350 MUTATED        0      1      3      3      2
  ZNF350 WILD-TYPE     59     74     71    116     36
D1636V8, multiclass
        clus
vv       ZNF350 MUTATED ZNF350 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF350 MUTATED        0      2      0      1      6
  ZNF350 WILD-TYPE     51     74     61     70     89
D1636V9, multiclass
        clus
vv       ZNF350 MUTATED ZNF350 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF350 MUTATED        1      2      0      0      0      1      2      2
  ZNF350 WILD-TYPE     68     46     39     16     53     19     19     36
                  vv
clus               CLUS_9
  ZNF350 MUTATED        1
  ZNF350 WILD-TYPE     49
D1636V10, multiclass
        clus
vv       ZNF350 MUTATED ZNF350 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              2               19
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF350 MUTATED        0      0      0      0      1      0
  ZNF350 WILD-TYPE     13     16     14     11     10      9
D1636V11, multiclass
[1] "Remove cluster labels:" "ZNF350 MUTATED"        
clus
  ZNF350 MUTATED ZNF350 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF350 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF350 MUTATED        0      0      0      0      0      0      1      0
  ZNF350 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  ZNF350 MUTATED        0
  ZNF350 WILD-TYPE      5
D1636V12, multiclass
[1] "Remove cluster labels:" "ZNF350 MUTATED"        
clus
  ZNF350 MUTATED ZNF350 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" "ZNF350 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF350 WILD-TYPE" 

Clustering(1637) Variable = ITPRIPL1 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITPRIPL1 MUTATED        1      0      0      0      0
  ITPRIPL1 WILD-TYPE     31     18     46     27     23
D1637V1, multiclass
[1] "Remove cluster labels:" "ITPRIPL1 MUTATED"      
clus
  ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3950 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AY-4071 
"ITPRIPL1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ITPRIPL1 MUTATED        1      0      0
  ITPRIPL1 WILD-TYPE     42     67     36
D1637V2, multiclass
[1] "Remove cluster labels:" "ITPRIPL1 MUTATED"      
clus
  ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3950 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AY-4071 
"ITPRIPL1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ITPRIPL1 MUTATED        0      1      6
  ITPRIPL1 WILD-TYPE     42    172    141
D1637V3, multiclass
        clus
vv       ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                1                172
  CLUS_3                6                141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ITPRIPL1 MUTATED        5      0      1
  ITPRIPL1 WILD-TYPE     57     73     74
D1637V4, multiclass
        clus
vv       ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE
  CLUS_1                5                 57
  CLUS_2                0                 73
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ITPRIPL1 MUTATED        2      0      4
  ITPRIPL1 WILD-TYPE     68    120     96
D1637V5, multiclass
        clus
vv       ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                0                120
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITPRIPL1 MUTATED        2      0      0      0      0      4      0      0
  ITPRIPL1 WILD-TYPE     39     26     30     29     39     65     20     14
                    vv
clus                 CLUS_9
  ITPRIPL1 MUTATED        0
  ITPRIPL1 WILD-TYPE     22
D1637V6, multiclass
        clus
vv       ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                4                 65
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITPRIPL1 MUTATED        0      2      4      1
  ITPRIPL1 WILD-TYPE    100     70     68    120
D1637V7, multiclass
        clus
vv       ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                2                 70
  CLUS_3                4                 68
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITPRIPL1 MUTATED        1      1      4      0      1
  ITPRIPL1 WILD-TYPE     58     74     70    119     37
D1637V8, multiclass
        clus
vv       ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                1                 74
  CLUS_3                4                 70
  CLUS_4                0                119
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITPRIPL1 MUTATED        0      2      1      1      3
  ITPRIPL1 WILD-TYPE     51     74     60     70     92
D1637V9, multiclass
        clus
vv       ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                2                 74
  CLUS_3                1                 60
  CLUS_4                1                 70
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITPRIPL1 MUTATED        2      2      0      0      0      1      1      0
  ITPRIPL1 WILD-TYPE     67     46     39     16     53     19     20     38
                    vv
clus                 CLUS_9
  ITPRIPL1 MUTATED        1
  ITPRIPL1 WILD-TYPE     49
D1637V10, multiclass
        clus
vv       ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                1                 20
  CLUS_8                0                 38
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ITPRIPL1 MUTATED        0      0      1      0      1      0
  ITPRIPL1 WILD-TYPE     13     16     13     11     10      9
D1637V11, multiclass
[1] "Remove cluster labels:" "ITPRIPL1 MUTATED"      
clus
  ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6628 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITPRIPL1 MUTATED        0      0      0      0      1      1      0      0
  ITPRIPL1 WILD-TYPE     11      7      7      9      7      6     11      9
                    vv
clus                 CLUS_9
  ITPRIPL1 MUTATED        0
  ITPRIPL1 WILD-TYPE      5
D1637V12, multiclass
[1] "Remove cluster labels:" "ITPRIPL1 MUTATED"      
clus
  ITPRIPL1 MUTATED ITPRIPL1 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6628 
"ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" "ITPRIPL1 WILD-TYPE" 

Clustering(1638) Variable = CCDC18 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC18 MUTATED        2      0      0      1      0
  CCDC18 WILD-TYPE     30     18     46     26     23
D1638V1, multiclass
        clus
vv       CCDC18 MUTATED CCDC18 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC18 MUTATED        1      1      1
  CCDC18 WILD-TYPE     42     66     35
D1638V2, multiclass
        clus
vv       CCDC18 MUTATED CCDC18 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC18 MUTATED        1      4      6
  CCDC18 WILD-TYPE     41    169    141
D1638V3, multiclass
        clus
vv       CCDC18 MUTATED CCDC18 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC18 MUTATED        3      3      2
  CCDC18 WILD-TYPE     59     70     73
D1638V4, multiclass
        clus
vv       CCDC18 MUTATED CCDC18 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              3               70
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC18 MUTATED        0      4      3
  CCDC18 WILD-TYPE     70    116     97
D1638V5, multiclass
        clus
vv       CCDC18 MUTATED CCDC18 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC18 MUTATED        3      1      1      1      0      1      0      0
  CCDC18 WILD-TYPE     38     25     29     28     39     68     20     14
                  vv
clus               CLUS_9
  CCDC18 MUTATED        0
  CCDC18 WILD-TYPE     22
D1638V6, multiclass
        clus
vv       CCDC18 MUTATED CCDC18 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC18 MUTATED        4      1      3      3
  CCDC18 WILD-TYPE     96     71     69    118
D1638V7, multiclass
        clus
vv       CCDC18 MUTATED CCDC18 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              1               71
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC18 MUTATED        2      5      1      2      1
  CCDC18 WILD-TYPE     57     70     73    117     37
D1638V8, multiclass
        clus
vv       CCDC18 MUTATED CCDC18 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              5               70
  CLUS_3              1               73
  CLUS_4              2              117
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC18 MUTATED        4      1      1      3      2
  CCDC18 WILD-TYPE     47     75     60     68     93
D1638V9, multiclass
        clus
vv       CCDC18 MUTATED CCDC18 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              3               68
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC18 MUTATED        2      2      2      1      1      2      0      1
  CCDC18 WILD-TYPE     67     46     37     15     52     18     21     37
                  vv
clus               CLUS_9
  CCDC18 MUTATED        0
  CCDC18 WILD-TYPE     50
D1638V10, multiclass
        clus
vv       CCDC18 MUTATED CCDC18 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              2               37
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC18 MUTATED        0      0      1      0      0      0
  CCDC18 WILD-TYPE     13     16     13     11     11      9
D1638V11, multiclass
[1] "Remove cluster labels:" "CCDC18 MUTATED"        
clus
  CCDC18 MUTATED CCDC18 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6678       TCGA-CM-6679 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-G4-6628 
"CCDC18 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC18 MUTATED        1      0      0      0      0      0      0      0
  CCDC18 WILD-TYPE     10      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  CCDC18 MUTATED        0
  CCDC18 WILD-TYPE      5
D1638V12, multiclass
[1] "Remove cluster labels:" "CCDC18 MUTATED"        
clus
  CCDC18 MUTATED CCDC18 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6678       TCGA-CM-6679 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" "CCDC18 WILD-TYPE" 
      TCGA-G4-6628 
"CCDC18 WILD-TYPE" 

Clustering(1639) Variable = CUTC MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUTC MUTATED        1      0      0      0      0
  CUTC WILD-TYPE     31     18     46     27     23
D1639V1, multiclass
[1] "Remove cluster labels:" "CUTC MUTATED"          
clus
  CUTC MUTATED CUTC WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AY-4071 
"CUTC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUTC MUTATED        0      0      1
  CUTC WILD-TYPE     43     67     35
D1639V2, multiclass
[1] "Remove cluster labels:" "CUTC MUTATED"          
clus
  CUTC MUTATED CUTC WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AY-4071 
"CUTC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUTC MUTATED        0      2      3
  CUTC WILD-TYPE     42    171    144
D1639V3, multiclass
        clus
vv       CUTC MUTATED CUTC WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUTC MUTATED        1      2      1
  CUTC WILD-TYPE     61     71     74
D1639V4, multiclass
        clus
vv       CUTC MUTATED CUTC WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUTC MUTATED        0      3      1
  CUTC WILD-TYPE     70    117     99
D1639V5, multiclass
        clus
vv       CUTC MUTATED CUTC WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUTC MUTATED        0      0      1      2      0      1      0      0      0
  CUTC WILD-TYPE     41     26     29     27     39     68     20     14     22
D1639V6, multiclass
        clus
vv       CUTC MUTATED CUTC WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CUTC MUTATED        2      1      1      1
  CUTC WILD-TYPE     98     71     71    120
D1639V7, multiclass
        clus
vv       CUTC MUTATED CUTC WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUTC MUTATED        0      2      2      1      0
  CUTC WILD-TYPE     59     73     72    118     38
D1639V8, multiclass
        clus
vv       CUTC MUTATED CUTC WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUTC MUTATED        1      2      0      2      0
  CUTC WILD-TYPE     50     74     61     69     95
D1639V9, multiclass
        clus
vv       CUTC MUTATED CUTC WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            2             69
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUTC MUTATED        3      0      0      0      2      0      0      0      0
  CUTC WILD-TYPE     66     48     39     16     51     20     21     38     50
D1639V10, multiclass
        clus
vv       CUTC MUTATED CUTC WILD-TYPE
  CLUS_1            3             66
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CUTC MUTATED        0      0      1      0      0      0
  CUTC WILD-TYPE     13     16     13     11     11      9
D1639V11, multiclass
[1] "Remove cluster labels:" "CUTC MUTATED"          
clus
  CUTC MUTATED CUTC WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-G4-6625 
"CUTC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUTC MUTATED        0      0      0      0      0      0      1      0      0
  CUTC WILD-TYPE     11      7      7      9      8      7     10      9      5
D1639V12, multiclass
[1] "Remove cluster labels:" "CUTC MUTATED"          
clus
  CUTC MUTATED CUTC WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309 
"CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" "CUTC WILD-TYPE" 
    TCGA-G4-6625 
"CUTC WILD-TYPE" 

Clustering(1640) Variable = GON4L MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GON4L MUTATED        5      0      0      1      0
  GON4L WILD-TYPE     27     18     46     26     23
D1640V1, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GON4L MUTATED        4      1      1
  GON4L WILD-TYPE     39     66     35
D1640V2, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GON4L MUTATED        2      1     17
  GON4L WILD-TYPE     40    172    130
D1640V3, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3            17             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GON4L MUTATED        5      1      9
  GON4L WILD-TYPE     57     72     66
D1640V4, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GON4L MUTATED        2      8      8
  GON4L WILD-TYPE     68    112     92
D1640V5, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             2              68
  CLUS_2             8             112
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GON4L MUTATED        2      2      1      3      3      5      0      2
  GON4L WILD-TYPE     39     24     29     26     36     64     20     12
                 vv
clus              CLUS_9
  GON4L MUTATED        0
  GON4L WILD-TYPE     22
D1640V6, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GON4L MUTATED        1      7      4      8
  GON4L WILD-TYPE     99     65     68    113
D1640V7, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             1              99
  CLUS_2             7              65
  CLUS_3             4              68
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GON4L MUTATED        2      1      9      4      4
  GON4L WILD-TYPE     57     74     65    115     34
D1640V8, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             9              65
  CLUS_4             4             115
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GON4L MUTATED        2      7      3      2      5
  GON4L WILD-TYPE     49     69     58     69     90
D1640V9, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GON4L MUTATED        3      2      1      2      5      2      1      1
  GON4L WILD-TYPE     66     46     38     14     48     18     20     37
                 vv
clus              CLUS_9
  GON4L MUTATED        2
  GON4L WILD-TYPE     48
D1640V10, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             5              48
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GON4L MUTATED        0      1      1      0      3      0
  GON4L WILD-TYPE     13     15     13     11      8      9
D1640V11, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GON4L MUTATED        0      1      0      3      0      0      1      0
  GON4L WILD-TYPE     11      6      7      6      8      7     10      9
                 vv
clus              CLUS_9
  GON4L MUTATED        0
  GON4L WILD-TYPE      5
D1640V12, multiclass
        clus
vv       GON4L MUTATED GON4L WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1641) Variable = PLCG2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLCG2 MUTATED        2      1      0      2      1
  PLCG2 WILD-TYPE     30     17     46     25     22
D1641V1, multiclass
        clus
vv       PLCG2 MUTATED PLCG2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCG2 MUTATED        3      1      2
  PLCG2 WILD-TYPE     40     66     34
D1641V2, multiclass
        clus
vv       PLCG2 MUTATED PLCG2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCG2 MUTATED        0      4     14
  PLCG2 WILD-TYPE     42    169    133
D1641V3, multiclass
        clus
vv       PLCG2 MUTATED PLCG2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCG2 MUTATED        5      0      6
  PLCG2 WILD-TYPE     57     73     69
D1641V4, multiclass
        clus
vv       PLCG2 MUTATED PLCG2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PLCG2 MUTATED        3      4      9
  PLCG2 WILD-TYPE     67    116     91
D1641V5, multiclass
        clus
vv       PLCG2 MUTATED PLCG2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             116
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLCG2 MUTATED        3      2      1      0      3      6      0      0
  PLCG2 WILD-TYPE     38     24     29     29     36     63     20     14
                 vv
clus              CLUS_9
  PLCG2 MUTATED        1
  PLCG2 WILD-TYPE     21
D1641V6, multiclass
        clus
vv       PLCG2 MUTATED PLCG2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             3              36
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLCG2 MUTATED        2      5      4      7
  PLCG2 WILD-TYPE     98     67     68    114
D1641V7, multiclass
        clus
vv       PLCG2 MUTATED PLCG2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLCG2 MUTATED        3      2      6      4      3
  PLCG2 WILD-TYPE     56     73     68    115     35
D1641V8, multiclass
        clus
vv       PLCG2 MUTATED PLCG2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             4             115
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLCG2 MUTATED        1      4      3      2      7
  PLCG2 WILD-TYPE     50     72     58     69     88
D1641V9, multiclass
        clus
vv       PLCG2 MUTATED PLCG2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLCG2 MUTATED        2      2      0      2      3      1      1      3
  PLCG2 WILD-TYPE     67     46     39     14     50     19     20     35
                 vv
clus              CLUS_9
  PLCG2 MUTATED        3
  PLCG2 WILD-TYPE     47
D1641V10, multiclass
        clus
vv       PLCG2 MUTATED PLCG2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLCG2 MUTATED        0      0      1      0      0      0
  PLCG2 WILD-TYPE     13     16     13     11     11      9
D1641V11, multiclass
[1] "Remove cluster labels:" "PLCG2 MUTATED"         
clus
  PLCG2 MUTATED PLCG2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6141      TCGA-A6-6142 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-G4-6628 
"PLCG2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLCG2 MUTATED        0      0      0      0      1      0      0      0
  PLCG2 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  PLCG2 MUTATED        0
  PLCG2 WILD-TYPE      5
D1641V12, multiclass
[1] "Remove cluster labels:" "PLCG2 MUTATED"         
clus
  PLCG2 MUTATED PLCG2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6141      TCGA-A6-6142 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653      TCGA-A6-6654 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" "PLCG2 WILD-TYPE" 
     TCGA-G4-6628 
"PLCG2 WILD-TYPE" 

Clustering(1642) Variable = GLTSCR1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLTSCR1 MUTATED        1      1      0      0      0
  GLTSCR1 WILD-TYPE     31     17     46     27     23
D1642V1, multiclass
[1] "Remove cluster labels:" "GLTSCR1 MUTATED"       
clus
  GLTSCR1 MUTATED GLTSCR1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3872 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3952 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GLTSCR1 MUTATED        2      0      0
  GLTSCR1 WILD-TYPE     41     67     36
D1642V2, multiclass
[1] "Remove cluster labels:" "GLTSCR1 MUTATED"       
clus
  GLTSCR1 MUTATED GLTSCR1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3872 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3952 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" "GLTSCR1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GLTSCR1 MUTATED        0      3      8
  GLTSCR1 WILD-TYPE     42    170    139
D1642V3, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GLTSCR1 MUTATED        2      0      7
  GLTSCR1 WILD-TYPE     60     73     68
D1642V4, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               7                68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GLTSCR1 MUTATED        1      2      6
  GLTSCR1 WILD-TYPE     69    118     94
D1642V5, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GLTSCR1 MUTATED        0      1      0      1      0      6      0      0
  GLTSCR1 WILD-TYPE     41     25     30     28     39     63     20     14
                   vv
clus                CLUS_9
  GLTSCR1 MUTATED        1
  GLTSCR1 WILD-TYPE     21
D1642V6, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GLTSCR1 MUTATED        1      4      5      1
  GLTSCR1 WILD-TYPE     99     68     67    120
D1642V7, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                68
  CLUS_3               5                67
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLTSCR1 MUTATED        0      2      7      1      1
  GLTSCR1 WILD-TYPE     59     73     67    118     37
D1642V8, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               2                73
  CLUS_3               7                67
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLTSCR1 MUTATED        2      6      1      0      2
  GLTSCR1 WILD-TYPE     49     70     60     71     93
D1642V9, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               6                70
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GLTSCR1 MUTATED        1      2      0      3      3      0      1      1
  GLTSCR1 WILD-TYPE     68     46     39     13     50     20     20     37
                   vv
clus                CLUS_9
  GLTSCR1 MUTATED        0
  GLTSCR1 WILD-TYPE     50
D1642V10, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               3                50
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GLTSCR1 MUTATED        0      0      0      0      4      0
  GLTSCR1 WILD-TYPE     13     16     14     11      7      9
D1642V11, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               4                 7
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GLTSCR1 MUTATED        0      0      1      2      0      0      1      0
  GLTSCR1 WILD-TYPE     11      7      6      7      8      7     10      9
                   vv
clus                CLUS_9
  GLTSCR1 MUTATED        0
  GLTSCR1 WILD-TYPE      5
D1642V12, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               1                 6
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1643) Variable = OR9G4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR9G4 MUTATED        0      0      0      2      0
  OR9G4 WILD-TYPE     32     18     46     25     23
D1643V1, multiclass
[1] "Remove cluster labels:" "OR9G4 MUTATED"         
clus
  OR9G4 MUTATED OR9G4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9G4 MUTATED        1      1      0
  OR9G4 WILD-TYPE     42     66     36
D1643V2, multiclass
[1] "Remove cluster labels:" "OR9G4 MUTATED"         
clus
  OR9G4 MUTATED OR9G4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9G4 MUTATED        0      3      5
  OR9G4 WILD-TYPE     42    170    142
D1643V3, multiclass
        clus
vv       OR9G4 MUTATED OR9G4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9G4 MUTATED        2      1      3
  OR9G4 WILD-TYPE     60     72     72
D1643V4, multiclass
        clus
vv       OR9G4 MUTATED OR9G4 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR9G4 MUTATED        2      2      4
  OR9G4 WILD-TYPE     68    118     96
D1643V5, multiclass
        clus
vv       OR9G4 MUTATED OR9G4 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             118
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR9G4 MUTATED        2      1      2      0      0      3      0      0
  OR9G4 WILD-TYPE     39     25     28     29     39     66     20     14
                 vv
clus              CLUS_9
  OR9G4 MUTATED        0
  OR9G4 WILD-TYPE     22
D1643V6, multiclass
        clus
vv       OR9G4 MUTATED OR9G4 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR9G4 MUTATED        1      3      2      2
  OR9G4 WILD-TYPE     99     69     70    119
D1643V7, multiclass
        clus
vv       OR9G4 MUTATED OR9G4 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR9G4 MUTATED        2      2      2      1      1
  OR9G4 WILD-TYPE     57     73     72    118     37
D1643V8, multiclass
        clus
vv       OR9G4 MUTATED OR9G4 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR9G4 MUTATED        1      2      2      0      2
  OR9G4 WILD-TYPE     50     74     59     71     93
D1643V9, multiclass
        clus
vv       OR9G4 MUTATED OR9G4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR9G4 MUTATED        2      1      0      0      1      3      0      0
  OR9G4 WILD-TYPE     67     47     39     16     52     17     21     38
                 vv
clus              CLUS_9
  OR9G4 MUTATED        0
  OR9G4 WILD-TYPE     50
D1643V10, multiclass
        clus
vv       OR9G4 MUTATED OR9G4 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR9G4 MUTATED        1      1      0      0      0      0
  OR9G4 WILD-TYPE     12     15     14     11     11      9
D1643V11, multiclass
[1] "Remove cluster labels:" "OR9G4 MUTATED"         
clus
  OR9G4 MUTATED OR9G4 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR9G4 MUTATED        0      1      0      0      0      0      0      0
  OR9G4 WILD-TYPE     11      6      7      9      8      7     11      9
                 vv
clus              CLUS_9
  OR9G4 MUTATED        1
  OR9G4 WILD-TYPE      4
D1643V12, multiclass
[1] "Remove cluster labels:" "OR9G4 MUTATED"         
clus
  OR9G4 MUTATED OR9G4 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" "OR9G4 WILD-TYPE" 

Clustering(1644) Variable = NFATC2IP MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFATC2IP MUTATED        0      0      0      0      0
  NFATC2IP WILD-TYPE     32     18     46     27     23
D1644V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NFATC2IP MUTATED        0      0      0
  NFATC2IP WILD-TYPE     43     67     36
D1644V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NFATC2IP MUTATED        1      1      1
  NFATC2IP WILD-TYPE     41    172    146
D1644V3, multiclass
        clus
vv       NFATC2IP MUTATED NFATC2IP WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                1                172
  CLUS_3                1                146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NFATC2IP MUTATED        0      0      3
  NFATC2IP WILD-TYPE     62     73     72
D1644V4, multiclass
        clus
vv       NFATC2IP MUTATED NFATC2IP WILD-TYPE
  CLUS_1                0                 62
  CLUS_2                0                 73
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  NFATC2IP MUTATED        0      2      1
  NFATC2IP WILD-TYPE     70    118     99
D1644V5, multiclass
        clus
vv       NFATC2IP MUTATED NFATC2IP WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                118
  CLUS_3                1                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFATC2IP MUTATED        0      0      0      2      0      1      0      0
  NFATC2IP WILD-TYPE     41     26     30     27     39     68     20     14
                    vv
clus                 CLUS_9
  NFATC2IP MUTATED        0
  NFATC2IP WILD-TYPE     22
D1644V6, multiclass
        clus
vv       NFATC2IP MUTATED NFATC2IP WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                2                 27
  CLUS_5                0                 39
  CLUS_6                1                 68
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFATC2IP MUTATED        0      3      0      0
  NFATC2IP WILD-TYPE    100     69     72    121
D1644V7, multiclass
        clus
vv       NFATC2IP MUTATED NFATC2IP WILD-TYPE
  CLUS_1                0                100
  CLUS_2                3                 69
  CLUS_3                0                 72
  CLUS_4                0                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFATC2IP MUTATED        0      0      3      0      0
  NFATC2IP WILD-TYPE     59     75     71    119     38
D1644V8, multiclass
        clus
vv       NFATC2IP MUTATED NFATC2IP WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                3                 71
  CLUS_4                0                119
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFATC2IP MUTATED        0      2      1      0      0
  NFATC2IP WILD-TYPE     51     74     60     71     95
D1644V9, multiclass
        clus
vv       NFATC2IP MUTATED NFATC2IP WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                2                 74
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                0                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFATC2IP MUTATED        0      1      0      2      0      0      0      0
  NFATC2IP WILD-TYPE     69     47     39     14     53     20     21     38
                    vv
clus                 CLUS_9
  NFATC2IP MUTATED        0
  NFATC2IP WILD-TYPE     50
D1644V10, multiclass
        clus
vv       NFATC2IP MUTATED NFATC2IP WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFATC2IP MUTATED        0      0      0      0      1      0
  NFATC2IP WILD-TYPE     13     16     14     11     10      9
D1644V11, multiclass
[1] "Remove cluster labels:" "NFATC2IP MUTATED"      
clus
  NFATC2IP MUTATED NFATC2IP WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-G4-6628 
"NFATC2IP WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NFATC2IP MUTATED        0      0      0      1      0      0      0      0
  NFATC2IP WILD-TYPE     11      7      7      8      8      7     11      9
                    vv
clus                 CLUS_9
  NFATC2IP MUTATED        0
  NFATC2IP WILD-TYPE      5
D1644V12, multiclass
[1] "Remove cluster labels:" "NFATC2IP MUTATED"      
clus
  NFATC2IP MUTATED NFATC2IP WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" "NFATC2IP WILD-TYPE" 
        TCGA-G4-6628 
"NFATC2IP WILD-TYPE" 

Clustering(1645) Variable = C14ORF180 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF180 MUTATED        0      0      0      0      0
  C14ORF180 WILD-TYPE     32     18     46     27     23
D1645V1, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF180 MUTATED        0      0      0
  C14ORF180 WILD-TYPE     43     67     36
D1645V2, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF180 MUTATED        1      1      2
  C14ORF180 WILD-TYPE     41    172    145
D1645V3, multiclass
        clus
vv       C14ORF180 MUTATED C14ORF180 WILD-TYPE
  CLUS_1                 1                  41
  CLUS_2                 1                 172
  CLUS_3                 2                 145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF180 MUTATED        2      1      1
  C14ORF180 WILD-TYPE     60     72     74
D1645V4, multiclass
        clus
vv       C14ORF180 MUTATED C14ORF180 WILD-TYPE
  CLUS_1                 2                  60
  CLUS_2                 1                  72
  CLUS_3                 1                  74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF180 MUTATED        0      2      2
  C14ORF180 WILD-TYPE     70    118     98
D1645V5, multiclass
        clus
vv       C14ORF180 MUTATED C14ORF180 WILD-TYPE
  CLUS_1                 0                  70
  CLUS_2                 2                 118
  CLUS_3                 2                  98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF180 MUTATED        0      0      0      2      0      2      0      0
  C14ORF180 WILD-TYPE     41     26     30     27     39     67     20     14
                     vv
clus                  CLUS_9
  C14ORF180 MUTATED        0
  C14ORF180 WILD-TYPE     22
D1645V6, multiclass
        clus
vv       C14ORF180 MUTATED C14ORF180 WILD-TYPE
  CLUS_1                 0                  41
  CLUS_2                 0                  26
  CLUS_3                 0                  30
  CLUS_4                 2                  27
  CLUS_5                 0                  39
  CLUS_6                 2                  67
  CLUS_7                 0                  20
  CLUS_8                 0                  14
  CLUS_9                 0                  22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF180 MUTATED        1      1      2      0
  C14ORF180 WILD-TYPE     99     71     70    121
D1645V7, multiclass
        clus
vv       C14ORF180 MUTATED C14ORF180 WILD-TYPE
  CLUS_1                 1                  99
  CLUS_2                 1                  71
  CLUS_3                 2                  70
  CLUS_4                 0                 121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF180 MUTATED        0      1      3      0      0
  C14ORF180 WILD-TYPE     59     74     71    119     38
D1645V8, multiclass
        clus
vv       C14ORF180 MUTATED C14ORF180 WILD-TYPE
  CLUS_1                 0                  59
  CLUS_2                 1                  74
  CLUS_3                 3                  71
  CLUS_4                 0                 119
  CLUS_5                 0                  38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF180 MUTATED        0      3      0      1      0
  C14ORF180 WILD-TYPE     51     73     61     70     95
D1645V9, multiclass
        clus
vv       C14ORF180 MUTATED C14ORF180 WILD-TYPE
  CLUS_1                 0                  51
  CLUS_2                 3                  73
  CLUS_3                 0                  61
  CLUS_4                 1                  70
  CLUS_5                 0                  95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF180 MUTATED        2      1      0      1      0      0      0      0
  C14ORF180 WILD-TYPE     67     47     39     15     53     20     21     38
                     vv
clus                  CLUS_9
  C14ORF180 MUTATED        0
  C14ORF180 WILD-TYPE     50
D1645V10, multiclass
        clus
vv       C14ORF180 MUTATED C14ORF180 WILD-TYPE
  CLUS_1                 2                  67
  CLUS_2                 1                  47
  CLUS_3                 0                  39
  CLUS_4                 1                  15
  CLUS_5                 0                  53
  CLUS_6                 0                  20
  CLUS_7                 0                  21
  CLUS_8                 0                  38
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C14ORF180 MUTATED        0      0      1      0      1      1
  C14ORF180 WILD-TYPE     13     16     13     11     10      8
D1645V11, multiclass
        clus
vv       C14ORF180 MUTATED C14ORF180 WILD-TYPE
  CLUS_1                 0                  13
  CLUS_2                 0                  16
  CLUS_3                 1                  13
  CLUS_4                 0                  11
  CLUS_5                 1                  10
  CLUS_6                 1                   8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF180 MUTATED        0      0      0      1      0      0      1      1
  C14ORF180 WILD-TYPE     11      7      7      8      8      7     10      8
                     vv
clus                  CLUS_9
  C14ORF180 MUTATED        0
  C14ORF180 WILD-TYPE      5
D1645V12, multiclass
        clus
vv       C14ORF180 MUTATED C14ORF180 WILD-TYPE
  CLUS_1                 0                  11
  CLUS_2                 0                   7
  CLUS_3                 0                   7
  CLUS_4                 1                   8
  CLUS_5                 0                   8
  CLUS_6                 0                   7
  CLUS_7                 1                  10
  CLUS_8                 1                   8
  CLUS_9                 0                   5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1646) Variable = MYLK4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYLK4 MUTATED        1      0      0      0      0
  MYLK4 WILD-TYPE     31     18     46     27     23
D1646V1, multiclass
[1] "Remove cluster labels:" "MYLK4 MUTATED"         
clus
  MYLK4 MUTATED MYLK4 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AY-4071 
"MYLK4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYLK4 MUTATED        1      0      0
  MYLK4 WILD-TYPE     42     67     36
D1646V2, multiclass
[1] "Remove cluster labels:" "MYLK4 MUTATED"         
clus
  MYLK4 MUTATED MYLK4 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" "MYLK4 WILD-TYPE" 
     TCGA-AY-4071 
"MYLK4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYLK4 MUTATED        1      5      5
  MYLK4 WILD-TYPE     41    168    142
D1646V3, multiclass
        clus
vv       MYLK4 MUTATED MYLK4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYLK4 MUTATED        4      4      3
  MYLK4 WILD-TYPE     58     69     72
D1646V4, multiclass
        clus
vv       MYLK4 MUTATED MYLK4 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             4              69
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYLK4 MUTATED        1      6      5
  MYLK4 WILD-TYPE     69    114     95
D1646V5, multiclass
        clus
vv       MYLK4 MUTATED MYLK4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYLK4 MUTATED        2      1      0      2      2      3      1      1
  MYLK4 WILD-TYPE     39     25     30     27     37     66     19     13
                 vv
clus              CLUS_9
  MYLK4 MUTATED        0
  MYLK4 WILD-TYPE     22
D1646V6, multiclass
        clus
vv       MYLK4 MUTATED MYLK4 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYLK4 MUTATED        4      3      3      2
  MYLK4 WILD-TYPE     96     69     69    119
D1646V7, multiclass
        clus
vv       MYLK4 MUTATED MYLK4 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYLK4 MUTATED        4      2      4      1      1
  MYLK4 WILD-TYPE     55     73     70    118     37
D1646V8, multiclass
        clus
vv       MYLK4 MUTATED MYLK4 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             2              73
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYLK4 MUTATED        1      6      2      1      2
  MYLK4 WILD-TYPE     50     70     59     70     93
D1646V9, multiclass
        clus
vv       MYLK4 MUTATED MYLK4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYLK4 MUTATED        5      4      1      0      0      0      0      1
  MYLK4 WILD-TYPE     64     44     38     16     53     20     21     37
                 vv
clus              CLUS_9
  MYLK4 MUTATED        1
  MYLK4 WILD-TYPE     49
D1646V10, multiclass
        clus
vv       MYLK4 MUTATED MYLK4 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MYLK4 MUTATED        0      0      0      0      1      2
  MYLK4 WILD-TYPE     13     16     14     11     10      7
D1646V11, multiclass
        clus
vv       MYLK4 MUTATED MYLK4 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYLK4 MUTATED        1      0      0      0      0      0      1      1
  MYLK4 WILD-TYPE     10      7      7      9      8      7     10      8
                 vv
clus              CLUS_9
  MYLK4 MUTATED        0
  MYLK4 WILD-TYPE      5
D1646V12, multiclass
        clus
vv       MYLK4 MUTATED MYLK4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1647) Variable = CENPJ MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CENPJ MUTATED        3      0      0      2      1
  CENPJ WILD-TYPE     29     18     46     25     22
D1647V1, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPJ MUTATED        3      2      1
  CENPJ WILD-TYPE     40     65     35
D1647V2, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPJ MUTATED        0      2     19
  CENPJ WILD-TYPE     42    171    128
D1647V3, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            19             128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPJ MUTATED        7      2      5
  CENPJ WILD-TYPE     55     71     70
D1647V4, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             7              55
  CLUS_2             2              71
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPJ MUTATED        4      3     11
  CENPJ WILD-TYPE     66    117     89
D1647V5, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             4              66
  CLUS_2             3             117
  CLUS_3            11              89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CENPJ MUTATED        3      0      2      0      1      9      1      2
  CENPJ WILD-TYPE     38     26     28     29     38     60     19     12
                 vv
clus              CLUS_9
  CENPJ MUTATED        0
  CENPJ WILD-TYPE     22
D1647V6, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             9              60
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CENPJ MUTATED        1      7      7      6
  CENPJ WILD-TYPE     99     65     65    115
D1647V7, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             1              99
  CLUS_2             7              65
  CLUS_3             7              65
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CENPJ MUTATED        3      2      9      4      3
  CENPJ WILD-TYPE     56     73     65    115     35
D1647V8, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             3              56
  CLUS_2             2              73
  CLUS_3             9              65
  CLUS_4             4             115
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CENPJ MUTATED        0      9      4      2      5
  CENPJ WILD-TYPE     51     67     57     69     90
D1647V9, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             0              51
  CLUS_2             9              67
  CLUS_3             4              57
  CLUS_4             2              69
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CENPJ MUTATED        5      3      1      3      2      1      1      2
  CENPJ WILD-TYPE     64     45     38     13     51     19     20     36
                 vv
clus              CLUS_9
  CENPJ MUTATED        2
  CENPJ WILD-TYPE     48
D1647V10, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             5              64
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CENPJ MUTATED        0      1      2      1      3      0
  CENPJ WILD-TYPE     13     15     12     10      8      9
D1647V11, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CENPJ MUTATED        0      1      1      0      2      1      2      0
  CENPJ WILD-TYPE     11      6      6      9      6      6      9      9
                 vv
clus              CLUS_9
  CENPJ MUTATED        0
  CENPJ WILD-TYPE      5
D1647V12, multiclass
        clus
vv       CENPJ MUTATED CENPJ WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             2               6
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1648) Variable = CHMP4B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHMP4B MUTATED        1      0      0      0      0
  CHMP4B WILD-TYPE     31     18     46     27     23
D1648V1, multiclass
[1] "Remove cluster labels:" "CHMP4B MUTATED"        
clus
  CHMP4B MUTATED CHMP4B WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3812 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AY-4071 
"CHMP4B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHMP4B MUTATED        1      0      0
  CHMP4B WILD-TYPE     42     67     36
D1648V2, multiclass
[1] "Remove cluster labels:" "CHMP4B MUTATED"        
clus
  CHMP4B MUTATED CHMP4B WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3812 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AY-4071 
"CHMP4B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHMP4B MUTATED        1      0      2
  CHMP4B WILD-TYPE     41    173    145
D1648V3, multiclass
        clus
vv       CHMP4B MUTATED CHMP4B WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHMP4B MUTATED        0      0      2
  CHMP4B WILD-TYPE     62     73     73
D1648V4, multiclass
[1] "Remove cluster labels:" "CHMP4B MUTATED"        
clus
  CHMP4B MUTATED CHMP4B WILD-TYPE 
               2              208 
      TCGA-A6-2671       TCGA-A6-2677       TCGA-A6-3809       TCGA-A6-3810 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-A6-4105       TCGA-A6-5656       TCGA-A6-5657       TCGA-A6-5659 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662       TCGA-A6-5664 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137       TCGA-A6-6138 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648       TCGA-A6-6649 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653       TCGA-A6-6654 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3492 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3496       TCGA-AA-3502       TCGA-AA-3510       TCGA-AA-3511 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3655       TCGA-AA-3660       TCGA-AA-3662       TCGA-AA-3663 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AA-3697       TCGA-AA-3712       TCGA-AA-3713       TCGA-AD-5900 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6888       TCGA-AD-6889       TCGA-AD-6890 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AD-6895       TCGA-AD-6899       TCGA-AD-6901       TCGA-AD-6963 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AU-3779       TCGA-AU-6004 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4681 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AZ-4682       TCGA-AZ-5403       TCGA-AZ-5407       TCGA-AZ-6598 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AZ-6599       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6606       TCGA-AZ-6607       TCGA-AZ-6608 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796       TCGA-CA-5797 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6717       TCGA-CA-6718 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CA-6719       TCGA-CK-4947       TCGA-CK-4948       TCGA-CK-4950 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CK-4952       TCGA-CK-5912       TCGA-CK-5913       TCGA-CK-5914 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CK-5915       TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CM-4746       TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CM-5344       TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CM-5861       TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CM-5868       TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CM-6164       TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CM-6168       TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CM-6172       TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-5538       TCGA-D5-5539       TCGA-D5-5540 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-D5-5541       TCGA-D5-6529       TCGA-D5-6532       TCGA-D5-6533 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6535       TCGA-D5-6536       TCGA-D5-6537 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-D5-6538       TCGA-D5-6539       TCGA-D5-6541       TCGA-D5-6898 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-D5-6920       TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-D5-6926       TCGA-D5-6927       TCGA-D5-6928       TCGA-D5-6929 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932       TCGA-D5-7000 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-DM-A1D4       TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-DM-A1HB       TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28C 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-DM-A28E       TCGA-DM-A28F       TCGA-DM-A28G       TCGA-DM-A28H 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-DM-A28K       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" "CHMP4B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CHMP4B MUTATED        0      1      2
  CHMP4B WILD-TYPE     70    119     98
D1648V5, multiclass
        clus
vv       CHMP4B MUTATED CHMP4B WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              119
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHMP4B MUTATED        0      0      0      0      1      2      0      0
  CHMP4B WILD-TYPE     41     26     30     29     38     67     20     14
                  vv
clus               CLUS_9
  CHMP4B MUTATED        0
  CHMP4B WILD-TYPE     22
D1648V6, multiclass
        clus
vv       CHMP4B MUTATED CHMP4B WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHMP4B MUTATED        0      2      0      1
  CHMP4B WILD-TYPE    100     70     72    120
D1648V7, multiclass
        clus
vv       CHMP4B MUTATED CHMP4B WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              0               72
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHMP4B MUTATED        0      1      1      0      1
  CHMP4B WILD-TYPE     59     74     73    119     37
D1648V8, multiclass
        clus
vv       CHMP4B MUTATED CHMP4B WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHMP4B MUTATED        0      2      0      1      0
  CHMP4B WILD-TYPE     51     74     61     70     95
D1648V9, multiclass
        clus
vv       CHMP4B MUTATED CHMP4B WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHMP4B MUTATED        0      0      0      1      2      0      0      0
  CHMP4B WILD-TYPE     69     48     39     15     51     20     21     38
                  vv
clus               CLUS_9
  CHMP4B MUTATED        0
  CHMP4B WILD-TYPE     50
D1648V10, multiclass
        clus
vv       CHMP4B MUTATED CHMP4B WILD-TYPE
  CLUS_1              0               69
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHMP4B MUTATED        0      0      0      0      0      0
  CHMP4B WILD-TYPE     13     16     14     11     11      9
D1648V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CHMP4B MUTATED        0      0      0      0      0      0      0      0
  CHMP4B WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  CHMP4B MUTATED        0
  CHMP4B WILD-TYPE      5
D1648V12, multiclass

Clustering(1649) Variable = C20ORF43 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C20ORF43 MUTATED        0      0      0      0      0
  C20ORF43 WILD-TYPE     32     18     46     27     23
D1649V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C20ORF43 MUTATED        0      0      0
  C20ORF43 WILD-TYPE     43     67     36
D1649V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C20ORF43 MUTATED        0      0      3
  C20ORF43 WILD-TYPE     42    173    144
D1649V3, multiclass
        clus
vv       C20ORF43 MUTATED C20ORF43 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C20ORF43 MUTATED        2      0      1
  C20ORF43 WILD-TYPE     60     73     74
D1649V4, multiclass
        clus
vv       C20ORF43 MUTATED C20ORF43 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                0                 73
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C20ORF43 MUTATED        1      1      0
  C20ORF43 WILD-TYPE     69    119    100
D1649V5, multiclass
[1] "Remove cluster labels:" "C20ORF43 MUTATED"      
clus
  C20ORF43 MUTATED C20ORF43 WILD-TYPE 
                 2                288 
        TCGA-A6-2671         TCGA-A6-2672         TCGA-A6-2676 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-3810         TCGA-A6-5656         TCGA-A6-5657 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-5659         TCGA-A6-5660         TCGA-A6-5661 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-5662         TCGA-A6-5664         TCGA-A6-5665 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-5666         TCGA-A6-6137         TCGA-A6-6138 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6648 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6649         TCGA-A6-6651         TCGA-A6-6652 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6780 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3492         TCGA-AA-3496         TCGA-AA-3502 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AA-3514         TCGA-AA-3517 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3519         TCGA-AA-3520         TCGA-AA-3521 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3522         TCGA-AA-3525         TCGA-AA-3529 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3530         TCGA-AA-3531         TCGA-AA-3532 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3534         TCGA-AA-3548         TCGA-AA-3552 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3558         TCGA-AA-3560         TCGA-AA-3561 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3562         TCGA-AA-3655         TCGA-AA-3664 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3678         TCGA-AA-3681 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3688         TCGA-AA-3695         TCGA-AA-3696 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3697         TCGA-AA-3710         TCGA-AA-3712 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3713         TCGA-AA-3715         TCGA-AA-3811 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3831 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3844 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3845         TCGA-AA-3848         TCGA-AA-3850 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3856 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3869         TCGA-AA-3872         TCGA-AA-3930 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3950         TCGA-AA-3955 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3968         TCGA-AA-3971         TCGA-AA-3972 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3973         TCGA-AA-3975         TCGA-AA-3982 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-A004 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00E         TCGA-AA-A00F 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A00J         TCGA-AA-A00K         TCGA-AA-A00L 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A00N         TCGA-AA-A00Q         TCGA-AA-A00R 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01I         TCGA-AA-A01K 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A01P         TCGA-AA-A01Q         TCGA-AA-A01R 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A01S         TCGA-AA-A01T         TCGA-AA-A01V 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A01X         TCGA-AA-A022         TCGA-AA-A024 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02K         TCGA-AA-A02O 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AA-A02Y         TCGA-AA-A03F 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A03J         TCGA-AD-5900         TCGA-AD-6548 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6899         TCGA-AD-6965 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AU-6004         TCGA-AY-5543         TCGA-AY-6197 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AY-6386         TCGA-AZ-4315         TCGA-AZ-4323 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-4682         TCGA-AZ-5407 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6599         TCGA-AZ-6600 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-6601         TCGA-AZ-6603         TCGA-AZ-6605 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-6606         TCGA-AZ-6607         TCGA-AZ-6608 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CA-5254         TCGA-CA-5255         TCGA-CA-5796 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CA-5797         TCGA-CA-6715         TCGA-CA-6716 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CA-6717         TCGA-CA-6718         TCGA-CA-6719 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CK-5914         TCGA-CK-5916         TCGA-CK-6746 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CK-6747         TCGA-CK-6748         TCGA-CK-6751 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-4743         TCGA-CM-4744         TCGA-CM-4746 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-4747         TCGA-CM-4752         TCGA-CM-5341 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-5344         TCGA-CM-5348         TCGA-CM-5349 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-5861         TCGA-CM-5862 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-5863         TCGA-CM-5864         TCGA-CM-5868 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6161         TCGA-CM-6162         TCGA-CM-6163 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6164         TCGA-CM-6165         TCGA-CM-6166 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6168         TCGA-CM-6169 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6170         TCGA-CM-6171         TCGA-CM-6172 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6675         TCGA-CM-6676 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5538         TCGA-D5-5539 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-5540         TCGA-D5-5541         TCGA-D5-6529 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6532         TCGA-D5-6533         TCGA-D5-6534 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6535         TCGA-D5-6536         TCGA-D5-6537 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6538         TCGA-D5-6539         TCGA-D5-6540 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6541         TCGA-D5-6898         TCGA-D5-6920 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6923         TCGA-D5-6924 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6926         TCGA-D5-6927         TCGA-D5-6928 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6930         TCGA-D5-6931         TCGA-D5-6932 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A0X9         TCGA-DM-A0XF         TCGA-DM-A1D0 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A1D4         TCGA-DM-A1D6         TCGA-DM-A1D7 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A1DB         TCGA-DM-A1HA         TCGA-DM-A1HB 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A28C         TCGA-DM-A28E 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-DM-A28G         TCGA-F4-6459 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6570 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6703         TCGA-F4-6704         TCGA-F4-6805 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6806         TCGA-F4-6807         TCGA-F4-6808 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6809         TCGA-F4-6854         TCGA-F4-6855 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6856         TCGA-G4-6293         TCGA-G4-6299 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6303         TCGA-G4-6304         TCGA-G4-6306 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6307         TCGA-G4-6309         TCGA-G4-6310 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6315         TCGA-G4-6317         TCGA-G4-6321 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6323         TCGA-G4-6586         TCGA-G4-6588 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6625         TCGA-G4-6626         TCGA-G4-6628 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C20ORF43 MUTATED        0      1      0      0      0      1      0      0
  C20ORF43 WILD-TYPE     41     25     30     29     39     68     20     14
                    vv
clus                 CLUS_9
  C20ORF43 MUTATED        0
  C20ORF43 WILD-TYPE     22
D1649V6, multiclass
[1] "Remove cluster labels:" "C20ORF43 MUTATED"      
clus
  C20ORF43 MUTATED C20ORF43 WILD-TYPE 
                 2                288 
        TCGA-A6-2671         TCGA-A6-2672         TCGA-A6-2676 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-3810         TCGA-A6-5656         TCGA-A6-5657 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-5659         TCGA-A6-5660         TCGA-A6-5661 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-5662         TCGA-A6-5664         TCGA-A6-5665 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-5666         TCGA-A6-6137         TCGA-A6-6138 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6648 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6649         TCGA-A6-6651         TCGA-A6-6652 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6780 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3492         TCGA-AA-3496         TCGA-AA-3502 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AA-3514         TCGA-AA-3517 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3519         TCGA-AA-3520         TCGA-AA-3521 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3522         TCGA-AA-3525         TCGA-AA-3529 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3530         TCGA-AA-3531         TCGA-AA-3532 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3534         TCGA-AA-3548         TCGA-AA-3552 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3558         TCGA-AA-3560         TCGA-AA-3561 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3562         TCGA-AA-3655         TCGA-AA-3664 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3678         TCGA-AA-3681 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3688         TCGA-AA-3695         TCGA-AA-3696 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3697         TCGA-AA-3710         TCGA-AA-3712 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3713         TCGA-AA-3715         TCGA-AA-3811 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3831 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3844 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3845         TCGA-AA-3848         TCGA-AA-3850 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3856 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3869         TCGA-AA-3872         TCGA-AA-3930 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3950         TCGA-AA-3955 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3968         TCGA-AA-3971         TCGA-AA-3972 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3973         TCGA-AA-3975         TCGA-AA-3982 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-A004 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00E         TCGA-AA-A00F 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A00J         TCGA-AA-A00K         TCGA-AA-A00L 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A00N         TCGA-AA-A00Q         TCGA-AA-A00R 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01I         TCGA-AA-A01K 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A01P         TCGA-AA-A01Q         TCGA-AA-A01R 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A01S         TCGA-AA-A01T         TCGA-AA-A01V 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A01X         TCGA-AA-A022         TCGA-AA-A024 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02K         TCGA-AA-A02O 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AA-A02Y         TCGA-AA-A03F 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-A03J         TCGA-AD-5900         TCGA-AD-6548 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6899         TCGA-AD-6965 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AU-6004         TCGA-AY-5543         TCGA-AY-6197 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AY-6386         TCGA-AZ-4315         TCGA-AZ-4323 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-4682         TCGA-AZ-5407 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6599         TCGA-AZ-6600 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-6601         TCGA-AZ-6603         TCGA-AZ-6605 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-6606         TCGA-AZ-6607         TCGA-AZ-6608 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CA-5254         TCGA-CA-5255         TCGA-CA-5796 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CA-5797         TCGA-CA-6715         TCGA-CA-6716 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CA-6717         TCGA-CA-6718         TCGA-CA-6719 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CK-5914         TCGA-CK-5916         TCGA-CK-6746 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CK-6747         TCGA-CK-6748         TCGA-CK-6751 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-4743         TCGA-CM-4744         TCGA-CM-4746 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-4747         TCGA-CM-4752         TCGA-CM-5341 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-5344         TCGA-CM-5348         TCGA-CM-5349 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-5861         TCGA-CM-5862 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-5863         TCGA-CM-5864         TCGA-CM-5868 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6161         TCGA-CM-6162         TCGA-CM-6163 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6164         TCGA-CM-6165         TCGA-CM-6166 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6168         TCGA-CM-6169 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6170         TCGA-CM-6171         TCGA-CM-6172 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6675         TCGA-CM-6676 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5538         TCGA-D5-5539 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-5540         TCGA-D5-5541         TCGA-D5-6529 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6532         TCGA-D5-6533         TCGA-D5-6534 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6535         TCGA-D5-6536         TCGA-D5-6537 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6538         TCGA-D5-6539         TCGA-D5-6540 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6541         TCGA-D5-6898         TCGA-D5-6920 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6923         TCGA-D5-6924 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6926         TCGA-D5-6927         TCGA-D5-6928 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6930         TCGA-D5-6931         TCGA-D5-6932 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A0X9         TCGA-DM-A0XF         TCGA-DM-A1D0 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A1D4         TCGA-DM-A1D6         TCGA-DM-A1D7 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A1DB         TCGA-DM-A1HA         TCGA-DM-A1HB 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A282         TCGA-DM-A28C         TCGA-DM-A28E 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-DM-A28G         TCGA-F4-6459 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6460         TCGA-F4-6569         TCGA-F4-6570 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6703         TCGA-F4-6704         TCGA-F4-6805 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6806         TCGA-F4-6807         TCGA-F4-6808 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6809         TCGA-F4-6854         TCGA-F4-6855 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6856         TCGA-G4-6293         TCGA-G4-6299 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6303         TCGA-G4-6304         TCGA-G4-6306 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6307         TCGA-G4-6309         TCGA-G4-6310 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6315         TCGA-G4-6317         TCGA-G4-6321 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6323         TCGA-G4-6586         TCGA-G4-6588 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6625         TCGA-G4-6626         TCGA-G4-6628 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C20ORF43 MUTATED        0      1      1      1
  C20ORF43 WILD-TYPE    100     71     71    120
D1649V7, multiclass
        clus
vv       C20ORF43 MUTATED C20ORF43 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                1                 71
  CLUS_3                1                 71
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C20ORF43 MUTATED        0      1      1      1      0
  C20ORF43 WILD-TYPE     59     74     73    118     38
D1649V8, multiclass
        clus
vv       C20ORF43 MUTATED C20ORF43 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                1                 73
  CLUS_4                1                118
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C20ORF43 MUTATED        0      2      0      0      1
  C20ORF43 WILD-TYPE     51     74     61     71     94
D1649V9, multiclass
        clus
vv       C20ORF43 MUTATED C20ORF43 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                2                 74
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C20ORF43 MUTATED        2      0      0      0      0      0      0      0
  C20ORF43 WILD-TYPE     67     48     39     16     53     20     21     38
                    vv
clus                 CLUS_9
  C20ORF43 MUTATED        1
  C20ORF43 WILD-TYPE     49
D1649V10, multiclass
        clus
vv       C20ORF43 MUTATED C20ORF43 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                0                 48
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C20ORF43 MUTATED        0      1      0      0      0      0
  C20ORF43 WILD-TYPE     13     15     14     11     11      9
D1649V11, multiclass
[1] "Remove cluster labels:" "C20ORF43 MUTATED"      
clus
  C20ORF43 MUTATED C20ORF43 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AZ-4323 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6628 
"C20ORF43 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C20ORF43 MUTATED        1      0      0      0      0      0      0      0
  C20ORF43 WILD-TYPE     10      7      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  C20ORF43 MUTATED        0
  C20ORF43 WILD-TYPE      5
D1649V12, multiclass
[1] "Remove cluster labels:" "C20ORF43 MUTATED"      
clus
  C20ORF43 MUTATED C20ORF43 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AZ-4323 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" "C20ORF43 WILD-TYPE" 
        TCGA-G4-6628 
"C20ORF43 WILD-TYPE" 

Clustering(1650) Variable = CIZ1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CIZ1 MUTATED        3      0      1      1      1
  CIZ1 WILD-TYPE     29     18     45     26     22
D1650V1, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CIZ1 MUTATED        2      2      2
  CIZ1 WILD-TYPE     41     65     34
D1650V2, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            2             65
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CIZ1 MUTATED        2      4      8
  CIZ1 WILD-TYPE     40    169    139
D1650V3, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            4            169
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CIZ1 MUTATED        1      2      5
  CIZ1 WILD-TYPE     61     71     70
D1650V4, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CIZ1 MUTATED        2      7      3
  CIZ1 WILD-TYPE     68    113     97
D1650V5, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            7            113
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CIZ1 MUTATED        1      0      2      4      2      2      1      0      0
  CIZ1 WILD-TYPE     40     26     28     25     37     67     19     14     22
D1650V6, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            4             25
  CLUS_5            2             37
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CIZ1 MUTATED        1      5      2      6
  CIZ1 WILD-TYPE     99     67     70    115
D1650V7, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CIZ1 MUTATED        0      2      6      3      3
  CIZ1 WILD-TYPE     59     73     68    116     35
D1650V8, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            6             68
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CIZ1 MUTATED        2      6      0      1      6
  CIZ1 WILD-TYPE     49     70     61     70     89
D1650V9, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CIZ1 MUTATED        2      2      0      2      2      1      1      2      3
  CIZ1 WILD-TYPE     67     46     39     14     51     19     20     36     47
D1650V10, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CIZ1 MUTATED        0      1      0      0      2      0
  CIZ1 WILD-TYPE     13     15     14     11      9      9
D1650V11, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CIZ1 MUTATED        0      0      0      2      0      0      1      0      0
  CIZ1 WILD-TYPE     11      7      7      7      8      7     10      9      5
D1650V12, multiclass
        clus
vv       CIZ1 MUTATED CIZ1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1651) Variable = ZNF416 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF416 MUTATED        0      0      0      1      0
  ZNF416 WILD-TYPE     32     18     46     26     23
D1651V1, multiclass
[1] "Remove cluster labels:" "ZNF416 MUTATED"        
clus
  ZNF416 MUTATED ZNF416 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF416 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF416 MUTATED        0      1      0
  ZNF416 WILD-TYPE     43     66     36
D1651V2, multiclass
[1] "Remove cluster labels:" "ZNF416 MUTATED"        
clus
  ZNF416 MUTATED ZNF416 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" "ZNF416 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF416 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF416 MUTATED        0      0      8
  ZNF416 WILD-TYPE     42    173    139
D1651V3, multiclass
        clus
vv       ZNF416 MUTATED ZNF416 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF416 MUTATED        4      0      2
  ZNF416 WILD-TYPE     58     73     73
D1651V4, multiclass
        clus
vv       ZNF416 MUTATED ZNF416 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF416 MUTATED        2      2      4
  ZNF416 WILD-TYPE     68    118     96
D1651V5, multiclass
        clus
vv       ZNF416 MUTATED ZNF416 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF416 MUTATED        1      0      2      0      0      3      2      0
  ZNF416 WILD-TYPE     40     26     28     29     39     66     18     14
                  vv
clus               CLUS_9
  ZNF416 MUTATED        0
  ZNF416 WILD-TYPE     22
D1651V6, multiclass
        clus
vv       ZNF416 MUTATED ZNF416 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF416 MUTATED        0      2      4      2
  ZNF416 WILD-TYPE    100     70     68    119
D1651V7, multiclass
        clus
vv       ZNF416 MUTATED ZNF416 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              4               68
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF416 MUTATED        1      1      4      1      1
  ZNF416 WILD-TYPE     58     74     70    118     37
D1651V8, multiclass
        clus
vv       ZNF416 MUTATED ZNF416 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF416 MUTATED        0      4      1      0      3
  ZNF416 WILD-TYPE     51     72     60     71     92
D1651V9, multiclass
        clus
vv       ZNF416 MUTATED ZNF416 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF416 MUTATED        0      3      0      1      1      1      0      1
  ZNF416 WILD-TYPE     69     45     39     15     52     19     21     37
                  vv
clus               CLUS_9
  ZNF416 MUTATED        1
  ZNF416 WILD-TYPE     49
D1651V10, multiclass
        clus
vv       ZNF416 MUTATED ZNF416 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF416 MUTATED        0      0      0      0      3      0
  ZNF416 WILD-TYPE     13     16     14     11      8      9
D1651V11, multiclass
        clus
vv       ZNF416 MUTATED ZNF416 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF416 MUTATED        0      0      0      0      1      0      2      0
  ZNF416 WILD-TYPE     11      7      7      9      7      7      9      9
                  vv
clus               CLUS_9
  ZNF416 MUTATED        0
  ZNF416 WILD-TYPE      5
D1651V12, multiclass
        clus
vv       ZNF416 MUTATED ZNF416 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1652) Variable = RBM16 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM16 MUTATED        3      0      0      2      0
  RBM16 WILD-TYPE     29     18     46     25     23
D1652V1, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM16 MUTATED        4      1      0
  RBM16 WILD-TYPE     39     66     36
D1652V2, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM16 MUTATED        1      3     11
  RBM16 WILD-TYPE     41    170    136
D1652V3, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM16 MUTATED        4      1      6
  RBM16 WILD-TYPE     58     72     69
D1652V4, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM16 MUTATED        0      7      5
  RBM16 WILD-TYPE     70    113     95
D1652V5, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             7             113
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM16 MUTATED        1      1      1      4      2      2      0      0
  RBM16 WILD-TYPE     40     25     29     25     37     67     20     14
                 vv
clus              CLUS_9
  RBM16 MUTATED        1
  RBM16 WILD-TYPE     21
D1652V6, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             4              25
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM16 MUTATED        3      5      2      5
  RBM16 WILD-TYPE     97     67     70    116
D1652V7, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM16 MUTATED        2      2      6      1      4
  RBM16 WILD-TYPE     57     73     68    118     34
D1652V8, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM16 MUTATED        2      5      2      1      4
  RBM16 WILD-TYPE     49     71     59     70     91
D1652V9, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM16 MUTATED        0      2      0      3      4      1      0      3
  RBM16 WILD-TYPE     69     46     39     13     49     19     21     35
                 vv
clus              CLUS_9
  RBM16 MUTATED        1
  RBM16 WILD-TYPE     49
D1652V10, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             4              49
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBM16 MUTATED        0      0      1      0      3      0
  RBM16 WILD-TYPE     13     16     13     11      8      9
D1652V11, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM16 MUTATED        0      0      0      3      1      0      0      0
  RBM16 WILD-TYPE     11      7      7      6      7      7     11      9
                 vv
clus              CLUS_9
  RBM16 MUTATED        0
  RBM16 WILD-TYPE      5
D1652V12, multiclass
        clus
vv       RBM16 MUTATED RBM16 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1653) Variable = MORC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MORC1 MUTATED        3      1      0      1      0
  MORC1 WILD-TYPE     29     17     46     26     23
D1653V1, multiclass
        clus
vv       MORC1 MUTATED MORC1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC1 MUTATED        2      1      2
  MORC1 WILD-TYPE     41     66     34
D1653V2, multiclass
        clus
vv       MORC1 MUTATED MORC1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC1 MUTATED        1      4      8
  MORC1 WILD-TYPE     41    169    139
D1653V3, multiclass
        clus
vv       MORC1 MUTATED MORC1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC1 MUTATED        5      2      1
  MORC1 WILD-TYPE     57     71     74
D1653V4, multiclass
        clus
vv       MORC1 MUTATED MORC1 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC1 MUTATED        0      2      9
  MORC1 WILD-TYPE     70    118     91
D1653V5, multiclass
        clus
vv       MORC1 MUTATED MORC1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MORC1 MUTATED        3      0      1      1      0      6      0      0
  MORC1 WILD-TYPE     38     26     29     28     39     63     20     14
                 vv
clus              CLUS_9
  MORC1 MUTATED        0
  MORC1 WILD-TYPE     22
D1653V6, multiclass
        clus
vv       MORC1 MUTATED MORC1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MORC1 MUTATED        4      2      2      5
  MORC1 WILD-TYPE     96     70     70    116
D1653V7, multiclass
        clus
vv       MORC1 MUTATED MORC1 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MORC1 MUTATED        3      2      2      5      1
  MORC1 WILD-TYPE     56     73     72    114     37
D1653V8, multiclass
        clus
vv       MORC1 MUTATED MORC1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             5             114
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MORC1 MUTATED        2      3      2      1      4
  MORC1 WILD-TYPE     49     73     59     70     91
D1653V9, multiclass
        clus
vv       MORC1 MUTATED MORC1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MORC1 MUTATED        0      3      1      1      4      1      0      1
  MORC1 WILD-TYPE     69     45     38     15     49     19     21     37
                 vv
clus              CLUS_9
  MORC1 MUTATED        1
  MORC1 WILD-TYPE     49
D1653V10, multiclass
        clus
vv       MORC1 MUTATED MORC1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             4              49
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MORC1 MUTATED        1      0      0      0      1      0
  MORC1 WILD-TYPE     12     16     14     11     10      9
D1653V11, multiclass
[1] "Remove cluster labels:" "MORC1 MUTATED"         
clus
  MORC1 MUTATED MORC1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MORC1 MUTATED        0      0      0      0      0      0      1      1
  MORC1 WILD-TYPE     11      7      7      9      8      7     10      8
                 vv
clus              CLUS_9
  MORC1 MUTATED        0
  MORC1 WILD-TYPE      5
D1653V12, multiclass
[1] "Remove cluster labels:" "MORC1 MUTATED"         
clus
  MORC1 MUTATED MORC1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" "MORC1 WILD-TYPE" 

Clustering(1654) Variable = ROR1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ROR1 MUTATED        3      0      2      0      0
  ROR1 WILD-TYPE     29     18     44     27     23
D1654V1, multiclass
        clus
vv       ROR1 MUTATED ROR1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            2             44
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ROR1 MUTATED        2      2      1
  ROR1 WILD-TYPE     41     65     35
D1654V2, multiclass
        clus
vv       ROR1 MUTATED ROR1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ROR1 MUTATED        1      6     13
  ROR1 WILD-TYPE     41    167    134
D1654V3, multiclass
        clus
vv       ROR1 MUTATED ROR1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            6            167
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ROR1 MUTATED        6      3      5
  ROR1 WILD-TYPE     56     70     70
D1654V4, multiclass
        clus
vv       ROR1 MUTATED ROR1 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            3             70
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ROR1 MUTATED        2      4      9
  ROR1 WILD-TYPE     68    116     91
D1654V5, multiclass
        clus
vv       ROR1 MUTATED ROR1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4            116
  CLUS_3            9             91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ROR1 MUTATED        1      1      1      1      2      9      0      0      0
  ROR1 WILD-TYPE     40     25     29     28     37     60     20     14     22
D1654V6, multiclass
        clus
vv       ROR1 MUTATED ROR1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            9             60
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ROR1 MUTATED        4      7      3      6
  ROR1 WILD-TYPE     96     65     69    115
D1654V7, multiclass
        clus
vv       ROR1 MUTATED ROR1 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            7             65
  CLUS_3            3             69
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ROR1 MUTATED        1      6      7      3      3
  ROR1 WILD-TYPE     58     69     67    116     35
D1654V8, multiclass
        clus
vv       ROR1 MUTATED ROR1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            6             69
  CLUS_3            7             67
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ROR1 MUTATED        1      9      2      2      5
  ROR1 WILD-TYPE     50     67     59     69     90
D1654V9, multiclass
        clus
vv       ROR1 MUTATED ROR1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            9             67
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ROR1 MUTATED        3      4      0      3      2      2      0      3      2
  ROR1 WILD-TYPE     66     44     39     13     51     18     21     35     48
D1654V10, multiclass
        clus
vv       ROR1 MUTATED ROR1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ROR1 MUTATED        0      0      2      0      0      0
  ROR1 WILD-TYPE     13     16     12     11     11      9
D1654V11, multiclass
[1] "Remove cluster labels:" "ROR1 MUTATED"          
clus
  ROR1 MUTATED ROR1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6676 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ROR1 MUTATED        0      0      0      0      1      1      0      0      0
  ROR1 WILD-TYPE     11      7      7      9      7      6     11      9      5
D1654V12, multiclass
[1] "Remove cluster labels:" "ROR1 MUTATED"          
clus
  ROR1 MUTATED ROR1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6676 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" "ROR1 WILD-TYPE" 

Clustering(1655) Variable = HSPA4L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSPA4L MUTATED        3      0      0      0      0
  HSPA4L WILD-TYPE     29     18     46     27     23
D1655V1, multiclass
        clus
vv       HSPA4L MUTATED HSPA4L WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HSPA4L MUTATED        3      0      0
  HSPA4L WILD-TYPE     40     67     36
D1655V2, multiclass
        clus
vv       HSPA4L MUTATED HSPA4L WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HSPA4L MUTATED        0      1      7
  HSPA4L WILD-TYPE     42    172    140
D1655V3, multiclass
        clus
vv       HSPA4L MUTATED HSPA4L WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HSPA4L MUTATED        2      1      2
  HSPA4L WILD-TYPE     60     72     73
D1655V4, multiclass
        clus
vv       HSPA4L MUTATED HSPA4L WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HSPA4L MUTATED        1      2      3
  HSPA4L WILD-TYPE     69    118     97
D1655V5, multiclass
        clus
vv       HSPA4L MUTATED HSPA4L WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HSPA4L MUTATED        2      0      0      0      1      2      0      0
  HSPA4L WILD-TYPE     39     26     30     29     38     67     20     14
                  vv
clus               CLUS_9
  HSPA4L MUTATED        1
  HSPA4L WILD-TYPE     21
D1655V6, multiclass
        clus
vv       HSPA4L MUTATED HSPA4L WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HSPA4L MUTATED        2      2      1      3
  HSPA4L WILD-TYPE     98     70     71    118
D1655V7, multiclass
        clus
vv       HSPA4L MUTATED HSPA4L WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSPA4L MUTATED        2      2      1      0      3
  HSPA4L WILD-TYPE     57     73     73    119     35
D1655V8, multiclass
        clus
vv       HSPA4L MUTATED HSPA4L WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSPA4L MUTATED        0      2      2      0      4
  HSPA4L WILD-TYPE     51     74     59     71     91
D1655V9, multiclass
        clus
vv       HSPA4L MUTATED HSPA4L WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HSPA4L MUTATED        0      2      0      1      1      0      0      3
  HSPA4L WILD-TYPE     69     46     39     15     52     20     21     35
                  vv
clus               CLUS_9
  HSPA4L MUTATED        1
  HSPA4L WILD-TYPE     49
D1655V10, multiclass
        clus
vv       HSPA4L MUTATED HSPA4L WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HSPA4L MUTATED        0      0      0      0      0      0
  HSPA4L WILD-TYPE     13     16     14     11     11      9
D1655V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HSPA4L MUTATED        0      0      0      0      0      0      0      0
  HSPA4L WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  HSPA4L MUTATED        0
  HSPA4L WILD-TYPE      5
D1655V12, multiclass

Clustering(1656) Variable = GSG2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSG2 MUTATED        1      0      0      0      1
  GSG2 WILD-TYPE     31     18     46     27     22
D1656V1, multiclass
[1] "Remove cluster labels:" "GSG2 MUTATED"          
clus
  GSG2 MUTATED GSG2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3858 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GSG2 MUTATED        0      0      2
  GSG2 WILD-TYPE     43     67     34
D1656V2, multiclass
[1] "Remove cluster labels:" "GSG2 MUTATED"          
clus
  GSG2 MUTATED GSG2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3858 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GSG2 MUTATED        1      0      5
  GSG2 WILD-TYPE     41    173    142
D1656V3, multiclass
        clus
vv       GSG2 MUTATED GSG2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GSG2 MUTATED        0      0      4
  GSG2 WILD-TYPE     62     73     71
D1656V4, multiclass
        clus
vv       GSG2 MUTATED GSG2 WILD-TYPE
  CLUS_1            0             62
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GSG2 MUTATED        2      2      1
  GSG2 WILD-TYPE     68    118     99
D1656V5, multiclass
        clus
vv       GSG2 MUTATED GSG2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            2            118
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GSG2 MUTATED        0      0      0      2      1      1      1      0      0
  GSG2 WILD-TYPE     41     26     30     27     38     68     19     14     22
D1656V6, multiclass
        clus
vv       GSG2 MUTATED GSG2 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GSG2 MUTATED        0      3      1      2
  GSG2 WILD-TYPE    100     69     71    119
D1656V7, multiclass
        clus
vv       GSG2 MUTATED GSG2 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            3             69
  CLUS_3            1             71
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSG2 MUTATED        0      1      3      2      0
  GSG2 WILD-TYPE     59     74     71    117     38
D1656V8, multiclass
        clus
vv       GSG2 MUTATED GSG2 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSG2 MUTATED        0      4      0      2      0
  GSG2 WILD-TYPE     51     72     61     69     95
D1656V9, multiclass
        clus
vv       GSG2 MUTATED GSG2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            0             61
  CLUS_4            2             69
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GSG2 MUTATED        1      1      0      1      2      0      0      0      1
  GSG2 WILD-TYPE     68     47     39     15     51     20     21     38     49
D1656V10, multiclass
        clus
vv       GSG2 MUTATED GSG2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GSG2 MUTATED        0      0      0      0      1      0
  GSG2 WILD-TYPE     13     16     14     11     10      9
D1656V11, multiclass
[1] "Remove cluster labels:" "GSG2 MUTATED"          
clus
  GSG2 MUTATED GSG2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-G4-6628 
"GSG2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GSG2 MUTATED        0      0      0      0      1      0      0      0      0
  GSG2 WILD-TYPE     11      7      7      9      7      7     11      9      5
D1656V12, multiclass
[1] "Remove cluster labels:" "GSG2 MUTATED"          
clus
  GSG2 MUTATED GSG2 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" "GSG2 WILD-TYPE" 
    TCGA-G4-6628 
"GSG2 WILD-TYPE" 

Clustering(1657) Variable = MIPEP MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIPEP MUTATED        1      0      0      1      0
  MIPEP WILD-TYPE     31     18     46     26     23
D1657V1, multiclass
[1] "Remove cluster labels:" "MIPEP MUTATED"         
clus
  MIPEP MUTATED MIPEP WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866      TCGA-AA-3867 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIPEP MUTATED        2      0      0
  MIPEP WILD-TYPE     41     67     36
D1657V2, multiclass
[1] "Remove cluster labels:" "MIPEP MUTATED"         
clus
  MIPEP MUTATED MIPEP WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866      TCGA-AA-3867 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIPEP MUTATED        0      2      6
  MIPEP WILD-TYPE     42    171    141
D1657V3, multiclass
        clus
vv       MIPEP MUTATED MIPEP WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIPEP MUTATED        2      0      3
  MIPEP WILD-TYPE     60     73     72
D1657V4, multiclass
        clus
vv       MIPEP MUTATED MIPEP WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MIPEP MUTATED        1      4      3
  MIPEP WILD-TYPE     69    116     97
D1657V5, multiclass
        clus
vv       MIPEP MUTATED MIPEP WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MIPEP MUTATED        1      2      1      0      1      1      1      0
  MIPEP WILD-TYPE     40     24     29     29     38     68     19     14
                 vv
clus              CLUS_9
  MIPEP MUTATED        1
  MIPEP WILD-TYPE     21
D1657V6, multiclass
        clus
vv       MIPEP MUTATED MIPEP WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MIPEP MUTATED        0      2      2      4
  MIPEP WILD-TYPE    100     70     70    117
D1657V7, multiclass
        clus
vv       MIPEP MUTATED MIPEP WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIPEP MUTATED        2      0      2      1      3
  MIPEP WILD-TYPE     57     75     72    118     35
D1657V8, multiclass
        clus
vv       MIPEP MUTATED MIPEP WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIPEP MUTATED        1      3      0      0      4
  MIPEP WILD-TYPE     50     73     61     71     91
D1657V9, multiclass
        clus
vv       MIPEP MUTATED MIPEP WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MIPEP MUTATED        2      2      0      0      0      0      0      3
  MIPEP WILD-TYPE     67     46     39     16     53     20     21     35
                 vv
clus              CLUS_9
  MIPEP MUTATED        1
  MIPEP WILD-TYPE     49
D1657V10, multiclass
        clus
vv       MIPEP MUTATED MIPEP WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MIPEP MUTATED        0      0      1      1      0      0
  MIPEP WILD-TYPE     13     16     13     10     11      9
D1657V11, multiclass
[1] "Remove cluster labels:" "MIPEP MUTATED"         
clus
  MIPEP MUTATED MIPEP WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-CM-6679      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MIPEP MUTATED        0      0      0      0      0      0      2      0
  MIPEP WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  MIPEP MUTATED        0
  MIPEP WILD-TYPE      5
D1657V12, multiclass
[1] "Remove cluster labels:" "MIPEP MUTATED"         
clus
  MIPEP MUTATED MIPEP WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-CM-6679      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" "MIPEP WILD-TYPE" 

Clustering(1658) Variable = CENPA MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CENPA MUTATED        2      0      0      2      0
  CENPA WILD-TYPE     30     18     46     25     23
D1658V1, multiclass
        clus
vv       CENPA MUTATED CENPA WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPA MUTATED        3      1      0
  CENPA WILD-TYPE     40     66     36
D1658V2, multiclass
        clus
vv       CENPA MUTATED CENPA WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPA MUTATED        0      0      5
  CENPA WILD-TYPE     42    173    142
D1658V3, multiclass
        clus
vv       CENPA MUTATED CENPA WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPA MUTATED        1      0      1
  CENPA WILD-TYPE     61     73     74
D1658V4, multiclass
[1] "Remove cluster labels:" "CENPA MUTATED"         
clus
  CENPA MUTATED CENPA WILD-TYPE 
              2             208 
     TCGA-A6-2671      TCGA-A6-2677      TCGA-A6-3810      TCGA-A6-4105 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-A6-5656      TCGA-A6-5657      TCGA-A6-5659      TCGA-A6-5660 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-A6-5661      TCGA-A6-5662      TCGA-A6-5664      TCGA-A6-5665 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649      TCGA-A6-6651 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654      TCGA-A6-6780 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3492 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-AA-3496      TCGA-AA-3502      TCGA-AA-3510      TCGA-AA-3511 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-AA-3655      TCGA-AA-3660      TCGA-AA-3662      TCGA-AA-3663 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-AA-3697      TCGA-AA-3712      TCGA-AA-3713      TCGA-AD-5900 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6888      TCGA-AD-6889      TCGA-AD-6890 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-AD-6895      TCGA-AD-6899      TCGA-AD-6901      TCGA-AD-6963 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-AD-6964      TCGA-AD-6965      TCGA-AU-3779      TCGA-AU-6004 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197      TCGA-AY-6386 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-4681      TCGA-AZ-4682 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-AZ-5403      TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-AZ-6606      TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CA-5255      TCGA-CA-5796      TCGA-CA-5797      TCGA-CA-6715 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CA-6716      TCGA-CA-6717      TCGA-CA-6718      TCGA-CA-6719 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CK-4947      TCGA-CK-4948      TCGA-CK-4950      TCGA-CK-4952 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CK-5912      TCGA-CK-5913      TCGA-CK-5914      TCGA-CK-5915 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-D5-5538      TCGA-D5-5539      TCGA-D5-5540      TCGA-D5-5541 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-D5-6529      TCGA-D5-6532      TCGA-D5-6533      TCGA-D5-6534 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-D5-6535      TCGA-D5-6536      TCGA-D5-6537      TCGA-D5-6538 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-D5-6539      TCGA-D5-6540      TCGA-D5-6541      TCGA-D5-6898 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-D5-6920      TCGA-D5-6922      TCGA-D5-6923      TCGA-D5-6924 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-D5-6926      TCGA-D5-6927      TCGA-D5-6928      TCGA-D5-6929 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932      TCGA-D5-7000 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-DM-A0X9      TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28C 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-DM-A28E      TCGA-DM-A28F      TCGA-DM-A28G      TCGA-DM-A28H 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-DM-A28K      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704      TCGA-F4-6805 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856      TCGA-G4-6293 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304      TCGA-G4-6306 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310      TCGA-G4-6315 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323      TCGA-G4-6586 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" "CENPA WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CENPA MUTATED        0      3      2
  CENPA WILD-TYPE     70    117     98
D1658V5, multiclass
        clus
vv       CENPA MUTATED CENPA WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CENPA MUTATED        0      0      1      0      2      2      0      0
  CENPA WILD-TYPE     41     26     29     29     37     67     20     14
                 vv
clus              CLUS_9
  CENPA MUTATED        0
  CENPA WILD-TYPE     22
D1658V6, multiclass
        clus
vv       CENPA MUTATED CENPA WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CENPA MUTATED        0      1      0      4
  CENPA WILD-TYPE    100     71     72    117
D1658V7, multiclass
        clus
vv       CENPA MUTATED CENPA WILD-TYPE
  CLUS_1             0             100
  CLUS_2             1              71
  CLUS_3             0              72
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CENPA MUTATED        0      1      0      2      2
  CENPA WILD-TYPE     59     74     74    117     36
D1658V8, multiclass
        clus
vv       CENPA MUTATED CENPA WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             0              74
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CENPA MUTATED        0      0      0      0      4
  CENPA WILD-TYPE     51     76     61     71     91
D1658V9, multiclass
        clus
vv       CENPA MUTATED CENPA WILD-TYPE
  CLUS_1             0              51
  CLUS_2             0              76
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CENPA MUTATED        0      0      0      0      0      1      0      2
  CENPA WILD-TYPE     69     48     39     16     53     19     21     36
                 vv
clus              CLUS_9
  CENPA MUTATED        1
  CENPA WILD-TYPE     49
D1658V10, multiclass
        clus
vv       CENPA MUTATED CENPA WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CENPA MUTATED        0      0      0      0      0      0
  CENPA WILD-TYPE     13     16     14     11     11      9
D1658V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CENPA MUTATED        0      0      0      0      0      0      0      0
  CENPA WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  CENPA MUTATED        0
  CENPA WILD-TYPE      5
D1658V12, multiclass

Clustering(1659) Variable = OTUD4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OTUD4 MUTATED        3      0      0      2      0
  OTUD4 WILD-TYPE     29     18     46     25     23
D1659V1, multiclass
        clus
vv       OTUD4 MUTATED OTUD4 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OTUD4 MUTATED        4      1      0
  OTUD4 WILD-TYPE     39     66     36
D1659V2, multiclass
        clus
vv       OTUD4 MUTATED OTUD4 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OTUD4 MUTATED        0      4     15
  OTUD4 WILD-TYPE     42    169    132
D1659V3, multiclass
        clus
vv       OTUD4 MUTATED OTUD4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OTUD4 MUTATED        5      4      5
  OTUD4 WILD-TYPE     57     69     70
D1659V4, multiclass
        clus
vv       OTUD4 MUTATED OTUD4 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             4              69
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OTUD4 MUTATED        2      9      6
  OTUD4 WILD-TYPE     68    111     94
D1659V5, multiclass
        clus
vv       OTUD4 MUTATED OTUD4 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             9             111
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OTUD4 MUTATED        1      2      3      3      3      5      0      0
  OTUD4 WILD-TYPE     40     24     27     26     36     64     20     14
                 vv
clus              CLUS_9
  OTUD4 MUTATED        0
  OTUD4 WILD-TYPE     22
D1659V6, multiclass
        clus
vv       OTUD4 MUTATED OTUD4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             3              27
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OTUD4 MUTATED        3      8      2      6
  OTUD4 WILD-TYPE     97     64     70    115
D1659V7, multiclass
        clus
vv       OTUD4 MUTATED OTUD4 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             8              64
  CLUS_3             2              70
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OTUD4 MUTATED        0      6      7      2      4
  OTUD4 WILD-TYPE     59     69     67    117     34
D1659V8, multiclass
        clus
vv       OTUD4 MUTATED OTUD4 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             6              69
  CLUS_3             7              67
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OTUD4 MUTATED        1      9      1      1      6
  OTUD4 WILD-TYPE     50     67     60     70     89
D1659V9, multiclass
        clus
vv       OTUD4 MUTATED OTUD4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             9              67
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OTUD4 MUTATED        4      1      1      3      3      2      0      2
  OTUD4 WILD-TYPE     65     47     38     13     50     18     21     36
                 vv
clus              CLUS_9
  OTUD4 MUTATED        2
  OTUD4 WILD-TYPE     48
D1659V10, multiclass
        clus
vv       OTUD4 MUTATED OTUD4 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OTUD4 MUTATED        0      0      1      0      1      0
  OTUD4 WILD-TYPE     13     16     13     11     10      9
D1659V11, multiclass
[1] "Remove cluster labels:" "OTUD4 MUTATED"         
clus
  OTUD4 MUTATED OTUD4 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OTUD4 MUTATED        0      0      0      1      0      0      1      0
  OTUD4 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  OTUD4 MUTATED        0
  OTUD4 WILD-TYPE      5
D1659V12, multiclass
[1] "Remove cluster labels:" "OTUD4 MUTATED"         
clus
  OTUD4 MUTATED OTUD4 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" "OTUD4 WILD-TYPE" 

Clustering(1660) Variable = CASC4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASC4 MUTATED        1      0      0      1      0
  CASC4 WILD-TYPE     31     18     46     26     23
D1660V1, multiclass
[1] "Remove cluster labels:" "CASC4 MUTATED"         
clus
  CASC4 MUTATED CASC4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3555 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASC4 MUTATED        1      1      0
  CASC4 WILD-TYPE     42     66     36
D1660V2, multiclass
[1] "Remove cluster labels:" "CASC4 MUTATED"         
clus
  CASC4 MUTATED CASC4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3555 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASC4 MUTATED        0      1      4
  CASC4 WILD-TYPE     42    172    143
D1660V3, multiclass
        clus
vv       CASC4 MUTATED CASC4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASC4 MUTATED        1      1      1
  CASC4 WILD-TYPE     61     72     74
D1660V4, multiclass
        clus
vv       CASC4 MUTATED CASC4 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASC4 MUTATED        0      2      3
  CASC4 WILD-TYPE     70    118     97
D1660V5, multiclass
        clus
vv       CASC4 MUTATED CASC4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASC4 MUTATED        1      1      1      0      0      2      0      0
  CASC4 WILD-TYPE     40     25     29     29     39     67     20     14
                 vv
clus              CLUS_9
  CASC4 MUTATED        0
  CASC4 WILD-TYPE     22
D1660V6, multiclass
        clus
vv       CASC4 MUTATED CASC4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASC4 MUTATED        1      1      1      2
  CASC4 WILD-TYPE     99     71     71    119
D1660V7, multiclass
        clus
vv       CASC4 MUTATED CASC4 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASC4 MUTATED        1      1      0      2      1
  CASC4 WILD-TYPE     58     74     74    117     37
D1660V8, multiclass
        clus
vv       CASC4 MUTATED CASC4 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             0              74
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASC4 MUTATED        0      1      1      0      3
  CASC4 WILD-TYPE     51     75     60     71     92
D1660V9, multiclass
        clus
vv       CASC4 MUTATED CASC4 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASC4 MUTATED        0      0      2      0      0      1      0      2
  CASC4 WILD-TYPE     69     48     37     16     53     19     21     36
                 vv
clus              CLUS_9
  CASC4 MUTATED        0
  CASC4 WILD-TYPE     50
D1660V10, multiclass
        clus
vv       CASC4 MUTATED CASC4 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             2              37
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CASC4 MUTATED        1      1      0      0      0      0
  CASC4 WILD-TYPE     12     15     14     11     11      9
D1660V11, multiclass
[1] "Remove cluster labels:" "CASC4 MUTATED"         
clus
  CASC4 MUTATED CASC4 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6653      TCGA-A6-6654 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CASC4 MUTATED        0      1      0      0      0      0      0      1
  CASC4 WILD-TYPE     11      6      7      9      8      7     11      8
                 vv
clus              CLUS_9
  CASC4 MUTATED        0
  CASC4 WILD-TYPE      5
D1660V12, multiclass
[1] "Remove cluster labels:" "CASC4 MUTATED"         
clus
  CASC4 MUTATED CASC4 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6653      TCGA-A6-6654 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" "CASC4 WILD-TYPE" 

Clustering(1661) Variable = OR2F2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2F2 MUTATED        2      0      0      0      0
  OR2F2 WILD-TYPE     30     18     46     27     23
D1661V1, multiclass
[1] "Remove cluster labels:" "OR2F2 MUTATED"         
clus
  OR2F2 MUTATED OR2F2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3930      TCGA-AA-3939 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3968 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2F2 MUTATED        2      0      0
  OR2F2 WILD-TYPE     41     67     36
D1661V2, multiclass
[1] "Remove cluster labels:" "OR2F2 MUTATED"         
clus
  OR2F2 MUTATED OR2F2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3930      TCGA-AA-3939 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3968 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" "OR2F2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2F2 MUTATED        0      2      5
  OR2F2 WILD-TYPE     42    171    142
D1661V3, multiclass
        clus
vv       OR2F2 MUTATED OR2F2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2F2 MUTATED        4      0      1
  OR2F2 WILD-TYPE     58     73     74
D1661V4, multiclass
        clus
vv       OR2F2 MUTATED OR2F2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2F2 MUTATED        1      1      3
  OR2F2 WILD-TYPE     69    119     97
D1661V5, multiclass
        clus
vv       OR2F2 MUTATED OR2F2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2F2 MUTATED        1      0      0      1      0      2      0      0
  OR2F2 WILD-TYPE     40     26     30     28     39     67     20     14
                 vv
clus              CLUS_9
  OR2F2 MUTATED        1
  OR2F2 WILD-TYPE     21
D1661V6, multiclass
        clus
vv       OR2F2 MUTATED OR2F2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2F2 MUTATED        1      0      4      2
  OR2F2 WILD-TYPE     99     72     68    119
D1661V7, multiclass
        clus
vv       OR2F2 MUTATED OR2F2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             0              72
  CLUS_3             4              68
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2F2 MUTATED        2      0      3      0      2
  OR2F2 WILD-TYPE     57     75     71    119     36
D1661V8, multiclass
        clus
vv       OR2F2 MUTATED OR2F2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR2F2 MUTATED        1      1      3      0      2
  OR2F2 WILD-TYPE     50     75     58     71     93
D1661V9, multiclass
        clus
vv       OR2F2 MUTATED OR2F2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2F2 MUTATED        0      4      0      0      1      0      1      1
  OR2F2 WILD-TYPE     69     44     39     16     52     20     20     37
                 vv
clus              CLUS_9
  OR2F2 MUTATED        0
  OR2F2 WILD-TYPE     50
D1661V10, multiclass
        clus
vv       OR2F2 MUTATED OR2F2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR2F2 MUTATED        0      1      0      0      2      0
  OR2F2 WILD-TYPE     13     15     14     11      9      9
D1661V11, multiclass
        clus
vv       OR2F2 MUTATED OR2F2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR2F2 MUTATED        0      1      0      1      0      0      1      0
  OR2F2 WILD-TYPE     11      6      7      8      8      7     10      9
                 vv
clus              CLUS_9
  OR2F2 MUTATED        0
  OR2F2 WILD-TYPE      5
D1661V12, multiclass
        clus
vv       OR2F2 MUTATED OR2F2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1662) Variable = MPZL1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPZL1 MUTATED        1      0      0      0      0
  MPZL1 WILD-TYPE     31     18     46     27     23
D1662V1, multiclass
[1] "Remove cluster labels:" "MPZL1 MUTATED"         
clus
  MPZL1 MUTATED MPZL1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AY-4071 
"MPZL1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MPZL1 MUTATED        1      0      0
  MPZL1 WILD-TYPE     42     67     36
D1662V2, multiclass
[1] "Remove cluster labels:" "MPZL1 MUTATED"         
clus
  MPZL1 MUTATED MPZL1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" "MPZL1 WILD-TYPE" 
     TCGA-AY-4071 
"MPZL1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MPZL1 MUTATED        2      1      4
  MPZL1 WILD-TYPE     40    172    143
D1662V3, multiclass
        clus
vv       MPZL1 MUTATED MPZL1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MPZL1 MUTATED        2      1      3
  MPZL1 WILD-TYPE     60     72     72
D1662V4, multiclass
        clus
vv       MPZL1 MUTATED MPZL1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MPZL1 MUTATED        0      3      3
  MPZL1 WILD-TYPE     70    117     97
D1662V5, multiclass
        clus
vv       MPZL1 MUTATED MPZL1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MPZL1 MUTATED        0      0      1      1      1      3      0      0
  MPZL1 WILD-TYPE     41     26     29     28     38     66     20     14
                 vv
clus              CLUS_9
  MPZL1 MUTATED        0
  MPZL1 WILD-TYPE     22
D1662V6, multiclass
        clus
vv       MPZL1 MUTATED MPZL1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MPZL1 MUTATED        2      2      1      2
  MPZL1 WILD-TYPE     98     70     71    119
D1662V7, multiclass
        clus
vv       MPZL1 MUTATED MPZL1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPZL1 MUTATED        0      2      3      0      2
  MPZL1 WILD-TYPE     59     73     71    119     36
D1662V8, multiclass
        clus
vv       MPZL1 MUTATED MPZL1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MPZL1 MUTATED        0      4      0      1      2
  MPZL1 WILD-TYPE     51     72     61     70     93
D1662V9, multiclass
        clus
vv       MPZL1 MUTATED MPZL1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MPZL1 MUTATED        2      1      0      2      0      0      0      2
  MPZL1 WILD-TYPE     67     47     39     14     53     20     21     36
                 vv
clus              CLUS_9
  MPZL1 MUTATED        0
  MPZL1 WILD-TYPE     50
D1662V10, multiclass
        clus
vv       MPZL1 MUTATED MPZL1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MPZL1 MUTATED        1      0      1      0      1      0
  MPZL1 WILD-TYPE     12     16     13     11     10      9
D1662V11, multiclass
        clus
vv       MPZL1 MUTATED MPZL1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MPZL1 MUTATED        0      0      0      1      1      0      1      0
  MPZL1 WILD-TYPE     11      7      7      8      7      7     10      9
                 vv
clus              CLUS_9
  MPZL1 MUTATED        0
  MPZL1 WILD-TYPE      5
D1662V12, multiclass
        clus
vv       MPZL1 MUTATED MPZL1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1663) Variable = VN1R4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VN1R4 MUTATED        1      0      0      1      0
  VN1R4 WILD-TYPE     31     18     46     26     23
D1663V1, multiclass
[1] "Remove cluster labels:" "VN1R4 MUTATED"         
clus
  VN1R4 MUTATED VN1R4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VN1R4 MUTATED        1      1      0
  VN1R4 WILD-TYPE     42     66     36
D1663V2, multiclass
[1] "Remove cluster labels:" "VN1R4 MUTATED"         
clus
  VN1R4 MUTATED VN1R4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VN1R4 MUTATED        1      0      4
  VN1R4 WILD-TYPE     41    173    143
D1663V3, multiclass
        clus
vv       VN1R4 MUTATED VN1R4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VN1R4 MUTATED        3      0      1
  VN1R4 WILD-TYPE     59     73     74
D1663V4, multiclass
        clus
vv       VN1R4 MUTATED VN1R4 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VN1R4 MUTATED        1      1      3
  VN1R4 WILD-TYPE     69    119     97
D1663V5, multiclass
        clus
vv       VN1R4 MUTATED VN1R4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VN1R4 MUTATED        1      0      1      0      1      1      1      0
  VN1R4 WILD-TYPE     40     26     29     29     38     68     19     14
                 vv
clus              CLUS_9
  VN1R4 MUTATED        0
  VN1R4 WILD-TYPE     22
D1663V6, multiclass
        clus
vv       VN1R4 MUTATED VN1R4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VN1R4 MUTATED        0      1      3      2
  VN1R4 WILD-TYPE    100     71     69    119
D1663V7, multiclass
        clus
vv       VN1R4 MUTATED VN1R4 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VN1R4 MUTATED        2      0      2      1      1
  VN1R4 WILD-TYPE     57     75     72    118     37
D1663V8, multiclass
        clus
vv       VN1R4 MUTATED VN1R4 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VN1R4 MUTATED        0      2      2      0      2
  VN1R4 WILD-TYPE     51     74     59     71     93
D1663V9, multiclass
        clus
vv       VN1R4 MUTATED VN1R4 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VN1R4 MUTATED        0      2      0      1      1      1      0      1
  VN1R4 WILD-TYPE     69     46     39     15     52     19     21     37
                 vv
clus              CLUS_9
  VN1R4 MUTATED        0
  VN1R4 WILD-TYPE     50
D1663V10, multiclass
        clus
vv       VN1R4 MUTATED VN1R4 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VN1R4 MUTATED        0      0      0      0      1      0
  VN1R4 WILD-TYPE     13     16     14     11     10      9
D1663V11, multiclass
[1] "Remove cluster labels:" "VN1R4 MUTATED"         
clus
  VN1R4 MUTATED VN1R4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-G4-6628 
"VN1R4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VN1R4 MUTATED        0      0      0      0      0      0      1      0
  VN1R4 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  VN1R4 MUTATED        0
  VN1R4 WILD-TYPE      5
D1663V12, multiclass
[1] "Remove cluster labels:" "VN1R4 MUTATED"         
clus
  VN1R4 MUTATED VN1R4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" "VN1R4 WILD-TYPE" 
     TCGA-G4-6628 
"VN1R4 WILD-TYPE" 

Clustering(1664) Variable = KIF14 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF14 MUTATED        2      0      0      2      0
  KIF14 WILD-TYPE     30     18     46     25     23
D1664V1, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIF14 MUTATED        3      1      0
  KIF14 WILD-TYPE     40     66     36
D1664V2, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIF14 MUTATED        2      1      8
  KIF14 WILD-TYPE     40    172    139
D1664V3, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIF14 MUTATED        4      1      2
  KIF14 WILD-TYPE     58     72     73
D1664V4, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KIF14 MUTATED        2      3      3
  KIF14 WILD-TYPE     68    117     97
D1664V5, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF14 MUTATED        1      1      1      1      1      1      0      1
  KIF14 WILD-TYPE     40     25     29     28     38     68     20     13
                 vv
clus              CLUS_9
  KIF14 MUTATED        1
  KIF14 WILD-TYPE     21
D1664V6, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIF14 MUTATED        1      2      3      5
  KIF14 WILD-TYPE     99     70     69    116
D1664V7, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF14 MUTATED        3      0      3      2      3
  KIF14 WILD-TYPE     56     75     71    117     35
D1664V8, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF14 MUTATED        1      1      4      0      4
  KIF14 WILD-TYPE     50     75     57     71     91
D1664V9, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             4              57
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF14 MUTATED        3      1      0      0      1      2      0      2
  KIF14 WILD-TYPE     66     47     39     16     52     18     21     36
                 vv
clus              CLUS_9
  KIF14 MUTATED        1
  KIF14 WILD-TYPE     49
D1664V10, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIF14 MUTATED        0      1      1      0      1      0
  KIF14 WILD-TYPE     13     15     13     11     10      9
D1664V11, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF14 MUTATED        1      0      0      1      1      0      0      0
  KIF14 WILD-TYPE     10      7      7      8      7      7     11      9
                 vv
clus              CLUS_9
  KIF14 MUTATED        0
  KIF14 WILD-TYPE      5
D1664V12, multiclass
        clus
vv       KIF14 MUTATED KIF14 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1665) Variable = TRIM33 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM33 MUTATED        2      0      0      2      0
  TRIM33 WILD-TYPE     30     18     46     25     23
D1665V1, multiclass
        clus
vv       TRIM33 MUTATED TRIM33 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM33 MUTATED        3      1      0
  TRIM33 WILD-TYPE     40     66     36
D1665V2, multiclass
        clus
vv       TRIM33 MUTATED TRIM33 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM33 MUTATED        2      3     10
  TRIM33 WILD-TYPE     40    170    137
D1665V3, multiclass
        clus
vv       TRIM33 MUTATED TRIM33 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3              170
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM33 MUTATED        2      3      6
  TRIM33 WILD-TYPE     60     70     69
D1665V4, multiclass
        clus
vv       TRIM33 MUTATED TRIM33 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3               70
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM33 MUTATED        0      8      7
  TRIM33 WILD-TYPE     70    112     93
D1665V5, multiclass
        clus
vv       TRIM33 MUTATED TRIM33 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              8              112
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM33 MUTATED        0      0      1      3      2      6      3      0
  TRIM33 WILD-TYPE     41     26     29     26     37     63     17     14
                  vv
clus               CLUS_9
  TRIM33 MUTATED        0
  TRIM33 WILD-TYPE     22
D1665V6, multiclass
        clus
vv       TRIM33 MUTATED TRIM33 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM33 MUTATED        3      8      1      3
  TRIM33 WILD-TYPE     97     64     71    118
D1665V7, multiclass
        clus
vv       TRIM33 MUTATED TRIM33 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              8               64
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM33 MUTATED        0      3      8      1      3
  TRIM33 WILD-TYPE     59     72     66    118     35
D1665V8, multiclass
        clus
vv       TRIM33 MUTATED TRIM33 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              8               66
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM33 MUTATED        1      9      1      1      3
  TRIM33 WILD-TYPE     50     67     60     70     92
D1665V9, multiclass
        clus
vv       TRIM33 MUTATED TRIM33 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              9               67
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM33 MUTATED        1      1      2      5      3      1      0      2
  TRIM33 WILD-TYPE     68     47     37     11     50     19     21     36
                  vv
clus               CLUS_9
  TRIM33 MUTATED        0
  TRIM33 WILD-TYPE     50
D1665V10, multiclass
        clus
vv       TRIM33 MUTATED TRIM33 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              2               37
  CLUS_4              5               11
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM33 MUTATED        0      0      0      0      1      0
  TRIM33 WILD-TYPE     13     16     14     11     10      9
D1665V11, multiclass
[1] "Remove cluster labels:" "TRIM33 MUTATED"        
clus
  TRIM33 MUTATED TRIM33 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-G4-6628 
"TRIM33 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM33 MUTATED        0      0      0      1      0      0      0      0
  TRIM33 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  TRIM33 MUTATED        0
  TRIM33 WILD-TYPE      5
D1665V12, multiclass
[1] "Remove cluster labels:" "TRIM33 MUTATED"        
clus
  TRIM33 MUTATED TRIM33 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" "TRIM33 WILD-TYPE" 
      TCGA-G4-6628 
"TRIM33 WILD-TYPE" 

Clustering(1666) Variable = XRCC6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XRCC6 MUTATED        1      0      0      1      0
  XRCC6 WILD-TYPE     31     18     46     26     23
D1666V1, multiclass
[1] "Remove cluster labels:" "XRCC6 MUTATED"         
clus
  XRCC6 MUTATED XRCC6 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XRCC6 MUTATED        1      1      0
  XRCC6 WILD-TYPE     42     66     36
D1666V2, multiclass
[1] "Remove cluster labels:" "XRCC6 MUTATED"         
clus
  XRCC6 MUTATED XRCC6 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XRCC6 MUTATED        0      1      6
  XRCC6 WILD-TYPE     42    172    141
D1666V3, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XRCC6 MUTATED        2      1      2
  XRCC6 WILD-TYPE     60     72     73
D1666V4, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XRCC6 MUTATED        0      3      4
  XRCC6 WILD-TYPE     70    117     96
D1666V5, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XRCC6 MUTATED        1      0      1      0      1      4      0      0
  XRCC6 WILD-TYPE     40     26     29     29     38     65     20     14
                 vv
clus              CLUS_9
  XRCC6 MUTATED        0
  XRCC6 WILD-TYPE     22
D1666V6, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XRCC6 MUTATED        0      3      2      2
  XRCC6 WILD-TYPE    100     69     70    119
D1666V7, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XRCC6 MUTATED        0      0      5      1      1
  XRCC6 WILD-TYPE     59     75     69    118     37
D1666V8, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XRCC6 MUTATED        0      3      1      1      2
  XRCC6 WILD-TYPE     51     73     60     70     93
D1666V9, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XRCC6 MUTATED        1      2      0      2      0      1      0      1
  XRCC6 WILD-TYPE     68     46     39     14     53     19     21     37
                 vv
clus              CLUS_9
  XRCC6 MUTATED        0
  XRCC6 WILD-TYPE     50
D1666V10, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XRCC6 MUTATED        0      0      1      0      0      0
  XRCC6 WILD-TYPE     13     16     13     11     11      9
D1666V11, multiclass
[1] "Remove cluster labels:" "XRCC6 MUTATED"         
clus
  XRCC6 MUTATED XRCC6 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-G4-6628 
"XRCC6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XRCC6 MUTATED        0      0      0      0      0      1      0      0
  XRCC6 WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  XRCC6 MUTATED        0
  XRCC6 WILD-TYPE      5
D1666V12, multiclass
[1] "Remove cluster labels:" "XRCC6 MUTATED"         
clus
  XRCC6 MUTATED XRCC6 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" "XRCC6 WILD-TYPE" 
     TCGA-G4-6628 
"XRCC6 WILD-TYPE" 

Clustering(1667) Variable = GTDC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTDC1 MUTATED        2      0      0      1      0
  GTDC1 WILD-TYPE     30     18     46     26     23
D1667V1, multiclass
        clus
vv       GTDC1 MUTATED GTDC1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GTDC1 MUTATED        3      0      0
  GTDC1 WILD-TYPE     40     67     36
D1667V2, multiclass
        clus
vv       GTDC1 MUTATED GTDC1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GTDC1 MUTATED        1      1      7
  GTDC1 WILD-TYPE     41    172    140
D1667V3, multiclass
        clus
vv       GTDC1 MUTATED GTDC1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GTDC1 MUTATED        3      1      2
  GTDC1 WILD-TYPE     59     72     73
D1667V4, multiclass
        clus
vv       GTDC1 MUTATED GTDC1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GTDC1 MUTATED        1      2      5
  GTDC1 WILD-TYPE     69    118     95
D1667V5, multiclass
        clus
vv       GTDC1 MUTATED GTDC1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTDC1 MUTATED        2      0      0      2      0      4      0      0
  GTDC1 WILD-TYPE     39     26     30     27     39     65     20     14
                 vv
clus              CLUS_9
  GTDC1 MUTATED        0
  GTDC1 WILD-TYPE     22
D1667V6, multiclass
        clus
vv       GTDC1 MUTATED GTDC1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GTDC1 MUTATED        1      2      3      3
  GTDC1 WILD-TYPE     99     70     69    118
D1667V7, multiclass
        clus
vv       GTDC1 MUTATED GTDC1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTDC1 MUTATED        1      1      4      0      3
  GTDC1 WILD-TYPE     58     74     70    119     35
D1667V8, multiclass
        clus
vv       GTDC1 MUTATED GTDC1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTDC1 MUTATED        0      4      2      0      2
  GTDC1 WILD-TYPE     51     72     59     71     93
D1667V9, multiclass
        clus
vv       GTDC1 MUTATED GTDC1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTDC1 MUTATED        0      3      1      2      0      0      0      2
  GTDC1 WILD-TYPE     69     45     38     14     53     20     21     36
                 vv
clus              CLUS_9
  GTDC1 MUTATED        0
  GTDC1 WILD-TYPE     50
D1667V10, multiclass
        clus
vv       GTDC1 MUTATED GTDC1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GTDC1 MUTATED        1      0      0      0      1      0
  GTDC1 WILD-TYPE     12     16     14     11     10      9
D1667V11, multiclass
[1] "Remove cluster labels:" "GTDC1 MUTATED"         
clus
  GTDC1 MUTATED GTDC1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GTDC1 MUTATED        0      0      0      1      0      0      0      1
  GTDC1 WILD-TYPE     11      7      7      8      8      7     11      8
                 vv
clus              CLUS_9
  GTDC1 MUTATED        0
  GTDC1 WILD-TYPE      5
D1667V12, multiclass
[1] "Remove cluster labels:" "GTDC1 MUTATED"         
clus
  GTDC1 MUTATED GTDC1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6534      TCGA-D5-6536 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" "GTDC1 WILD-TYPE" 

Clustering(1668) Variable = SERPINB10 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SERPINB10 MUTATED        1      0      0      2      0
  SERPINB10 WILD-TYPE     31     18     46     25     23
D1668V1, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 1                  31
  CLUS_2                 0                  18
  CLUS_3                 0                  46
  CLUS_4                 2                  25
  CLUS_5                 0                  23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SERPINB10 MUTATED        2      1      0
  SERPINB10 WILD-TYPE     41     66     36
D1668V2, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 2                  41
  CLUS_2                 1                  66
  CLUS_3                 0                  36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SERPINB10 MUTATED        1      2      7
  SERPINB10 WILD-TYPE     41    171    140
D1668V3, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 1                  41
  CLUS_2                 2                 171
  CLUS_3                 7                 140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SERPINB10 MUTATED        4      2      1
  SERPINB10 WILD-TYPE     58     71     74
D1668V4, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 4                  58
  CLUS_2                 2                  71
  CLUS_3                 1                  74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SERPINB10 MUTATED        1      2      4
  SERPINB10 WILD-TYPE     69    118     96
D1668V5, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 1                  69
  CLUS_2                 2                 118
  CLUS_3                 4                  96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SERPINB10 MUTATED        2      0      1      1      0      3      0      0
  SERPINB10 WILD-TYPE     39     26     29     28     39     66     20     14
                     vv
clus                  CLUS_9
  SERPINB10 MUTATED        0
  SERPINB10 WILD-TYPE     22
D1668V6, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 2                  39
  CLUS_2                 0                  26
  CLUS_3                 1                  29
  CLUS_4                 1                  28
  CLUS_5                 0                  39
  CLUS_6                 3                  66
  CLUS_7                 0                  20
  CLUS_8                 0                  14
  CLUS_9                 0                  22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SERPINB10 MUTATED        1      2      3      4
  SERPINB10 WILD-TYPE     99     70     69    117
D1668V7, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 1                  99
  CLUS_2                 2                  70
  CLUS_3                 3                  69
  CLUS_4                 4                 117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SERPINB10 MUTATED        1      1      4      2      2
  SERPINB10 WILD-TYPE     58     74     70    117     36
D1668V8, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 1                  58
  CLUS_2                 1                  74
  CLUS_3                 4                  70
  CLUS_4                 2                 117
  CLUS_5                 2                  36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SERPINB10 MUTATED        1      2      3      0      3
  SERPINB10 WILD-TYPE     50     74     58     71     92
D1668V9, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 1                  50
  CLUS_2                 2                  74
  CLUS_3                 3                  58
  CLUS_4                 0                  71
  CLUS_5                 3                  92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SERPINB10 MUTATED        1      2      0      1      1      2      0      1
  SERPINB10 WILD-TYPE     68     46     39     15     52     18     21     37
                     vv
clus                  CLUS_9
  SERPINB10 MUTATED        1
  SERPINB10 WILD-TYPE     49
D1668V10, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 1                  68
  CLUS_2                 2                  46
  CLUS_3                 0                  39
  CLUS_4                 1                  15
  CLUS_5                 1                  52
  CLUS_6                 2                  18
  CLUS_7                 0                  21
  CLUS_8                 1                  37
  CLUS_9                 1                  49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SERPINB10 MUTATED        0      0      2      1      1      0
  SERPINB10 WILD-TYPE     13     16     12     10     10      9
D1668V11, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 0                  13
  CLUS_2                 0                  16
  CLUS_3                 2                  12
  CLUS_4                 1                  10
  CLUS_5                 1                  10
  CLUS_6                 0                   9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SERPINB10 MUTATED        0      0      0      1      1      0      2      0
  SERPINB10 WILD-TYPE     11      7      7      8      7      7      9      9
                     vv
clus                  CLUS_9
  SERPINB10 MUTATED        0
  SERPINB10 WILD-TYPE      5
D1668V12, multiclass
        clus
vv       SERPINB10 MUTATED SERPINB10 WILD-TYPE
  CLUS_1                 0                  11
  CLUS_2                 0                   7
  CLUS_3                 0                   7
  CLUS_4                 1                   8
  CLUS_5                 1                   7
  CLUS_6                 0                   7
  CLUS_7                 2                   9
  CLUS_8                 0                   9
  CLUS_9                 0                   5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1669) Variable = PCDHGA8 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHGA8 MUTATED        2      0      0      1      0
  PCDHGA8 WILD-TYPE     30     18     46     26     23
D1669V1, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA8 MUTATED        2      1      0
  PCDHGA8 WILD-TYPE     41     66     36
D1669V2, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA8 MUTATED        2      0     12
  PCDHGA8 WILD-TYPE     40    173    135
D1669V3, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               0               173
  CLUS_3              12               135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA8 MUTATED        5      0      6
  PCDHGA8 WILD-TYPE     57     73     69
D1669V4, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               0                73
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA8 MUTATED        1      6      6
  PCDHGA8 WILD-TYPE     69    114     94
D1669V5, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               6               114
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDHGA8 MUTATED        1      1      1      1      2      3      2      2
  PCDHGA8 WILD-TYPE     40     25     29     28     37     66     18     12
                   vv
clus                CLUS_9
  PCDHGA8 MUTATED        0
  PCDHGA8 WILD-TYPE     22
D1669V6, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               3                66
  CLUS_7               2                18
  CLUS_8               2                12
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA8 MUTATED        1      7      2      4
  PCDHGA8 WILD-TYPE     99     65     70    117
D1669V7, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               7                65
  CLUS_3               2                70
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHGA8 MUTATED        1      2      7      3      1
  PCDHGA8 WILD-TYPE     58     73     67    116     37
D1669V8, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               7                67
  CLUS_4               3               116
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHGA8 MUTATED        0      6      2      0      6
  PCDHGA8 WILD-TYPE     51     70     59     71     89
D1669V9, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               6                70
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDHGA8 MUTATED        0      2      1      4      0      2      1      2
  PCDHGA8 WILD-TYPE     69     46     38     12     53     18     20     36
                   vv
clus                CLUS_9
  PCDHGA8 MUTATED        2
  PCDHGA8 WILD-TYPE     48
D1669V10, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               4                12
  CLUS_5               0                53
  CLUS_6               2                18
  CLUS_7               1                20
  CLUS_8               2                36
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCDHGA8 MUTATED        0      0      0      0      3      0
  PCDHGA8 WILD-TYPE     13     16     14     11      8      9
D1669V11, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDHGA8 MUTATED        0      0      0      2      0      0      1      0
  PCDHGA8 WILD-TYPE     11      7      7      7      8      7     10      9
                   vv
clus                CLUS_9
  PCDHGA8 MUTATED        0
  PCDHGA8 WILD-TYPE      5
D1669V12, multiclass
        clus
vv       PCDHGA8 MUTATED PCDHGA8 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1670) Variable = F2R MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F2R MUTATED        1      0      0      0      0
  F2R WILD-TYPE     31     18     46     27     23
D1670V1, multiclass
[1] "Remove cluster labels:" "F2R MUTATED"           
clus
  F2R MUTATED F2R WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  F2R MUTATED        1      0      0
  F2R WILD-TYPE     42     67     36
D1670V2, multiclass
[1] "Remove cluster labels:" "F2R MUTATED"           
clus
  F2R MUTATED F2R WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  F2R MUTATED        1      2      8
  F2R WILD-TYPE     41    171    139
D1670V3, multiclass
        clus
vv       F2R MUTATED F2R WILD-TYPE
  CLUS_1           1            41
  CLUS_2           2           171
  CLUS_3           8           139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  F2R MUTATED        2      2      6
  F2R WILD-TYPE     60     71     69
D1670V4, multiclass
        clus
vv       F2R MUTATED F2R WILD-TYPE
  CLUS_1           2            60
  CLUS_2           2            71
  CLUS_3           6            69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  F2R MUTATED        0      4      5
  F2R WILD-TYPE     70    116     95
D1670V5, multiclass
        clus
vv       F2R MUTATED F2R WILD-TYPE
  CLUS_1           0            70
  CLUS_2           4           116
  CLUS_3           5            95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  F2R MUTATED        1      0      0      1      0      4      2      1      0
  F2R WILD-TYPE     40     26     30     28     39     65     18     13     22
D1670V6, multiclass
        clus
vv       F2R MUTATED F2R WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           1            28
  CLUS_5           0            39
  CLUS_6           4            65
  CLUS_7           2            18
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  F2R MUTATED        2      6      2      1
  F2R WILD-TYPE     98     66     70    120
D1670V7, multiclass
        clus
vv       F2R MUTATED F2R WILD-TYPE
  CLUS_1           2            98
  CLUS_2           6            66
  CLUS_3           2            70
  CLUS_4           1           120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F2R MUTATED        3      2      5      0      1
  F2R WILD-TYPE     56     73     69    119     37
D1670V8, multiclass
        clus
vv       F2R MUTATED F2R WILD-TYPE
  CLUS_1           3            56
  CLUS_2           2            73
  CLUS_3           5            69
  CLUS_4           0           119
  CLUS_5           1            37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F2R MUTATED        2      6      1      1      1
  F2R WILD-TYPE     49     70     60     70     94
D1670V9, multiclass
        clus
vv       F2R MUTATED F2R WILD-TYPE
  CLUS_1           2            49
  CLUS_2           6            70
  CLUS_3           1            60
  CLUS_4           1            70
  CLUS_5           1            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  F2R MUTATED        2      3      1      2      2      0      0      1      0
  F2R WILD-TYPE     67     45     38     14     51     20     21     37     50
D1670V10, multiclass
        clus
vv       F2R MUTATED F2R WILD-TYPE
  CLUS_1           2            67
  CLUS_2           3            45
  CLUS_3           1            38
  CLUS_4           2            14
  CLUS_5           2            51
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           1            37
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  F2R MUTATED        0      0      0      0      0      1
  F2R WILD-TYPE     13     16     14     11     11      8
D1670V11, multiclass
[1] "Remove cluster labels:" "F2R MUTATED"           
clus
  F2R MUTATED F2R WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AD-5900    TCGA-AD-6548    TCGA-AD-6889 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  F2R MUTATED        0      0      0      0      0      0      0      1      0
  F2R WILD-TYPE     11      7      7      9      8      7     11      8      5
D1670V12, multiclass
[1] "Remove cluster labels:" "F2R MUTATED"           
clus
  F2R MUTATED F2R WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AD-5900    TCGA-AD-6548    TCGA-AD-6889 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965    TCGA-AY-6196 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598    TCGA-AZ-6600 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607    TCGA-CA-6718 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"F2R WILD-TYPE" "F2R WILD-TYPE" "F2R WILD-TYPE" 

Clustering(1671) Variable = C17ORF58 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C17ORF58 MUTATED        0      0      0      0      0
  C17ORF58 WILD-TYPE     32     18     46     27     23
D1671V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF58 MUTATED        0      0      0
  C17ORF58 WILD-TYPE     43     67     36
D1671V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF58 MUTATED        0      0      3
  C17ORF58 WILD-TYPE     42    173    144
D1671V3, multiclass
        clus
vv       C17ORF58 MUTATED C17ORF58 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                173
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF58 MUTATED        1      0      2
  C17ORF58 WILD-TYPE     61     73     73
D1671V4, multiclass
        clus
vv       C17ORF58 MUTATED C17ORF58 WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                0                 73
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF58 MUTATED        0      0      1
  C17ORF58 WILD-TYPE     70    120     99
D1671V5, multiclass
[1] "Remove cluster labels:" "C17ORF58 MUTATED"      
clus
  C17ORF58 MUTATED C17ORF58 WILD-TYPE 
                 1                289 
        TCGA-A6-2671         TCGA-A6-2672         TCGA-A6-2676 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-3810         TCGA-A6-5656         TCGA-A6-5657 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-5659         TCGA-A6-5660         TCGA-A6-5661 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-5662         TCGA-A6-5664         TCGA-A6-5665 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-5666         TCGA-A6-6137         TCGA-A6-6138 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6648 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6649         TCGA-A6-6651         TCGA-A6-6652 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6780 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3492         TCGA-AA-3496         TCGA-AA-3502 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3510         TCGA-AA-3511         TCGA-AA-3514 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3519         TCGA-AA-3520 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3525 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3548 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3558         TCGA-AA-3560 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3655 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3672         TCGA-AA-3678 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3681         TCGA-AA-3688         TCGA-AA-3695 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3696         TCGA-AA-3697         TCGA-AA-3710 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3712         TCGA-AA-3713         TCGA-AA-3715 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3811         TCGA-AA-3812         TCGA-AA-3814 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3815         TCGA-AA-3818         TCGA-AA-3819 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3848 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3850         TCGA-AA-3852         TCGA-AA-3854 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3861         TCGA-AA-3864 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3869         TCGA-AA-3872 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3947         TCGA-AA-3950 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3955         TCGA-AA-3968         TCGA-AA-3971 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3986         TCGA-AA-3989 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00E 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00Q 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A010         TCGA-AA-A017 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A01D         TCGA-AA-A01F         TCGA-AA-A01I 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01P         TCGA-AA-A01Q 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A01R         TCGA-AA-A01S         TCGA-AA-A01T 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A01V         TCGA-AA-A01X         TCGA-AA-A022 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A024         TCGA-AA-A029         TCGA-AA-A02F 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A02H         TCGA-AA-A02J         TCGA-AA-A02K 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A02O         TCGA-AA-A02W         TCGA-AA-A02Y 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A03F         TCGA-AA-A03J         TCGA-AD-5900 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AD-6548         TCGA-AD-6889         TCGA-AD-6899 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AU-6004         TCGA-AY-5543 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AY-6196         TCGA-AY-6197         TCGA-AY-6386 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-4315         TCGA-AZ-4323         TCGA-AZ-4616 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-4682         TCGA-AZ-5407         TCGA-AZ-6598 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-6599         TCGA-AZ-6600         TCGA-AZ-6601 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6606 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-AZ-6608         TCGA-CA-5254 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CA-5255         TCGA-CA-5796         TCGA-CA-5797 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CA-6715         TCGA-CA-6716         TCGA-CA-6717 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5914 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6746         TCGA-CK-6747 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CK-6751         TCGA-CM-4743 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-4744         TCGA-CM-4746         TCGA-CM-4747 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-4752         TCGA-CM-5341         TCGA-CM-5344 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-5348         TCGA-CM-5349         TCGA-CM-5860 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-5861         TCGA-CM-5862         TCGA-CM-5863 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-5864         TCGA-CM-5868         TCGA-CM-6161 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6162         TCGA-CM-6163         TCGA-CM-6164 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6165         TCGA-CM-6166         TCGA-CM-6167 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6168         TCGA-CM-6169         TCGA-CM-6170 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6171         TCGA-CM-6172         TCGA-CM-6674 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6675         TCGA-CM-6676         TCGA-CM-6677 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-5538         TCGA-D5-5539         TCGA-D5-5540 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-5541         TCGA-D5-6529         TCGA-D5-6532 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6535 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6536         TCGA-D5-6537         TCGA-D5-6538 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6539         TCGA-D5-6540         TCGA-D5-6541 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6898         TCGA-D5-6920         TCGA-D5-6922 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6923         TCGA-D5-6924         TCGA-D5-6926 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6927         TCGA-D5-6928         TCGA-D5-6930 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6931         TCGA-D5-6932         TCGA-DM-A0X9 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D4 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A1D6         TCGA-DM-A1D7         TCGA-DM-A1D8 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1DB 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A1HB         TCGA-DM-A282 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A28C         TCGA-DM-A28E         TCGA-DM-A28F 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A28G         TCGA-F4-6459         TCGA-F4-6460 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6703 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6704         TCGA-F4-6805         TCGA-F4-6806 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6854         TCGA-F4-6855         TCGA-F4-6856 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6293         TCGA-G4-6299         TCGA-G4-6303 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6304         TCGA-G4-6306         TCGA-G4-6307 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6310         TCGA-G4-6315 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6317         TCGA-G4-6321         TCGA-G4-6323 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6586         TCGA-G4-6625         TCGA-G4-6626 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6628 
"C17ORF58 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C17ORF58 MUTATED        0      0      0      0      0      1      0      0
  C17ORF58 WILD-TYPE     41     26     30     29     39     68     20     14
                    vv
clus                 CLUS_9
  C17ORF58 MUTATED        0
  C17ORF58 WILD-TYPE     22
D1671V6, multiclass
[1] "Remove cluster labels:" "C17ORF58 MUTATED"      
clus
  C17ORF58 MUTATED C17ORF58 WILD-TYPE 
                 1                289 
        TCGA-A6-2671         TCGA-A6-2672         TCGA-A6-2676 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-3810         TCGA-A6-5656         TCGA-A6-5657 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-5659         TCGA-A6-5660         TCGA-A6-5661 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-5662         TCGA-A6-5664         TCGA-A6-5665 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-5666         TCGA-A6-6137         TCGA-A6-6138 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6648 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6649         TCGA-A6-6651         TCGA-A6-6652 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6780 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3492         TCGA-AA-3496         TCGA-AA-3502 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3510         TCGA-AA-3511         TCGA-AA-3514 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3519         TCGA-AA-3520 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3525 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3548 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3558         TCGA-AA-3560 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3655 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3672         TCGA-AA-3678 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3681         TCGA-AA-3688         TCGA-AA-3695 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3696         TCGA-AA-3697         TCGA-AA-3710 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3712         TCGA-AA-3713         TCGA-AA-3715 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3811         TCGA-AA-3812         TCGA-AA-3814 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3815         TCGA-AA-3818         TCGA-AA-3819 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3848 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3850         TCGA-AA-3852         TCGA-AA-3854 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3861         TCGA-AA-3864 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3869         TCGA-AA-3872 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3947         TCGA-AA-3950 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3955         TCGA-AA-3968         TCGA-AA-3971 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3986         TCGA-AA-3989 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00E 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00Q 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A010         TCGA-AA-A017 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A01D         TCGA-AA-A01F         TCGA-AA-A01I 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01P         TCGA-AA-A01Q 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A01R         TCGA-AA-A01S         TCGA-AA-A01T 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A01V         TCGA-AA-A01X         TCGA-AA-A022 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A024         TCGA-AA-A029         TCGA-AA-A02F 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A02H         TCGA-AA-A02J         TCGA-AA-A02K 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A02O         TCGA-AA-A02W         TCGA-AA-A02Y 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-A03F         TCGA-AA-A03J         TCGA-AD-5900 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AD-6548         TCGA-AD-6889         TCGA-AD-6899 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AU-6004         TCGA-AY-5543 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AY-6196         TCGA-AY-6197         TCGA-AY-6386 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-4315         TCGA-AZ-4323         TCGA-AZ-4616 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-4682         TCGA-AZ-5407         TCGA-AZ-6598 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-6599         TCGA-AZ-6600         TCGA-AZ-6601 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6606 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-6607         TCGA-AZ-6608         TCGA-CA-5254 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CA-5255         TCGA-CA-5796         TCGA-CA-5797 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CA-6715         TCGA-CA-6716         TCGA-CA-6717 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5914 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6746         TCGA-CK-6747 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CK-6751         TCGA-CM-4743 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-4744         TCGA-CM-4746         TCGA-CM-4747 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-4752         TCGA-CM-5341         TCGA-CM-5344 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-5348         TCGA-CM-5349         TCGA-CM-5860 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-5861         TCGA-CM-5862         TCGA-CM-5863 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-5864         TCGA-CM-5868         TCGA-CM-6161 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6162         TCGA-CM-6163         TCGA-CM-6164 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6165         TCGA-CM-6166         TCGA-CM-6167 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6168         TCGA-CM-6169         TCGA-CM-6170 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6171         TCGA-CM-6172         TCGA-CM-6674 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6675         TCGA-CM-6676         TCGA-CM-6677 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-5538         TCGA-D5-5539         TCGA-D5-5540 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-5541         TCGA-D5-6529         TCGA-D5-6532 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6535 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6536         TCGA-D5-6537         TCGA-D5-6538 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6539         TCGA-D5-6540         TCGA-D5-6541 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6898         TCGA-D5-6920         TCGA-D5-6922 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6923         TCGA-D5-6924         TCGA-D5-6926 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6927         TCGA-D5-6928         TCGA-D5-6930 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6931         TCGA-D5-6932         TCGA-DM-A0X9 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D4 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A1D6         TCGA-DM-A1D7         TCGA-DM-A1D8 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1DB 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A1HB         TCGA-DM-A282 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A28C         TCGA-DM-A28E         TCGA-DM-A28F 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A28G         TCGA-F4-6459         TCGA-F4-6460 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6703 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6704         TCGA-F4-6805         TCGA-F4-6806 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6854         TCGA-F4-6855         TCGA-F4-6856 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6293         TCGA-G4-6299         TCGA-G4-6303 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6304         TCGA-G4-6306         TCGA-G4-6307 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6310         TCGA-G4-6315 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6317         TCGA-G4-6321         TCGA-G4-6323 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6586         TCGA-G4-6625         TCGA-G4-6626 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6628 
"C17ORF58 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C17ORF58 MUTATED        0      2      1      0
  C17ORF58 WILD-TYPE    100     70     71    121
D1671V7, multiclass
        clus
vv       C17ORF58 MUTATED C17ORF58 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                2                 70
  CLUS_3                1                 71
  CLUS_4                0                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C17ORF58 MUTATED        0      0      3      0      0
  C17ORF58 WILD-TYPE     59     75     71    119     38
D1671V8, multiclass
        clus
vv       C17ORF58 MUTATED C17ORF58 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                0                 75
  CLUS_3                3                 71
  CLUS_4                0                119
  CLUS_5                0                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C17ORF58 MUTATED        0      2      1      0      0
  C17ORF58 WILD-TYPE     51     74     60     71     95
D1671V9, multiclass
        clus
vv       C17ORF58 MUTATED C17ORF58 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                2                 74
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                0                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C17ORF58 MUTATED        0      0      0      2      1      0      0      0
  C17ORF58 WILD-TYPE     69     48     39     14     52     20     21     38
                    vv
clus                 CLUS_9
  C17ORF58 MUTATED        0
  C17ORF58 WILD-TYPE     50
D1671V10, multiclass
        clus
vv       C17ORF58 MUTATED C17ORF58 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                0                 48
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C17ORF58 MUTATED        0      0      1      0      0      0
  C17ORF58 WILD-TYPE     13     16     13     11     11      9
D1671V11, multiclass
[1] "Remove cluster labels:" "C17ORF58 MUTATED"      
clus
  C17ORF58 MUTATED C17ORF58 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6628 
"C17ORF58 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C17ORF58 MUTATED        0      0      0      0      1      0      0      0
  C17ORF58 WILD-TYPE     11      7      7      9      7      7     11      9
                    vv
clus                 CLUS_9
  C17ORF58 MUTATED        0
  C17ORF58 WILD-TYPE      5
D1671V12, multiclass
[1] "Remove cluster labels:" "C17ORF58 MUTATED"      
clus
  C17ORF58 MUTATED C17ORF58 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" "C17ORF58 WILD-TYPE" 
        TCGA-G4-6628 
"C17ORF58 WILD-TYPE" 

Clustering(1672) Variable = TEX13A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEX13A MUTATED        4      0      2      0      0
  TEX13A WILD-TYPE     28     18     44     27     23
D1672V1, multiclass
        clus
vv       TEX13A MUTATED TEX13A WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              2               44
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TEX13A MUTATED        3      2      1
  TEX13A WILD-TYPE     40     65     35
D1672V2, multiclass
        clus
vv       TEX13A MUTATED TEX13A WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TEX13A MUTATED        0      2      7
  TEX13A WILD-TYPE     42    171    140
D1672V3, multiclass
        clus
vv       TEX13A MUTATED TEX13A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TEX13A MUTATED        2      0      2
  TEX13A WILD-TYPE     60     73     73
D1672V4, multiclass
        clus
vv       TEX13A MUTATED TEX13A WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TEX13A MUTATED        2      1      5
  TEX13A WILD-TYPE     68    119     95
D1672V5, multiclass
        clus
vv       TEX13A MUTATED TEX13A WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1              119
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TEX13A MUTATED        1      0      1      0      0      4      1      1
  TEX13A WILD-TYPE     40     26     29     29     39     65     19     13
                  vv
clus               CLUS_9
  TEX13A MUTATED        0
  TEX13A WILD-TYPE     22
D1672V6, multiclass
        clus
vv       TEX13A MUTATED TEX13A WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TEX13A MUTATED        0      2      2      6
  TEX13A WILD-TYPE    100     70     70    115
D1672V7, multiclass
        clus
vv       TEX13A MUTATED TEX13A WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              2               70
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEX13A MUTATED        1      1      2      4      2
  TEX13A WILD-TYPE     58     74     72    115     36
D1672V8, multiclass
        clus
vv       TEX13A MUTATED TEX13A WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              4              115
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEX13A MUTATED        0      2      2      2      4
  TEX13A WILD-TYPE     51     74     59     69     91
D1672V9, multiclass
        clus
vv       TEX13A MUTATED TEX13A WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TEX13A MUTATED        2      2      1      0      1      0      1      2
  TEX13A WILD-TYPE     67     46     38     16     52     20     20     36
                  vv
clus               CLUS_9
  TEX13A MUTATED        1
  TEX13A WILD-TYPE     49
D1672V10, multiclass
        clus
vv       TEX13A MUTATED TEX13A WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TEX13A MUTATED        0      1      0      0      0      0
  TEX13A WILD-TYPE     13     15     14     11     11      9
D1672V11, multiclass
[1] "Remove cluster labels:" "TEX13A MUTATED"        
clus
  TEX13A MUTATED TEX13A WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6674 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-G4-6628 
"TEX13A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TEX13A MUTATED        0      1      0      0      0      0      0      0
  TEX13A WILD-TYPE     11      6      7      9      8      7     11      9
                  vv
clus               CLUS_9
  TEX13A MUTATED        0
  TEX13A WILD-TYPE      5
D1672V12, multiclass
[1] "Remove cluster labels:" "TEX13A MUTATED"        
clus
  TEX13A MUTATED TEX13A WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6674 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" "TEX13A WILD-TYPE" 
      TCGA-G4-6628 
"TEX13A WILD-TYPE" 

Clustering(1673) Variable = LCT MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LCT MUTATED        8      0      0      2      0
  LCT WILD-TYPE     24     18     46     25     23
D1673V1, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           8            24
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCT MUTATED        8      1      1
  LCT WILD-TYPE     35     66     35
D1673V2, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           8            35
  CLUS_2           1            66
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCT MUTATED        3      8     22
  LCT WILD-TYPE     39    165    125
D1673V3, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           3            39
  CLUS_2           8           165
  CLUS_3          22           125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCT MUTATED        9      6      6
  LCT WILD-TYPE     53     67     69
D1673V4, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           9            53
  CLUS_2           6            67
  CLUS_3           6            69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCT MUTATED        3      4     19
  LCT WILD-TYPE     67    116     81
D1673V5, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           3            67
  CLUS_2           4           116
  CLUS_3          19            81
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LCT MUTATED        5      0      2      0      2     13      1      1      2
  LCT WILD-TYPE     36     26     28     29     37     56     19     13     20
D1673V6, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           5            36
  CLUS_2           0            26
  CLUS_3           2            28
  CLUS_4           0            29
  CLUS_5           2            37
  CLUS_6          13            56
  CLUS_7           1            19
  CLUS_8           1            13
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LCT MUTATED        8      6      8     11
  LCT WILD-TYPE     92     66     64    110
D1673V7, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           8            92
  CLUS_2           6            66
  CLUS_3           8            64
  CLUS_4          11           110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LCT MUTATED        6      7      8      4      8
  LCT WILD-TYPE     53     68     66    115     30
D1673V8, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           6            53
  CLUS_2           7            68
  CLUS_3           8            66
  CLUS_4           4           115
  CLUS_5           8            30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LCT MUTATED        3      9      6      2     10
  LCT WILD-TYPE     48     67     55     69     85
D1673V9, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           3            48
  CLUS_2           9            67
  CLUS_3           6            55
  CLUS_4           2            69
  CLUS_5          10            85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LCT MUTATED        4      7      1      2      4      3      0      8      1
  LCT WILD-TYPE     65     41     38     14     49     17     21     30     49
D1673V10, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           4            65
  CLUS_2           7            41
  CLUS_3           1            38
  CLUS_4           2            14
  CLUS_5           4            49
  CLUS_6           3            17
  CLUS_7           0            21
  CLUS_8           8            30
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LCT MUTATED        0      0      1      1      3      2
  LCT WILD-TYPE     13     16     13     10      8      7
D1673V11, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           0            13
  CLUS_2           0            16
  CLUS_3           1            13
  CLUS_4           1            10
  CLUS_5           3             8
  CLUS_6           2             7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LCT MUTATED        2      0      1      0      0      2      2      0      0
  LCT WILD-TYPE      9      7      6      9      8      5      9      9      5
D1673V12, multiclass
        clus
vv       LCT MUTATED LCT WILD-TYPE
  CLUS_1           2             9
  CLUS_2           0             7
  CLUS_3           1             6
  CLUS_4           0             9
  CLUS_5           0             8
  CLUS_6           2             5
  CLUS_7           2             9
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1674) Variable = IDI1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDI1 MUTATED        1      0      0      0      0
  IDI1 WILD-TYPE     31     18     46     27     23
D1674V1, multiclass
[1] "Remove cluster labels:" "IDI1 MUTATED"          
clus
  IDI1 MUTATED IDI1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AY-4071 
"IDI1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDI1 MUTATED        0      0      1
  IDI1 WILD-TYPE     43     67     35
D1674V2, multiclass
[1] "Remove cluster labels:" "IDI1 MUTATED"          
clus
  IDI1 MUTATED IDI1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AY-4071 
"IDI1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDI1 MUTATED        1      0      3
  IDI1 WILD-TYPE     41    173    144
D1674V3, multiclass
        clus
vv       IDI1 MUTATED IDI1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3            3            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDI1 MUTATED        1      0      2
  IDI1 WILD-TYPE     61     73     73
D1674V4, multiclass
        clus
vv       IDI1 MUTATED IDI1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDI1 MUTATED        1      1      1
  IDI1 WILD-TYPE     69    119     99
D1674V5, multiclass
        clus
vv       IDI1 MUTATED IDI1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            119
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDI1 MUTATED        0      0      0      1      0      0      2      0      0
  IDI1 WILD-TYPE     41     26     30     28     39     69     18     14     22
D1674V6, multiclass
        clus
vv       IDI1 MUTATED IDI1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            0             69
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDI1 MUTATED        0      2      1      1
  IDI1 WILD-TYPE    100     70     71    120
D1674V7, multiclass
        clus
vv       IDI1 MUTATED IDI1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            2             70
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDI1 MUTATED        0      0      3      1      0
  IDI1 WILD-TYPE     59     75     71    118     38
D1674V8, multiclass
        clus
vv       IDI1 MUTATED IDI1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDI1 MUTATED        0      3      0      1      0
  IDI1 WILD-TYPE     51     73     61     70     95
D1674V9, multiclass
        clus
vv       IDI1 MUTATED IDI1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDI1 MUTATED        0      0      0      2      1      1      0      0      0
  IDI1 WILD-TYPE     69     48     39     14     52     19     21     38     50
D1674V10, multiclass
        clus
vv       IDI1 MUTATED IDI1 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IDI1 MUTATED        0      0      0      0      2      0
  IDI1 WILD-TYPE     13     16     14     11      9      9
D1674V11, multiclass
[1] "Remove cluster labels:" "IDI1 MUTATED"          
clus
  IDI1 MUTATED IDI1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IDI1 MUTATED        0      0      0      1      1      0      0      0      0
  IDI1 WILD-TYPE     11      7      7      8      7      7     11      9      5
D1674V12, multiclass
[1] "Remove cluster labels:" "IDI1 MUTATED"          
clus
  IDI1 MUTATED IDI1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" "IDI1 WILD-TYPE" 

Clustering(1675) Variable = C6ORF15 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF15 MUTATED        2      0      0      0      0
  C6ORF15 WILD-TYPE     30     18     46     27     23
D1675V1, multiclass
[1] "Remove cluster labels:" "C6ORF15 MUTATED"       
clus
  C6ORF15 MUTATED C6ORF15 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3837 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C6ORF15 MUTATED        2      0      0
  C6ORF15 WILD-TYPE     41     67     36
D1675V2, multiclass
[1] "Remove cluster labels:" "C6ORF15 MUTATED"       
clus
  C6ORF15 MUTATED C6ORF15 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3837 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C6ORF15 MUTATED        0      0      6
  C6ORF15 WILD-TYPE     42    173    141
D1675V3, multiclass
        clus
vv       C6ORF15 MUTATED C6ORF15 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C6ORF15 MUTATED        2      0      2
  C6ORF15 WILD-TYPE     60     73     73
D1675V4, multiclass
        clus
vv       C6ORF15 MUTATED C6ORF15 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C6ORF15 MUTATED        0      1      4
  C6ORF15 WILD-TYPE     70    119     96
D1675V5, multiclass
        clus
vv       C6ORF15 MUTATED C6ORF15 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               1               119
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF15 MUTATED        0      0      0      1      0      4      0      0
  C6ORF15 WILD-TYPE     41     26     30     28     39     65     20     14
                   vv
clus                CLUS_9
  C6ORF15 MUTATED        0
  C6ORF15 WILD-TYPE     22
D1675V6, multiclass
        clus
vv       C6ORF15 MUTATED C6ORF15 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C6ORF15 MUTATED        0      3      1      2
  C6ORF15 WILD-TYPE    100     69     71    119
D1675V7, multiclass
        clus
vv       C6ORF15 MUTATED C6ORF15 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               1                71
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF15 MUTATED        0      1      3      0      2
  C6ORF15 WILD-TYPE     59     74     71    119     36
D1675V8, multiclass
        clus
vv       C6ORF15 MUTATED C6ORF15 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               0               119
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C6ORF15 MUTATED        0      3      1      0      2
  C6ORF15 WILD-TYPE     51     73     60     71     93
D1675V9, multiclass
        clus
vv       C6ORF15 MUTATED C6ORF15 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF15 MUTATED        0      2      0      1      0      0      2      0
  C6ORF15 WILD-TYPE     69     46     39     15     53     20     19     38
                   vv
clus                CLUS_9
  C6ORF15 MUTATED        1
  C6ORF15 WILD-TYPE     49
D1675V10, multiclass
        clus
vv       C6ORF15 MUTATED C6ORF15 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               2                19
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C6ORF15 MUTATED        0      0      0      0      1      0
  C6ORF15 WILD-TYPE     13     16     14     11     10      9
D1675V11, multiclass
[1] "Remove cluster labels:" "C6ORF15 MUTATED"       
clus
  C6ORF15 MUTATED C6ORF15 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-G4-6628 
"C6ORF15 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C6ORF15 MUTATED        0      0      0      0      0      0      1      0
  C6ORF15 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  C6ORF15 MUTATED        0
  C6ORF15 WILD-TYPE      5
D1675V12, multiclass
[1] "Remove cluster labels:" "C6ORF15 MUTATED"       
clus
  C6ORF15 MUTATED C6ORF15 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" "C6ORF15 WILD-TYPE" 
       TCGA-G4-6628 
"C6ORF15 WILD-TYPE" 

Clustering(1676) Variable = MYO3A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYO3A MUTATED        6      1      0      2      0
  MYO3A WILD-TYPE     26     17     46     25     23
D1676V1, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1             6              26
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO3A MUTATED        7      2      0
  MYO3A WILD-TYPE     36     65     36
D1676V2, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1             7              36
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO3A MUTATED        5      9     23
  MYO3A WILD-TYPE     37    164    124
D1676V3, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1             5              37
  CLUS_2             9             164
  CLUS_3            23             124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO3A MUTATED       11      7     12
  MYO3A WILD-TYPE     51     66     63
D1676V4, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1            11              51
  CLUS_2             7              66
  CLUS_3            12              63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO3A MUTATED        2     15     15
  MYO3A WILD-TYPE     68    105     85
D1676V5, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1             2              68
  CLUS_2            15             105
  CLUS_3            15              85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYO3A MUTATED        2      5      2      1      6     13      1      1
  MYO3A WILD-TYPE     39     21     28     28     33     56     19     13
                 vv
clus              CLUS_9
  MYO3A MUTATED        1
  MYO3A WILD-TYPE     21
D1676V6, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1             2              39
  CLUS_2             5              21
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             6              33
  CLUS_6            13              56
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO3A MUTATED       10     10      8      9
  MYO3A WILD-TYPE     90     62     64    112
D1676V7, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1            10              90
  CLUS_2            10              62
  CLUS_3             8              64
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYO3A MUTATED        6     11     10      3      7
  MYO3A WILD-TYPE     53     64     64    116     31
D1676V8, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1             6              53
  CLUS_2            11              64
  CLUS_3            10              64
  CLUS_4             3             116
  CLUS_5             7              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYO3A MUTATED        5     14      5      4      7
  MYO3A WILD-TYPE     46     62     56     67     88
D1676V9, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1             5              46
  CLUS_2            14              62
  CLUS_3             5              56
  CLUS_4             4              67
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYO3A MUTATED        8      6      3      5      4      2      1      4
  MYO3A WILD-TYPE     61     42     36     11     49     18     20     34
                 vv
clus              CLUS_9
  MYO3A MUTATED        2
  MYO3A WILD-TYPE     48
D1676V10, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1             8              61
  CLUS_2             6              42
  CLUS_3             3              36
  CLUS_4             5              11
  CLUS_5             4              49
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MYO3A MUTATED        1      0      1      0      4      0
  MYO3A WILD-TYPE     12     16     13     11      7      9
D1676V11, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MYO3A MUTATED        0      0      0      1      1      1      2      0
  MYO3A WILD-TYPE     11      7      7      8      7      6      9      9
                 vv
clus              CLUS_9
  MYO3A MUTATED        1
  MYO3A WILD-TYPE      4
D1676V12, multiclass
        clus
vv       MYO3A MUTATED MYO3A WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1677) Variable = C5 MUTATION ANALYSIS
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5 MUTATED        2      0      2      2      1
  C5 WILD-TYPE     30     18     44     25     22
D1677V1, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          2           30
  CLUS_2          0           18
  CLUS_3          2           44
  CLUS_4          2           25
  CLUS_5          1           22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  C5 MUTATED        3      3      1
  C5 WILD-TYPE     40     64     35
D1677V2, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          3           40
  CLUS_2          3           64
  CLUS_3          1           35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  C5 MUTATED        2      4     10
  C5 WILD-TYPE     40    169    137
D1677V3, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          2           40
  CLUS_2          4          169
  CLUS_3         10          137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  C5 MUTATED        6      0      3
  C5 WILD-TYPE     56     73     72
D1677V4, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          6           56
  CLUS_2          0           73
  CLUS_3          3           72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  C5 MUTATED        3      5      7
  C5 WILD-TYPE     67    115     93
D1677V5, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          3           67
  CLUS_2          5          115
  CLUS_3          7           93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  C5 MUTATED        1      0      1      2      2      6      2      0      1
  C5 WILD-TYPE     40     26     29     27     37     63     18     14     21
D1677V6, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          1           40
  CLUS_2          0           26
  CLUS_3          1           29
  CLUS_4          2           27
  CLUS_5          2           37
  CLUS_6          6           63
  CLUS_7          2           18
  CLUS_8          0           14
  CLUS_9          1           21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C5 MUTATED        3      2      6      6
  C5 WILD-TYPE     97     70     66    115
D1677V7, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          3           97
  CLUS_2          2           70
  CLUS_3          6           66
  CLUS_4          6          115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5 MUTATED        3      2      5      4      3
  C5 WILD-TYPE     56     73     69    115     35
D1677V8, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          3           56
  CLUS_2          2           73
  CLUS_3          5           69
  CLUS_4          4          115
  CLUS_5          3           35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5 MUTATED        1      5      1      2      7
  C5 WILD-TYPE     50     71     60     69     88
D1677V9, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          1           50
  CLUS_2          5           71
  CLUS_3          1           60
  CLUS_4          2           69
  CLUS_5          7           88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  C5 MUTATED        1      5      1      1      2      1      1      1      3
  C5 WILD-TYPE     68     43     38     15     51     19     20     37     47
D1677V10, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          1           68
  CLUS_2          5           43
  CLUS_3          1           38
  CLUS_4          1           15
  CLUS_5          2           51
  CLUS_6          1           19
  CLUS_7          1           20
  CLUS_8          1           37
  CLUS_9          3           47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C5 MUTATED        1      2      3      0      0      0
  C5 WILD-TYPE     12     14     11     11     11      9
D1677V11, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          1           12
  CLUS_2          2           14
  CLUS_3          3           11
  CLUS_4          0           11
  CLUS_5          0           11
  CLUS_6          0            9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  C5 MUTATED        0      1      1      1      1      1      1      0      0
  C5 WILD-TYPE     11      6      6      8      7      6     10      9      5
D1677V12, multiclass
        clus
vv       C5 MUTATED C5 WILD-TYPE
  CLUS_1          0           11
  CLUS_2          1            6
  CLUS_3          1            6
  CLUS_4          1            8
  CLUS_5          1            7
  CLUS_6          1            6
  CLUS_7          1           10
  CLUS_8          0            9
  CLUS_9          0            5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1678) Variable = MICAL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MICAL1 MUTATED        1      0      0      0      0
  MICAL1 WILD-TYPE     31     18     46     27     23
D1678V1, multiclass
[1] "Remove cluster labels:" "MICAL1 MUTATED"        
clus
  MICAL1 MUTATED MICAL1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AY-4071 
"MICAL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MICAL1 MUTATED        1      0      0
  MICAL1 WILD-TYPE     42     67     36
D1678V2, multiclass
[1] "Remove cluster labels:" "MICAL1 MUTATED"        
clus
  MICAL1 MUTATED MICAL1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" "MICAL1 WILD-TYPE" 
      TCGA-AY-4071 
"MICAL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MICAL1 MUTATED        0      0      9
  MICAL1 WILD-TYPE     42    173    138
D1678V3, multiclass
        clus
vv       MICAL1 MUTATED MICAL1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MICAL1 MUTATED        4      0      3
  MICAL1 WILD-TYPE     58     73     72
D1678V4, multiclass
        clus
vv       MICAL1 MUTATED MICAL1 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MICAL1 MUTATED        2      1      4
  MICAL1 WILD-TYPE     68    119     96
D1678V5, multiclass
        clus
vv       MICAL1 MUTATED MICAL1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1              119
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MICAL1 MUTATED        0      1      1      0      0      3      1      1
  MICAL1 WILD-TYPE     41     25     29     29     39     66     19     13
                  vv
clus               CLUS_9
  MICAL1 MUTATED        0
  MICAL1 WILD-TYPE     22
D1678V6, multiclass
        clus
vv       MICAL1 MUTATED MICAL1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MICAL1 MUTATED        0      4      3      2
  MICAL1 WILD-TYPE    100     68     69    119
D1678V7, multiclass
        clus
vv       MICAL1 MUTATED MICAL1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MICAL1 MUTATED        0      0      7      0      2
  MICAL1 WILD-TYPE     59     75     67    119     36
D1678V8, multiclass
        clus
vv       MICAL1 MUTATED MICAL1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              7               67
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MICAL1 MUTATED        0      6      1      1      1
  MICAL1 WILD-TYPE     51     70     60     70     94
D1678V9, multiclass
        clus
vv       MICAL1 MUTATED MICAL1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              6               70
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MICAL1 MUTATED        1      3      0      3      0      0      0      2
  MICAL1 WILD-TYPE     68     45     39     13     53     20     21     36
                  vv
clus               CLUS_9
  MICAL1 MUTATED        0
  MICAL1 WILD-TYPE     50
D1678V10, multiclass
        clus
vv       MICAL1 MUTATED MICAL1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MICAL1 MUTATED        0      0      1      0      2      0
  MICAL1 WILD-TYPE     13     16     13     11      9      9
D1678V11, multiclass
        clus
vv       MICAL1 MUTATED MICAL1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MICAL1 MUTATED        0      0      0      2      1      0      0      0
  MICAL1 WILD-TYPE     11      7      7      7      7      7     11      9
                  vv
clus               CLUS_9
  MICAL1 MUTATED        0
  MICAL1 WILD-TYPE      5
D1678V12, multiclass
        clus
vv       MICAL1 MUTATED MICAL1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1679) Variable = PTPN13 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN13 MUTATED        1      0      2      2      0
  PTPN13 WILD-TYPE     31     18     44     25     23
D1679V1, multiclass
        clus
vv       PTPN13 MUTATED PTPN13 WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              2               44
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN13 MUTATED        2      2      1
  PTPN13 WILD-TYPE     41     65     35
D1679V2, multiclass
        clus
vv       PTPN13 MUTATED PTPN13 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN13 MUTATED        0      5     17
  PTPN13 WILD-TYPE     42    168    130
D1679V3, multiclass
        clus
vv       PTPN13 MUTATED PTPN13 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              5              168
  CLUS_3             17              130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN13 MUTATED        6      1      9
  PTPN13 WILD-TYPE     56     72     66
D1679V4, multiclass
        clus
vv       PTPN13 MUTATED PTPN13 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              1               72
  CLUS_3              9               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN13 MUTATED        5      5      9
  PTPN13 WILD-TYPE     65    115     91
D1679V5, multiclass
        clus
vv       PTPN13 MUTATED PTPN13 WILD-TYPE
  CLUS_1              5               65
  CLUS_2              5              115
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN13 MUTATED        1      2      1      1      5      5      3      1
  PTPN13 WILD-TYPE     40     24     29     28     34     64     17     13
                  vv
clus               CLUS_9
  PTPN13 MUTATED        0
  PTPN13 WILD-TYPE     22
D1679V6, multiclass
        clus
vv       PTPN13 MUTATED PTPN13 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              5               34
  CLUS_6              5               64
  CLUS_7              3               17
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPN13 MUTATED        4      9      5      4
  PTPN13 WILD-TYPE     96     63     67    117
D1679V7, multiclass
        clus
vv       PTPN13 MUTATED PTPN13 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              9               63
  CLUS_3              5               67
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN13 MUTATED        2      3     11      4      2
  PTPN13 WILD-TYPE     57     72     63    115     36
D1679V8, multiclass
        clus
vv       PTPN13 MUTATED PTPN13 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              3               72
  CLUS_3             11               63
  CLUS_4              4              115
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPN13 MUTATED        1      9      2      3      6
  PTPN13 WILD-TYPE     50     67     59     68     89
D1679V9, multiclass
        clus
vv       PTPN13 MUTATED PTPN13 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              9               67
  CLUS_3              2               59
  CLUS_4              3               68
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN13 MUTATED        2      4      1      3      2      3      1      2
  PTPN13 WILD-TYPE     67     44     38     13     51     17     20     36
                  vv
clus               CLUS_9
  PTPN13 MUTATED        3
  PTPN13 WILD-TYPE     47
D1679V10, multiclass
        clus
vv       PTPN13 MUTATED PTPN13 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               44
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              3               17
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPN13 MUTATED        0      0      1      0      0      0
  PTPN13 WILD-TYPE     13     16     13     11     11      9
D1679V11, multiclass
[1] "Remove cluster labels:" "PTPN13 MUTATED"        
clus
  PTPN13 MUTATED PTPN13 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-G4-6628 
"PTPN13 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPN13 MUTATED        0      0      0      0      0      0      0      0
  PTPN13 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  PTPN13 MUTATED        1
  PTPN13 WILD-TYPE      4
D1679V12, multiclass
[1] "Remove cluster labels:" "PTPN13 MUTATED"        
clus
  PTPN13 MUTATED PTPN13 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" "PTPN13 WILD-TYPE" 
      TCGA-G4-6628 
"PTPN13 WILD-TYPE" 

Clustering(1680) Variable = TMPRSS15 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMPRSS15 MUTATED        4      0      0      3      0
  TMPRSS15 WILD-TYPE     28     18     46     24     23
D1680V1, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                3                 24
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMPRSS15 MUTATED        5      2      0
  TMPRSS15 WILD-TYPE     38     65     36
D1680V2, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                5                 38
  CLUS_2                2                 65
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMPRSS15 MUTATED        3      7     12
  TMPRSS15 WILD-TYPE     39    166    135
D1680V3, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                7                166
  CLUS_3               12                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMPRSS15 MUTATED        5      5      5
  TMPRSS15 WILD-TYPE     57     68     70
D1680V4, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                5                 57
  CLUS_2                5                 68
  CLUS_3                5                 70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TMPRSS15 MUTATED        2     13      4
  TMPRSS15 WILD-TYPE     68    107     96
D1680V5, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2               13                107
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMPRSS15 MUTATED        3      1      1      3      2      3      2      3
  TMPRSS15 WILD-TYPE     38     25     29     26     37     66     18     11
                    vv
clus                 CLUS_9
  TMPRSS15 MUTATED        1
  TMPRSS15 WILD-TYPE     21
D1680V6, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                3                 26
  CLUS_5                2                 37
  CLUS_6                3                 66
  CLUS_7                2                 18
  CLUS_8                3                 11
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMPRSS15 MUTATED        5      6      3      7
  TMPRSS15 WILD-TYPE     95     66     69    114
D1680V7, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                5                 95
  CLUS_2                6                 66
  CLUS_3                3                 69
  CLUS_4                7                114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMPRSS15 MUTATED        3      5      5      3      5
  TMPRSS15 WILD-TYPE     56     70     69    116     33
D1680V8, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                5                 70
  CLUS_3                5                 69
  CLUS_4                3                116
  CLUS_5                5                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMPRSS15 MUTATED        6      6      0      2      8
  TMPRSS15 WILD-TYPE     45     70     61     69     87
D1680V9, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                6                 45
  CLUS_2                6                 70
  CLUS_3                0                 61
  CLUS_4                2                 69
  CLUS_5                8                 87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMPRSS15 MUTATED        2      3      1      2      5      3      0      5
  TMPRSS15 WILD-TYPE     67     45     38     14     48     17     21     33
                    vv
clus                 CLUS_9
  TMPRSS15 MUTATED        1
  TMPRSS15 WILD-TYPE     49
D1680V10, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                3                 45
  CLUS_3                1                 38
  CLUS_4                2                 14
  CLUS_5                5                 48
  CLUS_6                3                 17
  CLUS_7                0                 21
  CLUS_8                5                 33
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMPRSS15 MUTATED        2      0      0      2      3      0
  TMPRSS15 WILD-TYPE     11     16     14      9      8      9
D1680V11, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                2                 11
  CLUS_2                0                 16
  CLUS_3                0                 14
  CLUS_4                2                  9
  CLUS_5                3                  8
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMPRSS15 MUTATED        0      0      1      4      0      0      2      0
  TMPRSS15 WILD-TYPE     11      7      6      5      8      7      9      9
                    vv
clus                 CLUS_9
  TMPRSS15 MUTATED        0
  TMPRSS15 WILD-TYPE      5
D1680V12, multiclass
        clus
vv       TMPRSS15 MUTATED TMPRSS15 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                1                  6
  CLUS_4                4                  5
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1681) Variable = C17ORF71 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C17ORF71 MUTATED        2      0      0      2      0
  C17ORF71 WILD-TYPE     30     18     46     25     23
D1681V1, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                2                 25
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF71 MUTATED        3      1      0
  C17ORF71 WILD-TYPE     40     66     36
D1681V2, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF71 MUTATED        0      4      4
  C17ORF71 WILD-TYPE     42    169    143
D1681V3, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                4                169
  CLUS_3                4                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF71 MUTATED        2      1      2
  C17ORF71 WILD-TYPE     60     72     73
D1681V4, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                1                 72
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C17ORF71 MUTATED        2      3      4
  C17ORF71 WILD-TYPE     68    117     96
D1681V5, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                3                117
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C17ORF71 MUTATED        1      1      2      0      2      1      2      0
  C17ORF71 WILD-TYPE     40     25     28     29     37     68     18     14
                    vv
clus                 CLUS_9
  C17ORF71 MUTATED        0
  C17ORF71 WILD-TYPE     22
D1681V6, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                2                 28
  CLUS_4                0                 29
  CLUS_5                2                 37
  CLUS_6                1                 68
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C17ORF71 MUTATED        0      1      4      4
  C17ORF71 WILD-TYPE    100     71     68    117
D1681V7, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                1                 71
  CLUS_3                4                 68
  CLUS_4                4                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C17ORF71 MUTATED        4      0      1      1      3
  C17ORF71 WILD-TYPE     55     75     73    118     35
D1681V8, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                4                 55
  CLUS_2                0                 75
  CLUS_3                1                 73
  CLUS_4                1                118
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C17ORF71 MUTATED        1      2      2      0      3
  C17ORF71 WILD-TYPE     50     74     59     71     92
D1681V9, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                2                 74
  CLUS_3                2                 59
  CLUS_4                0                 71
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C17ORF71 MUTATED        3      2      0      0      0      1      0      2
  C17ORF71 WILD-TYPE     66     46     39     16     53     19     21     36
                    vv
clus                 CLUS_9
  C17ORF71 MUTATED        0
  C17ORF71 WILD-TYPE     50
D1681V10, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C17ORF71 MUTATED        0      1      0      0      0      2
  C17ORF71 WILD-TYPE     13     15     14     11     11      7
D1681V11, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                0                 11
  CLUS_6                2                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C17ORF71 MUTATED        2      1      0      0      0      0      0      0
  C17ORF71 WILD-TYPE      9      6      7      9      8      7     11      9
                    vv
clus                 CLUS_9
  C17ORF71 MUTATED        0
  C17ORF71 WILD-TYPE      5
D1681V12, multiclass
        clus
vv       C17ORF71 MUTATED C17ORF71 WILD-TYPE
  CLUS_1                2                  9
  CLUS_2                1                  6
  CLUS_3                0                  7
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                0                 11
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1682) Variable = WDR17 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR17 MUTATED        5      0      0      2      1
  WDR17 WILD-TYPE     27     18     46     25     22
D1682V1, multiclass
        clus
vv       WDR17 MUTATED WDR17 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR17 MUTATED        5      2      1
  WDR17 WILD-TYPE     38     65     35
D1682V2, multiclass
        clus
vv       WDR17 MUTATED WDR17 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR17 MUTATED        0      5     18
  WDR17 WILD-TYPE     42    168    129
D1682V3, multiclass
        clus
vv       WDR17 MUTATED WDR17 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3            18             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR17 MUTATED        7      3      4
  WDR17 WILD-TYPE     55     70     71
D1682V4, multiclass
        clus
vv       WDR17 MUTATED WDR17 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR17 MUTATED        0      9      8
  WDR17 WILD-TYPE     70    111     92
D1682V5, multiclass
        clus
vv       WDR17 MUTATED WDR17 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             9             111
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR17 MUTATED        3      2      2      2      0      6      1      0
  WDR17 WILD-TYPE     38     24     28     27     39     63     19     14
                 vv
clus              CLUS_9
  WDR17 MUTATED        1
  WDR17 WILD-TYPE     21
D1682V6, multiclass
        clus
vv       WDR17 MUTATED WDR17 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WDR17 MUTATED        1      8      5      9
  WDR17 WILD-TYPE     99     64     67    112
D1682V7, multiclass
        clus
vv       WDR17 MUTATED WDR17 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             8              64
  CLUS_3             5              67
  CLUS_4             9             112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR17 MUTATED        3      4      6      4      6
  WDR17 WILD-TYPE     56     71     68    115     32
D1682V8, multiclass
        clus
vv       WDR17 MUTATED WDR17 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             4              71
  CLUS_3             6              68
  CLUS_4             4             115
  CLUS_5             6              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR17 MUTATED        3      3      5      3      8
  WDR17 WILD-TYPE     48     73     56     68     87
D1682V9, multiclass
        clus
vv       WDR17 MUTATED WDR17 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             3              73
  CLUS_3             5              56
  CLUS_4             3              68
  CLUS_5             8              87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR17 MUTATED        5      4      0      0      2      3      0      5
  WDR17 WILD-TYPE     64     44     39     16     51     17     21     33
                 vv
clus              CLUS_9
  WDR17 MUTATED        3
  WDR17 WILD-TYPE     47
D1682V10, multiclass
        clus
vv       WDR17 MUTATED WDR17 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             3              17
  CLUS_7             0              21
  CLUS_8             5              33
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WDR17 MUTATED        0      0      1      1      0      0
  WDR17 WILD-TYPE     13     16     13     10     11      9
D1682V11, multiclass
[1] "Remove cluster labels:" "WDR17 MUTATED"         
clus
  WDR17 MUTATED WDR17 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WDR17 MUTATED        0      0      1      0      1      0      0      0
  WDR17 WILD-TYPE     11      7      6      9      7      7     11      9
                 vv
clus              CLUS_9
  WDR17 MUTATED        0
  WDR17 WILD-TYPE      5
D1682V12, multiclass
[1] "Remove cluster labels:" "WDR17 MUTATED"         
clus
  WDR17 MUTATED WDR17 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" "WDR17 WILD-TYPE" 

Clustering(1683) Variable = FBXO40 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO40 MUTATED        3      0      0      1      0
  FBXO40 WILD-TYPE     29     18     46     26     23
D1683V1, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO40 MUTATED        3      1      0
  FBXO40 WILD-TYPE     40     66     36
D1683V2, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO40 MUTATED        1      4     11
  FBXO40 WILD-TYPE     41    169    136
D1683V3, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO40 MUTATED        5      2      5
  FBXO40 WILD-TYPE     57     71     70
D1683V4, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO40 MUTATED        0      4     10
  FBXO40 WILD-TYPE     70    116     90
D1683V5, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO40 MUTATED        1      0      1      2      1      6      2      0
  FBXO40 WILD-TYPE     40     26     29     27     38     63     18     14
                  vv
clus               CLUS_9
  FBXO40 MUTATED        1
  FBXO40 WILD-TYPE     21
D1683V6, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              6               63
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXO40 MUTATED        3      4      5      4
  FBXO40 WILD-TYPE     97     68     67    117
D1683V7, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              4               68
  CLUS_3              5               67
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO40 MUTATED        3      1      8      1      3
  FBXO40 WILD-TYPE     56     74     66    118     35
D1683V8, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              1               74
  CLUS_3              8               66
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO40 MUTATED        3      8      1      0      3
  FBXO40 WILD-TYPE     48     68     60     71     92
D1683V9, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              8               68
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO40 MUTATED        1      5      0      3      3      1      0      2
  FBXO40 WILD-TYPE     68     43     39     13     50     19     21     36
                  vv
clus               CLUS_9
  FBXO40 MUTATED        0
  FBXO40 WILD-TYPE     50
D1683V10, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              5               43
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FBXO40 MUTATED        0      0      0      0      3      0
  FBXO40 WILD-TYPE     13     16     14     11      8      9
D1683V11, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FBXO40 MUTATED        0      0      0      1      0      0      2      0
  FBXO40 WILD-TYPE     11      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  FBXO40 MUTATED        0
  FBXO40 WILD-TYPE      5
D1683V12, multiclass
        clus
vv       FBXO40 MUTATED FBXO40 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1684) Variable = PDK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDK1 MUTATED        0      0      0      0      0
  PDK1 WILD-TYPE     32     18     46     27     23
D1684V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PDK1 MUTATED        0      0      0
  PDK1 WILD-TYPE     43     67     36
D1684V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PDK1 MUTATED        0      1      4
  PDK1 WILD-TYPE     42    172    143
D1684V3, multiclass
        clus
vv       PDK1 MUTATED PDK1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PDK1 MUTATED        1      1      3
  PDK1 WILD-TYPE     61     72     72
D1684V4, multiclass
        clus
vv       PDK1 MUTATED PDK1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PDK1 MUTATED        1      3      1
  PDK1 WILD-TYPE     69    117     99
D1684V5, multiclass
        clus
vv       PDK1 MUTATED PDK1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PDK1 MUTATED        1      0      0      1      1      1      1      0      0
  PDK1 WILD-TYPE     40     26     30     28     38     68     19     14     22
D1684V6, multiclass
        clus
vv       PDK1 MUTATED PDK1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PDK1 MUTATED        1      4      0      0
  PDK1 WILD-TYPE     99     68     72    121
D1684V7, multiclass
        clus
vv       PDK1 MUTATED PDK1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            4             68
  CLUS_3            0             72
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDK1 MUTATED        0      3      2      0      0
  PDK1 WILD-TYPE     59     72     72    119     38
D1684V8, multiclass
        clus
vv       PDK1 MUTATED PDK1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            3             72
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDK1 MUTATED        2      2      0      0      1
  PDK1 WILD-TYPE     49     74     61     71     94
D1684V9, multiclass
        clus
vv       PDK1 MUTATED PDK1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PDK1 MUTATED        1      0      1      1      0      1      0      0      1
  PDK1 WILD-TYPE     68     48     38     15     53     19     21     38     49
D1684V10, multiclass
        clus
vv       PDK1 MUTATED PDK1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PDK1 MUTATED        0      0      0      0      0      0
  PDK1 WILD-TYPE     13     16     14     11     11      9
D1684V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PDK1 MUTATED        0      0      0      0      0      0      0      0      0
  PDK1 WILD-TYPE     11      7      7      9      8      7     11      9      5
D1684V12, multiclass

Clustering(1685) Variable = FAM81B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM81B MUTATED        1      0      0      1      0
  FAM81B WILD-TYPE     31     18     46     26     23
D1685V1, multiclass
[1] "Remove cluster labels:" "FAM81B MUTATED"        
clus
  FAM81B MUTATED FAM81B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3864       TCGA-AA-3866 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM81B MUTATED        0      1      1
  FAM81B WILD-TYPE     43     66     35
D1685V2, multiclass
[1] "Remove cluster labels:" "FAM81B MUTATED"        
clus
  FAM81B MUTATED FAM81B WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3864       TCGA-AA-3866 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM81B MUTATED        1      2      5
  FAM81B WILD-TYPE     41    171    142
D1685V3, multiclass
        clus
vv       FAM81B MUTATED FAM81B WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM81B MUTATED        2      1      4
  FAM81B WILD-TYPE     60     72     71
D1685V4, multiclass
        clus
vv       FAM81B MUTATED FAM81B WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM81B MUTATED        1      2      4
  FAM81B WILD-TYPE     69    118     96
D1685V5, multiclass
        clus
vv       FAM81B MUTATED FAM81B WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM81B MUTATED        0      1      0      1      2      2      1      0
  FAM81B WILD-TYPE     41     25     30     28     37     67     19     14
                  vv
clus               CLUS_9
  FAM81B MUTATED        0
  FAM81B WILD-TYPE     22
D1685V6, multiclass
        clus
vv       FAM81B MUTATED FAM81B WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM81B MUTATED        2      3      3      1
  FAM81B WILD-TYPE     98     69     69    120
D1685V7, multiclass
        clus
vv       FAM81B MUTATED FAM81B WILD-TYPE
  CLUS_1              2               98
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM81B MUTATED        1      3      3      2      0
  FAM81B WILD-TYPE     58     72     71    117     38
D1685V8, multiclass
        clus
vv       FAM81B MUTATED FAM81B WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              3               71
  CLUS_4              2              117
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM81B MUTATED        0      3      2      2      2
  FAM81B WILD-TYPE     51     73     59     69     93
D1685V9, multiclass
        clus
vv       FAM81B MUTATED FAM81B WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM81B MUTATED        2      1      0      0      3      2      0      1
  FAM81B WILD-TYPE     67     47     39     16     50     18     21     37
                  vv
clus               CLUS_9
  FAM81B MUTATED        0
  FAM81B WILD-TYPE     50
D1685V10, multiclass
        clus
vv       FAM81B MUTATED FAM81B WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM81B MUTATED        0      1      1      0      0      0
  FAM81B WILD-TYPE     13     15     13     11     11      9
D1685V11, multiclass
[1] "Remove cluster labels:" "FAM81B MUTATED"        
clus
  FAM81B MUTATED FAM81B WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3511 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6303 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM81B MUTATED        1      0      0      0      1      0      0      0
  FAM81B WILD-TYPE     10      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  FAM81B MUTATED        0
  FAM81B WILD-TYPE      5
D1685V12, multiclass
[1] "Remove cluster labels:" "FAM81B MUTATED"        
clus
  FAM81B MUTATED FAM81B WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3511 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6303 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" "FAM81B WILD-TYPE" 

Clustering(1686) Variable = HIP1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIP1 MUTATED        1      0      1      2      0
  HIP1 WILD-TYPE     31     18     45     25     23
D1686V1, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HIP1 MUTATED        2      2      0
  HIP1 WILD-TYPE     41     65     36
D1686V2, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HIP1 MUTATED        1      4      7
  HIP1 WILD-TYPE     41    169    140
D1686V3, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HIP1 MUTATED        1      4      3
  HIP1 WILD-TYPE     61     69     72
D1686V4, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            4             69
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HIP1 MUTATED        1      6      4
  HIP1 WILD-TYPE     69    114     96
D1686V5, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            6            114
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HIP1 MUTATED        0      0      2      2      2      3      1      1      0
  HIP1 WILD-TYPE     41     26     28     27     37     66     19     13     22
D1686V6, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIP1 MUTATED        4      4      1      3
  HIP1 WILD-TYPE     96     68     71    118
D1686V7, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            4             68
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIP1 MUTATED        2      3      3      2      2
  HIP1 WILD-TYPE     57     72     71    117     36
D1686V8, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            3             72
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIP1 MUTATED        2      4      2      1      2
  HIP1 WILD-TYPE     49     72     59     70     93
D1686V9, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HIP1 MUTATED        3      2      0      1      1      3      0      1      0
  HIP1 WILD-TYPE     66     46     39     15     52     17     21     37     50
D1686V10, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            3             17
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIP1 MUTATED        1      1      0      0      1      0
  HIP1 WILD-TYPE     12     15     14     11     10      9
D1686V11, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  HIP1 MUTATED        1      0      1      1      0      0      0      0      0
  HIP1 WILD-TYPE     10      7      6      8      8      7     11      9      5
D1686V12, multiclass
        clus
vv       HIP1 MUTATED HIP1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1687) Variable = PHLDB2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHLDB2 MUTATED        2      1      0      2      1
  PHLDB2 WILD-TYPE     30     17     46     25     22
D1687V1, multiclass
        clus
vv       PHLDB2 MUTATED PHLDB2 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PHLDB2 MUTATED        3      1      2
  PHLDB2 WILD-TYPE     40     66     34
D1687V2, multiclass
        clus
vv       PHLDB2 MUTATED PHLDB2 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PHLDB2 MUTATED        0      5     13
  PHLDB2 WILD-TYPE     42    168    134
D1687V3, multiclass
        clus
vv       PHLDB2 MUTATED PHLDB2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              5              168
  CLUS_3             13              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PHLDB2 MUTATED        7      1      4
  PHLDB2 WILD-TYPE     55     72     71
D1687V4, multiclass
        clus
vv       PHLDB2 MUTATED PHLDB2 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PHLDB2 MUTATED        1      8      6
  PHLDB2 WILD-TYPE     69    112     94
D1687V5, multiclass
        clus
vv       PHLDB2 MUTATED PHLDB2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              8              112
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PHLDB2 MUTATED        1      1      3      1      1      4      2      2
  PHLDB2 WILD-TYPE     40     25     27     28     38     65     18     12
                  vv
clus               CLUS_9
  PHLDB2 MUTATED        0
  PHLDB2 WILD-TYPE     22
D1687V6, multiclass
        clus
vv       PHLDB2 MUTATED PHLDB2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              3               27
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              4               65
  CLUS_7              2               18
  CLUS_8              2               12
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PHLDB2 MUTATED        2      7      2      7
  PHLDB2 WILD-TYPE     98     65     70    114
D1687V7, multiclass
        clus
vv       PHLDB2 MUTATED PHLDB2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              7               65
  CLUS_3              2               70
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHLDB2 MUTATED        1      4      5      5      3
  PHLDB2 WILD-TYPE     58     71     69    114     35
D1687V8, multiclass
        clus
vv       PHLDB2 MUTATED PHLDB2 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4               71
  CLUS_3              5               69
  CLUS_4              5              114
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHLDB2 MUTATED        1      8      1      2      5
  PHLDB2 WILD-TYPE     50     68     60     69     90
D1687V9, multiclass
        clus
vv       PHLDB2 MUTATED PHLDB2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              8               68
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PHLDB2 MUTATED        3      2      1      2      2      2      1      2
  PHLDB2 WILD-TYPE     66     46     38     14     51     18     20     36
                  vv
clus               CLUS_9
  PHLDB2 MUTATED        2
  PHLDB2 WILD-TYPE     48
D1687V10, multiclass
        clus
vv       PHLDB2 MUTATED PHLDB2 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              2               36
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PHLDB2 MUTATED        0      0      0      0      1      0
  PHLDB2 WILD-TYPE     13     16     14     11     10      9
D1687V11, multiclass
[1] "Remove cluster labels:" "PHLDB2 MUTATED"        
clus
  PHLDB2 MUTATED PHLDB2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6625 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-G4-6628 
"PHLDB2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PHLDB2 MUTATED        0      0      0      1      0      0      0      0
  PHLDB2 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  PHLDB2 MUTATED        0
  PHLDB2 WILD-TYPE      5
D1687V12, multiclass
[1] "Remove cluster labels:" "PHLDB2 MUTATED"        
clus
  PHLDB2 MUTATED PHLDB2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6625 
"PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" "PHLDB2 WILD-TYPE" 
      TCGA-G4-6628 
"PHLDB2 WILD-TYPE" 

Clustering(1688) Variable = TATDN2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TATDN2 MUTATED        3      0      0      2      0
  TATDN2 WILD-TYPE     29     18     46     25     23
D1688V1, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TATDN2 MUTATED        4      1      0
  TATDN2 WILD-TYPE     39     66     36
D1688V2, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TATDN2 MUTATED        0      1      8
  TATDN2 WILD-TYPE     42    172    139
D1688V3, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TATDN2 MUTATED        1      1      2
  TATDN2 WILD-TYPE     61     72     73
D1688V4, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TATDN2 MUTATED        1      3      4
  TATDN2 WILD-TYPE     69    117     96
D1688V5, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TATDN2 MUTATED        1      0      1      1      0      4      0      1
  TATDN2 WILD-TYPE     40     26     29     28     39     65     20     13
                  vv
clus               CLUS_9
  TATDN2 MUTATED        0
  TATDN2 WILD-TYPE     22
D1688V6, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TATDN2 MUTATED        1      2      1      5
  TATDN2 WILD-TYPE     99     70     71    116
D1688V7, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TATDN2 MUTATED        1      0      3      1      4
  TATDN2 WILD-TYPE     58     75     71    118     34
D1688V8, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TATDN2 MUTATED        0      3      0      1      4
  TATDN2 WILD-TYPE     51     73     61     70     91
D1688V9, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TATDN2 MUTATED        2      1      0      1      0      1      0      3
  TATDN2 WILD-TYPE     67     47     39     15     53     19     21     35
                  vv
clus               CLUS_9
  TATDN2 MUTATED        0
  TATDN2 WILD-TYPE     50
D1688V10, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TATDN2 MUTATED        0      0      1      1      1      0
  TATDN2 WILD-TYPE     13     16     13     10     10      9
D1688V11, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TATDN2 MUTATED        0      0      0      1      0      1      0      1
  TATDN2 WILD-TYPE     11      7      7      8      8      6     11      8
                  vv
clus               CLUS_9
  TATDN2 MUTATED        0
  TATDN2 WILD-TYPE      5
D1688V12, multiclass
        clus
vv       TATDN2 MUTATED TATDN2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1689) Variable = SFRP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRP2 MUTATED        0      1      0      0      0
  SFRP2 WILD-TYPE     32     17     46     27     23
D1689V1, multiclass
[1] "Remove cluster labels:" "SFRP2 MUTATED"         
clus
  SFRP2 MUTATED SFRP2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AY-4071 
"SFRP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFRP2 MUTATED        0      1      0
  SFRP2 WILD-TYPE     43     66     36
D1689V2, multiclass
[1] "Remove cluster labels:" "SFRP2 MUTATED"         
clus
  SFRP2 MUTATED SFRP2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AY-4071 
"SFRP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFRP2 MUTATED        0      4      4
  SFRP2 WILD-TYPE     42    169    143
D1689V3, multiclass
        clus
vv       SFRP2 MUTATED SFRP2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFRP2 MUTATED        4      3      1
  SFRP2 WILD-TYPE     58     70     74
D1689V4, multiclass
        clus
vv       SFRP2 MUTATED SFRP2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFRP2 MUTATED        1      1      4
  SFRP2 WILD-TYPE     69    119     96
D1689V5, multiclass
        clus
vv       SFRP2 MUTATED SFRP2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRP2 MUTATED        1      0      0      0      2      3      0      0
  SFRP2 WILD-TYPE     40     26     30     29     37     66     20     14
                 vv
clus              CLUS_9
  SFRP2 MUTATED        0
  SFRP2 WILD-TYPE     22
D1689V6, multiclass
        clus
vv       SFRP2 MUTATED SFRP2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SFRP2 MUTATED        3      2      3      0
  SFRP2 WILD-TYPE     97     70     69    121
D1689V7, multiclass
        clus
vv       SFRP2 MUTATED SFRP2 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRP2 MUTATED        1      3      3      1      0
  SFRP2 WILD-TYPE     58     72     71    118     38
D1689V8, multiclass
        clus
vv       SFRP2 MUTATED SFRP2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRP2 MUTATED        0      5      2      1      0
  SFRP2 WILD-TYPE     51     71     59     70     95
D1689V9, multiclass
        clus
vv       SFRP2 MUTATED SFRP2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRP2 MUTATED        3      3      0      1      0      0      1      0
  SFRP2 WILD-TYPE     66     45     39     15     53     20     20     38
                 vv
clus              CLUS_9
  SFRP2 MUTATED        0
  SFRP2 WILD-TYPE     50
D1689V10, multiclass
        clus
vv       SFRP2 MUTATED SFRP2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SFRP2 MUTATED        0      0      1      0      1      0
  SFRP2 WILD-TYPE     13     16     13     11     10      9
D1689V11, multiclass
[1] "Remove cluster labels:" "SFRP2 MUTATED"         
clus
  SFRP2 MUTATED SFRP2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRP2 MUTATED        0      0      0      0      1      0      1      0
  SFRP2 WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  SFRP2 MUTATED        0
  SFRP2 WILD-TYPE      5
D1689V12, multiclass
[1] "Remove cluster labels:" "SFRP2 MUTATED"         
clus
  SFRP2 MUTATED SFRP2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" "SFRP2 WILD-TYPE" 

Clustering(1690) Variable = EPRS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPRS MUTATED        5      0      0      2      0
  EPRS WILD-TYPE     27     18     46     25     23
D1690V1, multiclass
        clus
vv       EPRS MUTATED EPRS WILD-TYPE
  CLUS_1            5             27
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EPRS MUTATED        5      1      1
  EPRS WILD-TYPE     38     66     35
D1690V2, multiclass
        clus
vv       EPRS MUTATED EPRS WILD-TYPE
  CLUS_1            5             38
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EPRS MUTATED        3      3     13
  EPRS WILD-TYPE     39    170    134
D1690V3, multiclass
        clus
vv       EPRS MUTATED EPRS WILD-TYPE
  CLUS_1            3             39
  CLUS_2            3            170
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EPRS MUTATED        4      3      5
  EPRS WILD-TYPE     58     70     70
D1690V4, multiclass
        clus
vv       EPRS MUTATED EPRS WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EPRS MUTATED        2      6      6
  EPRS WILD-TYPE     68    114     94
D1690V5, multiclass
        clus
vv       EPRS MUTATED EPRS WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            114
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EPRS MUTATED        2      0      1      3      2      3      0      0      3
  EPRS WILD-TYPE     39     26     29     26     37     66     20     14     19
D1690V6, multiclass
        clus
vv       EPRS MUTATED EPRS WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPRS MUTATED        6      3      3      7
  EPRS WILD-TYPE     94     69     69    114
D1690V7, multiclass
        clus
vv       EPRS MUTATED EPRS WILD-TYPE
  CLUS_1            6             94
  CLUS_2            3             69
  CLUS_3            3             69
  CLUS_4            7            114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPRS MUTATED        2      6      4      2      5
  EPRS WILD-TYPE     57     69     70    117     33
D1690V8, multiclass
        clus
vv       EPRS MUTATED EPRS WILD-TYPE
  CLUS_1            2             57
  CLUS_2            6             69
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            5             33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPRS MUTATED        3      4      4      3      4
  EPRS WILD-TYPE     48     72     57     68     91
D1690V9, multiclass
        clus
vv       EPRS MUTATED EPRS WILD-TYPE
  CLUS_1            3             48
  CLUS_2            4             72
  CLUS_3            4             57
  CLUS_4            3             68
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EPRS MUTATED        3      3      2      1      4      1      0      3      1
  EPRS WILD-TYPE     66     45     37     15     49     19     21     35     49
D1690V10, multiclass
        clus
vv       EPRS MUTATED EPRS WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             45
  CLUS_3            2             37
  CLUS_4            1             15
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EPRS MUTATED        0      0      1      0      0      1
  EPRS WILD-TYPE     13     16     13     11     11      8
D1690V11, multiclass
[1] "Remove cluster labels:" "EPRS MUTATED"          
clus
  EPRS MUTATED EPRS WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  EPRS MUTATED        0      0      0      0      0      1      0      1      0
  EPRS WILD-TYPE     11      7      7      9      8      6     11      8      5
D1690V12, multiclass
[1] "Remove cluster labels:" "EPRS MUTATED"          
clus
  EPRS MUTATED EPRS WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" "EPRS WILD-TYPE" 

Clustering(1691) Variable = CELSR1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CELSR1 MUTATED        3      0      1      0      1
  CELSR1 WILD-TYPE     29     18     45     27     22
D1691V1, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CELSR1 MUTATED        3      1      1
  CELSR1 WILD-TYPE     40     66     35
D1691V2, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CELSR1 MUTATED        3      4     15
  CELSR1 WILD-TYPE     39    169    132
D1691V3, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              4              169
  CLUS_3             15              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CELSR1 MUTATED        5      2      9
  CELSR1 WILD-TYPE     57     71     66
D1691V4, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              2               71
  CLUS_3              9               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CELSR1 MUTATED        4      5      9
  CELSR1 WILD-TYPE     66    115     91
D1691V5, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              5              115
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CELSR1 MUTATED        1      1      2      2      3      8      0      1
  CELSR1 WILD-TYPE     40     25     28     27     36     61     20     13
                  vv
clus               CLUS_9
  CELSR1 MUTATED        0
  CELSR1 WILD-TYPE     22
D1691V6, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              3               36
  CLUS_6              8               61
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CELSR1 MUTATED        2      8      5      7
  CELSR1 WILD-TYPE     98     64     67    114
D1691V7, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              8               64
  CLUS_3              5               67
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CELSR1 MUTATED        0      2     13      4      3
  CELSR1 WILD-TYPE     59     73     61    115     35
D1691V8, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3             13               61
  CLUS_4              4              115
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CELSR1 MUTATED        0     12      1      4      4
  CELSR1 WILD-TYPE     51     64     60     67     91
D1691V9, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2             12               64
  CLUS_3              1               60
  CLUS_4              4               67
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CELSR1 MUTATED        5      5      2      5      0      0      1      1
  CELSR1 WILD-TYPE     64     43     37     11     53     20     20     37
                  vv
clus               CLUS_9
  CELSR1 MUTATED        2
  CELSR1 WILD-TYPE     48
D1691V10, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              5               43
  CLUS_3              2               37
  CLUS_4              5               11
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CELSR1 MUTATED        2      1      2      0      3      0
  CELSR1 WILD-TYPE     11     15     12     11      8      9
D1691V11, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CELSR1 MUTATED        0      0      0      4      0      1      2      1
  CELSR1 WILD-TYPE     11      7      7      5      8      6      9      8
                  vv
clus               CLUS_9
  CELSR1 MUTATED        0
  CELSR1 WILD-TYPE      5
D1691V12, multiclass
        clus
vv       CELSR1 MUTATED CELSR1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              4                5
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1692) Variable = PIAS2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIAS2 MUTATED        2      0      0      0      0
  PIAS2 WILD-TYPE     30     18     46     27     23
D1692V1, multiclass
[1] "Remove cluster labels:" "PIAS2 MUTATED"         
clus
  PIAS2 MUTATED PIAS2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PIAS2 MUTATED        1      0      1
  PIAS2 WILD-TYPE     42     67     35
D1692V2, multiclass
[1] "Remove cluster labels:" "PIAS2 MUTATED"         
clus
  PIAS2 MUTATED PIAS2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986      TCGA-AA-3989 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PIAS2 MUTATED        0      1      3
  PIAS2 WILD-TYPE     42    172    144
D1692V3, multiclass
        clus
vv       PIAS2 MUTATED PIAS2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PIAS2 MUTATED        1      0      1
  PIAS2 WILD-TYPE     61     73     74
D1692V4, multiclass
[1] "Remove cluster labels:" "PIAS2 MUTATED"         
clus
  PIAS2 MUTATED PIAS2 WILD-TYPE 
              2             208 
     TCGA-A6-2671      TCGA-A6-2677      TCGA-A6-3809      TCGA-A6-3810 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-4105      TCGA-A6-5656      TCGA-A6-5657      TCGA-A6-5659 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662      TCGA-A6-5664 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502      TCGA-AA-3510 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AA-3655      TCGA-AA-3660      TCGA-AA-3662 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3663      TCGA-AA-3697      TCGA-AA-3712      TCGA-AA-3713 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6888      TCGA-AD-6889 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AD-6890      TCGA-AD-6895      TCGA-AD-6899      TCGA-AD-6901 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AU-3779 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AZ-4681      TCGA-AZ-4682      TCGA-AZ-5403      TCGA-AZ-5407 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600      TCGA-AZ-6601 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606      TCGA-AZ-6607 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255      TCGA-CA-5796 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CA-5797      TCGA-CA-6715      TCGA-CA-6716      TCGA-CA-6717 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CA-6719      TCGA-CK-4947      TCGA-CK-4948      TCGA-CK-4950 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CK-4952      TCGA-CK-5912      TCGA-CK-5913      TCGA-CK-5914 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CK-5915      TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CM-4746      TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CM-5344      TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5861 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-D5-5538      TCGA-D5-5539      TCGA-D5-5540      TCGA-D5-5541 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-D5-6529      TCGA-D5-6532      TCGA-D5-6533      TCGA-D5-6534 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-D5-6535      TCGA-D5-6536      TCGA-D5-6537      TCGA-D5-6538 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-D5-6539      TCGA-D5-6540      TCGA-D5-6541      TCGA-D5-6898 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-D5-6920      TCGA-D5-6922      TCGA-D5-6923      TCGA-D5-6924 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-D5-6926      TCGA-D5-6927      TCGA-D5-6928      TCGA-D5-6929 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932      TCGA-D5-7000 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A0X9      TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28C 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A28E      TCGA-DM-A28F      TCGA-DM-A28G      TCGA-DM-A28H 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A28K      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704      TCGA-F4-6805 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856      TCGA-G4-6293 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304      TCGA-G4-6306 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310      TCGA-G4-6315 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323      TCGA-G4-6586 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PIAS2 MUTATED        0      1      2
  PIAS2 WILD-TYPE     70    119     98
D1692V5, multiclass
        clus
vv       PIAS2 MUTATED PIAS2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIAS2 MUTATED        1      0      0      0      0      1      0      0
  PIAS2 WILD-TYPE     40     26     30     29     39     68     20     14
                 vv
clus              CLUS_9
  PIAS2 MUTATED        1
  PIAS2 WILD-TYPE     21
D1692V6, multiclass
        clus
vv       PIAS2 MUTATED PIAS2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIAS2 MUTATED        0      0      2      2
  PIAS2 WILD-TYPE    100     72     70    119
D1692V7, multiclass
        clus
vv       PIAS2 MUTATED PIAS2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             0              72
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIAS2 MUTATED        1      0      1      1      1
  PIAS2 WILD-TYPE     58     75     73    118     37
D1692V8, multiclass
        clus
vv       PIAS2 MUTATED PIAS2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIAS2 MUTATED        1      1      0      1      1
  PIAS2 WILD-TYPE     50     75     61     70     94
D1692V9, multiclass
        clus
vv       PIAS2 MUTATED PIAS2 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIAS2 MUTATED        1      1      0      0      1      0      0      1
  PIAS2 WILD-TYPE     68     47     39     16     52     20     21     37
                 vv
clus              CLUS_9
  PIAS2 MUTATED        0
  PIAS2 WILD-TYPE     50
D1692V10, multiclass
        clus
vv       PIAS2 MUTATED PIAS2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIAS2 MUTATED        0      0      0      0      1      1
  PIAS2 WILD-TYPE     13     16     14     11     10      8
D1692V11, multiclass
[1] "Remove cluster labels:" "PIAS2 MUTATED"         
clus
  PIAS2 MUTATED PIAS2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIAS2 MUTATED        1      0      0      0      0      0      1      0
  PIAS2 WILD-TYPE     10      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  PIAS2 MUTATED        0
  PIAS2 WILD-TYPE      5
D1692V12, multiclass
[1] "Remove cluster labels:" "PIAS2 MUTATED"         
clus
  PIAS2 MUTATED PIAS2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" "PIAS2 WILD-TYPE" 

Clustering(1693) Variable = CNGA3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNGA3 MUTATED        4      0      0      1      0
  CNGA3 WILD-TYPE     28     18     46     26     23
D1693V1, multiclass
        clus
vv       CNGA3 MUTATED CNGA3 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNGA3 MUTATED        4      1      0
  CNGA3 WILD-TYPE     39     66     36
D1693V2, multiclass
        clus
vv       CNGA3 MUTATED CNGA3 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNGA3 MUTATED        0      2     11
  CNGA3 WILD-TYPE     42    171    136
D1693V3, multiclass
        clus
vv       CNGA3 MUTATED CNGA3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNGA3 MUTATED        1      3      4
  CNGA3 WILD-TYPE     61     70     71
D1693V4, multiclass
        clus
vv       CNGA3 MUTATED CNGA3 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CNGA3 MUTATED        0      7      3
  CNGA3 WILD-TYPE     70    113     97
D1693V5, multiclass
        clus
vv       CNGA3 MUTATED CNGA3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             7             113
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNGA3 MUTATED        0      2      2      1      0      4      0      0
  CNGA3 WILD-TYPE     41     24     28     28     39     65     20     14
                 vv
clus              CLUS_9
  CNGA3 MUTATED        1
  CNGA3 WILD-TYPE     21
D1693V6, multiclass
        clus
vv       CNGA3 MUTATED CNGA3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CNGA3 MUTATED        2      4      1      6
  CNGA3 WILD-TYPE     98     68     71    115
D1693V7, multiclass
        clus
vv       CNGA3 MUTATED CNGA3 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNGA3 MUTATED        1      3      3      3      3
  CNGA3 WILD-TYPE     58     72     71    116     35
D1693V8, multiclass
        clus
vv       CNGA3 MUTATED CNGA3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNGA3 MUTATED        1      6      0      1      4
  CNGA3 WILD-TYPE     50     70     61     70     91
D1693V9, multiclass
        clus
vv       CNGA3 MUTATED CNGA3 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNGA3 MUTATED        3      1      0      1      1      2      1      2
  CNGA3 WILD-TYPE     66     47     39     15     52     18     20     36
                 vv
clus              CLUS_9
  CNGA3 MUTATED        1
  CNGA3 WILD-TYPE     49
D1693V10, multiclass
        clus
vv       CNGA3 MUTATED CNGA3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CNGA3 MUTATED        0      0      0      0      0      0
  CNGA3 WILD-TYPE     13     16     14     11     11      9
D1693V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNGA3 MUTATED        0      0      0      0      0      0      0      0
  CNGA3 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  CNGA3 MUTATED        0
  CNGA3 WILD-TYPE      5
D1693V12, multiclass

Clustering(1694) Variable = OR51E2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51E2 MUTATED        0      0      0      0      0
  OR51E2 WILD-TYPE     32     18     46     27     23
D1694V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51E2 MUTATED        0      0      0
  OR51E2 WILD-TYPE     43     67     36
D1694V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51E2 MUTATED        1      0      4
  OR51E2 WILD-TYPE     41    173    143
D1694V3, multiclass
        clus
vv       OR51E2 MUTATED OR51E2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51E2 MUTATED        2      1      1
  OR51E2 WILD-TYPE     60     72     74
D1694V4, multiclass
        clus
vv       OR51E2 MUTATED OR51E2 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR51E2 MUTATED        0      2      3
  OR51E2 WILD-TYPE     70    118     97
D1694V5, multiclass
        clus
vv       OR51E2 MUTATED OR51E2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51E2 MUTATED        1      1      1      0      0      2      0      0
  OR51E2 WILD-TYPE     40     25     29     29     39     67     20     14
                  vv
clus               CLUS_9
  OR51E2 MUTATED        0
  OR51E2 WILD-TYPE     22
D1694V6, multiclass
        clus
vv       OR51E2 MUTATED OR51E2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR51E2 MUTATED        1      0      2      2
  OR51E2 WILD-TYPE     99     72     70    119
D1694V7, multiclass
        clus
vv       OR51E2 MUTATED OR51E2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              0               72
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51E2 MUTATED        1      1      1      1      1
  OR51E2 WILD-TYPE     58     74     73    118     37
D1694V8, multiclass
        clus
vv       OR51E2 MUTATED OR51E2 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR51E2 MUTATED        0      0      1      2      2
  OR51E2 WILD-TYPE     51     76     60     69     93
D1694V9, multiclass
        clus
vv       OR51E2 MUTATED OR51E2 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              0               76
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51E2 MUTATED        2      1      0      0      0      0      0      1
  OR51E2 WILD-TYPE     67     47     39     16     53     20     21     37
                  vv
clus               CLUS_9
  OR51E2 MUTATED        1
  OR51E2 WILD-TYPE     49
D1694V10, multiclass
        clus
vv       OR51E2 MUTATED OR51E2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR51E2 MUTATED        0      1      1      1      0      0
  OR51E2 WILD-TYPE     13     15     13     10     11      9
D1694V11, multiclass
        clus
vv       OR51E2 MUTATED OR51E2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR51E2 MUTATED        2      0      0      0      0      0      1      0
  OR51E2 WILD-TYPE      9      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  OR51E2 MUTATED        0
  OR51E2 WILD-TYPE      5
D1694V12, multiclass
        clus
vv       OR51E2 MUTATED OR51E2 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1695) Variable = OR6C1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6C1 MUTATED        0      0      0      0      0
  OR6C1 WILD-TYPE     32     18     46     27     23
D1695V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6C1 MUTATED        0      0      0
  OR6C1 WILD-TYPE     43     67     36
D1695V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6C1 MUTATED        0      3      4
  OR6C1 WILD-TYPE     42    170    143
D1695V3, multiclass
        clus
vv       OR6C1 MUTATED OR6C1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6C1 MUTATED        4      2      1
  OR6C1 WILD-TYPE     58     71     74
D1695V4, multiclass
        clus
vv       OR6C1 MUTATED OR6C1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR6C1 MUTATED        1      1      4
  OR6C1 WILD-TYPE     69    119     96
D1695V5, multiclass
        clus
vv       OR6C1 MUTATED OR6C1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6C1 MUTATED        2      0      0      1      0      2      0      0
  OR6C1 WILD-TYPE     39     26     30     28     39     67     20     14
                 vv
clus              CLUS_9
  OR6C1 MUTATED        1
  OR6C1 WILD-TYPE     21
D1695V6, multiclass
        clus
vv       OR6C1 MUTATED OR6C1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR6C1 MUTATED        2      1      4      0
  OR6C1 WILD-TYPE     98     71     68    121
D1695V7, multiclass
        clus
vv       OR6C1 MUTATED OR6C1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             4              68
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6C1 MUTATED        3      3      1      0      0
  OR6C1 WILD-TYPE     56     72     73    119     38
D1695V8, multiclass
        clus
vv       OR6C1 MUTATED OR6C1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             1              73
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR6C1 MUTATED        0      1      4      1      1
  OR6C1 WILD-TYPE     51     75     57     70     94
D1695V9, multiclass
        clus
vv       OR6C1 MUTATED OR6C1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6C1 MUTATED        2      2      1      0      1      0      0      0
  OR6C1 WILD-TYPE     67     46     38     16     52     20     21     38
                 vv
clus              CLUS_9
  OR6C1 MUTATED        1
  OR6C1 WILD-TYPE     49
D1695V10, multiclass
        clus
vv       OR6C1 MUTATED OR6C1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR6C1 MUTATED        0      1      0      0      1      2
  OR6C1 WILD-TYPE     13     15     14     11     10      7
D1695V11, multiclass
        clus
vv       OR6C1 MUTATED OR6C1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             2               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR6C1 MUTATED        1      1      0      0      0      1      1      0
  OR6C1 WILD-TYPE     10      6      7      9      8      6     10      9
                 vv
clus              CLUS_9
  OR6C1 MUTATED        0
  OR6C1 WILD-TYPE      5
D1695V12, multiclass
        clus
vv       OR6C1 MUTATED OR6C1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1696) Variable = EVI2A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EVI2A MUTATED        1      0      0      0      0
  EVI2A WILD-TYPE     31     18     46     27     23
D1696V1, multiclass
[1] "Remove cluster labels:" "EVI2A MUTATED"         
clus
  EVI2A MUTATED EVI2A WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AY-4071 
"EVI2A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EVI2A MUTATED        1      0      0
  EVI2A WILD-TYPE     42     67     36
D1696V2, multiclass
[1] "Remove cluster labels:" "EVI2A MUTATED"         
clus
  EVI2A MUTATED EVI2A WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" "EVI2A WILD-TYPE" 
     TCGA-AY-4071 
"EVI2A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EVI2A MUTATED        0      3      4
  EVI2A WILD-TYPE     42    170    143
D1696V3, multiclass
        clus
vv       EVI2A MUTATED EVI2A WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EVI2A MUTATED        1      2      3
  EVI2A WILD-TYPE     61     71     72
D1696V4, multiclass
        clus
vv       EVI2A MUTATED EVI2A WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EVI2A MUTATED        1      3      3
  EVI2A WILD-TYPE     69    117     97
D1696V5, multiclass
        clus
vv       EVI2A MUTATED EVI2A WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EVI2A MUTATED        1      2      1      0      0      2      1      0
  EVI2A WILD-TYPE     40     24     29     29     39     67     19     14
                 vv
clus              CLUS_9
  EVI2A MUTATED        0
  EVI2A WILD-TYPE     22
D1696V6, multiclass
        clus
vv       EVI2A MUTATED EVI2A WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EVI2A MUTATED        4      2      0      1
  EVI2A WILD-TYPE     96     70     72    120
D1696V7, multiclass
        clus
vv       EVI2A MUTATED EVI2A WILD-TYPE
  CLUS_1             4              96
  CLUS_2             2              70
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EVI2A MUTATED        1      3      2      1      0
  EVI2A WILD-TYPE     58     72     72    118     38
D1696V8, multiclass
        clus
vv       EVI2A MUTATED EVI2A WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EVI2A MUTATED        1      3      0      2      0
  EVI2A WILD-TYPE     50     73     61     69     95
D1696V9, multiclass
        clus
vv       EVI2A MUTATED EVI2A WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EVI2A MUTATED        1      1      1      1      0      2      0      0
  EVI2A WILD-TYPE     68     47     38     15     53     18     21     38
                 vv
clus              CLUS_9
  EVI2A MUTATED        0
  EVI2A WILD-TYPE     50
D1696V10, multiclass
        clus
vv       EVI2A MUTATED EVI2A WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EVI2A MUTATED        2      0      0      0      1      0
  EVI2A WILD-TYPE     11     16     14     11     10      9
D1696V11, multiclass
        clus
vv       EVI2A MUTATED EVI2A WILD-TYPE
  CLUS_1             2              11
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EVI2A MUTATED        0      0      0      1      0      0      0      2
  EVI2A WILD-TYPE     11      7      7      8      8      7     11      7
                 vv
clus              CLUS_9
  EVI2A MUTATED        0
  EVI2A WILD-TYPE      5
D1696V12, multiclass
        clus
vv       EVI2A MUTATED EVI2A WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             2               7
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1697) Variable = KIAA0415 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0415 MUTATED        1      0      0      0      0
  KIAA0415 WILD-TYPE     31     18     46     27     23
D1697V1, multiclass
[1] "Remove cluster labels:" "KIAA0415 MUTATED"      
clus
  KIAA0415 MUTATED KIAA0415 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3812 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AY-4071 
"KIAA0415 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0415 MUTATED        1      0      0
  KIAA0415 WILD-TYPE     42     67     36
D1697V2, multiclass
[1] "Remove cluster labels:" "KIAA0415 MUTATED"      
clus
  KIAA0415 MUTATED KIAA0415 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3812 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" "KIAA0415 WILD-TYPE" 
        TCGA-AY-4071 
"KIAA0415 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0415 MUTATED        1      0     11
  KIAA0415 WILD-TYPE     41    173    136
D1697V3, multiclass
        clus
vv       KIAA0415 MUTATED KIAA0415 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                173
  CLUS_3               11                136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0415 MUTATED        5      0      6
  KIAA0415 WILD-TYPE     57     73     69
D1697V4, multiclass
        clus
vv       KIAA0415 MUTATED KIAA0415 WILD-TYPE
  CLUS_1                5                 57
  CLUS_2                0                 73
  CLUS_3                6                 69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0415 MUTATED        0      4      6
  KIAA0415 WILD-TYPE     70    116     94
D1697V5, multiclass
        clus
vv       KIAA0415 MUTATED KIAA0415 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                4                116
  CLUS_3                6                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0415 MUTATED        1      1      0      0      1      4      2      1
  KIAA0415 WILD-TYPE     40     25     30     29     38     65     18     13
                    vv
clus                 CLUS_9
  KIAA0415 MUTATED        0
  KIAA0415 WILD-TYPE     22
D1697V6, multiclass
        clus
vv       KIAA0415 MUTATED KIAA0415 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                4                 65
  CLUS_7                2                 18
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0415 MUTATED        0      6      5      1
  KIAA0415 WILD-TYPE    100     66     67    120
D1697V7, multiclass
        clus
vv       KIAA0415 MUTATED KIAA0415 WILD-TYPE
  CLUS_1                0                100
  CLUS_2                6                 66
  CLUS_3                5                 67
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0415 MUTATED        1      0     10      0      1
  KIAA0415 WILD-TYPE     58     75     64    119     37
D1697V8, multiclass
        clus
vv       KIAA0415 MUTATED KIAA0415 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                0                 75
  CLUS_3               10                 64
  CLUS_4                0                119
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0415 MUTATED        0      9      2      1      0
  KIAA0415 WILD-TYPE     51     67     59     70     95
D1697V9, multiclass
        clus
vv       KIAA0415 MUTATED KIAA0415 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                9                 67
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                0                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0415 MUTATED        1      4      0      4      2      1      0      0
  KIAA0415 WILD-TYPE     68     44     39     12     51     19     21     38
                    vv
clus                 CLUS_9
  KIAA0415 MUTATED        0
  KIAA0415 WILD-TYPE     50
D1697V10, multiclass
        clus
vv       KIAA0415 MUTATED KIAA0415 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                4                 44
  CLUS_3                0                 39
  CLUS_4                4                 12
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                0                 38
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA0415 MUTATED        0      0      2      0      4      0
  KIAA0415 WILD-TYPE     13     16     12     11      7      9
D1697V11, multiclass
        clus
vv       KIAA0415 MUTATED KIAA0415 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                0                 16
  CLUS_3                2                 12
  CLUS_4                0                 11
  CLUS_5                4                  7
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0415 MUTATED        0      0      0      3      0      1      2      0
  KIAA0415 WILD-TYPE     11      7      7      6      8      6      9      9
                    vv
clus                 CLUS_9
  KIAA0415 MUTATED        0
  KIAA0415 WILD-TYPE      5
D1697V12, multiclass
        clus
vv       KIAA0415 MUTATED KIAA0415 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                3                  6
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1698) Variable = ELANE MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ELANE MUTATED        0      0      0      1      0
  ELANE WILD-TYPE     32     18     46     26     23
D1698V1, multiclass
[1] "Remove cluster labels:" "ELANE MUTATED"         
clus
  ELANE MUTATED ELANE WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AY-4071 
"ELANE WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ELANE MUTATED        0      1      0
  ELANE WILD-TYPE     43     66     36
D1698V2, multiclass
[1] "Remove cluster labels:" "ELANE MUTATED"         
clus
  ELANE MUTATED ELANE WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AY-4071 
"ELANE WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ELANE MUTATED        0      1      6
  ELANE WILD-TYPE     42    172    141
D1698V3, multiclass
        clus
vv       ELANE MUTATED ELANE WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ELANE MUTATED        3      0      3
  ELANE WILD-TYPE     59     73     72
D1698V4, multiclass
        clus
vv       ELANE MUTATED ELANE WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ELANE MUTATED        0      3      3
  ELANE WILD-TYPE     70    117     97
D1698V5, multiclass
        clus
vv       ELANE MUTATED ELANE WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ELANE MUTATED        0      1      1      1      0      2      1      0
  ELANE WILD-TYPE     41     25     29     28     39     67     19     14
                 vv
clus              CLUS_9
  ELANE MUTATED        0
  ELANE WILD-TYPE     22
D1698V6, multiclass
        clus
vv       ELANE MUTATED ELANE WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ELANE MUTATED        0      4      2      1
  ELANE WILD-TYPE    100     68     70    120
D1698V7, multiclass
        clus
vv       ELANE MUTATED ELANE WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ELANE MUTATED        1      1      4      1      0
  ELANE WILD-TYPE     58     74     70    118     38
D1698V8, multiclass
        clus
vv       ELANE MUTATED ELANE WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ELANE MUTATED        0      4      1      0      2
  ELANE WILD-TYPE     51     72     60     71     93
D1698V9, multiclass
        clus
vv       ELANE MUTATED ELANE WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ELANE MUTATED        0      3      0      1      0      2      0      0
  ELANE WILD-TYPE     69     45     39     15     53     18     21     38
                 vv
clus              CLUS_9
  ELANE MUTATED        1
  ELANE WILD-TYPE     49
D1698V10, multiclass
        clus
vv       ELANE MUTATED ELANE WILD-TYPE
  CLUS_1             0              69
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ELANE MUTATED        0      1      0      0      1      0
  ELANE WILD-TYPE     13     15     14     11     10      9
D1698V11, multiclass
[1] "Remove cluster labels:" "ELANE MUTATED"         
clus
  ELANE MUTATED ELANE WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-6748 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ELANE MUTATED        0      1      0      0      0      0      1      0
  ELANE WILD-TYPE     11      6      7      9      8      7     10      9
                 vv
clus              CLUS_9
  ELANE MUTATED        0
  ELANE WILD-TYPE      5
D1698V12, multiclass
[1] "Remove cluster labels:" "ELANE MUTATED"         
clus
  ELANE MUTATED ELANE WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-6748 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" "ELANE WILD-TYPE" 

Clustering(1699) Variable = UGGT1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGGT1 MUTATED        3      0      1      2      0
  UGGT1 WILD-TYPE     29     18     45     25     23
D1699V1, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UGGT1 MUTATED        4      1      1
  UGGT1 WILD-TYPE     39     66     35
D1699V2, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UGGT1 MUTATED        1      3     14
  UGGT1 WILD-TYPE     41    170    133
D1699V3, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3            14             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UGGT1 MUTATED        4      2      6
  UGGT1 WILD-TYPE     58     71     69
D1699V4, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UGGT1 MUTATED        6      3      8
  UGGT1 WILD-TYPE     64    117     92
D1699V5, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             6              64
  CLUS_2             3             117
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGGT1 MUTATED        3      0      2      1      3      7      0      1
  UGGT1 WILD-TYPE     38     26     28     28     36     62     20     13
                 vv
clus              CLUS_9
  UGGT1 MUTATED        0
  UGGT1 WILD-TYPE     22
D1699V6, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             7              62
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UGGT1 MUTATED        1      6      4      7
  UGGT1 WILD-TYPE     99     66     68    114
D1699V7, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             4              68
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGGT1 MUTATED        3      0      8      3      4
  UGGT1 WILD-TYPE     56     75     66    116     34
D1699V8, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             0              75
  CLUS_3             8              66
  CLUS_4             3             116
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UGGT1 MUTATED        2      4      4      1      6
  UGGT1 WILD-TYPE     49     72     57     70     89
D1699V9, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             4              57
  CLUS_4             1              70
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGGT1 MUTATED        2      5      0      2      0      2      1      4
  UGGT1 WILD-TYPE     67     43     39     14     53     18     20     34
                 vv
clus              CLUS_9
  UGGT1 MUTATED        1
  UGGT1 WILD-TYPE     49
D1699V10, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UGGT1 MUTATED        0      0      1      2      1      0
  UGGT1 WILD-TYPE     13     16     13      9     10      9
D1699V11, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             2               9
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UGGT1 MUTATED        0      0      2      0      1      0      1      0
  UGGT1 WILD-TYPE     11      7      5      9      7      7     10      9
                 vv
clus              CLUS_9
  UGGT1 MUTATED        0
  UGGT1 WILD-TYPE      5
D1699V12, multiclass
        clus
vv       UGGT1 MUTATED UGGT1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             2               5
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1700) Variable = CCDC19 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC19 MUTATED        2      0      1      1      0
  CCDC19 WILD-TYPE     30     18     45     26     23
D1700V1, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC19 MUTATED        1      2      1
  CCDC19 WILD-TYPE     42     65     35
D1700V2, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC19 MUTATED        1      2     12
  CCDC19 WILD-TYPE     41    171    135
D1700V3, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC19 MUTATED        7      1      3
  CCDC19 WILD-TYPE     55     72     72
D1700V4, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              7               55
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CCDC19 MUTATED        1      4      8
  CCDC19 WILD-TYPE     69    116     92
D1700V5, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              116
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC19 MUTATED        2      0      3      1      0      6      0      1
  CCDC19 WILD-TYPE     39     26     27     28     39     63     20     13
                  vv
clus               CLUS_9
  CCDC19 MUTATED        0
  CCDC19 WILD-TYPE     22
D1700V6, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              3               27
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              6               63
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC19 MUTATED        0      4      7      4
  CCDC19 WILD-TYPE    100     68     65    117
D1700V7, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              7               65
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC19 MUTATED        2      1      8      3      1
  CCDC19 WILD-TYPE     57     74     66    116     37
D1700V8, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              8               66
  CLUS_4              3              116
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC19 MUTATED        0      6      4      2      2
  CCDC19 WILD-TYPE     51     70     57     69     93
D1700V9, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              6               70
  CLUS_3              4               57
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC19 MUTATED        3      5      0      2      1      1      0      0
  CCDC19 WILD-TYPE     66     43     39     14     52     19     21     38
                  vv
clus               CLUS_9
  CCDC19 MUTATED        2
  CCDC19 WILD-TYPE     48
D1700V10, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              5               43
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC19 MUTATED        0      0      2      1      3      0
  CCDC19 WILD-TYPE     13     16     12     10      8      9
D1700V11, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              1               10
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC19 MUTATED        0      0      1      1      1      1      2      0
  CCDC19 WILD-TYPE     11      7      6      8      7      6      9      9
                  vv
clus               CLUS_9
  CCDC19 MUTATED        0
  CCDC19 WILD-TYPE      5
D1700V12, multiclass
        clus
vv       CCDC19 MUTATED CCDC19 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1701) Variable = C13ORF23 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C13ORF23 MUTATED        2      0      0      1      0
  C13ORF23 WILD-TYPE     30     18     46     26     23
D1701V1, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C13ORF23 MUTATED        2      1      0
  C13ORF23 WILD-TYPE     41     66     36
D1701V2, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C13ORF23 MUTATED        1      3      8
  C13ORF23 WILD-TYPE     41    170    139
D1701V3, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                3                170
  CLUS_3                8                139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C13ORF23 MUTATED        4      1      4
  C13ORF23 WILD-TYPE     58     72     71
D1701V4, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                4                 58
  CLUS_2                1                 72
  CLUS_3                4                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C13ORF23 MUTATED        1      6      3
  C13ORF23 WILD-TYPE     69    114     97
D1701V5, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                6                114
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C13ORF23 MUTATED        2      1      2      1      0      2      1      0
  C13ORF23 WILD-TYPE     39     25     28     28     39     67     19     14
                    vv
clus                 CLUS_9
  C13ORF23 MUTATED        1
  C13ORF23 WILD-TYPE     21
D1701V6, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 25
  CLUS_3                2                 28
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                2                 67
  CLUS_7                1                 19
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C13ORF23 MUTATED        3      3      3      3
  C13ORF23 WILD-TYPE     97     69     69    118
D1701V7, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                3                 97
  CLUS_2                3                 69
  CLUS_3                3                 69
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C13ORF23 MUTATED        1      4      4      1      2
  C13ORF23 WILD-TYPE     58     71     70    118     36
D1701V8, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                4                 71
  CLUS_3                4                 70
  CLUS_4                1                118
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C13ORF23 MUTATED        2      4      2      1      3
  C13ORF23 WILD-TYPE     49     72     59     70     92
D1701V9, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                4                 72
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C13ORF23 MUTATED        3      2      0      2      0      3      0      2
  C13ORF23 WILD-TYPE     66     46     39     14     53     17     21     36
                    vv
clus                 CLUS_9
  C13ORF23 MUTATED        0
  C13ORF23 WILD-TYPE     50
D1701V10, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                2                 46
  CLUS_3                0                 39
  CLUS_4                2                 14
  CLUS_5                0                 53
  CLUS_6                3                 17
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C13ORF23 MUTATED        1      0      2      0      2      0
  C13ORF23 WILD-TYPE     12     16     12     11      9      9
D1701V11, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                0                 16
  CLUS_3                2                 12
  CLUS_4                0                 11
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C13ORF23 MUTATED        0      0      0      2      1      0      1      1
  C13ORF23 WILD-TYPE     11      7      7      7      7      7     10      8
                    vv
clus                 CLUS_9
  C13ORF23 MUTATED        0
  C13ORF23 WILD-TYPE      5
D1701V12, multiclass
        clus
vv       C13ORF23 MUTATED C13ORF23 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                2                  7
  CLUS_5                1                  7
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                1                  8
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1702) Variable = SMC4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMC4 MUTATED        6      0      0      2      1
  SMC4 WILD-TYPE     26     18     46     25     22
D1702V1, multiclass
        clus
vv       SMC4 MUTATED SMC4 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMC4 MUTATED        6      1      2
  SMC4 WILD-TYPE     37     66     34
D1702V2, multiclass
        clus
vv       SMC4 MUTATED SMC4 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            1             66
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMC4 MUTATED        0      2     15
  SMC4 WILD-TYPE     42    171    132
D1702V3, multiclass
        clus
vv       SMC4 MUTATED SMC4 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3           15            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMC4 MUTATED        3      1      4
  SMC4 WILD-TYPE     59     72     71
D1702V4, multiclass
        clus
vv       SMC4 MUTATED SMC4 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SMC4 MUTATED        2      3      7
  SMC4 WILD-TYPE     68    117     93
D1702V5, multiclass
        clus
vv       SMC4 MUTATED SMC4 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMC4 MUTATED        0      1      2      0      2      5      2      0      0
  SMC4 WILD-TYPE     41     25     28     29     37     64     18     14     22
D1702V6, multiclass
        clus
vv       SMC4 MUTATED SMC4 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMC4 MUTATED        1      5      1     11
  SMC4 WILD-TYPE     99     67     71    110
D1702V7, multiclass
        clus
vv       SMC4 MUTATED SMC4 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            1             71
  CLUS_4           11            110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMC4 MUTATED        0      2      5      5      6
  SMC4 WILD-TYPE     59     73     69    114     32
D1702V8, multiclass
        clus
vv       SMC4 MUTATED SMC4 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            2             73
  CLUS_3            5             69
  CLUS_4            5            114
  CLUS_5            6             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMC4 MUTATED        1      4      1      2      8
  SMC4 WILD-TYPE     50     72     60     69     87
D1702V9, multiclass
        clus
vv       SMC4 MUTATED SMC4 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMC4 MUTATED        1      0      1      2      3      1      2      3      3
  SMC4 WILD-TYPE     68     48     38     14     50     19     19     35     47
D1702V10, multiclass
        clus
vv       SMC4 MUTATED SMC4 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            2             19
  CLUS_8            3             35
  CLUS_9            3             47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMC4 MUTATED        1      0      0      0      1      0
  SMC4 WILD-TYPE     12     16     14     11     10      9
D1702V11, multiclass
[1] "Remove cluster labels:" "SMC4 MUTATED"          
clus
  SMC4 MUTATED SMC4 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6534     TCGA-D5-6536 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SMC4 MUTATED        0      0      0      0      0      1      0      1      0
  SMC4 WILD-TYPE     11      7      7      9      8      6     11      8      5
D1702V12, multiclass
[1] "Remove cluster labels:" "SMC4 MUTATED"          
clus
  SMC4 MUTATED SMC4 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6534     TCGA-D5-6536 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" "SMC4 WILD-TYPE" 

Clustering(1703) Variable = KIF13A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF13A MUTATED        2      0      1      3      0
  KIF13A WILD-TYPE     30     18     45     24     23
D1703V1, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              3               24
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF13A MUTATED        2      2      2
  KIF13A WILD-TYPE     41     65     34
D1703V2, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              2               41
  CLUS_2              2               65
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF13A MUTATED        1      4     16
  KIF13A WILD-TYPE     41    169    131
D1703V3, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4              169
  CLUS_3             16              131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF13A MUTATED        3      2      9
  KIF13A WILD-TYPE     59     71     66
D1703V4, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              3               59
  CLUS_2              2               71
  CLUS_3              9               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF13A MUTATED        2      6      9
  KIF13A WILD-TYPE     68    114     91
D1703V5, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              2               68
  CLUS_2              6              114
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF13A MUTATED        3      0      2      3      2      6      1      0
  KIF13A WILD-TYPE     38     26     28     26     37     63     19     14
                  vv
clus               CLUS_9
  KIF13A MUTATED        0
  KIF13A WILD-TYPE     22
D1703V6, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              3               26
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIF13A MUTATED        1      8      7      5
  KIF13A WILD-TYPE     99     64     65    116
D1703V7, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              1               99
  CLUS_2              8               64
  CLUS_3              7               65
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF13A MUTATED        3      0     11      5      2
  KIF13A WILD-TYPE     56     75     63    114     36
D1703V8, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              3               56
  CLUS_2              0               75
  CLUS_3             11               63
  CLUS_4              5              114
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF13A MUTATED        0      9      5      2      4
  KIF13A WILD-TYPE     51     67     56     69     91
D1703V9, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              0               51
  CLUS_2              9               67
  CLUS_3              5               56
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF13A MUTATED        3      8      0      2      3      1      0      1
  KIF13A WILD-TYPE     66     40     39     14     50     19     21     37
                  vv
clus               CLUS_9
  KIF13A MUTATED        2
  KIF13A WILD-TYPE     48
D1703V10, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              3               66
  CLUS_2              8               40
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIF13A MUTATED        0      1      0      1      2      0
  KIF13A WILD-TYPE     13     15     14     10      9      9
D1703V11, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIF13A MUTATED        0      0      1      0      0      1      2      0
  KIF13A WILD-TYPE     11      7      6      9      8      6      9      9
                  vv
clus               CLUS_9
  KIF13A MUTATED        0
  KIF13A WILD-TYPE      5
D1703V12, multiclass
        clus
vv       KIF13A MUTATED KIF13A WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1704) Variable = DONSON MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DONSON MUTATED        0      0      0      0      0
  DONSON WILD-TYPE     32     18     46     27     23
D1704V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DONSON MUTATED        0      0      0
  DONSON WILD-TYPE     43     67     36
D1704V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DONSON MUTATED        1      1      2
  DONSON WILD-TYPE     41    172    145
D1704V3, multiclass
        clus
vv       DONSON MUTATED DONSON WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DONSON MUTATED        0      0      4
  DONSON WILD-TYPE     62     73     71
D1704V4, multiclass
        clus
vv       DONSON MUTATED DONSON WILD-TYPE
  CLUS_1              0               62
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DONSON MUTATED        0      3      1
  DONSON WILD-TYPE     70    117     99
D1704V5, multiclass
        clus
vv       DONSON MUTATED DONSON WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DONSON MUTATED        0      0      1      1      0      1      1      0
  DONSON WILD-TYPE     41     26     29     28     39     68     19     14
                  vv
clus               CLUS_9
  DONSON MUTATED        0
  DONSON WILD-TYPE     22
D1704V6, multiclass
        clus
vv       DONSON MUTATED DONSON WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DONSON MUTATED        1      3      0      0
  DONSON WILD-TYPE     99     69     72    121
D1704V7, multiclass
        clus
vv       DONSON MUTATED DONSON WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              0               72
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DONSON MUTATED        0      1      3      0      0
  DONSON WILD-TYPE     59     74     71    119     38
D1704V8, multiclass
        clus
vv       DONSON MUTATED DONSON WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DONSON MUTATED        1      2      0      1      0
  DONSON WILD-TYPE     50     74     61     70     95
D1704V9, multiclass
        clus
vv       DONSON MUTATED DONSON WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DONSON MUTATED        1      0      0      2      1      0      0      0
  DONSON WILD-TYPE     68     48     39     14     52     20     21     38
                  vv
clus               CLUS_9
  DONSON MUTATED        0
  DONSON WILD-TYPE     50
D1704V10, multiclass
        clus
vv       DONSON MUTATED DONSON WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DONSON MUTATED        1      0      0      0      1      0
  DONSON WILD-TYPE     12     16     14     11     10      9
D1704V11, multiclass
[1] "Remove cluster labels:" "DONSON MUTATED"        
clus
  DONSON MUTATED DONSON WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DONSON MUTATED        0      0      0      1      0      0      0      1
  DONSON WILD-TYPE     11      7      7      8      8      7     11      8
                  vv
clus               CLUS_9
  DONSON MUTATED        0
  DONSON WILD-TYPE      5
D1704V12, multiclass
[1] "Remove cluster labels:" "DONSON MUTATED"        
clus
  DONSON MUTATED DONSON WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" "DONSON WILD-TYPE" 

Clustering(1705) Variable = SLC26A7 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC26A7 MUTATED        3      0      2      3      0
  SLC26A7 WILD-TYPE     29     18     44     24     23
D1705V1, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               2                44
  CLUS_4               3                24
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A7 MUTATED        4      4      0
  SLC26A7 WILD-TYPE     39     63     36
D1705V2, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               4                63
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A7 MUTATED        2      3     12
  SLC26A7 WILD-TYPE     40    170    135
D1705V3, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               3               170
  CLUS_3              12               135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A7 MUTATED        6      0      3
  SLC26A7 WILD-TYPE     56     73     72
D1705V4, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               6                56
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A7 MUTATED        1      6      7
  SLC26A7 WILD-TYPE     69    114     93
D1705V5, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               6               114
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC26A7 MUTATED        2      1      2      2      1      6      0      0
  SLC26A7 WILD-TYPE     39     25     28     27     38     63     20     14
                   vv
clus                CLUS_9
  SLC26A7 MUTATED        0
  SLC26A7 WILD-TYPE     22
D1705V6, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC26A7 MUTATED        1      5      3      8
  SLC26A7 WILD-TYPE     99     67     69    113
D1705V7, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               5                67
  CLUS_3               3                69
  CLUS_4               8               113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC26A7 MUTATED        1      2      5      5      4
  SLC26A7 WILD-TYPE     58     73     69    114     34
D1705V8, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               5                69
  CLUS_4               5               114
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC26A7 MUTATED        0      6      1      3      6
  SLC26A7 WILD-TYPE     51     70     60     68     89
D1705V9, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               6                70
  CLUS_3               1                60
  CLUS_4               3                68
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC26A7 MUTATED        3      2      1      2      1      1      0      2
  SLC26A7 WILD-TYPE     66     46     38     14     52     19     21     36
                   vv
clus                CLUS_9
  SLC26A7 MUTATED        4
  SLC26A7 WILD-TYPE     46
D1705V10, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               4                46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC26A7 MUTATED        0      0      0      0      2      0
  SLC26A7 WILD-TYPE     13     16     14     11      9      9
D1705V11, multiclass
[1] "Remove cluster labels:" "SLC26A7 MUTATED"       
clus
  SLC26A7 MUTATED SLC26A7 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC26A7 MUTATED        0      0      0      1      0      0      1      0
  SLC26A7 WILD-TYPE     11      7      7      8      8      7     10      9
                   vv
clus                CLUS_9
  SLC26A7 MUTATED        0
  SLC26A7 WILD-TYPE      5
D1705V12, multiclass
[1] "Remove cluster labels:" "SLC26A7 MUTATED"       
clus
  SLC26A7 MUTATED SLC26A7 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" "SLC26A7 WILD-TYPE" 

Clustering(1706) Variable = ACSL3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACSL3 MUTATED        3      0      0      2      0
  ACSL3 WILD-TYPE     29     18     46     25     23
D1706V1, multiclass
        clus
vv       ACSL3 MUTATED ACSL3 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACSL3 MUTATED        2      2      1
  ACSL3 WILD-TYPE     41     65     35
D1706V2, multiclass
        clus
vv       ACSL3 MUTATED ACSL3 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACSL3 MUTATED        0      3      7
  ACSL3 WILD-TYPE     42    170    140
D1706V3, multiclass
        clus
vv       ACSL3 MUTATED ACSL3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACSL3 MUTATED        2      0      3
  ACSL3 WILD-TYPE     60     73     72
D1706V4, multiclass
        clus
vv       ACSL3 MUTATED ACSL3 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACSL3 MUTATED        2      3      2
  ACSL3 WILD-TYPE     68    117     98
D1706V5, multiclass
        clus
vv       ACSL3 MUTATED ACSL3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACSL3 MUTATED        1      0      2      1      2      0      1      0
  ACSL3 WILD-TYPE     40     26     28     28     37     69     19     14
                 vv
clus              CLUS_9
  ACSL3 MUTATED        0
  ACSL3 WILD-TYPE     22
D1706V6, multiclass
        clus
vv       ACSL3 MUTATED ACSL3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             0              69
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACSL3 MUTATED        0      4      1      5
  ACSL3 WILD-TYPE    100     68     71    116
D1706V7, multiclass
        clus
vv       ACSL3 MUTATED ACSL3 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACSL3 MUTATED        1      1      3      3      2
  ACSL3 WILD-TYPE     58     74     71    116     36
D1706V8, multiclass
        clus
vv       ACSL3 MUTATED ACSL3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             3             116
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACSL3 MUTATED        0      4      0      2      4
  ACSL3 WILD-TYPE     51     72     61     69     91
D1706V9, multiclass
        clus
vv       ACSL3 MUTATED ACSL3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACSL3 MUTATED        3      1      0      0      2      2      0      1
  ACSL3 WILD-TYPE     66     47     39     16     51     18     21     37
                 vv
clus              CLUS_9
  ACSL3 MUTATED        1
  ACSL3 WILD-TYPE     49
D1706V10, multiclass
        clus
vv       ACSL3 MUTATED ACSL3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACSL3 MUTATED        0      0      1      0      0      0
  ACSL3 WILD-TYPE     13     16     13     11     11      9
D1706V11, multiclass
[1] "Remove cluster labels:" "ACSL3 MUTATED"         
clus
  ACSL3 MUTATED ACSL3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-G4-6628 
"ACSL3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACSL3 MUTATED        0      0      0      0      1      0      0      0
  ACSL3 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  ACSL3 MUTATED        0
  ACSL3 WILD-TYPE      5
D1706V12, multiclass
[1] "Remove cluster labels:" "ACSL3 MUTATED"         
clus
  ACSL3 MUTATED ACSL3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309 
"ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" "ACSL3 WILD-TYPE" 
     TCGA-G4-6628 
"ACSL3 WILD-TYPE" 

Clustering(1707) Variable = CDC7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDC7 MUTATED        2      0      0      0      0
  CDC7 WILD-TYPE     30     18     46     27     23
D1707V1, multiclass
[1] "Remove cluster labels:" "CDC7 MUTATED"          
clus
  CDC7 MUTATED CDC7 WILD-TYPE 
             2            144 
    TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDC7 MUTATED        2      0      0
  CDC7 WILD-TYPE     41     67     36
D1707V2, multiclass
[1] "Remove cluster labels:" "CDC7 MUTATED"          
clus
  CDC7 MUTATED CDC7 WILD-TYPE 
             2            144 
    TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3809 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDC7 MUTATED        1      2      7
  CDC7 WILD-TYPE     41    171    140
D1707V3, multiclass
        clus
vv       CDC7 MUTATED CDC7 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDC7 MUTATED        4      3      1
  CDC7 WILD-TYPE     58     70     74
D1707V4, multiclass
        clus
vv       CDC7 MUTATED CDC7 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDC7 MUTATED        0      5      3
  CDC7 WILD-TYPE     70    115     97
D1707V5, multiclass
        clus
vv       CDC7 MUTATED CDC7 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            5            115
  CLUS_3            3             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDC7 MUTATED        1      0      0      0      2      2      1      1      1
  CDC7 WILD-TYPE     40     26     30     29     37     67     19     13     21
D1707V6, multiclass
        clus
vv       CDC7 MUTATED CDC7 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDC7 MUTATED        2      2      4      2
  CDC7 WILD-TYPE     98     70     68    119
D1707V7, multiclass
        clus
vv       CDC7 MUTATED CDC7 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDC7 MUTATED        2      2      4      0      2
  CDC7 WILD-TYPE     57     73     70    119     36
D1707V8, multiclass
        clus
vv       CDC7 MUTATED CDC7 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            0            119
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDC7 MUTATED        3      3      1      1      2
  CDC7 WILD-TYPE     48     73     60     70     93
D1707V9, multiclass
        clus
vv       CDC7 MUTATED CDC7 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDC7 MUTATED        2      3      1      0      2      0      0      2      0
  CDC7 WILD-TYPE     67     45     38     16     51     20     21     36     50
D1707V10, multiclass
        clus
vv       CDC7 MUTATED CDC7 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDC7 MUTATED        0      0      0      1      1      0
  CDC7 WILD-TYPE     13     16     14     10     10      9
D1707V11, multiclass
[1] "Remove cluster labels:" "CDC7 MUTATED"          
clus
  CDC7 MUTATED CDC7 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CDC7 MUTATED        0      0      0      0      0      0      1      1      0
  CDC7 WILD-TYPE     11      7      7      9      8      7     10      8      5
D1707V12, multiclass
[1] "Remove cluster labels:" "CDC7 MUTATED"          
clus
  CDC7 MUTATED CDC7 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" "CDC7 WILD-TYPE" 

Clustering(1708) Variable = C12ORF51 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF51 MUTATED        7      0      1      4      0
  C12ORF51 WILD-TYPE     25     18     45     23     23
D1708V1, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                7                 25
  CLUS_2                0                 18
  CLUS_3                1                 45
  CLUS_4                4                 23
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF51 MUTATED        8      4      0
  C12ORF51 WILD-TYPE     35     63     36
D1708V2, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                8                 35
  CLUS_2                4                 63
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF51 MUTATED        3      4     23
  C12ORF51 WILD-TYPE     39    169    124
D1708V3, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                4                169
  CLUS_3               23                124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF51 MUTATED        9      1      8
  C12ORF51 WILD-TYPE     53     72     67
D1708V4, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                9                 53
  CLUS_2                1                 72
  CLUS_3                8                 67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF51 MUTATED        2     10     15
  C12ORF51 WILD-TYPE     68    110     85
D1708V5, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2               10                110
  CLUS_3               15                 85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF51 MUTATED        2      4      1      2      4     10      1      2
  C12ORF51 WILD-TYPE     39     22     29     27     35     59     19     12
                    vv
clus                 CLUS_9
  C12ORF51 MUTATED        1
  C12ORF51 WILD-TYPE     21
D1708V6, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                4                 22
  CLUS_3                1                 29
  CLUS_4                2                 27
  CLUS_5                4                 35
  CLUS_6               10                 59
  CLUS_7                1                 19
  CLUS_8                2                 12
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C12ORF51 MUTATED        2     12      6     11
  C12ORF51 WILD-TYPE     98     60     66    110
D1708V7, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                2                 98
  CLUS_2               12                 60
  CLUS_3                6                 66
  CLUS_4               11                110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF51 MUTATED        3      1     13      5      9
  C12ORF51 WILD-TYPE     56     74     61    114     29
D1708V8, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                3                 56
  CLUS_2                1                 74
  CLUS_3               13                 61
  CLUS_4                5                114
  CLUS_5                9                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF51 MUTATED        0     12      3      2     13
  C12ORF51 WILD-TYPE     51     64     58     69     82
D1708V9, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2               12                 64
  CLUS_3                3                 58
  CLUS_4                2                 69
  CLUS_5               13                 82
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF51 MUTATED        5      3      1      6      2      1      1      8
  C12ORF51 WILD-TYPE     64     45     38     10     51     19     20     30
                    vv
clus                 CLUS_9
  C12ORF51 MUTATED        3
  C12ORF51 WILD-TYPE     47
D1708V10, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                5                 64
  CLUS_2                3                 45
  CLUS_3                1                 38
  CLUS_4                6                 10
  CLUS_5                2                 51
  CLUS_6                1                 19
  CLUS_7                1                 20
  CLUS_8                8                 30
  CLUS_9                3                 47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C12ORF51 MUTATED        0      1      0      1      5      1
  C12ORF51 WILD-TYPE     13     15     14     10      6      8
D1708V11, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                1                 15
  CLUS_3                0                 14
  CLUS_4                1                 10
  CLUS_5                5                  6
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C12ORF51 MUTATED        2      0      0      3      0      1      2      0
  C12ORF51 WILD-TYPE      9      7      7      6      8      6      9      9
                    vv
clus                 CLUS_9
  C12ORF51 MUTATED        0
  C12ORF51 WILD-TYPE      5
D1708V12, multiclass
        clus
vv       C12ORF51 MUTATED C12ORF51 WILD-TYPE
  CLUS_1                2                  9
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                3                  6
  CLUS_5                0                  8
  CLUS_6                1                  6
  CLUS_7                2                  9
  CLUS_8                0                  9
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1709) Variable = LARP7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LARP7 MUTATED        0      0      0      0      0
  LARP7 WILD-TYPE     32     18     46     27     23
D1709V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP7 MUTATED        0      0      0
  LARP7 WILD-TYPE     43     67     36
D1709V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP7 MUTATED        0      2      6
  LARP7 WILD-TYPE     42    171    141
D1709V3, multiclass
        clus
vv       LARP7 MUTATED LARP7 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP7 MUTATED        3      1      4
  LARP7 WILD-TYPE     59     72     71
D1709V4, multiclass
        clus
vv       LARP7 MUTATED LARP7 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP7 MUTATED        1      2      3
  LARP7 WILD-TYPE     69    118     97
D1709V5, multiclass
        clus
vv       LARP7 MUTATED LARP7 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LARP7 MUTATED        1      0      2      0      1      2      0      0
  LARP7 WILD-TYPE     40     26     28     29     38     67     20     14
                 vv
clus              CLUS_9
  LARP7 MUTATED        0
  LARP7 WILD-TYPE     22
D1709V6, multiclass
        clus
vv       LARP7 MUTATED LARP7 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LARP7 MUTATED        1      3      4      0
  LARP7 WILD-TYPE     99     69     68    121
D1709V7, multiclass
        clus
vv       LARP7 MUTATED LARP7 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             4              68
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LARP7 MUTATED        2      1      5      0      0
  LARP7 WILD-TYPE     57     74     69    119     38
D1709V8, multiclass
        clus
vv       LARP7 MUTATED LARP7 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LARP7 MUTATED        0      3      4      0      1
  LARP7 WILD-TYPE     51     73     57     71     94
D1709V9, multiclass
        clus
vv       LARP7 MUTATED LARP7 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             4              57
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LARP7 MUTATED        2      4      0      0      0      1      0      1
  LARP7 WILD-TYPE     67     44     39     16     53     19     21     37
                 vv
clus              CLUS_9
  LARP7 MUTATED        0
  LARP7 WILD-TYPE     50
D1709V10, multiclass
        clus
vv       LARP7 MUTATED LARP7 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LARP7 MUTATED        1      0      1      0      0      0
  LARP7 WILD-TYPE     12     16     13     11     11      9
D1709V11, multiclass
[1] "Remove cluster labels:" "LARP7 MUTATED"         
clus
  LARP7 MUTATED LARP7 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LARP7 MUTATED        0      0      1      0      0      0      1      0
  LARP7 WILD-TYPE     11      7      6      9      8      7     10      9
                 vv
clus              CLUS_9
  LARP7 MUTATED        0
  LARP7 WILD-TYPE      5
D1709V12, multiclass
[1] "Remove cluster labels:" "LARP7 MUTATED"         
clus
  LARP7 MUTATED LARP7 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6605 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" "LARP7 WILD-TYPE" 

Clustering(1710) Variable = TRIP6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIP6 MUTATED        0      0      0      1      0
  TRIP6 WILD-TYPE     32     18     46     26     23
D1710V1, multiclass
[1] "Remove cluster labels:" "TRIP6 MUTATED"         
clus
  TRIP6 MUTATED TRIP6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AY-4071 
"TRIP6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIP6 MUTATED        0      1      0
  TRIP6 WILD-TYPE     43     66     36
D1710V2, multiclass
[1] "Remove cluster labels:" "TRIP6 MUTATED"         
clus
  TRIP6 MUTATED TRIP6 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" "TRIP6 WILD-TYPE" 
     TCGA-AY-4071 
"TRIP6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIP6 MUTATED        1      0      9
  TRIP6 WILD-TYPE     41    173    138
D1710V3, multiclass
        clus
vv       TRIP6 MUTATED TRIP6 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIP6 MUTATED        2      0      7
  TRIP6 WILD-TYPE     60     73     68
D1710V4, multiclass
        clus
vv       TRIP6 MUTATED TRIP6 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIP6 MUTATED        2      2      3
  TRIP6 WILD-TYPE     68    118     97
D1710V5, multiclass
        clus
vv       TRIP6 MUTATED TRIP6 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIP6 MUTATED        1      0      0      2      0      3      1      0
  TRIP6 WILD-TYPE     40     26     30     27     39     66     19     14
                 vv
clus              CLUS_9
  TRIP6 MUTATED        0
  TRIP6 WILD-TYPE     22
D1710V6, multiclass
        clus
vv       TRIP6 MUTATED TRIP6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIP6 MUTATED        0      6      4      0
  TRIP6 WILD-TYPE    100     66     68    121
D1710V7, multiclass
        clus
vv       TRIP6 MUTATED TRIP6 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             4              68
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIP6 MUTATED        0      1      8      1      0
  TRIP6 WILD-TYPE     59     74     66    118     38
D1710V8, multiclass
        clus
vv       TRIP6 MUTATED TRIP6 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIP6 MUTATED        0      8      1      0      1
  TRIP6 WILD-TYPE     51     68     60     71     94
D1710V9, multiclass
        clus
vv       TRIP6 MUTATED TRIP6 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             8              68
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIP6 MUTATED        2      3      0      3      1      0      0      1
  TRIP6 WILD-TYPE     67     45     39     13     52     20     21     37
                 vv
clus              CLUS_9
  TRIP6 MUTATED        0
  TRIP6 WILD-TYPE     50
D1710V10, multiclass
        clus
vv       TRIP6 MUTATED TRIP6 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIP6 MUTATED        0      1      1      0      2      0
  TRIP6 WILD-TYPE     13     15     13     11      9      9
D1710V11, multiclass
        clus
vv       TRIP6 MUTATED TRIP6 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIP6 MUTATED        0      0      0      1      0      0      3      0
  TRIP6 WILD-TYPE     11      7      7      8      8      7      8      9
                 vv
clus              CLUS_9
  TRIP6 MUTATED        0
  TRIP6 WILD-TYPE      5
D1710V12, multiclass
        clus
vv       TRIP6 MUTATED TRIP6 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1711) Variable = FOLR3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOLR3 MUTATED        2      0      0      0      1
  FOLR3 WILD-TYPE     30     18     46     27     22
D1711V1, multiclass
        clus
vv       FOLR3 MUTATED FOLR3 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOLR3 MUTATED        2      0      1
  FOLR3 WILD-TYPE     41     67     35
D1711V2, multiclass
        clus
vv       FOLR3 MUTATED FOLR3 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOLR3 MUTATED        0      2      4
  FOLR3 WILD-TYPE     42    171    143
D1711V3, multiclass
        clus
vv       FOLR3 MUTATED FOLR3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOLR3 MUTATED        1      0      2
  FOLR3 WILD-TYPE     61     73     73
D1711V4, multiclass
        clus
vv       FOLR3 MUTATED FOLR3 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOLR3 MUTATED        2      1      2
  FOLR3 WILD-TYPE     68    119     98
D1711V5, multiclass
        clus
vv       FOLR3 MUTATED FOLR3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOLR3 MUTATED        1      0      0      1      2      1      0      0
  FOLR3 WILD-TYPE     40     26     30     28     37     68     20     14
                 vv
clus              CLUS_9
  FOLR3 MUTATED        0
  FOLR3 WILD-TYPE     22
D1711V6, multiclass
        clus
vv       FOLR3 MUTATED FOLR3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FOLR3 MUTATED        0      2      1      3
  FOLR3 WILD-TYPE    100     70     71    118
D1711V7, multiclass
        clus
vv       FOLR3 MUTATED FOLR3 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOLR3 MUTATED        1      0      2      2      1
  FOLR3 WILD-TYPE     58     75     72    117     37
D1711V8, multiclass
        clus
vv       FOLR3 MUTATED FOLR3 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOLR3 MUTATED        0      2      0      2      2
  FOLR3 WILD-TYPE     51     74     61     69     93
D1711V9, multiclass
        clus
vv       FOLR3 MUTATED FOLR3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOLR3 MUTATED        2      1      0      0      0      0      1      1
  FOLR3 WILD-TYPE     67     47     39     16     53     20     20     37
                 vv
clus              CLUS_9
  FOLR3 MUTATED        1
  FOLR3 WILD-TYPE     49
D1711V10, multiclass
        clus
vv       FOLR3 MUTATED FOLR3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FOLR3 MUTATED        0      0      1      0      0      0
  FOLR3 WILD-TYPE     13     16     13     11     11      9
D1711V11, multiclass
[1] "Remove cluster labels:" "FOLR3 MUTATED"         
clus
  FOLR3 MUTATED FOLR3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-G4-6628 
"FOLR3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOLR3 MUTATED        0      0      0      0      1      0      0      0
  FOLR3 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  FOLR3 MUTATED        0
  FOLR3 WILD-TYPE      5
D1711V12, multiclass
[1] "Remove cluster labels:" "FOLR3 MUTATED"         
clus
  FOLR3 MUTATED FOLR3 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309 
"FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" "FOLR3 WILD-TYPE" 
     TCGA-G4-6628 
"FOLR3 WILD-TYPE" 

Clustering(1712) Variable = ANKRD40 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD40 MUTATED        2      0      1      0      0
  ANKRD40 WILD-TYPE     30     18     45     27     23
D1712V1, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD40 MUTATED        2      0      1
  ANKRD40 WILD-TYPE     41     67     35
D1712V2, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD40 MUTATED        3      0      5
  ANKRD40 WILD-TYPE     39    173    142
D1712V3, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               3                39
  CLUS_2               0               173
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD40 MUTATED        1      0      4
  ANKRD40 WILD-TYPE     61     73     71
D1712V4, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               0                73
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD40 MUTATED        3      3      1
  ANKRD40 WILD-TYPE     67    117     99
D1712V5, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               3               117
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD40 MUTATED        1      0      0      1      3      1      1      0
  ANKRD40 WILD-TYPE     40     26     30     28     36     68     19     14
                   vv
clus                CLUS_9
  ANKRD40 MUTATED        0
  ANKRD40 WILD-TYPE     22
D1712V6, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               3                36
  CLUS_6               1                68
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKRD40 MUTATED        0      3      2      3
  ANKRD40 WILD-TYPE    100     69     70    118
D1712V7, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               2                70
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD40 MUTATED        0      0      5      1      2
  ANKRD40 WILD-TYPE     59     75     69    118     36
D1712V8, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               5                69
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD40 MUTATED        0      4      0      3      1
  ANKRD40 WILD-TYPE     51     72     61     68     94
D1712V9, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               0                61
  CLUS_4               3                68
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD40 MUTATED        1      1      0      1      2      0      0      2
  ANKRD40 WILD-TYPE     68     47     39     15     51     20     21     36
                   vv
clus                CLUS_9
  ANKRD40 MUTATED        1
  ANKRD40 WILD-TYPE     49
D1712V10, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANKRD40 MUTATED        0      1      1      0      1      0
  ANKRD40 WILD-TYPE     13     15     13     11     10      9
D1712V11, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD40 MUTATED        0      0      0      1      0      0      2      0
  ANKRD40 WILD-TYPE     11      7      7      8      8      7      9      9
                   vv
clus                CLUS_9
  ANKRD40 MUTATED        0
  ANKRD40 WILD-TYPE      5
D1712V12, multiclass
        clus
vv       ANKRD40 MUTATED ANKRD40 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1713) Variable = MRPL10 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPL10 MUTATED        0      0      0      1      0
  MRPL10 WILD-TYPE     32     18     46     26     23
D1713V1, multiclass
[1] "Remove cluster labels:" "MRPL10 MUTATED"        
clus
  MRPL10 MUTATED MRPL10 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AY-4071 
"MRPL10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL10 MUTATED        1      0      0
  MRPL10 WILD-TYPE     42     67     36
D1713V2, multiclass
[1] "Remove cluster labels:" "MRPL10 MUTATED"        
clus
  MRPL10 MUTATED MRPL10 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00O 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AY-4071 
"MRPL10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL10 MUTATED        0      2      2
  MRPL10 WILD-TYPE     42    171    145
D1713V3, multiclass
        clus
vv       MRPL10 MUTATED MRPL10 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL10 MUTATED        2      0      1
  MRPL10 WILD-TYPE     60     73     74
D1713V4, multiclass
        clus
vv       MRPL10 MUTATED MRPL10 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL10 MUTATED        1      1      2
  MRPL10 WILD-TYPE     69    119     98
D1713V5, multiclass
        clus
vv       MRPL10 MUTATED MRPL10 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPL10 MUTATED        1      0      0      0      1      2      0      0
  MRPL10 WILD-TYPE     40     26     30     29     38     67     20     14
                  vv
clus               CLUS_9
  MRPL10 MUTATED        0
  MRPL10 WILD-TYPE     22
D1713V6, multiclass
        clus
vv       MRPL10 MUTATED MRPL10 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MRPL10 MUTATED        1      0      1      2
  MRPL10 WILD-TYPE     99     72     71    119
D1713V7, multiclass
        clus
vv       MRPL10 MUTATED MRPL10 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              0               72
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPL10 MUTATED        1      0      1      1      1
  MRPL10 WILD-TYPE     58     75     73    118     37
D1713V8, multiclass
        clus
vv       MRPL10 MUTATED MRPL10 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPL10 MUTATED        1      2      0      0      0
  MRPL10 WILD-TYPE     50     74     61     71     95
D1713V9, multiclass
        clus
vv       MRPL10 MUTATED MRPL10 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPL10 MUTATED        0      2      0      0      1      0      0      0
  MRPL10 WILD-TYPE     69     46     39     16     52     20     21     38
                  vv
clus               CLUS_9
  MRPL10 MUTATED        0
  MRPL10 WILD-TYPE     50
D1713V10, multiclass
        clus
vv       MRPL10 MUTATED MRPL10 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MRPL10 MUTATED        0      1      0      0      0      0
  MRPL10 WILD-TYPE     13     15     14     11     11      9
D1713V11, multiclass
[1] "Remove cluster labels:" "MRPL10 MUTATED"        
clus
  MRPL10 MUTATED MRPL10 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-G4-6628 
"MRPL10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MRPL10 MUTATED        0      0      0      0      0      0      1      0
  MRPL10 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  MRPL10 MUTATED        0
  MRPL10 WILD-TYPE      5
D1713V12, multiclass
[1] "Remove cluster labels:" "MRPL10 MUTATED"        
clus
  MRPL10 MUTATED MRPL10 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" "MRPL10 WILD-TYPE" 
      TCGA-G4-6628 
"MRPL10 WILD-TYPE" 

Clustering(1714) Variable = ACADVL MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACADVL MUTATED        0      0      0      1      0
  ACADVL WILD-TYPE     32     18     46     26     23
D1714V1, multiclass
[1] "Remove cluster labels:" "ACADVL MUTATED"        
clus
  ACADVL MUTATED ACADVL WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3548       TCGA-AA-3549 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AY-4071 
"ACADVL WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACADVL MUTATED        0      1      0
  ACADVL WILD-TYPE     43     66     36
D1714V2, multiclass
[1] "Remove cluster labels:" "ACADVL MUTATED"        
clus
  ACADVL MUTATED ACADVL WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3548       TCGA-AA-3549 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AY-4071 
"ACADVL WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACADVL MUTATED        1      2      3
  ACADVL WILD-TYPE     41    171    144
D1714V3, multiclass
        clus
vv       ACADVL MUTATED ACADVL WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACADVL MUTATED        1      1      3
  ACADVL WILD-TYPE     61     72     72
D1714V4, multiclass
        clus
vv       ACADVL MUTATED ACADVL WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACADVL MUTATED        0      2      3
  ACADVL WILD-TYPE     70    118     97
D1714V5, multiclass
        clus
vv       ACADVL MUTATED ACADVL WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACADVL MUTATED        0      1      0      0      0      3      1      0
  ACADVL WILD-TYPE     41     25     30     29     39     66     19     14
                  vv
clus               CLUS_9
  ACADVL MUTATED        0
  ACADVL WILD-TYPE     22
D1714V6, multiclass
        clus
vv       ACADVL MUTATED ACADVL WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACADVL MUTATED        2      2      1      1
  ACADVL WILD-TYPE     98     70     71    120
D1714V7, multiclass
        clus
vv       ACADVL MUTATED ACADVL WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACADVL MUTATED        0      2      3      1      0
  ACADVL WILD-TYPE     59     73     71    118     38
D1714V8, multiclass
        clus
vv       ACADVL MUTATED ACADVL WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACADVL MUTATED        0      4      0      1      1
  ACADVL WILD-TYPE     51     72     61     70     94
D1714V9, multiclass
        clus
vv       ACADVL MUTATED ACADVL WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACADVL MUTATED        3      0      0      1      0      1      0      1
  ACADVL WILD-TYPE     66     48     39     15     53     19     21     37
                  vv
clus               CLUS_9
  ACADVL MUTATED        0
  ACADVL WILD-TYPE     50
D1714V10, multiclass
        clus
vv       ACADVL MUTATED ACADVL WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACADVL MUTATED        1      0      1      0      0      0
  ACADVL WILD-TYPE     12     16     13     11     11      9
D1714V11, multiclass
[1] "Remove cluster labels:" "ACADVL MUTATED"        
clus
  ACADVL MUTATED ACADVL WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACADVL MUTATED        0      0      0      0      0      0      1      1
  ACADVL WILD-TYPE     11      7      7      9      8      7     10      8
                  vv
clus               CLUS_9
  ACADVL MUTATED        0
  ACADVL WILD-TYPE      5
D1714V12, multiclass
[1] "Remove cluster labels:" "ACADVL MUTATED"        
clus
  ACADVL MUTATED ACADVL WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" "ACADVL WILD-TYPE" 

Clustering(1715) Variable = SLIT3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLIT3 MUTATED        3      1      1      1      1
  SLIT3 WILD-TYPE     29     17     45     26     22
D1715V1, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SLIT3 MUTATED        4      0      3
  SLIT3 WILD-TYPE     39     67     33
D1715V2, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             3              33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SLIT3 MUTATED        0      4     21
  SLIT3 WILD-TYPE     42    169    126
D1715V3, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3            21             126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SLIT3 MUTATED        4      5      9
  SLIT3 WILD-TYPE     58     68     66
D1715V4, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             5              68
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SLIT3 MUTATED        4      9      9
  SLIT3 WILD-TYPE     66    111     91
D1715V5, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             9             111
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLIT3 MUTATED        3      0      1      3      4      8      2      1
  SLIT3 WILD-TYPE     38     26     29     26     35     61     18     13
                 vv
clus              CLUS_9
  SLIT3 MUTATED        0
  SLIT3 WILD-TYPE     22
D1715V6, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             4              35
  CLUS_6             8              61
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLIT3 MUTATED        4     11      4      6
  SLIT3 WILD-TYPE     96     61     68    115
D1715V7, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             4              96
  CLUS_2            11              61
  CLUS_3             4              68
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLIT3 MUTATED        2      6     10      4      3
  SLIT3 WILD-TYPE     57     69     64    115     35
D1715V8, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             6              69
  CLUS_3            10              64
  CLUS_4             4             115
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLIT3 MUTATED        3     11      3      3      4
  SLIT3 WILD-TYPE     48     65     58     68     91
D1715V9, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             3              48
  CLUS_2            11              65
  CLUS_3             3              58
  CLUS_4             3              68
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLIT3 MUTATED        6      3      1      6      2      2      2      2
  SLIT3 WILD-TYPE     63     45     38     10     51     18     19     36
                 vv
clus              CLUS_9
  SLIT3 MUTATED        0
  SLIT3 WILD-TYPE     50
D1715V10, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             6              10
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLIT3 MUTATED        1      1      0      0      3      0
  SLIT3 WILD-TYPE     12     15     14     11      8      9
D1715V11, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLIT3 MUTATED        0      1      0      2      1      1      0      0
  SLIT3 WILD-TYPE     11      6      7      7      7      6     11      9
                 vv
clus              CLUS_9
  SLIT3 MUTATED        0
  SLIT3 WILD-TYPE      5
D1715V12, multiclass
        clus
vv       SLIT3 MUTATED SLIT3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1716) Variable = CCL14 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCL14 MUTATED        0      0      0      1      0
  CCL14 WILD-TYPE     32     18     46     26     23
D1716V1, multiclass
[1] "Remove cluster labels:" "CCL14 MUTATED"         
clus
  CCL14 MUTATED CCL14 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AY-4071 
"CCL14 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCL14 MUTATED        1      0      0
  CCL14 WILD-TYPE     42     67     36
D1716V2, multiclass
[1] "Remove cluster labels:" "CCL14 MUTATED"         
clus
  CCL14 MUTATED CCL14 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00O 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AY-4071 
"CCL14 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCL14 MUTATED        1      0      4
  CCL14 WILD-TYPE     41    173    143
D1716V3, multiclass
        clus
vv       CCL14 MUTATED CCL14 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCL14 MUTATED        0      0      4
  CCL14 WILD-TYPE     62     73     71
D1716V4, multiclass
        clus
vv       CCL14 MUTATED CCL14 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCL14 MUTATED        0      3      2
  CCL14 WILD-TYPE     70    117     98
D1716V5, multiclass
        clus
vv       CCL14 MUTATED CCL14 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCL14 MUTATED        0      0      0      3      0      2      0      0
  CCL14 WILD-TYPE     41     26     30     26     39     67     20     14
                 vv
clus              CLUS_9
  CCL14 MUTATED        0
  CCL14 WILD-TYPE     22
D1716V6, multiclass
        clus
vv       CCL14 MUTATED CCL14 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCL14 MUTATED        0      4      0      1
  CCL14 WILD-TYPE    100     68     72    120
D1716V7, multiclass
        clus
vv       CCL14 MUTATED CCL14 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCL14 MUTATED        0      0      4      0      1
  CCL14 WILD-TYPE     59     75     70    119     37
D1716V8, multiclass
        clus
vv       CCL14 MUTATED CCL14 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCL14 MUTATED        0      4      0      0      0
  CCL14 WILD-TYPE     51     72     61     71     95
D1716V9, multiclass
        clus
vv       CCL14 MUTATED CCL14 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCL14 MUTATED        1      1      0      2      0      0      0      0
  CCL14 WILD-TYPE     68     47     39     14     53     20     21     38
                 vv
clus              CLUS_9
  CCL14 MUTATED        0
  CCL14 WILD-TYPE     50
D1716V10, multiclass
        clus
vv       CCL14 MUTATED CCL14 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCL14 MUTATED        0      0      0      0      1      0
  CCL14 WILD-TYPE     13     16     14     11     10      9
D1716V11, multiclass
[1] "Remove cluster labels:" "CCL14 MUTATED"         
clus
  CCL14 MUTATED CCL14 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-G4-6628 
"CCL14 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCL14 MUTATED        0      0      0      1      0      0      0      0
  CCL14 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  CCL14 MUTATED        0
  CCL14 WILD-TYPE      5
D1716V12, multiclass
[1] "Remove cluster labels:" "CCL14 MUTATED"         
clus
  CCL14 MUTATED CCL14 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" "CCL14 WILD-TYPE" 
     TCGA-G4-6628 
"CCL14 WILD-TYPE" 

Clustering(1717) Variable = KLK11 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLK11 MUTATED        0      0      0      0      0
  KLK11 WILD-TYPE     32     18     46     27     23
D1717V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLK11 MUTATED        0      0      0
  KLK11 WILD-TYPE     43     67     36
D1717V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLK11 MUTATED        0      0      5
  KLK11 WILD-TYPE     42    173    142
D1717V3, multiclass
        clus
vv       KLK11 MUTATED KLK11 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLK11 MUTATED        0      0      4
  KLK11 WILD-TYPE     62     73     71
D1717V4, multiclass
        clus
vv       KLK11 MUTATED KLK11 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLK11 MUTATED        1      1      1
  KLK11 WILD-TYPE     69    119     99
D1717V5, multiclass
        clus
vv       KLK11 MUTATED KLK11 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLK11 MUTATED        0      0      1      0      1      1      0      0
  KLK11 WILD-TYPE     41     26     29     29     38     68     20     14
                 vv
clus              CLUS_9
  KLK11 MUTATED        0
  KLK11 WILD-TYPE     22
D1717V6, multiclass
        clus
vv       KLK11 MUTATED KLK11 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLK11 MUTATED        0      3      1      1
  KLK11 WILD-TYPE    100     69     71    120
D1717V7, multiclass
        clus
vv       KLK11 MUTATED KLK11 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLK11 MUTATED        0      0      4      0      1
  KLK11 WILD-TYPE     59     75     70    119     37
D1717V8, multiclass
        clus
vv       KLK11 MUTATED KLK11 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLK11 MUTATED        0      3      1      0      1
  KLK11 WILD-TYPE     51     73     60     71     94
D1717V9, multiclass
        clus
vv       KLK11 MUTATED KLK11 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLK11 MUTATED        1      1      0      2      0      0      0      1
  KLK11 WILD-TYPE     68     47     39     14     53     20     21     37
                 vv
clus              CLUS_9
  KLK11 MUTATED        0
  KLK11 WILD-TYPE     50
D1717V10, multiclass
        clus
vv       KLK11 MUTATED KLK11 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLK11 MUTATED        0      0      0      0      0      0
  KLK11 WILD-TYPE     13     16     14     11     11      9
D1717V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KLK11 MUTATED        0      0      0      0      0      0      0      0
  KLK11 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  KLK11 MUTATED        0
  KLK11 WILD-TYPE      5
D1717V12, multiclass

Clustering(1718) Variable = UBR5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBR5 MUTATED        2      0      1      1      0
  UBR5 WILD-TYPE     30     18     45     26     23
D1718V1, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR5 MUTATED        1      2      1
  UBR5 WILD-TYPE     42     65     35
D1718V2, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR5 MUTATED        2      6     20
  UBR5 WILD-TYPE     40    167    127
D1718V3, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            6            167
  CLUS_3           20            127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR5 MUTATED        6      3     15
  UBR5 WILD-TYPE     56     70     60
D1718V4, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            6             56
  CLUS_2            3             70
  CLUS_3           15             60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  UBR5 MUTATED        6     11      7
  UBR5 WILD-TYPE     64    109     93
D1718V5, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            6             64
  CLUS_2           11            109
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBR5 MUTATED        1      1      3      7      1      4      3      2      2
  UBR5 WILD-TYPE     40     25     27     22     38     65     17     12     20
D1718V6, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            3             27
  CLUS_4            7             22
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            3             17
  CLUS_8            2             12
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UBR5 MUTATED        5     12      7      4
  UBR5 WILD-TYPE     95     60     65    117
D1718V7, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            5             95
  CLUS_2           12             60
  CLUS_3            7             65
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBR5 MUTATED        2      9     13      3      1
  UBR5 WILD-TYPE     57     66     61    116     37
D1718V8, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            9             66
  CLUS_3           13             61
  CLUS_4            3            116
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UBR5 MUTATED        3     15      3      4      3
  UBR5 WILD-TYPE     48     61     58     67     92
D1718V9, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            3             48
  CLUS_2           15             61
  CLUS_3            3             58
  CLUS_4            4             67
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBR5 MUTATED        4      5      3      5      6      2      0      1      2
  UBR5 WILD-TYPE     65     43     36     11     47     18     21     37     48
D1718V10, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            5             43
  CLUS_3            3             36
  CLUS_4            5             11
  CLUS_5            6             47
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UBR5 MUTATED        0      0      1      0      4      3
  UBR5 WILD-TYPE     13     16     13     11      7      6
D1718V11, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            4              7
  CLUS_6            3              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UBR5 MUTATED        1      0      0      1      2      0      2      2      0
  UBR5 WILD-TYPE     10      7      7      8      6      7      9      7      5
D1718V12, multiclass
        clus
vv       UBR5 MUTATED UBR5 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            2              6
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            2              7
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1719) Variable = ZNF557 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF557 MUTATED        1      0      0      0      0
  ZNF557 WILD-TYPE     31     18     46     27     23
D1719V1, multiclass
[1] "Remove cluster labels:" "ZNF557 MUTATED"        
clus
  ZNF557 MUTATED ZNF557 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF557 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF557 MUTATED        1      0      0
  ZNF557 WILD-TYPE     42     67     36
D1719V2, multiclass
[1] "Remove cluster labels:" "ZNF557 MUTATED"        
clus
  ZNF557 MUTATED ZNF557 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3950 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" "ZNF557 WILD-TYPE" 
      TCGA-AY-4071 
"ZNF557 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF557 MUTATED        0      1      8
  ZNF557 WILD-TYPE     42    172    139
D1719V3, multiclass
        clus
vv       ZNF557 MUTATED ZNF557 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF557 MUTATED        3      1      4
  ZNF557 WILD-TYPE     59     72     71
D1719V4, multiclass
        clus
vv       ZNF557 MUTATED ZNF557 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF557 MUTATED        0      2      5
  ZNF557 WILD-TYPE     70    118     95
D1719V5, multiclass
        clus
vv       ZNF557 MUTATED ZNF557 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF557 MUTATED        0      2      0      0      0      3      2      0
  ZNF557 WILD-TYPE     41     24     30     29     39     66     18     14
                  vv
clus               CLUS_9
  ZNF557 MUTATED        0
  ZNF557 WILD-TYPE     22
D1719V6, multiclass
        clus
vv       ZNF557 MUTATED ZNF557 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              2               24
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF557 MUTATED        1      5      1      2
  ZNF557 WILD-TYPE     99     67     71    119
D1719V7, multiclass
        clus
vv       ZNF557 MUTATED ZNF557 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              5               67
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF557 MUTATED        0      2      5      1      1
  ZNF557 WILD-TYPE     59     73     69    118     37
D1719V8, multiclass
        clus
vv       ZNF557 MUTATED ZNF557 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF557 MUTATED        0      5      1      0      3
  ZNF557 WILD-TYPE     51     71     60     71     92
D1719V9, multiclass
        clus
vv       ZNF557 MUTATED ZNF557 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF557 MUTATED        1      1      0      2      0      2      1      0
  ZNF557 WILD-TYPE     68     47     39     14     53     18     20     38
                  vv
clus               CLUS_9
  ZNF557 MUTATED        2
  ZNF557 WILD-TYPE     48
D1719V10, multiclass
        clus
vv       ZNF557 MUTATED ZNF557 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF557 MUTATED        0      0      0      0      0      0
  ZNF557 WILD-TYPE     13     16     14     11     11      9
D1719V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF557 MUTATED        0      0      0      0      0      0      0      0
  ZNF557 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  ZNF557 MUTATED        0
  ZNF557 WILD-TYPE      5
D1719V12, multiclass

Clustering(1720) Variable = UVRAG MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UVRAG MUTATED        1      0      0      0      0
  UVRAG WILD-TYPE     31     18     46     27     23
D1720V1, multiclass
[1] "Remove cluster labels:" "UVRAG MUTATED"         
clus
  UVRAG MUTATED UVRAG WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AY-4071 
"UVRAG WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UVRAG MUTATED        0      0      1
  UVRAG WILD-TYPE     43     67     35
D1720V2, multiclass
[1] "Remove cluster labels:" "UVRAG MUTATED"         
clus
  UVRAG MUTATED UVRAG WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AY-4071 
"UVRAG WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UVRAG MUTATED        0      3      4
  UVRAG WILD-TYPE     42    170    143
D1720V3, multiclass
        clus
vv       UVRAG MUTATED UVRAG WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UVRAG MUTATED        4      1      1
  UVRAG WILD-TYPE     58     72     74
D1720V4, multiclass
        clus
vv       UVRAG MUTATED UVRAG WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UVRAG MUTATED        0      3      2
  UVRAG WILD-TYPE     70    117     98
D1720V5, multiclass
        clus
vv       UVRAG MUTATED UVRAG WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UVRAG MUTATED        2      1      0      0      1      1      0      0
  UVRAG WILD-TYPE     39     25     30     29     38     68     20     14
                 vv
clus              CLUS_9
  UVRAG MUTATED        0
  UVRAG WILD-TYPE     22
D1720V6, multiclass
        clus
vv       UVRAG MUTATED UVRAG WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UVRAG MUTATED        2      0      3      2
  UVRAG WILD-TYPE     98     72     69    119
D1720V7, multiclass
        clus
vv       UVRAG MUTATED UVRAG WILD-TYPE
  CLUS_1             2              98
  CLUS_2             0              72
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UVRAG MUTATED        2      2      1      2      0
  UVRAG WILD-TYPE     57     73     73    117     38
D1720V8, multiclass
        clus
vv       UVRAG MUTATED UVRAG WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             1              73
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UVRAG MUTATED        2      2      1      1      1
  UVRAG WILD-TYPE     49     74     60     70     94
D1720V9, multiclass
        clus
vv       UVRAG MUTATED UVRAG WILD-TYPE
  CLUS_1             2              49
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UVRAG MUTATED        1      3      1      0      1      0      0      0
  UVRAG WILD-TYPE     68     45     38     16     52     20     21     38
                 vv
clus              CLUS_9
  UVRAG MUTATED        1
  UVRAG WILD-TYPE     49
D1720V10, multiclass
        clus
vv       UVRAG MUTATED UVRAG WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UVRAG MUTATED        0      1      0      0      1      0
  UVRAG WILD-TYPE     13     15     14     11     10      9
D1720V11, multiclass
[1] "Remove cluster labels:" "UVRAG MUTATED"         
clus
  UVRAG MUTATED UVRAG WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CK-5916      TCGA-CK-6748 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UVRAG MUTATED        0      0      1      0      0      0      1      0
  UVRAG WILD-TYPE     11      7      6      9      8      7     10      9
                 vv
clus              CLUS_9
  UVRAG MUTATED        0
  UVRAG WILD-TYPE      5
D1720V12, multiclass
[1] "Remove cluster labels:" "UVRAG MUTATED"         
clus
  UVRAG MUTATED UVRAG WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CK-5916      TCGA-CK-6748 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" "UVRAG WILD-TYPE" 

Clustering(1721) Variable = C14ORF118 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF118 MUTATED        1      1      0      1      0
  C14ORF118 WILD-TYPE     31     17     46     26     23
D1721V1, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 1                  31
  CLUS_2                 1                  17
  CLUS_3                 0                  46
  CLUS_4                 1                  26
  CLUS_5                 0                  23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF118 MUTATED        0      2      1
  C14ORF118 WILD-TYPE     43     65     35
D1721V2, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 0                  43
  CLUS_2                 2                  65
  CLUS_3                 1                  35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF118 MUTATED        0      5      4
  C14ORF118 WILD-TYPE     42    168    143
D1721V3, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 0                  42
  CLUS_2                 5                 168
  CLUS_3                 4                 143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF118 MUTATED        2      2      2
  C14ORF118 WILD-TYPE     60     71     73
D1721V4, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 2                  60
  CLUS_2                 2                  71
  CLUS_3                 2                  73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  C14ORF118 MUTATED        1      3      4
  C14ORF118 WILD-TYPE     69    117     96
D1721V5, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 1                  69
  CLUS_2                 3                 117
  CLUS_3                 4                  96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF118 MUTATED        1      0      2      0      0      4      0      0
  C14ORF118 WILD-TYPE     40     26     28     29     39     65     20     14
                     vv
clus                  CLUS_9
  C14ORF118 MUTATED        1
  C14ORF118 WILD-TYPE     21
D1721V6, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 1                  40
  CLUS_2                 0                  26
  CLUS_3                 2                  28
  CLUS_4                 0                  29
  CLUS_5                 0                  39
  CLUS_6                 4                  65
  CLUS_7                 0                  20
  CLUS_8                 0                  14
  CLUS_9                 1                  21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF118 MUTATED        3      2      1      3
  C14ORF118 WILD-TYPE     97     70     71    118
D1721V7, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 3                  97
  CLUS_2                 2                  70
  CLUS_3                 1                  71
  CLUS_4                 3                 118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF118 MUTATED        2      3      1      3      0
  C14ORF118 WILD-TYPE     57     72     73    116     38
D1721V8, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 2                  57
  CLUS_2                 3                  72
  CLUS_3                 1                  73
  CLUS_4                 3                 116
  CLUS_5                 0                  38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF118 MUTATED        0      3      2      2      1
  C14ORF118 WILD-TYPE     51     73     59     69     94
D1721V9, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 0                  51
  CLUS_2                 3                  73
  CLUS_3                 2                  59
  CLUS_4                 2                  69
  CLUS_5                 1                  94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF118 MUTATED        4      1      0      0      2      1      0      0
  C14ORF118 WILD-TYPE     65     47     39     16     51     19     21     38
                     vv
clus                  CLUS_9
  C14ORF118 MUTATED        0
  C14ORF118 WILD-TYPE     50
D1721V10, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 4                  65
  CLUS_2                 1                  47
  CLUS_3                 0                  39
  CLUS_4                 0                  16
  CLUS_5                 2                  51
  CLUS_6                 1                  19
  CLUS_7                 0                  21
  CLUS_8                 0                  38
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C14ORF118 MUTATED        1      0      0      0      0      0
  C14ORF118 WILD-TYPE     12     16     14     11     11      9
D1721V11, multiclass
[1] "Remove cluster labels:" "C14ORF118 MUTATED"     
clus
  C14ORF118 MUTATED C14ORF118 WILD-TYPE 
                  1                  73 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6963 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AD-6964          TCGA-AD-6965          TCGA-AY-6196 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-5403 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AZ-6598          TCGA-AZ-6600          TCGA-AZ-6601 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AZ-6603          TCGA-AZ-6605          TCGA-AZ-6607 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-CA-6718          TCGA-CA-6719          TCGA-CK-5916 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-CK-6748          TCGA-CM-5860          TCGA-CM-6167 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-CM-6674          TCGA-CM-6676          TCGA-CM-6677 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-CM-6678          TCGA-CM-6679          TCGA-CM-6680 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-D5-5537          TCGA-D5-6533          TCGA-D5-6534 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-D5-6536          TCGA-D5-6922          TCGA-D5-6924 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-DM-A0XD          TCGA-DM-A0XF          TCGA-DM-A1D0 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-DM-A1D7          TCGA-DM-A1D8          TCGA-DM-A1D9 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-DM-A1DA          TCGA-DM-A1HA          TCGA-DM-A282 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-DM-A285          TCGA-F4-6459          TCGA-F4-6460 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-F4-6569          TCGA-F4-6570          TCGA-F4-6704 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-F4-6805          TCGA-F4-6807          TCGA-F4-6808 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-F4-6809          TCGA-G4-6299          TCGA-G4-6303 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-G4-6306          TCGA-G4-6309          TCGA-G4-6625 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-G4-6628 
"C14ORF118 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C14ORF118 MUTATED        0      0      0      1      0      0      0      0
  C14ORF118 WILD-TYPE     11      7      7      8      8      7     11      9
                     vv
clus                  CLUS_9
  C14ORF118 MUTATED        0
  C14ORF118 WILD-TYPE      5
D1721V12, multiclass
[1] "Remove cluster labels:" "C14ORF118 MUTATED"     
clus
  C14ORF118 MUTATED C14ORF118 WILD-TYPE 
                  1                  73 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6963 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AD-6964          TCGA-AD-6965          TCGA-AY-6196 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-5403 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AZ-6598          TCGA-AZ-6600          TCGA-AZ-6601 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-AZ-6603          TCGA-AZ-6605          TCGA-AZ-6607 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-CA-6718          TCGA-CA-6719          TCGA-CK-5916 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-CK-6748          TCGA-CM-5860          TCGA-CM-6167 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-CM-6674          TCGA-CM-6676          TCGA-CM-6677 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-CM-6678          TCGA-CM-6679          TCGA-CM-6680 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-D5-5537          TCGA-D5-6533          TCGA-D5-6534 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-D5-6536          TCGA-D5-6922          TCGA-D5-6924 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-DM-A0XD          TCGA-DM-A0XF          TCGA-DM-A1D0 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-DM-A1D7          TCGA-DM-A1D8          TCGA-DM-A1D9 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-DM-A1DA          TCGA-DM-A1HA          TCGA-DM-A282 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-DM-A285          TCGA-F4-6459          TCGA-F4-6460 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-F4-6569          TCGA-F4-6570          TCGA-F4-6704 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-F4-6805          TCGA-F4-6807          TCGA-F4-6808 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-F4-6809          TCGA-G4-6299          TCGA-G4-6303 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-G4-6306          TCGA-G4-6309          TCGA-G4-6625 
"C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" "C14ORF118 WILD-TYPE" 
         TCGA-G4-6628 
"C14ORF118 WILD-TYPE" 

Clustering(1722) Variable = XKR3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XKR3 MUTATED        3      0      0      0      0
  XKR3 WILD-TYPE     29     18     46     27     23
D1722V1, multiclass
        clus
vv       XKR3 MUTATED XKR3 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  XKR3 MUTATED        2      0      1
  XKR3 WILD-TYPE     41     67     35
D1722V2, multiclass
        clus
vv       XKR3 MUTATED XKR3 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             67
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  XKR3 MUTATED        0      3      9
  XKR3 WILD-TYPE     42    170    138
D1722V3, multiclass
        clus
vv       XKR3 MUTATED XKR3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  XKR3 MUTATED        4      3      2
  XKR3 WILD-TYPE     58     70     73
D1722V4, multiclass
        clus
vv       XKR3 MUTATED XKR3 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            3             70
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  XKR3 MUTATED        0      2      7
  XKR3 WILD-TYPE     70    118     93
D1722V5, multiclass
        clus
vv       XKR3 MUTATED XKR3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  XKR3 MUTATED        1      0      0      1      1      5      0      0      1
  XKR3 WILD-TYPE     40     26     30     28     38     64     20     14     21
D1722V6, multiclass
        clus
vv       XKR3 MUTATED XKR3 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XKR3 MUTATED        2      3      4      3
  XKR3 WILD-TYPE     98     69     68    118
D1722V7, multiclass
        clus
vv       XKR3 MUTATED XKR3 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            4             68
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XKR3 MUTATED        2      4      3      1      2
  XKR3 WILD-TYPE     57     71     71    118     36
D1722V8, multiclass
        clus
vv       XKR3 MUTATED XKR3 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            4             71
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XKR3 MUTATED        2      5      1      2      2
  XKR3 WILD-TYPE     49     71     60     69     93
D1722V9, multiclass
        clus
vv       XKR3 MUTATED XKR3 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            5             71
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  XKR3 MUTATED        1      3      0      0      4      1      0      2      1
  XKR3 WILD-TYPE     68     45     39     16     49     19     21     36     49
D1722V10, multiclass
        clus
vv       XKR3 MUTATED XKR3 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XKR3 MUTATED        0      0      1      0      1      0
  XKR3 WILD-TYPE     13     16     13     11     10      9
D1722V11, multiclass
[1] "Remove cluster labels:" "XKR3 MUTATED"          
clus
  XKR3 MUTATED XKR3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  XKR3 MUTATED        0      0      0      0      0      0      2      0      0
  XKR3 WILD-TYPE     11      7      7      9      8      7      9      9      5
D1722V12, multiclass
[1] "Remove cluster labels:" "XKR3 MUTATED"          
clus
  XKR3 MUTATED XKR3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" "XKR3 WILD-TYPE" 

Clustering(1723) Variable = EPHA4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA4 MUTATED        5      0      0      0      0
  EPHA4 WILD-TYPE     27     18     46     27     23
D1723V1, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA4 MUTATED        5      0      0
  EPHA4 WILD-TYPE     38     67     36
D1723V2, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA4 MUTATED        1      2     15
  EPHA4 WILD-TYPE     41    171    132
D1723V3, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA4 MUTATED        2      2      9
  EPHA4 WILD-TYPE     60     71     66
D1723V4, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA4 MUTATED        2     11      5
  EPHA4 WILD-TYPE     68    109     95
D1723V5, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             2              68
  CLUS_2            11             109
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA4 MUTATED        1      2      0      2      3      6      3      0
  EPHA4 WILD-TYPE     40     24     30     27     36     63     17     14
                 vv
clus              CLUS_9
  EPHA4 MUTATED        1
  EPHA4 WILD-TYPE     21
D1723V6, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6             6              63
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPHA4 MUTATED        2      8      3      6
  EPHA4 WILD-TYPE     98     64     69    115
D1723V7, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             8              64
  CLUS_3             3              69
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA4 MUTATED        1      3      9      1      5
  EPHA4 WILD-TYPE     58     72     65    118     33
D1723V8, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             9              65
  CLUS_4             1             118
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHA4 MUTATED        1      9      1      2      6
  EPHA4 WILD-TYPE     50     67     60     69     89
D1723V9, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             9              67
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA4 MUTATED        3      3      0      4      4      0      0      4
  EPHA4 WILD-TYPE     66     45     39     12     49     20     21     34
                 vv
clus              CLUS_9
  EPHA4 MUTATED        1
  EPHA4 WILD-TYPE     49
D1723V10, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             4              49
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EPHA4 MUTATED        1      1      0      0      2      0
  EPHA4 WILD-TYPE     12     15     14     11      9      9
D1723V11, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHA4 MUTATED        0      0      1      2      1      0      0      0
  EPHA4 WILD-TYPE     11      7      6      7      7      7     11      9
                 vv
clus              CLUS_9
  EPHA4 MUTATED        0
  EPHA4 WILD-TYPE      5
D1723V12, multiclass
        clus
vv       EPHA4 MUTATED EPHA4 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1724) Variable = PARVB MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARVB MUTATED        3      0      0      2      0
  PARVB WILD-TYPE     29     18     46     25     23
D1724V1, multiclass
        clus
vv       PARVB MUTATED PARVB WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PARVB MUTATED        4      1      0
  PARVB WILD-TYPE     39     66     36
D1724V2, multiclass
        clus
vv       PARVB MUTATED PARVB WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PARVB MUTATED        2      0      7
  PARVB WILD-TYPE     40    173    140
D1724V3, multiclass
        clus
vv       PARVB MUTATED PARVB WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0             173
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PARVB MUTATED        1      2      1
  PARVB WILD-TYPE     61     71     74
D1724V4, multiclass
        clus
vv       PARVB MUTATED PARVB WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PARVB MUTATED        1      3      2
  PARVB WILD-TYPE     69    117     98
D1724V5, multiclass
        clus
vv       PARVB MUTATED PARVB WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PARVB MUTATED        0      0      0      1      3      2      0      0
  PARVB WILD-TYPE     41     26     30     28     36     67     20     14
                 vv
clus              CLUS_9
  PARVB MUTATED        0
  PARVB WILD-TYPE     22
D1724V6, multiclass
        clus
vv       PARVB MUTATED PARVB WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             3              36
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PARVB MUTATED        1      1      1      6
  PARVB WILD-TYPE     99     71     71    115
D1724V7, multiclass
        clus
vv       PARVB MUTATED PARVB WILD-TYPE
  CLUS_1             1              99
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARVB MUTATED        0      1      2      1      5
  PARVB WILD-TYPE     59     74     72    118     33
D1724V8, multiclass
        clus
vv       PARVB MUTATED PARVB WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARVB MUTATED        1      2      0      1      5
  PARVB WILD-TYPE     50     74     61     70     90
D1724V9, multiclass
        clus
vv       PARVB MUTATED PARVB WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PARVB MUTATED        0      1      0      1      1      1      1      3
  PARVB WILD-TYPE     69     47     39     15     52     19     20     35
                 vv
clus              CLUS_9
  PARVB MUTATED        1
  PARVB WILD-TYPE     49
D1724V10, multiclass
        clus
vv       PARVB MUTATED PARVB WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PARVB MUTATED        0      0      0      0      0      0
  PARVB WILD-TYPE     13     16     14     11     11      9
D1724V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PARVB MUTATED        0      0      0      0      0      0      0      0
  PARVB WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  PARVB MUTATED        0
  PARVB WILD-TYPE      5
D1724V12, multiclass

Clustering(1725) Variable = TAF2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF2 MUTATED        3      0      0      2      0
  TAF2 WILD-TYPE     29     18     46     25     23
D1725V1, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF2 MUTATED        3      2      0
  TAF2 WILD-TYPE     40     65     36
D1725V2, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            2             65
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF2 MUTATED        1      4     12
  TAF2 WILD-TYPE     41    169    135
D1725V3, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF2 MUTATED        8      2      2
  TAF2 WILD-TYPE     54     71     73
D1725V4, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            8             54
  CLUS_2            2             71
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAF2 MUTATED        1      6      7
  TAF2 WILD-TYPE     69    114     93
D1725V5, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            6            114
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF2 MUTATED        1      1      2      2      0      7      0      0      1
  TAF2 WILD-TYPE     40     25     28     27     39     62     20     14     21
D1725V6, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            7             62
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAF2 MUTATED        3      4      4      6
  TAF2 WILD-TYPE     97     68     68    115
D1725V7, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            4             68
  CLUS_3            4             68
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF2 MUTATED        1      5      5      3      3
  TAF2 WILD-TYPE     58     70     69    116     35
D1725V8, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            5             70
  CLUS_3            5             69
  CLUS_4            3            116
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF2 MUTATED        0      8      1      2      6
  TAF2 WILD-TYPE     51     68     60     69     89
D1725V9, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            8             68
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            6             89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF2 MUTATED        3      3      2      1      2      1      1      2      2
  TAF2 WILD-TYPE     66     45     37     15     51     19     20     36     48
D1725V10, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             45
  CLUS_3            2             37
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAF2 MUTATED        0      1      0      0      3      1
  TAF2 WILD-TYPE     13     15     14     11      8      8
D1725V11, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TAF2 MUTATED        1      0      0      1      0      0      2      1      0
  TAF2 WILD-TYPE     10      7      7      8      8      7      9      8      5
D1725V12, multiclass
        clus
vv       TAF2 MUTATED TAF2 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1726) Variable = KIAA0196 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0196 MUTATED        2      0      0      1      0
  KIAA0196 WILD-TYPE     30     18     46     26     23
D1726V1, multiclass
        clus
vv       KIAA0196 MUTATED KIAA0196 WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0196 MUTATED        2      1      0
  KIAA0196 WILD-TYPE     41     66     36
D1726V2, multiclass
        clus
vv       KIAA0196 MUTATED KIAA0196 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 66
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0196 MUTATED        1      3      6
  KIAA0196 WILD-TYPE     41    170    141
D1726V3, multiclass
        clus
vv       KIAA0196 MUTATED KIAA0196 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                3                170
  CLUS_3                6                141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0196 MUTATED        2      2      3
  KIAA0196 WILD-TYPE     60     71     72
D1726V4, multiclass
        clus
vv       KIAA0196 MUTATED KIAA0196 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                2                 71
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0196 MUTATED        0      7      2
  KIAA0196 WILD-TYPE     70    113     98
D1726V5, multiclass
        clus
vv       KIAA0196 MUTATED KIAA0196 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                7                113
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0196 MUTATED        0      0      2      2      0      1      3      1
  KIAA0196 WILD-TYPE     41     26     28     27     39     68     17     13
                    vv
clus                 CLUS_9
  KIAA0196 MUTATED        0
  KIAA0196 WILD-TYPE     22
D1726V6, multiclass
        clus
vv       KIAA0196 MUTATED KIAA0196 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                2                 28
  CLUS_4                2                 27
  CLUS_5                0                 39
  CLUS_6                1                 68
  CLUS_7                3                 17
  CLUS_8                1                 13
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0196 MUTATED        4      3      1      2
  KIAA0196 WILD-TYPE     96     69     71    119
D1726V7, multiclass
        clus
vv       KIAA0196 MUTATED KIAA0196 WILD-TYPE
  CLUS_1                4                 96
  CLUS_2                3                 69
  CLUS_3                1                 71
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0196 MUTATED        0      4      3      1      2
  KIAA0196 WILD-TYPE     59     71     71    118     36
D1726V8, multiclass
        clus
vv       KIAA0196 MUTATED KIAA0196 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                4                 71
  CLUS_3                3                 71
  CLUS_4                1                118
  CLUS_5                2                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0196 MUTATED        0      3      1      3      3
  KIAA0196 WILD-TYPE     51     73     60     68     92
D1726V9, multiclass
        clus
vv       KIAA0196 MUTATED KIAA0196 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                3                 73
  CLUS_3                1                 60
  CLUS_4                3                 68
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0196 MUTATED        4      1      1      0      1      2      0      1
  KIAA0196 WILD-TYPE     65     47     38     16     52     18     21     37
                    vv
clus                 CLUS_9
  KIAA0196 MUTATED        0
  KIAA0196 WILD-TYPE     50
D1726V10, multiclass
        clus
vv       KIAA0196 MUTATED KIAA0196 WILD-TYPE
  CLUS_1                4                 65
  CLUS_2                1                 47
  CLUS_3                1                 38
  CLUS_4                0                 16
  CLUS_5                1                 52
  CLUS_6                2                 18
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA0196 MUTATED        0      0      0      0      0      1
  KIAA0196 WILD-TYPE     13     16     14     11     11      8
D1726V11, multiclass
[1] "Remove cluster labels:" "KIAA0196 MUTATED"      
clus
  KIAA0196 MUTATED KIAA0196 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6676         TCGA-CM-6677 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-D5-5537         TCGA-D5-6533         TCGA-D5-6534 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-D5-6536         TCGA-D5-6922         TCGA-D5-6924 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-DM-A0XD         TCGA-DM-A0XF         TCGA-DM-A1D0 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-G4-6628 
"KIAA0196 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0196 MUTATED        0      0      0      0      0      0      0      1
  KIAA0196 WILD-TYPE     11      7      7      9      8      7     11      8
                    vv
clus                 CLUS_9
  KIAA0196 MUTATED        0
  KIAA0196 WILD-TYPE      5
D1726V12, multiclass
[1] "Remove cluster labels:" "KIAA0196 MUTATED"      
clus
  KIAA0196 MUTATED KIAA0196 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-5860         TCGA-CM-6167 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6676         TCGA-CM-6677 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-CM-6678         TCGA-CM-6679         TCGA-CM-6680 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-D5-5537         TCGA-D5-6533         TCGA-D5-6534 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-D5-6536         TCGA-D5-6922         TCGA-D5-6924 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-DM-A0XD         TCGA-DM-A0XF         TCGA-DM-A1D0 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" "KIAA0196 WILD-TYPE" 
        TCGA-G4-6628 
"KIAA0196 WILD-TYPE" 

Clustering(1727) Variable = FRY MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRY MUTATED        4      1      0      3      0
  FRY WILD-TYPE     28     17     46     24     23
D1727V1, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           4            28
  CLUS_2           1            17
  CLUS_3           0            46
  CLUS_4           3            24
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FRY MUTATED        7      1      0
  FRY WILD-TYPE     36     66     36
D1727V2, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           7            36
  CLUS_2           1            66
  CLUS_3           0            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FRY MUTATED        6      4     27
  FRY WILD-TYPE     36    169    120
D1727V3, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           6            36
  CLUS_2           4           169
  CLUS_3          27           120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FRY MUTATED        8      2     17
  FRY WILD-TYPE     54     71     58
D1727V4, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           8            54
  CLUS_2           2            71
  CLUS_3          17            58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FRY MUTATED        7     14     13
  FRY WILD-TYPE     63    106     87
D1727V5, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           7            63
  CLUS_2          14           106
  CLUS_3          13            87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FRY MUTATED        4      3      3      6      4      9      2      1      2
  FRY WILD-TYPE     37     23     27     23     35     60     18     13     20
D1727V6, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           4            37
  CLUS_2           3            23
  CLUS_3           3            27
  CLUS_4           6            23
  CLUS_5           4            35
  CLUS_6           9            60
  CLUS_7           2            18
  CLUS_8           1            13
  CLUS_9           2            20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FRY MUTATED        4     14     11      9
  FRY WILD-TYPE     96     58     61    112
D1727V7, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           4            96
  CLUS_2          14            58
  CLUS_3          11            61
  CLUS_4           9           112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRY MUTATED        5      5     16      4      8
  FRY WILD-TYPE     54     70     58    115     30
D1727V8, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           5            54
  CLUS_2           5            70
  CLUS_3          16            58
  CLUS_4           4           115
  CLUS_5           8            30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRY MUTATED        3     13      7      1     13
  FRY WILD-TYPE     48     63     54     70     82
D1727V9, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           3            48
  CLUS_2          13            63
  CLUS_3           7            54
  CLUS_4           1            70
  CLUS_5          13            82
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FRY MUTATED        7      7      1      4      2      2      3      8      3
  FRY WILD-TYPE     62     41     38     12     51     18     18     30     47
D1727V10, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           7            62
  CLUS_2           7            41
  CLUS_3           1            38
  CLUS_4           4            12
  CLUS_5           2            51
  CLUS_6           2            18
  CLUS_7           3            18
  CLUS_8           8            30
  CLUS_9           3            47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FRY MUTATED        1      1      2      0      2      1
  FRY WILD-TYPE     12     15     12     11      9      8
D1727V11, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           1            12
  CLUS_2           1            15
  CLUS_3           2            12
  CLUS_4           0            11
  CLUS_5           2             9
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FRY MUTATED        1      0      0      2      1      0      3      0      0
  FRY WILD-TYPE     10      7      7      7      7      7      8      9      5
D1727V12, multiclass
        clus
vv       FRY MUTATED FRY WILD-TYPE
  CLUS_1           1            10
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           2             7
  CLUS_5           1             7
  CLUS_6           0             7
  CLUS_7           3             8
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1728) Variable = EIF2AK3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF2AK3 MUTATED        1      0      0      0      0
  EIF2AK3 WILD-TYPE     31     18     46     27     23
D1728V1, multiclass
[1] "Remove cluster labels:" "EIF2AK3 MUTATED"       
clus
  EIF2AK3 MUTATED EIF2AK3 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AY-4071 
"EIF2AK3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EIF2AK3 MUTATED        1      0      0
  EIF2AK3 WILD-TYPE     42     67     36
D1728V2, multiclass
[1] "Remove cluster labels:" "EIF2AK3 MUTATED"       
clus
  EIF2AK3 MUTATED EIF2AK3 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" "EIF2AK3 WILD-TYPE" 
       TCGA-AY-4071 
"EIF2AK3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EIF2AK3 MUTATED        0      3      8
  EIF2AK3 WILD-TYPE     42    170    139
D1728V3, multiclass
        clus
vv       EIF2AK3 MUTATED EIF2AK3 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EIF2AK3 MUTATED        6      2      2
  EIF2AK3 WILD-TYPE     56     71     73
D1728V4, multiclass
        clus
vv       EIF2AK3 MUTATED EIF2AK3 WILD-TYPE
  CLUS_1               6                56
  CLUS_2               2                71
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EIF2AK3 MUTATED        2      1      6
  EIF2AK3 WILD-TYPE     68    119     94
D1728V5, multiclass
        clus
vv       EIF2AK3 MUTATED EIF2AK3 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               1               119
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF2AK3 MUTATED        1      1      0      0      0      4      2      1
  EIF2AK3 WILD-TYPE     40     25     30     29     39     65     18     13
                   vv
clus                CLUS_9
  EIF2AK3 MUTATED        0
  EIF2AK3 WILD-TYPE     22
D1728V6, multiclass
        clus
vv       EIF2AK3 MUTATED EIF2AK3 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               2                18
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF2AK3 MUTATED        1      2      6      2
  EIF2AK3 WILD-TYPE     99     70     66    119
D1728V7, multiclass
        clus
vv       EIF2AK3 MUTATED EIF2AK3 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               2                70
  CLUS_3               6                66
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF2AK3 MUTATED        4      0      5      1      1
  EIF2AK3 WILD-TYPE     55     75     69    118     37
D1728V8, multiclass
        clus
vv       EIF2AK3 MUTATED EIF2AK3 WILD-TYPE
  CLUS_1               4                55
  CLUS_2               0                75
  CLUS_3               5                69
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF2AK3 MUTATED        2      4      3      0      2
  EIF2AK3 WILD-TYPE     49     72     58     71     93
D1728V9, multiclass
        clus
vv       EIF2AK3 MUTATED EIF2AK3 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               4                72
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF2AK3 MUTATED        2      4      0      1      2      0      0      1
  EIF2AK3 WILD-TYPE     67     44     39     15     51     20     21     37
                   vv
clus                CLUS_9
  EIF2AK3 MUTATED        1
  EIF2AK3 WILD-TYPE     49
D1728V10, multiclass
        clus
vv       EIF2AK3 MUTATED EIF2AK3 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EIF2AK3 MUTATED        0      0      3      0      1      0
  EIF2AK3 WILD-TYPE     13     16     11     11     10      9
D1728V11, multiclass
        clus
vv       EIF2AK3 MUTATED EIF2AK3 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               3                11
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF2AK3 MUTATED        0      0      0      0      2      1      1      0
  EIF2AK3 WILD-TYPE     11      7      7      9      6      6     10      9
                   vv
clus                CLUS_9
  EIF2AK3 MUTATED        0
  EIF2AK3 WILD-TYPE      5
D1728V12, multiclass
        clus
vv       EIF2AK3 MUTATED EIF2AK3 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               2                 6
  CLUS_6               1                 6
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1729) Variable = IFI35 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFI35 MUTATED        1      0      1      1      0
  IFI35 WILD-TYPE     31     18     45     26     23
D1729V1, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI35 MUTATED        2      1      0
  IFI35 WILD-TYPE     41     66     36
D1729V2, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI35 MUTATED        0      4      4
  IFI35 WILD-TYPE     42    169    143
D1729V3, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI35 MUTATED        0      4      2
  IFI35 WILD-TYPE     62     69     73
D1729V4, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             4              69
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI35 MUTATED        2      3      3
  IFI35 WILD-TYPE     68    117     97
D1729V5, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFI35 MUTATED        1      0      0      1      1      2      0      1
  IFI35 WILD-TYPE     40     26     30     28     38     67     20     13
                 vv
clus              CLUS_9
  IFI35 MUTATED        2
  IFI35 WILD-TYPE     20
D1729V6, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFI35 MUTATED        4      2      0      2
  IFI35 WILD-TYPE     96     70     72    119
D1729V7, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             2              70
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFI35 MUTATED        0      3      2      1      2
  IFI35 WILD-TYPE     59     72     72    118     36
D1729V8, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFI35 MUTATED        3      2      0      0      2
  IFI35 WILD-TYPE     48     74     61     71     93
D1729V9, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFI35 MUTATED        1      1      1      0      2      1      0      1
  IFI35 WILD-TYPE     68     47     38     16     51     19     21     37
                 vv
clus              CLUS_9
  IFI35 MUTATED        0
  IFI35 WILD-TYPE     50
D1729V10, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IFI35 MUTATED        1      0      0      0      0      0
  IFI35 WILD-TYPE     12     16     14     11     11      9
D1729V11, multiclass
[1] "Remove cluster labels:" "IFI35 MUTATED"         
clus
  IFI35 MUTATED IFI35 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D7      TCGA-DM-A1D8 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-G4-6628 
"IFI35 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IFI35 MUTATED        0      0      0      0      0      0      0      0
  IFI35 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  IFI35 MUTATED        1
  IFI35 WILD-TYPE      4
D1729V12, multiclass
[1] "Remove cluster labels:" "IFI35 MUTATED"         
clus
  IFI35 MUTATED IFI35 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D7      TCGA-DM-A1D8 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-G4-6628 
"IFI35 WILD-TYPE" 

Clustering(1730) Variable = MYPN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYPN MUTATED        4      0      1      2      2
  MYPN WILD-TYPE     28     18     45     25     21
D1730V1, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            2             21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYPN MUTATED        4      3      2
  MYPN WILD-TYPE     39     64     34
D1730V2, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            4             39
  CLUS_2            3             64
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYPN MUTATED        1      4     13
  MYPN WILD-TYPE     41    169    134
D1730V3, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4            169
  CLUS_3           13            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYPN MUTATED        5      2      3
  MYPN WILD-TYPE     57     71     72
D1730V4, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            5             57
  CLUS_2            2             71
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYPN MUTATED        2      5      8
  MYPN WILD-TYPE     68    115     92
D1730V5, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            8             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYPN MUTATED        1      0      2      0      3      5      1      3      0
  MYPN WILD-TYPE     40     26     28     29     36     64     19     11     22
D1730V6, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            3             36
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            3             11
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYPN MUTATED        5      5      3      6
  MYPN WILD-TYPE     95     67     69    115
D1730V7, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            5             95
  CLUS_2            5             67
  CLUS_3            3             69
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYPN MUTATED        2      2      6      6      3
  MYPN WILD-TYPE     57     73     68    113     35
D1730V8, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            6             68
  CLUS_4            6            113
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYPN MUTATED        0      4      3      5      5
  MYPN WILD-TYPE     51     72     58     66     90
D1730V9, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            3             58
  CLUS_4            5             66
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYPN MUTATED        4      2      1      2      2      0      2      3      1
  MYPN WILD-TYPE     65     46     38     14     51     20     19     35     49
D1730V10, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            4             65
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            0             20
  CLUS_7            2             19
  CLUS_8            3             35
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MYPN MUTATED        0      0      1      1      2      0
  MYPN WILD-TYPE     13     16     13     10      9      9
D1730V11, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MYPN MUTATED        0      0      0      1      1      1      0      1      0
  MYPN WILD-TYPE     11      7      7      8      7      6     11      8      5
D1730V12, multiclass
        clus
vv       MYPN MUTATED MYPN WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1731) Variable = DTD1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DTD1 MUTATED        0      0      1      0      0
  DTD1 WILD-TYPE     32     18     45     27     23
D1731V1, multiclass
[1] "Remove cluster labels:" "DTD1 MUTATED"          
clus
  DTD1 MUTATED DTD1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3696 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AY-4071 
"DTD1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DTD1 MUTATED        0      0      1
  DTD1 WILD-TYPE     43     67     35
D1731V2, multiclass
[1] "Remove cluster labels:" "DTD1 MUTATED"          
clus
  DTD1 MUTATED DTD1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3696 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" "DTD1 WILD-TYPE" 
    TCGA-AY-4071 
"DTD1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DTD1 MUTATED        1      2      2
  DTD1 WILD-TYPE     41    171    145
D1731V3, multiclass
        clus
vv       DTD1 MUTATED DTD1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DTD1 MUTATED        1      0      3
  DTD1 WILD-TYPE     61     73     72
D1731V4, multiclass
        clus
vv       DTD1 MUTATED DTD1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DTD1 MUTATED        0      3      1
  DTD1 WILD-TYPE     70    117     99
D1731V5, multiclass
        clus
vv       DTD1 MUTATED DTD1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DTD1 MUTATED        1      1      1      0      0      0      1      0      0
  DTD1 WILD-TYPE     40     25     29     29     39     69     19     14     22
D1731V6, multiclass
        clus
vv       DTD1 MUTATED DTD1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            0             69
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DTD1 MUTATED        2      3      0      0
  DTD1 WILD-TYPE     98     69     72    121
D1731V7, multiclass
        clus
vv       DTD1 MUTATED DTD1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            3             69
  CLUS_3            0             72
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DTD1 MUTATED        0      1      3      1      0
  DTD1 WILD-TYPE     59     74     71    118     38
D1731V8, multiclass
        clus
vv       DTD1 MUTATED DTD1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DTD1 MUTATED        1      3      0      1      0
  DTD1 WILD-TYPE     50     73     61     70     95
D1731V9, multiclass
        clus
vv       DTD1 MUTATED DTD1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            0             61
  CLUS_4            1             70
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DTD1 MUTATED        2      0      0      1      1      0      1      0      0
  DTD1 WILD-TYPE     67     48     39     15     52     20     20     38     50
D1731V10, multiclass
        clus
vv       DTD1 MUTATED DTD1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DTD1 MUTATED        1      1      0      0      1      0
  DTD1 WILD-TYPE     12     15     14     11     10      9
D1731V11, multiclass
        clus
vv       DTD1 MUTATED DTD1 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  DTD1 MUTATED        1      0      0      1      0      0      0      1      0
  DTD1 WILD-TYPE     10      7      7      8      8      7     11      8      5
D1731V12, multiclass
        clus
vv       DTD1 MUTATED DTD1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1732) Variable = MGAT5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MGAT5 MUTATED        1      0      0      3      0
  MGAT5 WILD-TYPE     31     18     46     24     23
D1732V1, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MGAT5 MUTATED        2      2      0
  MGAT5 WILD-TYPE     41     65     36
D1732V2, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MGAT5 MUTATED        0      5      7
  MGAT5 WILD-TYPE     42    168    140
D1732V3, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MGAT5 MUTATED        5      1      3
  MGAT5 WILD-TYPE     57     72     72
D1732V4, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MGAT5 MUTATED        1      7      4
  MGAT5 WILD-TYPE     69    113     96
D1732V5, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             7             113
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MGAT5 MUTATED        2      0      1      2      3      1      2      1
  MGAT5 WILD-TYPE     39     26     29     27     36     68     18     13
                 vv
clus              CLUS_9
  MGAT5 MUTATED        0
  MGAT5 WILD-TYPE     22
D1732V6, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             3              36
  CLUS_6             1              68
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MGAT5 MUTATED        2      4      4      3
  MGAT5 WILD-TYPE     98     68     68    118
D1732V7, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             4              68
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MGAT5 MUTATED        4      1      4      2      2
  MGAT5 WILD-TYPE     55     74     70    117     36
D1732V8, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MGAT5 MUTATED        1      4      3      1      4
  MGAT5 WILD-TYPE     50     72     58     70     91
D1732V9, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MGAT5 MUTATED        2      3      2      2      0      1      0      3
  MGAT5 WILD-TYPE     67     45     37     14     53     19     21     35
                 vv
clus              CLUS_9
  MGAT5 MUTATED        0
  MGAT5 WILD-TYPE     50
D1732V10, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              45
  CLUS_3             2              37
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MGAT5 MUTATED        0      1      1      0      1      1
  MGAT5 WILD-TYPE     13     15     13     11     10      8
D1732V11, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MGAT5 MUTATED        3      0      0      1      0      0      0      0
  MGAT5 WILD-TYPE      8      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  MGAT5 MUTATED        0
  MGAT5 WILD-TYPE      5
D1732V12, multiclass
        clus
vv       MGAT5 MUTATED MGAT5 WILD-TYPE
  CLUS_1             3               8
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1733) Variable = GLUD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLUD2 MUTATED        1      0      0      3      1
  GLUD2 WILD-TYPE     31     18     46     24     22
D1733V1, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             3              24
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GLUD2 MUTATED        3      1      1
  GLUD2 WILD-TYPE     40     66     35
D1733V2, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GLUD2 MUTATED        2      3     15
  GLUD2 WILD-TYPE     40    170    132
D1733V3, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3            15             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GLUD2 MUTATED        4      3      9
  GLUD2 WILD-TYPE     58     70     66
D1733V4, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3              70
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GLUD2 MUTATED        2      6      7
  GLUD2 WILD-TYPE     68    114     93
D1733V5, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GLUD2 MUTATED        3      1      0      2      2      6      0      1
  GLUD2 WILD-TYPE     38     25     30     27     37     63     20     13
                 vv
clus              CLUS_9
  GLUD2 MUTATED        0
  GLUD2 WILD-TYPE     22
D1733V6, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GLUD2 MUTATED        2      9      4      4
  GLUD2 WILD-TYPE     98     63     68    117
D1733V7, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             9              63
  CLUS_3             4              68
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLUD2 MUTATED        3      3      9      1      3
  GLUD2 WILD-TYPE     56     72     65    118     35
D1733V8, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3              72
  CLUS_3             9              65
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GLUD2 MUTATED        2      8      5      1      3
  GLUD2 WILD-TYPE     49     68     56     70     92
D1733V9, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             8              68
  CLUS_3             5              56
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GLUD2 MUTATED        5      5      0      3      0      1      2      2
  GLUD2 WILD-TYPE     64     43     39     13     53     19     19     36
                 vv
clus              CLUS_9
  GLUD2 MUTATED        1
  GLUD2 WILD-TYPE     49
D1733V10, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             2              19
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GLUD2 MUTATED        0      0      0      2      1      0
  GLUD2 WILD-TYPE     13     16     14      9     10      9
D1733V11, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             2               9
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GLUD2 MUTATED        0      0      2      1      0      0      0      0
  GLUD2 WILD-TYPE     11      7      5      8      8      7     11      9
                 vv
clus              CLUS_9
  GLUD2 MUTATED        0
  GLUD2 WILD-TYPE      5
D1733V12, multiclass
        clus
vv       GLUD2 MUTATED GLUD2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             2               5
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1734) Variable = PTPRZ1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRZ1 MUTATED        5      0      1      2      1
  PTPRZ1 WILD-TYPE     27     18     45     25     22
D1734V1, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPRZ1 MUTATED        6      2      1
  PTPRZ1 WILD-TYPE     37     65     35
D1734V2, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1              6               37
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPRZ1 MUTATED        1      9     18
  PTPRZ1 WILD-TYPE     41    164    129
D1734V3, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              9              164
  CLUS_3             18              129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPRZ1 MUTATED        6      6      7
  PTPRZ1 WILD-TYPE     56     67     68
D1734V4, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              6               67
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPRZ1 MUTATED        3     10      9
  PTPRZ1 WILD-TYPE     67    110     91
D1734V5, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1              3               67
  CLUS_2             10              110
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRZ1 MUTATED        3      1      2      4      1      7      0      1
  PTPRZ1 WILD-TYPE     38     25     28     25     38     62     20     13
                  vv
clus               CLUS_9
  PTPRZ1 MUTATED        3
  PTPRZ1 WILD-TYPE     19
D1734V6, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              1               25
  CLUS_3              2               28
  CLUS_4              4               25
  CLUS_5              1               38
  CLUS_6              7               62
  CLUS_7              0               20
  CLUS_8              1               13
  CLUS_9              3               19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRZ1 MUTATED        5      5      8     10
  PTPRZ1 WILD-TYPE     95     67     64    111
D1734V7, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              5               67
  CLUS_3              8               64
  CLUS_4             10              111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRZ1 MUTATED        5      5      8      5      5
  PTPRZ1 WILD-TYPE     54     70     66    114     33
D1734V8, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1              5               54
  CLUS_2              5               70
  CLUS_3              8               66
  CLUS_4              5              114
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRZ1 MUTATED        1      9      4      6      7
  PTPRZ1 WILD-TYPE     50     67     57     65     88
D1734V9, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              9               67
  CLUS_3              4               57
  CLUS_4              6               65
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRZ1 MUTATED       10      4      0      1      2      2      2      4
  PTPRZ1 WILD-TYPE     59     44     39     15     51     18     19     34
                  vv
clus               CLUS_9
  PTPRZ1 MUTATED        2
  PTPRZ1 WILD-TYPE     48
D1734V10, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1             10               59
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              2               19
  CLUS_8              4               34
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPRZ1 MUTATED        0      2      1      2      1      2
  PTPRZ1 WILD-TYPE     13     14     13      9     10      7
D1734V11, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              2               14
  CLUS_3              1               13
  CLUS_4              2                9
  CLUS_5              1               10
  CLUS_6              2                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRZ1 MUTATED        2      0      1      1      1      0      2      1
  PTPRZ1 WILD-TYPE      9      7      6      8      7      7      9      8
                  vv
clus               CLUS_9
  PTPRZ1 MUTATED        0
  PTPRZ1 WILD-TYPE      5
D1734V12, multiclass
        clus
vv       PTPRZ1 MUTATED PTPRZ1 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              1                8
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1735) Variable = C3ORF27 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C3ORF27 MUTATED        0      0      0      1      1
  C3ORF27 WILD-TYPE     32     18     46     26     22
D1735V1, multiclass
[1] "Remove cluster labels:" "C3ORF27 MUTATED"       
clus
  C3ORF27 MUTATED C3ORF27 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3851        TCGA-AA-3852 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C3ORF27 MUTATED        0      1      1
  C3ORF27 WILD-TYPE     43     66     35
D1735V2, multiclass
[1] "Remove cluster labels:" "C3ORF27 MUTATED"       
clus
  C3ORF27 MUTATED C3ORF27 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3851        TCGA-AA-3852 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C3ORF27 MUTATED        0      1      2
  C3ORF27 WILD-TYPE     42    172    145
D1735V3, multiclass
        clus
vv       C3ORF27 MUTATED C3ORF27 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C3ORF27 MUTATED        0      1      0
  C3ORF27 WILD-TYPE     62     72     75
D1735V4, multiclass
[1] "Remove cluster labels:" "C3ORF27 MUTATED"       
clus
  C3ORF27 MUTATED C3ORF27 WILD-TYPE 
                1               209 
       TCGA-A6-2671        TCGA-A6-2677        TCGA-A6-3809        TCGA-A6-3810 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-A6-4105        TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137        TCGA-A6-6138 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3510 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AA-3655        TCGA-AA-3660        TCGA-AA-3662 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AA-3663        TCGA-AA-3697        TCGA-AA-3712        TCGA-AA-3713 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6888        TCGA-AD-6889 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AD-6890        TCGA-AD-6895        TCGA-AD-6899        TCGA-AD-6901 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AU-3779 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AU-6004        TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AY-6386        TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4616 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AZ-4681        TCGA-AZ-4682        TCGA-AZ-5403        TCGA-AZ-5407 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600        TCGA-AZ-6601 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606        TCGA-AZ-6607 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255        TCGA-CA-5796 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716        TCGA-CA-6717 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-4947        TCGA-CK-4948 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CK-4950        TCGA-CK-4952        TCGA-CK-5912        TCGA-CK-5913 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CK-5914        TCGA-CK-5915        TCGA-CK-5916        TCGA-CK-6746 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CK-6747        TCGA-CK-6748        TCGA-CK-6751        TCGA-CM-4743 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CM-4744        TCGA-CM-4746        TCGA-CM-4747        TCGA-CM-4752 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CM-5341        TCGA-CM-5344        TCGA-CM-5348        TCGA-CM-5349 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862        TCGA-CM-5863 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161        TCGA-CM-6162 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165        TCGA-CM-6166 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169        TCGA-CM-6170 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674        TCGA-CM-6675 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-5538        TCGA-D5-5539 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529        TCGA-D5-6532 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535        TCGA-D5-6536 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539        TCGA-D5-6540 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920        TCGA-D5-6922 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-D5-6924        TCGA-D5-6926        TCGA-D5-6927        TCGA-D5-6928 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-D5-6929        TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-D5-7000        TCGA-DM-A0X9        TCGA-DM-A0XD        TCGA-DM-A0XF 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-DM-A1HA        TCGA-DM-A1HB        TCGA-DM-A282        TCGA-DM-A285 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-DM-A28H        TCGA-DM-A28K        TCGA-F4-6459        TCGA-F4-6460 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-F4-6809        TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-G4-6293        TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-G4-6315        TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-G4-6586        TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626 
"C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" "C3ORF27 WILD-TYPE" 
       TCGA-G4-6628 
"C3ORF27 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C3ORF27 MUTATED        0      2      1
  C3ORF27 WILD-TYPE     70    118     99
D1735V5, multiclass
        clus
vv       C3ORF27 MUTATED C3ORF27 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C3ORF27 MUTATED        0      0      1      0      0      1      0      0
  C3ORF27 WILD-TYPE     41     26     29     29     39     68     20     14
                   vv
clus                CLUS_9
  C3ORF27 MUTATED        1
  C3ORF27 WILD-TYPE     21
D1735V6, multiclass
        clus
vv       C3ORF27 MUTATED C3ORF27 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C3ORF27 MUTATED        0      0      1      2
  C3ORF27 WILD-TYPE    100     72     71    119
D1735V7, multiclass
        clus
vv       C3ORF27 MUTATED C3ORF27 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               0                72
  CLUS_3               1                71
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C3ORF27 MUTATED        1      0      0      2      0
  C3ORF27 WILD-TYPE     58     75     74    117     38
D1735V8, multiclass
        clus
vv       C3ORF27 MUTATED C3ORF27 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               0                74
  CLUS_4               2               117
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C3ORF27 MUTATED        1      0      0      0      2
  C3ORF27 WILD-TYPE     50     76     61     71     93
D1735V9, multiclass
        clus
vv       C3ORF27 MUTATED C3ORF27 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               0                76
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C3ORF27 MUTATED        1      0      0      0      0      1      0      0
  C3ORF27 WILD-TYPE     68     48     39     16     53     19     21     38
                   vv
clus                CLUS_9
  C3ORF27 MUTATED        1
  C3ORF27 WILD-TYPE     49
D1735V10, multiclass
        clus
vv       C3ORF27 MUTATED C3ORF27 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C3ORF27 MUTATED        0      0      0      0      0      0
  C3ORF27 WILD-TYPE     13     16     14     11     11      9
D1735V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C3ORF27 MUTATED        0      0      0      0      0      0      0      0
  C3ORF27 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  C3ORF27 MUTATED        0
  C3ORF27 WILD-TYPE      5
D1735V12, multiclass

Clustering(1736) Variable = CCT4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCT4 MUTATED        2      0      0      0      0
  CCT4 WILD-TYPE     30     18     46     27     23
D1736V1, multiclass
[1] "Remove cluster labels:" "CCT4 MUTATED"          
clus
  CCT4 MUTATED CCT4 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCT4 MUTATED        1      0      1
  CCT4 WILD-TYPE     42     67     35
D1736V2, multiclass
[1] "Remove cluster labels:" "CCT4 MUTATED"          
clus
  CCT4 MUTATED CCT4 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCT4 MUTATED        1      5      6
  CCT4 WILD-TYPE     41    168    141
D1736V3, multiclass
        clus
vv       CCT4 MUTATED CCT4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            5            168
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCT4 MUTATED        2      3      5
  CCT4 WILD-TYPE     60     70     70
D1736V4, multiclass
        clus
vv       CCT4 MUTATED CCT4 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            3             70
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CCT4 MUTATED        4      2      4
  CCT4 WILD-TYPE     66    118     96
D1736V5, multiclass
        clus
vv       CCT4 MUTATED CCT4 WILD-TYPE
  CLUS_1            4             66
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCT4 MUTATED        1      0      0      1      2      3      1      0      2
  CCT4 WILD-TYPE     40     26     30     28     37     66     19     14     20
D1736V6, multiclass
        clus
vv       CCT4 MUTATED CCT4 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCT4 MUTATED        2      2      5      3
  CCT4 WILD-TYPE     98     70     67    118
D1736V7, multiclass
        clus
vv       CCT4 MUTATED CCT4 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            2             70
  CLUS_3            5             67
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCT4 MUTATED        2      4      3      2      1
  CCT4 WILD-TYPE     57     71     71    117     37
D1736V8, multiclass
        clus
vv       CCT4 MUTATED CCT4 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            4             71
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCT4 MUTATED        3      4      2      2      1
  CCT4 WILD-TYPE     48     72     59     69     94
D1736V9, multiclass
        clus
vv       CCT4 MUTATED CCT4 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCT4 MUTATED        2      3      1      0      4      0      0      1      1
  CCT4 WILD-TYPE     67     45     38     16     49     20     21     37     49
D1736V10, multiclass
        clus
vv       CCT4 MUTATED CCT4 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            4             49
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCT4 MUTATED        0      0      1      1      0      0
  CCT4 WILD-TYPE     13     16     13     10     11      9
D1736V11, multiclass
[1] "Remove cluster labels:" "CCT4 MUTATED"          
clus
  CCT4 MUTATED CCT4 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CCT4 MUTATED        0      0      0      0      0      0      2      0      0
  CCT4 WILD-TYPE     11      7      7      9      8      7      9      9      5
D1736V12, multiclass
[1] "Remove cluster labels:" "CCT4 MUTATED"          
clus
  CCT4 MUTATED CCT4 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" "CCT4 WILD-TYPE" 

Clustering(1737) Variable = PON3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PON3 MUTATED        1      0      0      0      1
  PON3 WILD-TYPE     31     18     46     27     22
D1737V1, multiclass
[1] "Remove cluster labels:" "PON3 MUTATED"          
clus
  PON3 MUTATED PON3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PON3 MUTATED        1      0      1
  PON3 WILD-TYPE     42     67     35
D1737V2, multiclass
[1] "Remove cluster labels:" "PON3 MUTATED"          
clus
  PON3 MUTATED PON3 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PON3 MUTATED        0      3      7
  PON3 WILD-TYPE     42    170    140
D1737V3, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PON3 MUTATED        4      1      3
  PON3 WILD-TYPE     58     72     72
D1737V4, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PON3 MUTATED        1      3      6
  PON3 WILD-TYPE     69    117     94
D1737V5, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PON3 MUTATED        2      1      0      0      2      5      0      0      0
  PON3 WILD-TYPE     39     25     30     29     37     64     20     14     22
D1737V6, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PON3 MUTATED        2      1      4      3
  PON3 WILD-TYPE     98     71     68    118
D1737V7, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            4             68
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PON3 MUTATED        3      0      4      2      1
  PON3 WILD-TYPE     56     75     70    117     37
D1737V8, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            0             75
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PON3 MUTATED        1      4      1      2      2
  PON3 WILD-TYPE     50     72     60     69     93
D1737V9, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PON3 MUTATED        2      4      0      1      0      0      0      1      2
  PON3 WILD-TYPE     67     44     39     15     53     20     21     37     48
D1737V10, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             44
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PON3 MUTATED        0      0      1      0      2      1
  PON3 WILD-TYPE     13     16     13     11      9      8
D1737V11, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PON3 MUTATED        0      0      0      0      0      0      3      1      0
  PON3 WILD-TYPE     11      7      7      9      8      7      8      8      5
D1737V12, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            3              8
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1738) Variable = TGM1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGM1 MUTATED        2      0      0      0      0
  TGM1 WILD-TYPE     30     18     46     27     23
D1738V1, multiclass
[1] "Remove cluster labels:" "TGM1 MUTATED"          
clus
  TGM1 MUTATED TGM1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3555 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3867 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TGM1 MUTATED        2      0      0
  TGM1 WILD-TYPE     41     67     36
D1738V2, multiclass
[1] "Remove cluster labels:" "TGM1 MUTATED"          
clus
  TGM1 MUTATED TGM1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3555 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3867 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872     TCGA-AA-3875 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TGM1 MUTATED        1      1      9
  TGM1 WILD-TYPE     41    172    138
D1738V3, multiclass
        clus
vv       TGM1 MUTATED TGM1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TGM1 MUTATED        1      2      5
  TGM1 WILD-TYPE     61     71     70
D1738V4, multiclass
        clus
vv       TGM1 MUTATED TGM1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TGM1 MUTATED        1      5      4
  TGM1 WILD-TYPE     69    115     96
D1738V5, multiclass
        clus
vv       TGM1 MUTATED TGM1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TGM1 MUTATED        1      1      1      1      1      3      1      0      1
  TGM1 WILD-TYPE     40     25     29     28     38     66     19     14     21
D1738V6, multiclass
        clus
vv       TGM1 MUTATED TGM1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            3             66
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TGM1 MUTATED        1      5      2      3
  TGM1 WILD-TYPE     99     67     70    118
D1738V7, multiclass
        clus
vv       TGM1 MUTATED TGM1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGM1 MUTATED        1      1      6      0      3
  TGM1 WILD-TYPE     58     74     68    119     35
D1738V8, multiclass
        clus
vv       TGM1 MUTATED TGM1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            6             68
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGM1 MUTATED        1      6      1      0      3
  TGM1 WILD-TYPE     50     70     60     71     92
D1738V9, multiclass
        clus
vv       TGM1 MUTATED TGM1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TGM1 MUTATED        1      2      0      2      2      1      0      3      0
  TGM1 WILD-TYPE     68     46     39     14     51     19     21     35     50
D1738V10, multiclass
        clus
vv       TGM1 MUTATED TGM1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TGM1 MUTATED        0      1      0      0      1      0
  TGM1 WILD-TYPE     13     15     14     11     10      9
D1738V11, multiclass
[1] "Remove cluster labels:" "TGM1 MUTATED"          
clus
  TGM1 MUTATED TGM1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6901     TCGA-AD-6963 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TGM1 MUTATED        0      0      0      1      0      0      1      0      0
  TGM1 WILD-TYPE     11      7      7      8      8      7     10      9      5
D1738V12, multiclass
[1] "Remove cluster labels:" "TGM1 MUTATED"          
clus
  TGM1 MUTATED TGM1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6901     TCGA-AD-6963 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196     TCGA-AZ-4323 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" "TGM1 WILD-TYPE" 

Clustering(1739) Variable = NEK3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEK3 MUTATED        2      0      0      2      0
  NEK3 WILD-TYPE     30     18     46     25     23
D1739V1, multiclass
        clus
vv       NEK3 MUTATED NEK3 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEK3 MUTATED        2      1      1
  NEK3 WILD-TYPE     41     66     35
D1739V2, multiclass
        clus
vv       NEK3 MUTATED NEK3 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEK3 MUTATED        2      2      7
  NEK3 WILD-TYPE     40    171    140
D1739V3, multiclass
        clus
vv       NEK3 MUTATED NEK3 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2            171
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEK3 MUTATED        2      3      2
  NEK3 WILD-TYPE     60     70     73
D1739V4, multiclass
        clus
vv       NEK3 MUTATED NEK3 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            3             70
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEK3 MUTATED        0      3      5
  NEK3 WILD-TYPE     70    117     95
D1739V5, multiclass
        clus
vv       NEK3 MUTATED NEK3 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEK3 MUTATED        0      0      1      1      0      6      0      0      0
  NEK3 WILD-TYPE     41     26     29     28     39     63     20     14     22
D1739V6, multiclass
        clus
vv       NEK3 MUTATED NEK3 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            6             63
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEK3 MUTATED        3      2      2      4
  NEK3 WILD-TYPE     97     70     70    117
D1739V7, multiclass
        clus
vv       NEK3 MUTATED NEK3 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEK3 MUTATED        1      2      4      2      2
  NEK3 WILD-TYPE     58     73     70    117     36
D1739V8, multiclass
        clus
vv       NEK3 MUTATED NEK3 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEK3 MUTATED        2      3      1      2      2
  NEK3 WILD-TYPE     49     73     60     69     93
D1739V9, multiclass
        clus
vv       NEK3 MUTATED NEK3 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            2             69
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEK3 MUTATED        1      2      1      1      3      1      0      1      0
  NEK3 WILD-TYPE     68     46     38     15     50     19     21     37     50
D1739V10, multiclass
        clus
vv       NEK3 MUTATED NEK3 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            3             50
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NEK3 MUTATED        1      0      0      0      1      0
  NEK3 WILD-TYPE     12     16     14     11     10      9
D1739V11, multiclass
[1] "Remove cluster labels:" "NEK3 MUTATED"          
clus
  NEK3 MUTATED NEK3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEK3 MUTATED        0      0      0      1      0      0      1      0      0
  NEK3 WILD-TYPE     11      7      7      8      8      7     10      9      5
D1739V12, multiclass
[1] "Remove cluster labels:" "NEK3 MUTATED"          
clus
  NEK3 MUTATED NEK3 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-DM-A285     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" "NEK3 WILD-TYPE" 

Clustering(1740) Variable = GSTM5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSTM5 MUTATED        0      0      0      0      0
  GSTM5 WILD-TYPE     32     18     46     27     23
D1740V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSTM5 MUTATED        0      0      0
  GSTM5 WILD-TYPE     43     67     36
D1740V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSTM5 MUTATED        1      1      3
  GSTM5 WILD-TYPE     41    172    144
D1740V3, multiclass
        clus
vv       GSTM5 MUTATED GSTM5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSTM5 MUTATED        1      0      3
  GSTM5 WILD-TYPE     61     73     72
D1740V4, multiclass
        clus
vv       GSTM5 MUTATED GSTM5 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GSTM5 MUTATED        1      2      2
  GSTM5 WILD-TYPE     69    118     98
D1740V5, multiclass
        clus
vv       GSTM5 MUTATED GSTM5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GSTM5 MUTATED        1      0      1      1      0      1      0      1
  GSTM5 WILD-TYPE     40     26     29     28     39     68     20     13
                 vv
clus              CLUS_9
  GSTM5 MUTATED        0
  GSTM5 WILD-TYPE     22
D1740V6, multiclass
        clus
vv       GSTM5 MUTATED GSTM5 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GSTM5 MUTATED        0      3      1      1
  GSTM5 WILD-TYPE    100     69     71    120
D1740V7, multiclass
        clus
vv       GSTM5 MUTATED GSTM5 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSTM5 MUTATED        0      1      3      1      0
  GSTM5 WILD-TYPE     59     74     71    118     38
D1740V8, multiclass
        clus
vv       GSTM5 MUTATED GSTM5 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GSTM5 MUTATED        0      3      0      2      0
  GSTM5 WILD-TYPE     51     73     61     69     95
D1740V9, multiclass
        clus
vv       GSTM5 MUTATED GSTM5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             2              69
  CLUS_5             0              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GSTM5 MUTATED        2      1      0      0      1      0      0      0
  GSTM5 WILD-TYPE     67     47     39     16     52     20     21     38
                 vv
clus              CLUS_9
  GSTM5 MUTATED        1
  GSTM5 WILD-TYPE     49
D1740V10, multiclass
        clus
vv       GSTM5 MUTATED GSTM5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GSTM5 MUTATED        0      0      1      0      0      0
  GSTM5 WILD-TYPE     13     16     13     11     11      9
D1740V11, multiclass
[1] "Remove cluster labels:" "GSTM5 MUTATED"         
clus
  GSTM5 MUTATED GSTM5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6678      TCGA-CM-6679 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-G4-6628 
"GSTM5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GSTM5 MUTATED        1      0      0      0      0      0      0      0
  GSTM5 WILD-TYPE     10      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  GSTM5 MUTATED        0
  GSTM5 WILD-TYPE      5
D1740V12, multiclass
[1] "Remove cluster labels:" "GSTM5 MUTATED"         
clus
  GSTM5 MUTATED GSTM5 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6678      TCGA-CM-6679 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" "GSTM5 WILD-TYPE" 
     TCGA-G4-6628 
"GSTM5 WILD-TYPE" 

Clustering(1741) Variable = CLEC1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLEC1A MUTATED        1      0      0      1      0
  CLEC1A WILD-TYPE     31     18     46     26     23
D1741V1, multiclass
[1] "Remove cluster labels:" "CLEC1A MUTATED"        
clus
  CLEC1A MUTATED CLEC1A WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLEC1A MUTATED        1      1      0
  CLEC1A WILD-TYPE     42     66     36
D1741V2, multiclass
[1] "Remove cluster labels:" "CLEC1A MUTATED"        
clus
  CLEC1A MUTATED CLEC1A WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3979 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" "CLEC1A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLEC1A MUTATED        0      1      7
  CLEC1A WILD-TYPE     42    172    140
D1741V3, multiclass
        clus
vv       CLEC1A MUTATED CLEC1A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLEC1A MUTATED        3      1      2
  CLEC1A WILD-TYPE     59     72     73
D1741V4, multiclass
        clus
vv       CLEC1A MUTATED CLEC1A WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLEC1A MUTATED        0      2      4
  CLEC1A WILD-TYPE     70    118     96
D1741V5, multiclass
        clus
vv       CLEC1A MUTATED CLEC1A WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLEC1A MUTATED        0      1      1      0      0      4      0      0
  CLEC1A WILD-TYPE     41     25     29     29     39     65     20     14
                  vv
clus               CLUS_9
  CLEC1A MUTATED        0
  CLEC1A WILD-TYPE     22
D1741V6, multiclass
        clus
vv       CLEC1A MUTATED CLEC1A WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLEC1A MUTATED        2      1      3      2
  CLEC1A WILD-TYPE     98     71     69    119
D1741V7, multiclass
        clus
vv       CLEC1A MUTATED CLEC1A WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLEC1A MUTATED        1      2      3      1      1
  CLEC1A WILD-TYPE     58     73     71    118     37
D1741V8, multiclass
        clus
vv       CLEC1A MUTATED CLEC1A WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLEC1A MUTATED        1      3      1      1      2
  CLEC1A WILD-TYPE     50     73     60     70     93
D1741V9, multiclass
        clus
vv       CLEC1A MUTATED CLEC1A WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLEC1A MUTATED        2      2      1      0      1      1      0      1
  CLEC1A WILD-TYPE     67     46     38     16     52     19     21     37
                  vv
clus               CLUS_9
  CLEC1A MUTATED        0
  CLEC1A WILD-TYPE     50
D1741V10, multiclass
        clus
vv       CLEC1A MUTATED CLEC1A WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLEC1A MUTATED        1      0      1      0      1      0
  CLEC1A WILD-TYPE     12     16     13     11     10      9
D1741V11, multiclass
        clus
vv       CLEC1A MUTATED CLEC1A WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLEC1A MUTATED        0      0      0      0      0      0      2      1
  CLEC1A WILD-TYPE     11      7      7      9      8      7      9      8
                  vv
clus               CLUS_9
  CLEC1A MUTATED        0
  CLEC1A WILD-TYPE      5
D1741V12, multiclass
        clus
vv       CLEC1A MUTATED CLEC1A WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1742) Variable = CCDC64B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC64B MUTATED        2      0      0      0      0
  CCDC64B WILD-TYPE     30     18     46     27     23
D1742V1, multiclass
[1] "Remove cluster labels:" "CCDC64B MUTATED"       
clus
  CCDC64B MUTATED CCDC64B WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC64B MUTATED        2      0      0
  CCDC64B WILD-TYPE     41     67     36
D1742V2, multiclass
[1] "Remove cluster labels:" "CCDC64B MUTATED"       
clus
  CCDC64B MUTATED CCDC64B WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3842 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846        TCGA-AA-3848 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852        TCGA-AA-3854 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC64B MUTATED        0      1      3
  CCDC64B WILD-TYPE     42    172    144
D1742V3, multiclass
        clus
vv       CCDC64B MUTATED CCDC64B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               3               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC64B MUTATED        1      1      1
  CCDC64B WILD-TYPE     61     72     74
D1742V4, multiclass
        clus
vv       CCDC64B MUTATED CCDC64B WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC64B MUTATED        1      0      3
  CCDC64B WILD-TYPE     69    120     97
D1742V5, multiclass
        clus
vv       CCDC64B MUTATED CCDC64B WILD-TYPE
  CLUS_1               1                69
  CLUS_2               0               120
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC64B MUTATED        1      0      0      0      0      2      1      0
  CCDC64B WILD-TYPE     40     26     30     29     39     67     19     14
                   vv
clus                CLUS_9
  CCDC64B MUTATED        0
  CCDC64B WILD-TYPE     22
D1742V6, multiclass
        clus
vv       CCDC64B MUTATED CCDC64B WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC64B MUTATED        0      1      1      3
  CCDC64B WILD-TYPE    100     71     71    118
D1742V7, multiclass
        clus
vv       CCDC64B MUTATED CCDC64B WILD-TYPE
  CLUS_1               0               100
  CLUS_2               1                71
  CLUS_3               1                71
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC64B MUTATED        0      0      2      1      2
  CCDC64B WILD-TYPE     59     75     72    118     36
D1742V8, multiclass
        clus
vv       CCDC64B MUTATED CCDC64B WILD-TYPE
  CLUS_1               0                59
  CLUS_2               0                75
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC64B MUTATED        1      2      0      1      1
  CCDC64B WILD-TYPE     50     74     61     70     94
D1742V9, multiclass
        clus
vv       CCDC64B MUTATED CCDC64B WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC64B MUTATED        0      1      0      1      0      0      1      2
  CCDC64B WILD-TYPE     69     47     39     15     53     20     20     36
                   vv
clus                CLUS_9
  CCDC64B MUTATED        0
  CCDC64B WILD-TYPE     50
D1742V10, multiclass
        clus
vv       CCDC64B MUTATED CCDC64B WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               2                36
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC64B MUTATED        0      0      0      0      1      0
  CCDC64B WILD-TYPE     13     16     14     11     10      9
D1742V11, multiclass
[1] "Remove cluster labels:" "CCDC64B MUTATED"       
clus
  CCDC64B MUTATED CCDC64B WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-G4-6628 
"CCDC64B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC64B MUTATED        0      0      0      0      0      0      1      0
  CCDC64B WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  CCDC64B MUTATED        0
  CCDC64B WILD-TYPE      5
D1742V12, multiclass
[1] "Remove cluster labels:" "CCDC64B MUTATED"       
clus
  CCDC64B MUTATED CCDC64B WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" "CCDC64B WILD-TYPE" 
       TCGA-G4-6628 
"CCDC64B WILD-TYPE" 

Clustering(1743) Variable = TEK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEK MUTATED        4      0      2      2      0
  TEK WILD-TYPE     28     18     44     25     23
D1743V1, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           4            28
  CLUS_2           0            18
  CLUS_3           2            44
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TEK MUTATED        4      3      1
  TEK WILD-TYPE     39     64     35
D1743V2, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           4            39
  CLUS_2           3            64
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TEK MUTATED        1      8     19
  TEK WILD-TYPE     41    165    128
D1743V3, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           1            41
  CLUS_2           8           165
  CLUS_3          19           128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TEK MUTATED        8      4      8
  TEK WILD-TYPE     54     69     67
D1743V4, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           8            54
  CLUS_2           4            69
  CLUS_3           8            67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TEK MUTATED        4      9     12
  TEK WILD-TYPE     66    111     88
D1743V5, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           4            66
  CLUS_2           9           111
  CLUS_3          12            88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TEK MUTATED        1      0      3      4      3     11      3      0      0
  TEK WILD-TYPE     40     26     27     25     36     58     17     14     22
D1743V6, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           3            27
  CLUS_4           4            25
  CLUS_5           3            36
  CLUS_6          11            58
  CLUS_7           3            17
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TEK MUTATED        6      6      8      8
  TEK WILD-TYPE     94     66     64    113
D1743V7, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           6            94
  CLUS_2           6            66
  CLUS_3           8            64
  CLUS_4           8           113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEK MUTATED        2      8     10      4      4
  TEK WILD-TYPE     57     67     64    115     34
D1743V8, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           2            57
  CLUS_2           8            67
  CLUS_3          10            64
  CLUS_4           4           115
  CLUS_5           4            34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TEK MUTATED        2     15      1      3      6
  TEK WILD-TYPE     49     61     60     68     89
D1743V9, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           2            49
  CLUS_2          15            61
  CLUS_3           1            60
  CLUS_4           3            68
  CLUS_5           6            89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TEK MUTATED        5      5      2      5      4      2      0      2      2
  TEK WILD-TYPE     64     43     37     11     49     18     21     36     48
D1743V10, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           5            64
  CLUS_2           5            43
  CLUS_3           2            37
  CLUS_4           5            11
  CLUS_5           4            49
  CLUS_6           2            18
  CLUS_7           0            21
  CLUS_8           2            36
  CLUS_9           2            48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TEK MUTATED        1      3      0      1      4      0
  TEK WILD-TYPE     12     13     14     10      7      9
D1743V11, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           1            12
  CLUS_2           3            13
  CLUS_3           0            14
  CLUS_4           1            10
  CLUS_5           4             7
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TEK MUTATED        1      1      0      2      1      0      4      0      0
  TEK WILD-TYPE     10      6      7      7      7      7      7      9      5
D1743V12, multiclass
        clus
vv       TEK MUTATED TEK WILD-TYPE
  CLUS_1           1            10
  CLUS_2           1             6
  CLUS_3           0             7
  CLUS_4           2             7
  CLUS_5           1             7
  CLUS_6           0             7
  CLUS_7           4             7
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1744) Variable = IL8 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL8 MUTATED        0      0      0      0      0
  IL8 WILD-TYPE     32     18     46     27     23
D1744V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IL8 MUTATED        0      0      0
  IL8 WILD-TYPE     43     67     36
D1744V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IL8 MUTATED        1      1      3
  IL8 WILD-TYPE     41    172    144
D1744V3, multiclass
        clus
vv       IL8 MUTATED IL8 WILD-TYPE
  CLUS_1           1            41
  CLUS_2           1           172
  CLUS_3           3           144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IL8 MUTATED        2      1      2
  IL8 WILD-TYPE     60     72     73
D1744V4, multiclass
        clus
vv       IL8 MUTATED IL8 WILD-TYPE
  CLUS_1           2            60
  CLUS_2           1            72
  CLUS_3           2            73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IL8 MUTATED        0      2      3
  IL8 WILD-TYPE     70    118     97
D1744V5, multiclass
        clus
vv       IL8 MUTATED IL8 WILD-TYPE
  CLUS_1           0            70
  CLUS_2           2           118
  CLUS_3           3            97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL8 MUTATED        2      0      0      1      0      2      0      0      0
  IL8 WILD-TYPE     39     26     30     28     39     67     20     14     22
D1744V6, multiclass
        clus
vv       IL8 MUTATED IL8 WILD-TYPE
  CLUS_1           2            39
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           1            28
  CLUS_5           0            39
  CLUS_6           2            67
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL8 MUTATED        0      1      4      0
  IL8 WILD-TYPE    100     71     68    121
D1744V7, multiclass
        clus
vv       IL8 MUTATED IL8 WILD-TYPE
  CLUS_1           0           100
  CLUS_2           1            71
  CLUS_3           4            68
  CLUS_4           0           121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL8 MUTATED        1      0      4      0      0
  IL8 WILD-TYPE     58     75     70    119     38
D1744V8, multiclass
        clus
vv       IL8 MUTATED IL8 WILD-TYPE
  CLUS_1           1            58
  CLUS_2           0            75
  CLUS_3           4            70
  CLUS_4           0           119
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL8 MUTATED        0      3      2      0      0
  IL8 WILD-TYPE     51     73     59     71     95
D1744V9, multiclass
        clus
vv       IL8 MUTATED IL8 WILD-TYPE
  CLUS_1           0            51
  CLUS_2           3            73
  CLUS_3           2            59
  CLUS_4           0            71
  CLUS_5           0            95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL8 MUTATED        1      3      0      1      0      0      0      0      0
  IL8 WILD-TYPE     68     45     39     15     53     20     21     38     50
D1744V10, multiclass
        clus
vv       IL8 MUTATED IL8 WILD-TYPE
  CLUS_1           1            68
  CLUS_2           3            45
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           0            53
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL8 MUTATED        0      1      0      0      2      0
  IL8 WILD-TYPE     13     15     14     11      9      9
D1744V11, multiclass
        clus
vv       IL8 MUTATED IL8 WILD-TYPE
  CLUS_1           0            13
  CLUS_2           1            15
  CLUS_3           0            14
  CLUS_4           0            11
  CLUS_5           2             9
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL8 MUTATED        0      0      0      0      0      2      1      0      0
  IL8 WILD-TYPE     11      7      7      9      8      5     10      9      5
D1744V12, multiclass
        clus
vv       IL8 MUTATED IL8 WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           0             9
  CLUS_5           0             8
  CLUS_6           2             5
  CLUS_7           1            10
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1745) Variable = ADCY9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADCY9 MUTATED        1      1      1      0      0
  ADCY9 WILD-TYPE     31     17     45     27     23
D1745V1, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADCY9 MUTATED        1      1      1
  ADCY9 WILD-TYPE     42     66     35
D1745V2, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADCY9 MUTATED        0      5     13
  ADCY9 WILD-TYPE     42    168    134
D1745V3, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADCY9 MUTATED        5      3      6
  ADCY9 WILD-TYPE     57     70     69
D1745V4, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             3              70
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADCY9 MUTATED        1      6      8
  ADCY9 WILD-TYPE     69    114     92
D1745V5, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             114
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADCY9 MUTATED        1      1      1      1      2      7      1      1
  ADCY9 WILD-TYPE     40     25     29     28     37     62     19     13
                 vv
clus              CLUS_9
  ADCY9 MUTATED        0
  ADCY9 WILD-TYPE     22
D1745V6, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             7              62
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADCY9 MUTATED        4      7      4      3
  ADCY9 WILD-TYPE     96     65     68    118
D1745V7, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             7              65
  CLUS_3             4              68
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADCY9 MUTATED        2      3      9      2      2
  ADCY9 WILD-TYPE     57     72     65    117     36
D1745V8, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             9              65
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADCY9 MUTATED        1      9      2      3      3
  ADCY9 WILD-TYPE     50     67     59     68     92
D1745V9, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             9              67
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADCY9 MUTATED        2      4      1      4      1      2      0      2
  ADCY9 WILD-TYPE     67     44     38     12     52     18     21     36
                 vv
clus              CLUS_9
  ADCY9 MUTATED        2
  ADCY9 WILD-TYPE     48
D1745V10, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADCY9 MUTATED        1      0      0      0      2      1
  ADCY9 WILD-TYPE     12     16     14     11      9      8
D1745V11, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ADCY9 MUTATED        0      0      0      1      0      0      1      2
  ADCY9 WILD-TYPE     11      7      7      8      8      7     10      7
                 vv
clus              CLUS_9
  ADCY9 MUTATED        0
  ADCY9 WILD-TYPE      5
D1745V12, multiclass
        clus
vv       ADCY9 MUTATED ADCY9 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             2               7
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1746) Variable = TNXB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNXB MUTATED        3      1      1      4      1
  TNXB WILD-TYPE     29     17     45     23     22
D1746V1, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1            3             29
  CLUS_2            1             17
  CLUS_3            1             45
  CLUS_4            4             23
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TNXB MUTATED        4      4      2
  TNXB WILD-TYPE     39     63     34
D1746V2, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1            4             39
  CLUS_2            4             63
  CLUS_3            2             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TNXB MUTATED        2      9     28
  TNXB WILD-TYPE     40    164    119
D1746V3, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1            2             40
  CLUS_2            9            164
  CLUS_3           28            119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TNXB MUTATED       10      7     13
  TNXB WILD-TYPE     52     66     62
D1746V4, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1           10             52
  CLUS_2            7             66
  CLUS_3           13             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TNXB MUTATED        6      9     16
  TNXB WILD-TYPE     64    111     84
D1746V5, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1            6             64
  CLUS_2            9            111
  CLUS_3           16             84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TNXB MUTATED        4      2      1      4      4     11      4      1      0
  TNXB WILD-TYPE     37     24     29     25     35     58     16     13     22
D1746V6, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1            4             37
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            4             25
  CLUS_5            4             35
  CLUS_6           11             58
  CLUS_7            4             16
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNXB MUTATED        8     12     10      9
  TNXB WILD-TYPE     92     60     62    112
D1746V7, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1            8             92
  CLUS_2           12             60
  CLUS_3           10             62
  CLUS_4            9            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNXB MUTATED        5      9     15      6      4
  TNXB WILD-TYPE     54     66     59    113     34
D1746V8, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1            5             54
  CLUS_2            9             66
  CLUS_3           15             59
  CLUS_4            6            113
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNXB MUTATED        8     13      5      3      9
  TNXB WILD-TYPE     43     63     56     68     86
D1746V9, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1            8             43
  CLUS_2           13             63
  CLUS_3            5             56
  CLUS_4            3             68
  CLUS_5            9             86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TNXB MUTATED        7      5      3      7      5      4      2      3      2
  TNXB WILD-TYPE     62     43     36      9     48     16     19     35     48
D1746V10, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1            7             62
  CLUS_2            5             43
  CLUS_3            3             36
  CLUS_4            7              9
  CLUS_5            5             48
  CLUS_6            4             16
  CLUS_7            2             19
  CLUS_8            3             35
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TNXB MUTATED        1      1      2      1      4      0
  TNXB WILD-TYPE     12     15     12     10      7      9
D1746V11, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            1             10
  CLUS_5            4              7
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TNXB MUTATED        0      1      0      2      1      3      1      1      0
  TNXB WILD-TYPE     11      6      7      7      7      4     10      8      5
D1746V12, multiclass
        clus
vv       TNXB MUTATED TNXB WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            3              4
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1747) Variable = MOGAT3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOGAT3 MUTATED        1      0      0      0      0
  MOGAT3 WILD-TYPE     31     18     46     27     23
D1747V1, multiclass
[1] "Remove cluster labels:" "MOGAT3 MUTATED"        
clus
  MOGAT3 MUTATED MOGAT3 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A01K       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AY-4071 
"MOGAT3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT3 MUTATED        1      0      0
  MOGAT3 WILD-TYPE     42     67     36
D1747V2, multiclass
[1] "Remove cluster labels:" "MOGAT3 MUTATED"        
clus
  MOGAT3 MUTATED MOGAT3 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A01K       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" "MOGAT3 WILD-TYPE" 
      TCGA-AY-4071 
"MOGAT3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT3 MUTATED        1      0      5
  MOGAT3 WILD-TYPE     41    173    142
D1747V3, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT3 MUTATED        1      1      3
  MOGAT3 WILD-TYPE     61     72     72
D1747V4, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT3 MUTATED        1      2      3
  MOGAT3 WILD-TYPE     69    118     97
D1747V5, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOGAT3 MUTATED        0      1      0      1      0      2      1      0
  MOGAT3 WILD-TYPE     41     25     30     28     39     67     19     14
                  vv
clus               CLUS_9
  MOGAT3 MUTATED        1
  MOGAT3 WILD-TYPE     21
D1747V6, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MOGAT3 MUTATED        0      3      1      2
  MOGAT3 WILD-TYPE    100     69     71    119
D1747V7, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOGAT3 MUTATED        1      0      3      1      1
  MOGAT3 WILD-TYPE     58     75     71    118     37
D1747V8, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOGAT3 MUTATED        0      3      1      0      1
  MOGAT3 WILD-TYPE     51     73     60     71     94
D1747V9, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOGAT3 MUTATED        2      0      0      2      0      0      0      0
  MOGAT3 WILD-TYPE     67     48     39     14     53     20     21     38
                  vv
clus               CLUS_9
  MOGAT3 MUTATED        1
  MOGAT3 WILD-TYPE     49
D1747V10, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MOGAT3 MUTATED        0      0      0      0      0      0
  MOGAT3 WILD-TYPE     13     16     14     11     11      9
D1747V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOGAT3 MUTATED        0      0      0      0      0      0      0      0
  MOGAT3 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  MOGAT3 MUTATED        0
  MOGAT3 WILD-TYPE      5
D1747V12, multiclass

Clustering(1748) Variable = HIST1H3B MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H3B MUTATED        1      0      0      0      0
  HIST1H3B WILD-TYPE     31     18     46     27     23
D1748V1, multiclass
[1] "Remove cluster labels:" "HIST1H3B MUTATED"      
clus
  HIST1H3B MUTATED HIST1H3B WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3980         TCGA-AA-3982 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3984         TCGA-AA-3986         TCGA-AA-3989 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3994         TCGA-AA-A004         TCGA-AA-A00A 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A00D         TCGA-AA-A00E         TCGA-AA-A00F 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AY-4071 
"HIST1H3B WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H3B MUTATED        1      0      0
  HIST1H3B WILD-TYPE     42     67     36
D1748V2, multiclass
[1] "Remove cluster labels:" "HIST1H3B MUTATED"      
clus
  HIST1H3B MUTATED HIST1H3B WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3980         TCGA-AA-3982 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3984         TCGA-AA-3986         TCGA-AA-3989 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3994         TCGA-AA-A004         TCGA-AA-A00A 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A00D         TCGA-AA-A00E         TCGA-AA-A00F 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AY-4071 
"HIST1H3B WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H3B MUTATED        0      1      3
  HIST1H3B WILD-TYPE     42    172    144
D1748V3, multiclass
        clus
vv       HIST1H3B MUTATED HIST1H3B WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                1                172
  CLUS_3                3                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H3B MUTATED        0      1      2
  HIST1H3B WILD-TYPE     62     72     73
D1748V4, multiclass
        clus
vv       HIST1H3B MUTATED HIST1H3B WILD-TYPE
  CLUS_1                0                 62
  CLUS_2                1                 72
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H3B MUTATED        2      1      1
  HIST1H3B WILD-TYPE     68    119     99
D1748V5, multiclass
        clus
vv       HIST1H3B MUTATED HIST1H3B WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                1                119
  CLUS_3                1                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H3B MUTATED        1      0      0      0      1      1      0      0
  HIST1H3B WILD-TYPE     40     26     30     29     38     68     20     14
                    vv
clus                 CLUS_9
  HIST1H3B MUTATED        1
  HIST1H3B WILD-TYPE     21
D1748V6, multiclass
        clus
vv       HIST1H3B MUTATED HIST1H3B WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                1                 68
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST1H3B MUTATED        1      1      1      1
  HIST1H3B WILD-TYPE     99     71     71    120
D1748V7, multiclass
        clus
vv       HIST1H3B MUTATED HIST1H3B WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                1                 71
  CLUS_3                1                 71
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H3B MUTATED        0      1      2      0      1
  HIST1H3B WILD-TYPE     59     74     72    119     37
D1748V8, multiclass
        clus
vv       HIST1H3B MUTATED HIST1H3B WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                2                 72
  CLUS_4                0                119
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H3B MUTATED        1      1      0      0      2
  HIST1H3B WILD-TYPE     50     75     61     71     93
D1748V9, multiclass
        clus
vv       HIST1H3B MUTATED HIST1H3B WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                1                 75
  CLUS_3                0                 61
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H3B MUTATED        0      1      0      0      0      1      0      2
  HIST1H3B WILD-TYPE     69     47     39     16     53     19     21     36
                    vv
clus                 CLUS_9
  HIST1H3B MUTATED        0
  HIST1H3B WILD-TYPE     50
D1748V10, multiclass
        clus
vv       HIST1H3B MUTATED HIST1H3B WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                1                 19
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIST1H3B MUTATED        0      0      0      0      1      0
  HIST1H3B WILD-TYPE     13     16     14     11     10      9
D1748V11, multiclass
[1] "Remove cluster labels:" "HIST1H3B MUTATED"      
clus
  HIST1H3B MUTATED HIST1H3B WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-6748 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-G4-6628 
"HIST1H3B WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H3B MUTATED        0      0      0      0      0      0      1      0
  HIST1H3B WILD-TYPE     11      7      7      9      8      7     10      9
                    vv
clus                 CLUS_9
  HIST1H3B MUTATED        0
  HIST1H3B WILD-TYPE      5
D1748V12, multiclass
[1] "Remove cluster labels:" "HIST1H3B MUTATED"      
clus
  HIST1H3B MUTATED HIST1H3B WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-6748 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" "HIST1H3B WILD-TYPE" 
        TCGA-G4-6628 
"HIST1H3B WILD-TYPE" 

Clustering(1749) Variable = ERCC6L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC6L MUTATED        3      1      1      0      0
  ERCC6L WILD-TYPE     29     17     45     27     23
D1749V1, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              3               29
  CLUS_2              1               17
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERCC6L MUTATED        3      0      2
  ERCC6L WILD-TYPE     40     67     34
D1749V2, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERCC6L MUTATED        0      2     10
  ERCC6L WILD-TYPE     42    171    137
D1749V3, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERCC6L MUTATED        2      1      4
  ERCC6L WILD-TYPE     60     72     71
D1749V4, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERCC6L MUTATED        2      2      4
  ERCC6L WILD-TYPE     68    118     96
D1749V5, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              118
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC6L MUTATED        0      1      0      1      1      3      1      1
  ERCC6L WILD-TYPE     41     25     30     28     38     66     19     13
                  vv
clus               CLUS_9
  ERCC6L MUTATED        0
  ERCC6L WILD-TYPE     22
D1749V6, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERCC6L MUTATED        1      4      2      5
  ERCC6L WILD-TYPE     99     68     70    116
D1749V7, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC6L MUTATED        0      1      6      3      2
  ERCC6L WILD-TYPE     59     74     68    116     36
D1749V8, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              6               68
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERCC6L MUTATED        1      4      2      2      3
  ERCC6L WILD-TYPE     50     72     59     69     92
D1749V9, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              1               50
  CLUS_2              4               72
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC6L MUTATED        3      2      0      1      1      1      0      3
  ERCC6L WILD-TYPE     66     46     39     15     52     19     21     35
                  vv
clus               CLUS_9
  ERCC6L MUTATED        1
  ERCC6L WILD-TYPE     49
D1749V10, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERCC6L MUTATED        0      0      1      0      1      0
  ERCC6L WILD-TYPE     13     16     13     11     10      9
D1749V11, multiclass
[1] "Remove cluster labels:" "ERCC6L MUTATED"        
clus
  ERCC6L MUTATED ERCC6L WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6142 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERCC6L MUTATED        0      0      0      0      1      0      1      0
  ERCC6L WILD-TYPE     11      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  ERCC6L MUTATED        0
  ERCC6L WILD-TYPE      5
D1749V12, multiclass
[1] "Remove cluster labels:" "ERCC6L MUTATED"        
clus
  ERCC6L MUTATED ERCC6L WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6142 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 

Clustering(1750) Variable = SBF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBF1 MUTATED        2      0      0      0      0
  SBF1 WILD-TYPE     30     18     46     27     23
D1750V1, multiclass
[1] "Remove cluster labels:" "SBF1 MUTATED"          
clus
  SBF1 MUTATED SBF1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3812 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBF1 MUTATED        2      0      0
  SBF1 WILD-TYPE     41     67     36
D1750V2, multiclass
[1] "Remove cluster labels:" "SBF1 MUTATED"          
clus
  SBF1 MUTATED SBF1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3812 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3930     TCGA-AA-3939     TCGA-AA-3941 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950     TCGA-AA-3952 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966     TCGA-AA-3968 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" "SBF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBF1 MUTATED        2      1     10
  SBF1 WILD-TYPE     40    172    137
D1750V3, multiclass
        clus
vv       SBF1 MUTATED SBF1 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1            172
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBF1 MUTATED        5      0      6
  SBF1 WILD-TYPE     57     73     69
D1750V4, multiclass
        clus
vv       SBF1 MUTATED SBF1 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            0             73
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBF1 MUTATED        2      5      4
  SBF1 WILD-TYPE     68    115     96
D1750V5, multiclass
        clus
vv       SBF1 MUTATED SBF1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SBF1 MUTATED        0      1      0      3      2      4      1      0      0
  SBF1 WILD-TYPE     41     25     30     26     37     65     19     14     22
D1750V6, multiclass
        clus
vv       SBF1 MUTATED SBF1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            3             26
  CLUS_5            2             37
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SBF1 MUTATED        2      5      4      3
  SBF1 WILD-TYPE     98     67     68    118
D1750V7, multiclass
        clus
vv       SBF1 MUTATED SBF1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            4             68
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBF1 MUTATED        0      1     10      1      2
  SBF1 WILD-TYPE     59     74     64    118     36
D1750V8, multiclass
        clus
vv       SBF1 MUTATED SBF1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3           10             64
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBF1 MUTATED        1      5      3      1      4
  SBF1 WILD-TYPE     50     71     58     70     91
D1750V9, multiclass
        clus
vv       SBF1 MUTATED SBF1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SBF1 MUTATED        1      3      0      3      4      0      1      1      1
  SBF1 WILD-TYPE     68     45     39     13     49     20     20     37     49
D1750V10, multiclass
        clus
vv       SBF1 MUTATED SBF1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            4             49
  CLUS_6            0             20
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SBF1 MUTATED        0      0      1      0      2      0
  SBF1 WILD-TYPE     13     16     13     11      9      9
D1750V11, multiclass
        clus
vv       SBF1 MUTATED SBF1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  SBF1 MUTATED        0      0      0      2      1      0      0      0      0
  SBF1 WILD-TYPE     11      7      7      7      7      7     11      9      5
D1750V12, multiclass
        clus
vv       SBF1 MUTATED SBF1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1751) Variable = ZNF391 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF391 MUTATED        3      0      0      0      0
  ZNF391 WILD-TYPE     29     18     46     27     23
D1751V1, multiclass
        clus
vv       ZNF391 MUTATED ZNF391 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF391 MUTATED        2      0      1
  ZNF391 WILD-TYPE     41     67     35
D1751V2, multiclass
        clus
vv       ZNF391 MUTATED ZNF391 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF391 MUTATED        1      2      5
  ZNF391 WILD-TYPE     41    171    142
D1751V3, multiclass
        clus
vv       ZNF391 MUTATED ZNF391 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF391 MUTATED        2      1      2
  ZNF391 WILD-TYPE     60     72     73
D1751V4, multiclass
        clus
vv       ZNF391 MUTATED ZNF391 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF391 MUTATED        1      1      3
  ZNF391 WILD-TYPE     69    119     97
D1751V5, multiclass
        clus
vv       ZNF391 MUTATED ZNF391 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF391 MUTATED        0      0      0      1      0      2      1      0
  ZNF391 WILD-TYPE     41     26     30     28     39     67     19     14
                  vv
clus               CLUS_9
  ZNF391 MUTATED        1
  ZNF391 WILD-TYPE     21
D1751V6, multiclass
        clus
vv       ZNF391 MUTATED ZNF391 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF391 MUTATED        2      2      1      3
  ZNF391 WILD-TYPE     98     70     71    118
D1751V7, multiclass
        clus
vv       ZNF391 MUTATED ZNF391 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF391 MUTATED        0      3      2      1      2
  ZNF391 WILD-TYPE     59     72     72    118     36
D1751V8, multiclass
        clus
vv       ZNF391 MUTATED ZNF391 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF391 MUTATED        2      2      0      1      3
  ZNF391 WILD-TYPE     49     74     61     70     92
D1751V9, multiclass
        clus
vv       ZNF391 MUTATED ZNF391 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF391 MUTATED        1      0      1      1      2      0      0      2
  ZNF391 WILD-TYPE     68     48     38     15     51     20     21     36
                  vv
clus               CLUS_9
  ZNF391 MUTATED        1
  ZNF391 WILD-TYPE     49
D1751V10, multiclass
        clus
vv       ZNF391 MUTATED ZNF391 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF391 MUTATED        1      0      0      0      1      0
  ZNF391 WILD-TYPE     12     16     14     11     10      9
D1751V11, multiclass
[1] "Remove cluster labels:" "ZNF391 MUTATED"        
clus
  ZNF391 MUTATED ZNF391 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF391 MUTATED        0      0      0      0      1      0      0      0
  ZNF391 WILD-TYPE     11      7      7      9      7      7     11      9
                  vv
clus               CLUS_9
  ZNF391 MUTATED        1
  ZNF391 WILD-TYPE      4
D1751V12, multiclass
[1] "Remove cluster labels:" "ZNF391 MUTATED"        
clus
  ZNF391 MUTATED ZNF391 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D7       TCGA-DM-A1D8 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" "ZNF391 WILD-TYPE" 

Clustering(1752) Variable = SORBS1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SORBS1 MUTATED        4      0      0      1      1
  SORBS1 WILD-TYPE     28     18     46     26     22
D1752V1, multiclass
        clus
vv       SORBS1 MUTATED SORBS1 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SORBS1 MUTATED        4      1      1
  SORBS1 WILD-TYPE     39     66     35
D1752V2, multiclass
        clus
vv       SORBS1 MUTATED SORBS1 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SORBS1 MUTATED        1      1      8
  SORBS1 WILD-TYPE     41    172    139
D1752V3, multiclass
        clus
vv       SORBS1 MUTATED SORBS1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SORBS1 MUTATED        1      1      2
  SORBS1 WILD-TYPE     61     72     73
D1752V4, multiclass
        clus
vv       SORBS1 MUTATED SORBS1 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SORBS1 MUTATED        1      5      2
  SORBS1 WILD-TYPE     69    115     98
D1752V5, multiclass
        clus
vv       SORBS1 MUTATED SORBS1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SORBS1 MUTATED        1      1      1      1      2      1      1      0
  SORBS1 WILD-TYPE     40     25     29     28     37     68     19     14
                  vv
clus               CLUS_9
  SORBS1 MUTATED        0
  SORBS1 WILD-TYPE     22
D1752V6, multiclass
        clus
vv       SORBS1 MUTATED SORBS1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              1               68
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SORBS1 MUTATED        1      3      0      6
  SORBS1 WILD-TYPE     99     69     72    115
D1752V7, multiclass
        clus
vv       SORBS1 MUTATED SORBS1 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              0               72
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SORBS1 MUTATED        0      2      2      2      4
  SORBS1 WILD-TYPE     59     73     72    117     34
D1752V8, multiclass
        clus
vv       SORBS1 MUTATED SORBS1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              2               73
  CLUS_3              2               72
  CLUS_4              2              117
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SORBS1 MUTATED        1      2      0      1      6
  SORBS1 WILD-TYPE     50     74     61     70     89
D1752V9, multiclass
        clus
vv       SORBS1 MUTATED SORBS1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              6               89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SORBS1 MUTATED        0      0      1      1      1      1      0      4
  SORBS1 WILD-TYPE     69     48     38     15     52     19     21     34
                  vv
clus               CLUS_9
  SORBS1 MUTATED        2
  SORBS1 WILD-TYPE     48
D1752V10, multiclass
        clus
vv       SORBS1 MUTATED SORBS1 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              4               34
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SORBS1 MUTATED        0      0      0      0      1      0
  SORBS1 WILD-TYPE     13     16     14     11     10      9
D1752V11, multiclass
[1] "Remove cluster labels:" "SORBS1 MUTATED"        
clus
  SORBS1 MUTATED SORBS1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-G4-6628 
"SORBS1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SORBS1 MUTATED        0      0      0      1      0      0      0      0
  SORBS1 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  SORBS1 MUTATED        0
  SORBS1 WILD-TYPE      5
D1752V12, multiclass
[1] "Remove cluster labels:" "SORBS1 MUTATED"        
clus
  SORBS1 MUTATED SORBS1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" "SORBS1 WILD-TYPE" 
      TCGA-G4-6628 
"SORBS1 WILD-TYPE" 

Clustering(1753) Variable = MOGAT1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOGAT1 MUTATED        1      0      0      0      0
  MOGAT1 WILD-TYPE     31     18     46     27     23
D1753V1, multiclass
[1] "Remove cluster labels:" "MOGAT1 MUTATED"        
clus
  MOGAT1 MUTATED MOGAT1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AY-4071 
"MOGAT1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT1 MUTATED        1      0      0
  MOGAT1 WILD-TYPE     42     67     36
D1753V2, multiclass
[1] "Remove cluster labels:" "MOGAT1 MUTATED"        
clus
  MOGAT1 MUTATED MOGAT1 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" "MOGAT1 WILD-TYPE" 
      TCGA-AY-4071 
"MOGAT1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT1 MUTATED        0      1      3
  MOGAT1 WILD-TYPE     42    172    144
D1753V3, multiclass
        clus
vv       MOGAT1 MUTATED MOGAT1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT1 MUTATED        2      1      0
  MOGAT1 WILD-TYPE     60     72     75
D1753V4, multiclass
        clus
vv       MOGAT1 MUTATED MOGAT1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              0               75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT1 MUTATED        0      0      3
  MOGAT1 WILD-TYPE     70    120     97
D1753V5, multiclass
        clus
vv       MOGAT1 MUTATED MOGAT1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              0              120
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOGAT1 MUTATED        0      0      0      0      0      2      0      0
  MOGAT1 WILD-TYPE     41     26     30     29     39     67     20     14
                  vv
clus               CLUS_9
  MOGAT1 MUTATED        1
  MOGAT1 WILD-TYPE     21
D1753V6, multiclass
        clus
vv       MOGAT1 MUTATED MOGAT1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MOGAT1 MUTATED        0      0      3      1
  MOGAT1 WILD-TYPE    100     72     69    120
D1753V7, multiclass
        clus
vv       MOGAT1 MUTATED MOGAT1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              0               72
  CLUS_3              3               69
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOGAT1 MUTATED        2      0      1      0      1
  MOGAT1 WILD-TYPE     57     75     73    119     37
D1753V8, multiclass
        clus
vv       MOGAT1 MUTATED MOGAT1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              0               75
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOGAT1 MUTATED        1      1      1      0      1
  MOGAT1 WILD-TYPE     50     75     60     71     94
D1753V9, multiclass
        clus
vv       MOGAT1 MUTATED MOGAT1 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOGAT1 MUTATED        0      2      1      0      0      0      1      0
  MOGAT1 WILD-TYPE     69     46     38     16     53     20     20     38
                  vv
clus               CLUS_9
  MOGAT1 MUTATED        0
  MOGAT1 WILD-TYPE     50
D1753V10, multiclass
        clus
vv       MOGAT1 MUTATED MOGAT1 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MOGAT1 MUTATED        0      1      0      1      1      0
  MOGAT1 WILD-TYPE     13     15     14     10     10      9
D1753V11, multiclass
        clus
vv       MOGAT1 MUTATED MOGAT1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              1               10
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MOGAT1 MUTATED        0      1      0      0      0      0      1      1
  MOGAT1 WILD-TYPE     11      6      7      9      8      7     10      8
                  vv
clus               CLUS_9
  MOGAT1 MUTATED        0
  MOGAT1 WILD-TYPE      5
D1753V12, multiclass
        clus
vv       MOGAT1 MUTATED MOGAT1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1754) Variable = GAB3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAB3 MUTATED        3      1      1      1      0
  GAB3 WILD-TYPE     29     17     45     26     23
D1754V1, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            1             17
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB3 MUTATED        3      2      1
  GAB3 WILD-TYPE     40     65     35
D1754V2, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB3 MUTATED        0      1     10
  GAB3 WILD-TYPE     42    172    137
D1754V3, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB3 MUTATED        3      1      1
  GAB3 WILD-TYPE     59     72     74
D1754V4, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GAB3 MUTATED        2      3      4
  GAB3 WILD-TYPE     68    117     96
D1754V5, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAB3 MUTATED        2      1      1      0      0      4      1      0      0
  GAB3 WILD-TYPE     39     25     29     29     39     65     19     14     22
D1754V6, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAB3 MUTATED        2      1      2      6
  GAB3 WILD-TYPE     98     71     70    115
D1754V7, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            2             70
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAB3 MUTATED        1      1      2      5      2
  GAB3 WILD-TYPE     58     74     72    114     36
D1754V8, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            2             72
  CLUS_4            5            114
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAB3 MUTATED        0      2      2      2      3
  GAB3 WILD-TYPE     51     74     59     69     92
D1754V9, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAB3 MUTATED        0      2      1      1      2      1      1      0      1
  GAB3 WILD-TYPE     69     46     38     15     51     19     20     38     49
D1754V10, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GAB3 MUTATED        1      1      0      0      1      0
  GAB3 WILD-TYPE     12     15     14     11     10      9
D1754V11, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GAB3 MUTATED        0      0      0      1      0      1      1      0      0
  GAB3 WILD-TYPE     11      7      7      8      8      6     10      9      5
D1754V12, multiclass
        clus
vv       GAB3 MUTATED GAB3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1755) Variable = SIGLEC14 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIGLEC14 MUTATED        2      0      0      0      0
  SIGLEC14 WILD-TYPE     30     18     46     27     23
D1755V1, multiclass
[1] "Remove cluster labels:" "SIGLEC14 MUTATED"      
clus
  SIGLEC14 MUTATED SIGLEC14 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3979 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3986 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SIGLEC14 MUTATED        1      0      1
  SIGLEC14 WILD-TYPE     42     67     35
D1755V2, multiclass
[1] "Remove cluster labels:" "SIGLEC14 MUTATED"      
clus
  SIGLEC14 MUTATED SIGLEC14 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3950         TCGA-AA-3952         TCGA-AA-3955 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3979 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3986 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-3989         TCGA-AA-3994         TCGA-AA-A004 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A00A         TCGA-AA-A00D         TCGA-AA-A00E 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" "SIGLEC14 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SIGLEC14 MUTATED        1      1      6
  SIGLEC14 WILD-TYPE     41    172    141
D1755V3, multiclass
        clus
vv       SIGLEC14 MUTATED SIGLEC14 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                1                172
  CLUS_3                6                141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SIGLEC14 MUTATED        3      1      2
  SIGLEC14 WILD-TYPE     59     72     73
D1755V4, multiclass
        clus
vv       SIGLEC14 MUTATED SIGLEC14 WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                1                 72
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SIGLEC14 MUTATED        0      2      4
  SIGLEC14 WILD-TYPE     70    118     96
D1755V5, multiclass
        clus
vv       SIGLEC14 MUTATED SIGLEC14 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                118
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SIGLEC14 MUTATED        0      1      0      1      0      4      0      0
  SIGLEC14 WILD-TYPE     41     25     30     28     39     65     20     14
                    vv
clus                 CLUS_9
  SIGLEC14 MUTATED        0
  SIGLEC14 WILD-TYPE     22
D1755V6, multiclass
        clus
vv       SIGLEC14 MUTATED SIGLEC14 WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                0                 39
  CLUS_6                4                 65
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SIGLEC14 MUTATED        1      2      2      3
  SIGLEC14 WILD-TYPE     99     70     70    118
D1755V7, multiclass
        clus
vv       SIGLEC14 MUTATED SIGLEC14 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                2                 70
  CLUS_3                2                 70
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIGLEC14 MUTATED        0      1      4      2      1
  SIGLEC14 WILD-TYPE     59     74     70    117     37
D1755V8, multiclass
        clus
vv       SIGLEC14 MUTATED SIGLEC14 WILD-TYPE
  CLUS_1                0                 59
  CLUS_2                1                 74
  CLUS_3                4                 70
  CLUS_4                2                117
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIGLEC14 MUTATED        1      4      0      2      1
  SIGLEC14 WILD-TYPE     50     72     61     69     94
D1755V9, multiclass
        clus
vv       SIGLEC14 MUTATED SIGLEC14 WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                4                 72
  CLUS_3                0                 61
  CLUS_4                2                 69
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SIGLEC14 MUTATED        0      2      1      2      2      0      0      1
  SIGLEC14 WILD-TYPE     69     46     38     14     51     20     21     37
                    vv
clus                 CLUS_9
  SIGLEC14 MUTATED        0
  SIGLEC14 WILD-TYPE     50
D1755V10, multiclass
        clus
vv       SIGLEC14 MUTATED SIGLEC14 WILD-TYPE
  CLUS_1                0                 69
  CLUS_2                2                 46
  CLUS_3                1                 38
  CLUS_4                2                 14
  CLUS_5                2                 51
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SIGLEC14 MUTATED        1      0      0      0      2      0
  SIGLEC14 WILD-TYPE     12     16     14     11      9      9
D1755V11, multiclass
        clus
vv       SIGLEC14 MUTATED SIGLEC14 WILD-TYPE
  CLUS_1                1                 12
  CLUS_2                0                 16
  CLUS_3                0                 14
  CLUS_4                0                 11
  CLUS_5                2                  9
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SIGLEC14 MUTATED        0      0      0      1      0      0      1      1
  SIGLEC14 WILD-TYPE     11      7      7      8      8      7     10      8
                    vv
clus                 CLUS_9
  SIGLEC14 MUTATED        0
  SIGLEC14 WILD-TYPE      5
D1755V12, multiclass
        clus
vv       SIGLEC14 MUTATED SIGLEC14 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  7
  CLUS_3                0                  7
  CLUS_4                1                  8
  CLUS_5                0                  8
  CLUS_6                0                  7
  CLUS_7                1                 10
  CLUS_8                1                  8
  CLUS_9                0                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1756) Variable = GBA2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GBA2 MUTATED        4      0      0      0      0
  GBA2 WILD-TYPE     28     18     46     27     23
D1756V1, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            4             28
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            0             27
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GBA2 MUTATED        4      0      0
  GBA2 WILD-TYPE     39     67     36
D1756V2, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            0             67
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GBA2 MUTATED        2      1     12
  GBA2 WILD-TYPE     40    172    135
D1756V3, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1            172
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GBA2 MUTATED        3      0      7
  GBA2 WILD-TYPE     59     73     68
D1756V4, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GBA2 MUTATED        2      5      5
  GBA2 WILD-TYPE     68    115     95
D1756V5, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GBA2 MUTATED        1      0      0      2      2      5      1      1      0
  GBA2 WILD-TYPE     40     26     30     27     37     64     19     13     22
D1756V6, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            2             37
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GBA2 MUTATED        1      7      2      4
  GBA2 WILD-TYPE     99     65     70    117
D1756V7, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            7             65
  CLUS_3            2             70
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GBA2 MUTATED        1      1      8      0      4
  GBA2 WILD-TYPE     58     74     66    119     34
D1756V8, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            8             66
  CLUS_4            0            119
  CLUS_5            4             34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GBA2 MUTATED        0      9      2      1      3
  GBA2 WILD-TYPE     51     67     59     70     92
D1756V9, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            9             67
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GBA2 MUTATED        2      2      2      2      2      1      1      3      0
  GBA2 WILD-TYPE     67     46     37     14     51     19     20     35     50
D1756V10, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            2             37
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            3             35
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GBA2 MUTATED        1      0      0      1      1      0
  GBA2 WILD-TYPE     12     16     14     10     10      9
D1756V11, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  GBA2 MUTATED        0      0      0      1      0      0      2      0      0
  GBA2 WILD-TYPE     11      7      7      8      8      7      9      9      5
D1756V12, multiclass
        clus
vv       GBA2 MUTATED GBA2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1757) Variable = RTTN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RTTN MUTATED        2      0      0      1      0
  RTTN WILD-TYPE     30     18     46     26     23
D1757V1, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTTN MUTATED        2      1      0
  RTTN WILD-TYPE     41     66     36
D1757V2, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTTN MUTATED        0      1     16
  RTTN WILD-TYPE     42    172    131
D1757V3, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3           16            131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTTN MUTATED        6      0      7
  RTTN WILD-TYPE     56     73     68
D1757V4, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            6             56
  CLUS_2            0             73
  CLUS_3            7             68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RTTN MUTATED        3      6      6
  RTTN WILD-TYPE     67    114     94
D1757V5, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            3             67
  CLUS_2            6            114
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RTTN MUTATED        2      3      1      2      1      5      1      0      0
  RTTN WILD-TYPE     39     23     29     27     38     64     19     14     22
D1757V6, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            2             39
  CLUS_2            3             23
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RTTN MUTATED        1      6      6      4
  RTTN WILD-TYPE     99     66     66    117
D1757V7, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            1             99
  CLUS_2            6             66
  CLUS_3            6             66
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RTTN MUTATED        2      2      9      3      1
  RTTN WILD-TYPE     57     73     65    116     37
D1757V8, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2             73
  CLUS_3            9             65
  CLUS_4            3            116
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RTTN MUTATED        1      6      2      1      7
  RTTN WILD-TYPE     50     70     59     70     88
D1757V9, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            1             50
  CLUS_2            6             70
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RTTN MUTATED        3      4      1      0      2      1      3      1      2
  RTTN WILD-TYPE     66     44     38     16     51     19     18     37     48
D1757V10, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            3             66
  CLUS_2            4             44
  CLUS_3            1             38
  CLUS_4            0             16
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            3             18
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RTTN MUTATED        0      0      1      0      2      0
  RTTN WILD-TYPE     13     16     13     11      9      9
D1757V11, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RTTN MUTATED        0      0      0      0      1      0      2      0      0
  RTTN WILD-TYPE     11      7      7      9      7      7      9      9      5
D1757V12, multiclass
        clus
vv       RTTN MUTATED RTTN WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1758) Variable = SFRS12IP1 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS12IP1 MUTATED        0      0      0      0      0
  SFRS12IP1 WILD-TYPE     32     18     46     27     23
D1758V1, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SFRS12IP1 MUTATED        0      0      0
  SFRS12IP1 WILD-TYPE     43     67     36
D1758V2, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SFRS12IP1 MUTATED        0      0      3
  SFRS12IP1 WILD-TYPE     42    173    144
D1758V3, multiclass
        clus
vv       SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE
  CLUS_1                 0                  42
  CLUS_2                 0                 173
  CLUS_3                 3                 144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SFRS12IP1 MUTATED        2      1      0
  SFRS12IP1 WILD-TYPE     60     72     75
D1758V4, multiclass
        clus
vv       SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE
  CLUS_1                 2                  60
  CLUS_2                 1                  72
  CLUS_3                 0                  75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SFRS12IP1 MUTATED        0      1      1
  SFRS12IP1 WILD-TYPE     70    119     99
D1758V5, multiclass
[1] "Remove cluster labels:" "SFRS12IP1 MUTATED"     
clus
  SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE 
                  2                 288 
         TCGA-A6-2671          TCGA-A6-2672          TCGA-A6-2676 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-3810          TCGA-A6-5656          TCGA-A6-5657 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-5659          TCGA-A6-5660          TCGA-A6-5661 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-5662          TCGA-A6-5664          TCGA-A6-5665 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-5666          TCGA-A6-6137          TCGA-A6-6138 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6648 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6649          TCGA-A6-6651          TCGA-A6-6652 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6653          TCGA-A6-6654          TCGA-A6-6780 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3492          TCGA-AA-3496          TCGA-AA-3502 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3510          TCGA-AA-3511          TCGA-AA-3514 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3519          TCGA-AA-3520 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3521          TCGA-AA-3522          TCGA-AA-3525 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3529          TCGA-AA-3530          TCGA-AA-3531 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3532          TCGA-AA-3534          TCGA-AA-3548 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3558          TCGA-AA-3560 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3561          TCGA-AA-3562          TCGA-AA-3655 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3672          TCGA-AA-3678 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3681          TCGA-AA-3688          TCGA-AA-3695 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3696          TCGA-AA-3697          TCGA-AA-3710 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3712          TCGA-AA-3713          TCGA-AA-3715 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3811          TCGA-AA-3812          TCGA-AA-3814 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3815          TCGA-AA-3818          TCGA-AA-3819 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3844          TCGA-AA-3845          TCGA-AA-3848 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3850          TCGA-AA-3852          TCGA-AA-3854 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3856          TCGA-AA-3861          TCGA-AA-3864 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3869          TCGA-AA-3872 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3930          TCGA-AA-3947          TCGA-AA-3950 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3955          TCGA-AA-3968          TCGA-AA-3971 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3972          TCGA-AA-3973          TCGA-AA-3975 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3982          TCGA-AA-3986          TCGA-AA-3989 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00E 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A00F          TCGA-AA-A00J          TCGA-AA-A00K 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A00L          TCGA-AA-A00N          TCGA-AA-A00Q 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A00R          TCGA-AA-A00U          TCGA-AA-A00W 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A00Z          TCGA-AA-A010          TCGA-AA-A017 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A01D          TCGA-AA-A01F          TCGA-AA-A01I 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A01K          TCGA-AA-A01P          TCGA-AA-A01Q 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A01R          TCGA-AA-A01S          TCGA-AA-A01T 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A01V          TCGA-AA-A01X          TCGA-AA-A022 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A024          TCGA-AA-A029          TCGA-AA-A02F 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A02H          TCGA-AA-A02J          TCGA-AA-A02K 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A02O          TCGA-AA-A02W          TCGA-AA-A02Y 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A03F          TCGA-AA-A03J          TCGA-AD-5900 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AD-6548          TCGA-AD-6889          TCGA-AD-6899 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AD-6965          TCGA-AU-6004          TCGA-AY-5543 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AY-6196          TCGA-AY-6197          TCGA-AY-6386 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-4315          TCGA-AZ-4323          TCGA-AZ-4616 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-4682          TCGA-AZ-5407          TCGA-AZ-6598 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-6599          TCGA-AZ-6600          TCGA-AZ-6601 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-6603          TCGA-AZ-6605          TCGA-AZ-6606 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-6607          TCGA-AZ-6608          TCGA-CA-5254 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CA-5255          TCGA-CA-5796          TCGA-CA-5797 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CA-6715          TCGA-CA-6716          TCGA-CA-6717 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CA-6718          TCGA-CA-6719          TCGA-CK-5914 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CK-5916          TCGA-CK-6746          TCGA-CK-6747 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CK-6748          TCGA-CK-6751          TCGA-CM-4743 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-4744          TCGA-CM-4746          TCGA-CM-4747 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-4752          TCGA-CM-5341          TCGA-CM-5344 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-5348          TCGA-CM-5349          TCGA-CM-5860 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-5861          TCGA-CM-5862          TCGA-CM-5863 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-5864          TCGA-CM-5868          TCGA-CM-6161 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6162          TCGA-CM-6163          TCGA-CM-6164 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6165          TCGA-CM-6166          TCGA-CM-6167 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6168          TCGA-CM-6169          TCGA-CM-6170 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6171          TCGA-CM-6172          TCGA-CM-6674 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6675          TCGA-CM-6676          TCGA-CM-6677 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6678          TCGA-CM-6679          TCGA-CM-6680 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-5538          TCGA-D5-5539          TCGA-D5-5540 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-5541          TCGA-D5-6529          TCGA-D5-6532 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6533          TCGA-D5-6534          TCGA-D5-6535 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6536          TCGA-D5-6537          TCGA-D5-6538 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6539          TCGA-D5-6540          TCGA-D5-6541 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6898          TCGA-D5-6920          TCGA-D5-6922 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6923          TCGA-D5-6924          TCGA-D5-6926 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6927          TCGA-D5-6928          TCGA-D5-6930 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6931          TCGA-D5-6932          TCGA-DM-A0X9 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A0XF          TCGA-DM-A1D0          TCGA-DM-A1D4 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A1D6          TCGA-DM-A1D7          TCGA-DM-A1D8 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A1D9          TCGA-DM-A1DA          TCGA-DM-A1DB 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A1HA          TCGA-DM-A1HB          TCGA-DM-A282 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A28C          TCGA-DM-A28E          TCGA-DM-A28F 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A28G          TCGA-F4-6459          TCGA-F4-6460 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6569          TCGA-F4-6570          TCGA-F4-6703 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6704          TCGA-F4-6805          TCGA-F4-6806 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6807          TCGA-F4-6808          TCGA-F4-6809 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6854          TCGA-F4-6855          TCGA-F4-6856 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6293          TCGA-G4-6299          TCGA-G4-6303 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6304          TCGA-G4-6306          TCGA-G4-6307 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6310          TCGA-G4-6315          TCGA-G4-6317 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6321          TCGA-G4-6323          TCGA-G4-6586 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6588          TCGA-G4-6625          TCGA-G4-6626 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS12IP1 MUTATED        0      0      0      0      0      1      0      1
  SFRS12IP1 WILD-TYPE     41     26     30     29     39     68     20     13
                     vv
clus                  CLUS_9
  SFRS12IP1 MUTATED        0
  SFRS12IP1 WILD-TYPE     22
D1758V6, multiclass
[1] "Remove cluster labels:" "SFRS12IP1 MUTATED"     
clus
  SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE 
                  2                 288 
         TCGA-A6-2671          TCGA-A6-2672          TCGA-A6-2676 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-2677          TCGA-A6-2678          TCGA-A6-2683 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-3807          TCGA-A6-3808          TCGA-A6-3809 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-3810          TCGA-A6-5656          TCGA-A6-5657 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-5659          TCGA-A6-5660          TCGA-A6-5661 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-5662          TCGA-A6-5664          TCGA-A6-5665 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-5666          TCGA-A6-6137          TCGA-A6-6138 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6648 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6649          TCGA-A6-6651          TCGA-A6-6652 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6653          TCGA-A6-6654          TCGA-A6-6780 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3492          TCGA-AA-3496          TCGA-AA-3502 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3510          TCGA-AA-3511          TCGA-AA-3514 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3517          TCGA-AA-3519          TCGA-AA-3520 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3521          TCGA-AA-3522          TCGA-AA-3525 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3529          TCGA-AA-3530          TCGA-AA-3531 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3532          TCGA-AA-3534          TCGA-AA-3548 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3552          TCGA-AA-3553          TCGA-AA-3554 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3555          TCGA-AA-3558          TCGA-AA-3560 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3561          TCGA-AA-3562          TCGA-AA-3655 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3664          TCGA-AA-3672          TCGA-AA-3678 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3681          TCGA-AA-3688          TCGA-AA-3695 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3696          TCGA-AA-3697          TCGA-AA-3710 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3712          TCGA-AA-3713          TCGA-AA-3715 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3811          TCGA-AA-3812          TCGA-AA-3814 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3815          TCGA-AA-3818          TCGA-AA-3819 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3831          TCGA-AA-3833          TCGA-AA-3837 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3844          TCGA-AA-3845          TCGA-AA-3848 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3850          TCGA-AA-3852          TCGA-AA-3854 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3856          TCGA-AA-3861          TCGA-AA-3864 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3866          TCGA-AA-3869          TCGA-AA-3872 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3930          TCGA-AA-3947          TCGA-AA-3950 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3955          TCGA-AA-3968          TCGA-AA-3971 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3972          TCGA-AA-3973          TCGA-AA-3975 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3982          TCGA-AA-3986          TCGA-AA-3989 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A004          TCGA-AA-A00A          TCGA-AA-A00E 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A00F          TCGA-AA-A00J          TCGA-AA-A00K 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A00L          TCGA-AA-A00N          TCGA-AA-A00Q 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A00R          TCGA-AA-A00U          TCGA-AA-A00W 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A00Z          TCGA-AA-A010          TCGA-AA-A017 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A01D          TCGA-AA-A01F          TCGA-AA-A01I 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A01K          TCGA-AA-A01P          TCGA-AA-A01Q 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A01R          TCGA-AA-A01S          TCGA-AA-A01T 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A01V          TCGA-AA-A01X          TCGA-AA-A022 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A024          TCGA-AA-A029          TCGA-AA-A02F 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A02H          TCGA-AA-A02J          TCGA-AA-A02K 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A02O          TCGA-AA-A02W          TCGA-AA-A02Y 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-A03F          TCGA-AA-A03J          TCGA-AD-5900 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AD-6548          TCGA-AD-6889          TCGA-AD-6899 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AD-6965          TCGA-AU-6004          TCGA-AY-5543 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AY-6196          TCGA-AY-6197          TCGA-AY-6386 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-4315          TCGA-AZ-4323          TCGA-AZ-4616 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-4682          TCGA-AZ-5407          TCGA-AZ-6598 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-6599          TCGA-AZ-6600          TCGA-AZ-6601 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-6603          TCGA-AZ-6605          TCGA-AZ-6606 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-6607          TCGA-AZ-6608          TCGA-CA-5254 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CA-5255          TCGA-CA-5796          TCGA-CA-5797 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CA-6715          TCGA-CA-6716          TCGA-CA-6717 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CA-6718          TCGA-CA-6719          TCGA-CK-5914 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CK-5916          TCGA-CK-6746          TCGA-CK-6747 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CK-6748          TCGA-CK-6751          TCGA-CM-4743 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-4744          TCGA-CM-4746          TCGA-CM-4747 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-4752          TCGA-CM-5341          TCGA-CM-5344 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-5348          TCGA-CM-5349          TCGA-CM-5860 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-5861          TCGA-CM-5862          TCGA-CM-5863 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-5864          TCGA-CM-5868          TCGA-CM-6161 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6162          TCGA-CM-6163          TCGA-CM-6164 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6165          TCGA-CM-6166          TCGA-CM-6167 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6168          TCGA-CM-6169          TCGA-CM-6170 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6171          TCGA-CM-6172          TCGA-CM-6674 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6675          TCGA-CM-6676          TCGA-CM-6677 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6678          TCGA-CM-6679          TCGA-CM-6680 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-5538          TCGA-D5-5539          TCGA-D5-5540 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-5541          TCGA-D5-6529          TCGA-D5-6532 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6533          TCGA-D5-6534          TCGA-D5-6535 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6536          TCGA-D5-6537          TCGA-D5-6538 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6539          TCGA-D5-6540          TCGA-D5-6541 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6898          TCGA-D5-6920          TCGA-D5-6922 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6923          TCGA-D5-6924          TCGA-D5-6926 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6927          TCGA-D5-6928          TCGA-D5-6930 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6931          TCGA-D5-6932          TCGA-DM-A0X9 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A0XF          TCGA-DM-A1D0          TCGA-DM-A1D4 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A1D6          TCGA-DM-A1D7          TCGA-DM-A1D8 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A1D9          TCGA-DM-A1DA          TCGA-DM-A1DB 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A1HA          TCGA-DM-A1HB          TCGA-DM-A282 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A28C          TCGA-DM-A28E          TCGA-DM-A28F 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A28G          TCGA-F4-6459          TCGA-F4-6460 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6569          TCGA-F4-6570          TCGA-F4-6703 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6704          TCGA-F4-6805          TCGA-F4-6806 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6807          TCGA-F4-6808          TCGA-F4-6809 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6854          TCGA-F4-6855          TCGA-F4-6856 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6293          TCGA-G4-6299          TCGA-G4-6303 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6304          TCGA-G4-6306          TCGA-G4-6307 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6310          TCGA-G4-6315          TCGA-G4-6317 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6321          TCGA-G4-6323          TCGA-G4-6586 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6588          TCGA-G4-6625          TCGA-G4-6626 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SFRS12IP1 MUTATED        1      1      1      0
  SFRS12IP1 WILD-TYPE     99     71     71    121
D1758V7, multiclass
        clus
vv       SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE
  CLUS_1                 1                  99
  CLUS_2                 1                  71
  CLUS_3                 1                  71
  CLUS_4                 0                 121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS12IP1 MUTATED        0      1      2      0      0
  SFRS12IP1 WILD-TYPE     59     74     72    119     38
D1758V8, multiclass
        clus
vv       SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE
  CLUS_1                 0                  59
  CLUS_2                 1                  74
  CLUS_3                 2                  72
  CLUS_4                 0                 119
  CLUS_5                 0                  38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS12IP1 MUTATED        1      2      0      0      0
  SFRS12IP1 WILD-TYPE     50     74     61     71     95
D1758V9, multiclass
        clus
vv       SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE
  CLUS_1                 1                  50
  CLUS_2                 2                  74
  CLUS_3                 0                  61
  CLUS_4                 0                  71
  CLUS_5                 0                  95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS12IP1 MUTATED        2      0      0      1      0      0      0      0
  SFRS12IP1 WILD-TYPE     67     48     39     15     53     20     21     38
                     vv
clus                  CLUS_9
  SFRS12IP1 MUTATED        0
  SFRS12IP1 WILD-TYPE     50
D1758V10, multiclass
        clus
vv       SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE
  CLUS_1                 2                  67
  CLUS_2                 0                  48
  CLUS_3                 0                  39
  CLUS_4                 1                  15
  CLUS_5                 0                  53
  CLUS_6                 0                  20
  CLUS_7                 0                  21
  CLUS_8                 0                  38
  CLUS_9                 0                  50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SFRS12IP1 MUTATED        0      0      1      0      1      0
  SFRS12IP1 WILD-TYPE     13     16     13     11     10      9
D1758V11, multiclass
[1] "Remove cluster labels:" "SFRS12IP1 MUTATED"     
clus
  SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE 
                  2                  72 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6963 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AD-6964          TCGA-AD-6965          TCGA-AY-6196 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-5403 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-6598          TCGA-AZ-6600          TCGA-AZ-6601 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-6603          TCGA-AZ-6605          TCGA-AZ-6607 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CA-6718          TCGA-CA-6719          TCGA-CK-5916 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CK-6748          TCGA-CM-5860          TCGA-CM-6167 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6674          TCGA-CM-6676          TCGA-CM-6677 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6678          TCGA-CM-6679          TCGA-CM-6680 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-5537          TCGA-D5-6533          TCGA-D5-6534 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6536          TCGA-D5-6922          TCGA-D5-6924 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A0XD          TCGA-DM-A0XF          TCGA-DM-A1D0 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A1D7          TCGA-DM-A1D8          TCGA-DM-A1D9 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A1DA          TCGA-DM-A1HA          TCGA-DM-A282 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A285          TCGA-DM-A28F          TCGA-F4-6459 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6460          TCGA-F4-6569          TCGA-F4-6570 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6704          TCGA-F4-6805          TCGA-F4-6807 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6808          TCGA-F4-6809          TCGA-G4-6299 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6303          TCGA-G4-6306          TCGA-G4-6625 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS12IP1 MUTATED        0      0      0      1      0      0      1      0
  SFRS12IP1 WILD-TYPE     11      7      7      8      8      7     10      9
                     vv
clus                  CLUS_9
  SFRS12IP1 MUTATED        0
  SFRS12IP1 WILD-TYPE      5
D1758V12, multiclass
[1] "Remove cluster labels:" "SFRS12IP1 MUTATED"     
clus
  SFRS12IP1 MUTATED SFRS12IP1 WILD-TYPE 
                  2                  72 
         TCGA-A6-5657          TCGA-A6-6137          TCGA-A6-6138 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6141          TCGA-A6-6142          TCGA-A6-6649 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6651          TCGA-A6-6653          TCGA-A6-6654 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-A6-6781          TCGA-A6-6782          TCGA-AA-3489 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AA-3511          TCGA-AD-5900          TCGA-AD-6548 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AD-6889          TCGA-AD-6901          TCGA-AD-6963 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AD-6964          TCGA-AD-6965          TCGA-AY-6196 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-4323          TCGA-AZ-4616          TCGA-AZ-5403 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-6598          TCGA-AZ-6600          TCGA-AZ-6601 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-AZ-6603          TCGA-AZ-6605          TCGA-AZ-6607 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CA-6718          TCGA-CA-6719          TCGA-CK-5916 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CK-6748          TCGA-CM-5860          TCGA-CM-6167 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6674          TCGA-CM-6676          TCGA-CM-6677 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-CM-6678          TCGA-CM-6679          TCGA-CM-6680 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-5537          TCGA-D5-6533          TCGA-D5-6534 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-D5-6536          TCGA-D5-6922          TCGA-D5-6924 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A0XD          TCGA-DM-A0XF          TCGA-DM-A1D0 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A1D7          TCGA-DM-A1D8          TCGA-DM-A1D9 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A1DA          TCGA-DM-A1HA          TCGA-DM-A282 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-DM-A285          TCGA-DM-A28F          TCGA-F4-6459 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6460          TCGA-F4-6569          TCGA-F4-6570 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6704          TCGA-F4-6805          TCGA-F4-6807 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-F4-6808          TCGA-F4-6809          TCGA-G4-6299 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 
         TCGA-G4-6303          TCGA-G4-6306          TCGA-G4-6625 
"SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" "SFRS12IP1 WILD-TYPE" 

Clustering(1759) Variable = TOMM70A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOMM70A MUTATED        2      0      0      1      0
  TOMM70A WILD-TYPE     30     18     46     26     23
D1759V1, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TOMM70A MUTATED        2      1      0
  TOMM70A WILD-TYPE     41     66     36
D1759V2, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TOMM70A MUTATED        0      1      8
  TOMM70A WILD-TYPE     42    172    139
D1759V3, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TOMM70A MUTATED        4      0      2
  TOMM70A WILD-TYPE     58     73     73
D1759V4, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               4                58
  CLUS_2               0                73
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TOMM70A MUTATED        1      3      6
  TOMM70A WILD-TYPE     69    117     94
D1759V5, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TOMM70A MUTATED        1      0      2      1      0      3      3      0
  TOMM70A WILD-TYPE     40     26     28     28     39     66     17     14
                   vv
clus                CLUS_9
  TOMM70A MUTATED        0
  TOMM70A WILD-TYPE     22
D1759V6, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               3                17
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TOMM70A MUTATED        0      3      3      4
  TOMM70A WILD-TYPE    100     69     69    117
D1759V7, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               3                69
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOMM70A MUTATED        1      1      4      1      3
  TOMM70A WILD-TYPE     58     74     70    118     35
D1759V8, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               1                58
  CLUS_2               1                74
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TOMM70A MUTATED        1      2      0      2      5
  TOMM70A WILD-TYPE     50     74     61     69     90
D1759V9, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               2                69
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TOMM70A MUTATED        2      0      0      0      2      2      0      3
  TOMM70A WILD-TYPE     67     48     39     16     51     18     21     35
                   vv
clus                CLUS_9
  TOMM70A MUTATED        1
  TOMM70A WILD-TYPE     49
D1759V10, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               2                67
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               2                18
  CLUS_7               0                21
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TOMM70A MUTATED        0      0      3      0      0      0
  TOMM70A WILD-TYPE     13     16     11     11     11      9
D1759V11, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               3                11
  CLUS_4               0                11
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TOMM70A MUTATED        0      0      0      0      2      0      1      0
  TOMM70A WILD-TYPE     11      7      7      9      6      7     10      9
                   vv
clus                CLUS_9
  TOMM70A MUTATED        0
  TOMM70A WILD-TYPE      5
D1759V12, multiclass
        clus
vv       TOMM70A MUTATED TOMM70A WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               2                 6
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1760) Variable = RRP9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRP9 MUTATED        2      0      1      1      0
  RRP9 WILD-TYPE     30     18     45     26     23
D1760V1, multiclass
        clus
vv       RRP9 MUTATED RRP9 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRP9 MUTATED        3      1      0
  RRP9 WILD-TYPE     40     66     36
D1760V2, multiclass
        clus
vv       RRP9 MUTATED RRP9 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRP9 MUTATED        0      4      8
  RRP9 WILD-TYPE     42    169    139
D1760V3, multiclass
        clus
vv       RRP9 MUTATED RRP9 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            4            169
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRP9 MUTATED        3      0      4
  RRP9 WILD-TYPE     59     73     71
D1760V4, multiclass
        clus
vv       RRP9 MUTATED RRP9 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRP9 MUTATED        0      3      6
  RRP9 WILD-TYPE     70    117     94
D1760V5, multiclass
        clus
vv       RRP9 MUTATED RRP9 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            117
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RRP9 MUTATED        0      0      1      1      1      5      0      0      1
  RRP9 WILD-TYPE     41     26     29     28     38     64     20     14     21
D1760V6, multiclass
        clus
vv       RRP9 MUTATED RRP9 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RRP9 MUTATED        3      2      2      5
  RRP9 WILD-TYPE     97     70     70    116
D1760V7, multiclass
        clus
vv       RRP9 MUTATED RRP9 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            2             70
  CLUS_3            2             70
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRP9 MUTATED        1      2      4      2      3
  RRP9 WILD-TYPE     58     73     70    117     35
D1760V8, multiclass
        clus
vv       RRP9 MUTATED RRP9 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            2            117
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRP9 MUTATED        1      4      2      2      3
  RRP9 WILD-TYPE     50     72     59     69     92
D1760V9, multiclass
        clus
vv       RRP9 MUTATED RRP9 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RRP9 MUTATED        1      2      2      2      0      0      2      2      1
  RRP9 WILD-TYPE     68     46     37     14     53     20     19     36     49
D1760V10, multiclass
        clus
vv       RRP9 MUTATED RRP9 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            2             37
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            2             19
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RRP9 MUTATED        0      0      0      0      1      1
  RRP9 WILD-TYPE     13     16     14     11     10      8
D1760V11, multiclass
[1] "Remove cluster labels:" "RRP9 MUTATED"          
clus
  RRP9 MUTATED RRP9 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RRP9 MUTATED        0      0      0      0      0      0      1      1      0
  RRP9 WILD-TYPE     11      7      7      9      8      7     10      8      5
D1760V12, multiclass
[1] "Remove cluster labels:" "RRP9 MUTATED"          
clus
  RRP9 MUTATED RRP9 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" "RRP9 WILD-TYPE" 

Clustering(1761) Variable = FSTL4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FSTL4 MUTATED        1      0      0      0      1
  FSTL4 WILD-TYPE     31     18     46     27     22
D1761V1, multiclass
[1] "Remove cluster labels:" "FSTL4 MUTATED"         
clus
  FSTL4 MUTATED FSTL4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3989 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FSTL4 MUTATED        1      0      1
  FSTL4 WILD-TYPE     42     67     35
D1761V2, multiclass
[1] "Remove cluster labels:" "FSTL4 MUTATED"         
clus
  FSTL4 MUTATED FSTL4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3989 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" "FSTL4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FSTL4 MUTATED        0      2     13
  FSTL4 WILD-TYPE     42    171    134
D1761V3, multiclass
        clus
vv       FSTL4 MUTATED FSTL4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FSTL4 MUTATED        6      0      7
  FSTL4 WILD-TYPE     56     73     68
D1761V4, multiclass
        clus
vv       FSTL4 MUTATED FSTL4 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             0              73
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FSTL4 MUTATED        0      4      9
  FSTL4 WILD-TYPE     70    116     91
D1761V5, multiclass
        clus
vv       FSTL4 MUTATED FSTL4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FSTL4 MUTATED        1      1      0      2      0      7      2      0
  FSTL4 WILD-TYPE     40     25     30     27     39     62     18     14
                 vv
clus              CLUS_9
  FSTL4 MUTATED        0
  FSTL4 WILD-TYPE     22
D1761V6, multiclass
        clus
vv       FSTL4 MUTATED FSTL4 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             7              62
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FSTL4 MUTATED        0      6      6      3
  FSTL4 WILD-TYPE    100     66     66    118
D1761V7, multiclass
        clus
vv       FSTL4 MUTATED FSTL4 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             6              66
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FSTL4 MUTATED        2      1      9      3      0
  FSTL4 WILD-TYPE     57     74     65    116     38
D1761V8, multiclass
        clus
vv       FSTL4 MUTATED FSTL4 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             9              65
  CLUS_4             3             116
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FSTL4 MUTATED        1     10      1      0      3
  FSTL4 WILD-TYPE     50     66     60     71     92
D1761V9, multiclass
        clus
vv       FSTL4 MUTATED FSTL4 WILD-TYPE
  CLUS_1             1              50
  CLUS_2            10              66
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FSTL4 MUTATED        3      4      1      3      2      0      1      0
  FSTL4 WILD-TYPE     66     44     38     13     51     20     20     38
                 vv
clus              CLUS_9
  FSTL4 MUTATED        1
  FSTL4 WILD-TYPE     49
D1761V10, multiclass
        clus
vv       FSTL4 MUTATED FSTL4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             4              44
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FSTL4 MUTATED        0      0      1      1      1      1
  FSTL4 WILD-TYPE     13     16     13     10     10      8
D1761V11, multiclass
        clus
vv       FSTL4 MUTATED FSTL4 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FSTL4 MUTATED        1      0      0      0      1      0      2      0
  FSTL4 WILD-TYPE     10      7      7      9      7      7      9      9
                 vv
clus              CLUS_9
  FSTL4 MUTATED        0
  FSTL4 WILD-TYPE      5
D1761V12, multiclass
        clus
vv       FSTL4 MUTATED FSTL4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1762) Variable = HIST4H4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST4H4 MUTATED        0      0      0      0      0
  HIST4H4 WILD-TYPE     32     18     46     27     23
D1762V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HIST4H4 MUTATED        0      0      0
  HIST4H4 WILD-TYPE     43     67     36
D1762V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HIST4H4 MUTATED        0      1      2
  HIST4H4 WILD-TYPE     42    172    145
D1762V3, multiclass
        clus
vv       HIST4H4 MUTATED HIST4H4 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HIST4H4 MUTATED        0      1      2
  HIST4H4 WILD-TYPE     62     72     73
D1762V4, multiclass
        clus
vv       HIST4H4 MUTATED HIST4H4 WILD-TYPE
  CLUS_1               0                62
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HIST4H4 MUTATED        1      1      0
  HIST4H4 WILD-TYPE     69    119    100
D1762V5, multiclass
[1] "Remove cluster labels:" "HIST4H4 MUTATED"       
clus
  HIST4H4 MUTATED HIST4H4 WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3525        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3560        TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3712        TCGA-AA-3715        TCGA-AA-3811 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848        TCGA-AA-3850 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3861 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3955 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E        TCGA-AA-A00F 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965        TCGA-AU-6004 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386        TCGA-AZ-4315 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4682        TCGA-AZ-5407 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600        TCGA-AZ-6601 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606        TCGA-AZ-6607 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255        TCGA-CA-5796 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716        TCGA-CA-6717 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5914        TCGA-CK-5916 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748        TCGA-CK-6751 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746        TCGA-CM-4747 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344        TCGA-CM-5348 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5538        TCGA-D5-5539 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529        TCGA-D5-6532 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535        TCGA-D5-6536 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539        TCGA-D5-6540 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920        TCGA-D5-6922 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926        TCGA-D5-6927 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D4 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA        TCGA-DM-A1HB 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST4H4 MUTATED        0      0      1      0      1      0      0      0
  HIST4H4 WILD-TYPE     41     26     29     29     38     69     20     14
                   vv
clus                CLUS_9
  HIST4H4 MUTATED        0
  HIST4H4 WILD-TYPE     22
D1762V6, multiclass
[1] "Remove cluster labels:" "HIST4H4 MUTATED"       
clus
  HIST4H4 MUTATED HIST4H4 WILD-TYPE 
                2               288 
       TCGA-A6-2671        TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-A6-5656        TCGA-A6-5657 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-6137 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3496        TCGA-AA-3502 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3525        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3560        TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3712        TCGA-AA-3715        TCGA-AA-3811 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848        TCGA-AA-3850 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3861 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3955 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00E        TCGA-AA-A00F 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H        TCGA-AA-A02J 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A02K        TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900        TCGA-AD-6548 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965        TCGA-AU-6004 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386        TCGA-AZ-4315 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-4682        TCGA-AZ-5407 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600        TCGA-AZ-6601 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606        TCGA-AZ-6607 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255        TCGA-CA-5796 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CA-5797        TCGA-CA-6715        TCGA-CA-6716        TCGA-CA-6717 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5914        TCGA-CK-5916 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748        TCGA-CK-6751 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746        TCGA-CM-4747 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344        TCGA-CM-5348 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5538        TCGA-D5-5539 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529        TCGA-D5-6532 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535        TCGA-D5-6536 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539        TCGA-D5-6540 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920        TCGA-D5-6922 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926        TCGA-D5-6927 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D4 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA        TCGA-DM-A1HB 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-DM-A28G        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-F4-6806        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-F4-6854        TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-G4-6299        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6315 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-G4-6317        TCGA-G4-6321        TCGA-G4-6323        TCGA-G4-6586 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6628 
"HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" "HIST4H4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST4H4 MUTATED        0      3      0      0
  HIST4H4 WILD-TYPE    100     69     72    121
D1762V7, multiclass
        clus
vv       HIST4H4 MUTATED HIST4H4 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               0                72
  CLUS_4               0               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST4H4 MUTATED        0      1      2      0      0
  HIST4H4 WILD-TYPE     59     74     72    119     38
D1762V8, multiclass
        clus
vv       HIST4H4 MUTATED HIST4H4 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               0               119
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST4H4 MUTATED        1      2      0      0      0
  HIST4H4 WILD-TYPE     50     74     61     71     95
D1762V9, multiclass
        clus
vv       HIST4H4 MUTATED HIST4H4 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               0                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST4H4 MUTATED        2      0      0      0      0      1      0      0
  HIST4H4 WILD-TYPE     67     48     39     16     53     19     21     38
                   vv
clus                CLUS_9
  HIST4H4 MUTATED        0
  HIST4H4 WILD-TYPE     50
D1762V10, multiclass
        clus
vv       HIST4H4 MUTATED HIST4H4 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIST4H4 MUTATED        0      0      0      0      0      0
  HIST4H4 WILD-TYPE     13     16     14     11     11      9
D1762V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST4H4 MUTATED        0      0      0      0      0      0      0      0
  HIST4H4 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  HIST4H4 MUTATED        0
  HIST4H4 WILD-TYPE      5
D1762V12, multiclass

Clustering(1763) Variable = C1ORF88 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF88 MUTATED        1      0      0      1      0
  C1ORF88 WILD-TYPE     31     18     46     26     23
D1763V1, multiclass
[1] "Remove cluster labels:" "C1ORF88 MUTATED"       
clus
  C1ORF88 MUTATED C1ORF88 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF88 MUTATED        1      1      0
  C1ORF88 WILD-TYPE     42     66     36
D1763V2, multiclass
[1] "Remove cluster labels:" "C1ORF88 MUTATED"       
clus
  C1ORF88 MUTATED C1ORF88 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" "C1ORF88 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF88 MUTATED        0      1      5
  C1ORF88 WILD-TYPE     42    172    142
D1763V3, multiclass
        clus
vv       C1ORF88 MUTATED C1ORF88 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF88 MUTATED        1      1      2
  C1ORF88 WILD-TYPE     61     72     73
D1763V4, multiclass
        clus
vv       C1ORF88 MUTATED C1ORF88 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C1ORF88 MUTATED        1      3      1
  C1ORF88 WILD-TYPE     69    117     99
D1763V5, multiclass
        clus
vv       C1ORF88 MUTATED C1ORF88 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF88 MUTATED        2      1      1      0      1      0      0      0
  C1ORF88 WILD-TYPE     39     25     29     29     38     69     20     14
                   vv
clus                CLUS_9
  C1ORF88 MUTATED        0
  C1ORF88 WILD-TYPE     22
D1763V6, multiclass
        clus
vv       C1ORF88 MUTATED C1ORF88 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               0                69
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF88 MUTATED        2      1      1      2
  C1ORF88 WILD-TYPE     98     71     71    119
D1763V7, multiclass
        clus
vv       C1ORF88 MUTATED C1ORF88 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               1                71
  CLUS_3               1                71
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF88 MUTATED        1      2      1      1      1
  C1ORF88 WILD-TYPE     58     73     73    118     37
D1763V8, multiclass
        clus
vv       C1ORF88 MUTATED C1ORF88 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               1                73
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF88 MUTATED        1      2      1      0      2
  C1ORF88 WILD-TYPE     50     74     60     71     93
D1763V9, multiclass
        clus
vv       C1ORF88 MUTATED C1ORF88 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF88 MUTATED        1      1      1      1      0      1      0      1
  C1ORF88 WILD-TYPE     68     47     38     15     53     19     21     37
                   vv
clus                CLUS_9
  C1ORF88 MUTATED        0
  C1ORF88 WILD-TYPE     50
D1763V10, multiclass
        clus
vv       C1ORF88 MUTATED C1ORF88 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               1                47
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C1ORF88 MUTATED        0      0      0      0      0      0
  C1ORF88 WILD-TYPE     13     16     14     11     11      9
D1763V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF88 MUTATED        0      0      0      0      0      0      0      0
  C1ORF88 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  C1ORF88 MUTATED        0
  C1ORF88 WILD-TYPE      5
D1763V12, multiclass

Clustering(1764) Variable = SESTD1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SESTD1 MUTATED        3      1      0      1      1
  SESTD1 WILD-TYPE     29     17     46     26     22
D1764V1, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              1               17
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SESTD1 MUTATED        3      3      0
  SESTD1 WILD-TYPE     40     64     36
D1764V2, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              3               64
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SESTD1 MUTATED        1      2     12
  SESTD1 WILD-TYPE     41    171    135
D1764V3, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SESTD1 MUTATED        4      1      4
  SESTD1 WILD-TYPE     58     72     71
D1764V4, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SESTD1 MUTATED        4      1      9
  SESTD1 WILD-TYPE     66    119     91
D1764V5, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              1              119
  CLUS_3              9               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SESTD1 MUTATED        4      0      1      1      1      7      0      0
  SESTD1 WILD-TYPE     37     26     29     28     38     62     20     14
                  vv
clus               CLUS_9
  SESTD1 MUTATED        0
  SESTD1 WILD-TYPE     22
D1764V6, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              4               37
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              7               62
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SESTD1 MUTATED        0      4      5      6
  SESTD1 WILD-TYPE    100     68     67    115
D1764V7, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              5               67
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SESTD1 MUTATED        2      1      6      3      3
  SESTD1 WILD-TYPE     57     74     68    116     35
D1764V8, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              6               68
  CLUS_4              3              116
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SESTD1 MUTATED        0      5      3      1      5
  SESTD1 WILD-TYPE     51     71     58     70     90
D1764V9, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              3               58
  CLUS_4              1               70
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SESTD1 MUTATED        1      4      0      2      3      0      0      3
  SESTD1 WILD-TYPE     68     44     39     14     50     20     21     35
                  vv
clus               CLUS_9
  SESTD1 MUTATED        1
  SESTD1 WILD-TYPE     49
D1764V10, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              3               50
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SESTD1 MUTATED        0      0      1      1      2      0
  SESTD1 WILD-TYPE     13     16     13     10      9      9
D1764V11, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SESTD1 MUTATED        0      0      1      2      0      0      1      0
  SESTD1 WILD-TYPE     11      7      6      7      8      7     10      9
                  vv
clus               CLUS_9
  SESTD1 MUTATED        0
  SESTD1 WILD-TYPE      5
D1764V12, multiclass
        clus
vv       SESTD1 MUTATED SESTD1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1765) Variable = CAPZA3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAPZA3 MUTATED        2      0      1      0      0
  CAPZA3 WILD-TYPE     30     18     45     27     23
D1765V1, multiclass
        clus
vv       CAPZA3 MUTATED CAPZA3 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAPZA3 MUTATED        2      1      0
  CAPZA3 WILD-TYPE     41     66     36
D1765V2, multiclass
        clus
vv       CAPZA3 MUTATED CAPZA3 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAPZA3 MUTATED        0      3      6
  CAPZA3 WILD-TYPE     42    170    141
D1765V3, multiclass
        clus
vv       CAPZA3 MUTATED CAPZA3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              170
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAPZA3 MUTATED        5      0      1
  CAPZA3 WILD-TYPE     57     73     74
D1765V4, multiclass
        clus
vv       CAPZA3 MUTATED CAPZA3 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              0               73
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAPZA3 MUTATED        1      3      5
  CAPZA3 WILD-TYPE     69    117     95
D1765V5, multiclass
        clus
vv       CAPZA3 MUTATED CAPZA3 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAPZA3 MUTATED        0      0      2      0      0      3      2      1
  CAPZA3 WILD-TYPE     41     26     28     29     39     66     18     13
                  vv
clus               CLUS_9
  CAPZA3 MUTATED        1
  CAPZA3 WILD-TYPE     21
D1765V6, multiclass
        clus
vv       CAPZA3 MUTATED CAPZA3 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CAPZA3 MUTATED        0      4      2      3
  CAPZA3 WILD-TYPE    100     68     70    118
D1765V7, multiclass
        clus
vv       CAPZA3 MUTATED CAPZA3 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAPZA3 MUTATED        1      2      3      1      2
  CAPZA3 WILD-TYPE     58     73     71    118     36
D1765V8, multiclass
        clus
vv       CAPZA3 MUTATED CAPZA3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAPZA3 MUTATED        0      4      1      0      4
  CAPZA3 WILD-TYPE     51     72     60     71     91
D1765V9, multiclass
        clus
vv       CAPZA3 MUTATED CAPZA3 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAPZA3 MUTATED        3      1      1      0      0      1      0      2
  CAPZA3 WILD-TYPE     66     47     38     16     53     19     21     36
                  vv
clus               CLUS_9
  CAPZA3 MUTATED        1
  CAPZA3 WILD-TYPE     49
D1765V10, multiclass
        clus
vv       CAPZA3 MUTATED CAPZA3 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CAPZA3 MUTATED        0      0      2      0      0      0
  CAPZA3 WILD-TYPE     13     16     12     11     11      9
D1765V11, multiclass
[1] "Remove cluster labels:" "CAPZA3 MUTATED"        
clus
  CAPZA3 MUTATED CAPZA3 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6142 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAPZA3 MUTATED        0      0      0      0      1      0      1      0
  CAPZA3 WILD-TYPE     11      7      7      9      7      7     10      9
                  vv
clus               CLUS_9
  CAPZA3 MUTATED        0
  CAPZA3 WILD-TYPE      5
D1765V12, multiclass
[1] "Remove cluster labels:" "CAPZA3 MUTATED"        
clus
  CAPZA3 MUTATED CAPZA3 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6142 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" "CAPZA3 WILD-TYPE" 

Clustering(1766) Variable = LGALS9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LGALS9 MUTATED        1      0      0      0      0
  LGALS9 WILD-TYPE     31     18     46     27     23
D1766V1, multiclass
[1] "Remove cluster labels:" "LGALS9 MUTATED"        
clus
  LGALS9 MUTATED LGALS9 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AY-4071 
"LGALS9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LGALS9 MUTATED        1      0      0
  LGALS9 WILD-TYPE     42     67     36
D1766V2, multiclass
[1] "Remove cluster labels:" "LGALS9 MUTATED"        
clus
  LGALS9 MUTATED LGALS9 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" "LGALS9 WILD-TYPE" 
      TCGA-AY-4071 
"LGALS9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LGALS9 MUTATED        0      0      4
  LGALS9 WILD-TYPE     42    173    143
D1766V3, multiclass
        clus
vv       LGALS9 MUTATED LGALS9 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LGALS9 MUTATED        1      0      2
  LGALS9 WILD-TYPE     61     73     73
D1766V4, multiclass
        clus
vv       LGALS9 MUTATED LGALS9 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              0               73
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LGALS9 MUTATED        1      1      2
  LGALS9 WILD-TYPE     69    119     98
D1766V5, multiclass
        clus
vv       LGALS9 MUTATED LGALS9 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LGALS9 MUTATED        0      0      0      1      1      2      0      0
  LGALS9 WILD-TYPE     41     26     30     28     38     67     20     14
                  vv
clus               CLUS_9
  LGALS9 MUTATED        0
  LGALS9 WILD-TYPE     22
D1766V6, multiclass
        clus
vv       LGALS9 MUTATED LGALS9 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LGALS9 MUTATED        0      2      1      1
  LGALS9 WILD-TYPE    100     70     71    120
D1766V7, multiclass
        clus
vv       LGALS9 MUTATED LGALS9 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LGALS9 MUTATED        0      0      3      1      0
  LGALS9 WILD-TYPE     59     75     71    118     38
D1766V8, multiclass
        clus
vv       LGALS9 MUTATED LGALS9 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LGALS9 MUTATED        0      1      1      0      2
  LGALS9 WILD-TYPE     51     75     60     71     93
D1766V9, multiclass
        clus
vv       LGALS9 MUTATED LGALS9 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LGALS9 MUTATED        1      1      0      0      0      0      1      1
  LGALS9 WILD-TYPE     68     47     39     16     53     20     20     37
                  vv
clus               CLUS_9
  LGALS9 MUTATED        0
  LGALS9 WILD-TYPE     50
D1766V10, multiclass
        clus
vv       LGALS9 MUTATED LGALS9 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LGALS9 MUTATED        0      0      0      0      0      0
  LGALS9 WILD-TYPE     13     16     14     11     11      9
D1766V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LGALS9 MUTATED        0      0      0      0      0      0      0      0
  LGALS9 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  LGALS9 MUTATED        0
  LGALS9 WILD-TYPE      5
D1766V12, multiclass

Clustering(1767) Variable = MC3R MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MC3R MUTATED        0      0      0      1      0
  MC3R WILD-TYPE     32     18     46     26     23
D1767V1, multiclass
[1] "Remove cluster labels:" "MC3R MUTATED"          
clus
  MC3R MUTATED MC3R WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AY-4071 
"MC3R WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MC3R MUTATED        0      1      0
  MC3R WILD-TYPE     43     66     36
D1767V2, multiclass
[1] "Remove cluster labels:" "MC3R MUTATED"          
clus
  MC3R MUTATED MC3R WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" "MC3R WILD-TYPE" 
    TCGA-AY-4071 
"MC3R WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MC3R MUTATED        0      8      5
  MC3R WILD-TYPE     42    165    142
D1767V3, multiclass
        clus
vv       MC3R MUTATED MC3R WILD-TYPE
  CLUS_1            0             42
  CLUS_2            8            165
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MC3R MUTATED        4      6      2
  MC3R WILD-TYPE     58     67     73
D1767V4, multiclass
        clus
vv       MC3R MUTATED MC3R WILD-TYPE
  CLUS_1            4             58
  CLUS_2            6             67
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MC3R MUTATED        2      5      6
  MC3R WILD-TYPE     68    115     94
D1767V5, multiclass
        clus
vv       MC3R MUTATED MC3R WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MC3R MUTATED        2      0      2      2      0      5      1      0      1
  MC3R WILD-TYPE     39     26     28     27     39     64     19     14     21
D1767V6, multiclass
        clus
vv       MC3R MUTATED MC3R WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MC3R MUTATED        6      3      3      1
  MC3R WILD-TYPE     94     69     69    120
D1767V7, multiclass
        clus
vv       MC3R MUTATED MC3R WILD-TYPE
  CLUS_1            6             94
  CLUS_2            3             69
  CLUS_3            3             69
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MC3R MUTATED        3      5      4      1      0
  MC3R WILD-TYPE     56     70     70    118     38
D1767V8, multiclass
        clus
vv       MC3R MUTATED MC3R WILD-TYPE
  CLUS_1            3             56
  CLUS_2            5             70
  CLUS_3            4             70
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MC3R MUTATED        3      5      3      1      1
  MC3R WILD-TYPE     48     71     58     70     94
D1767V9, multiclass
        clus
vv       MC3R MUTATED MC3R WILD-TYPE
  CLUS_1            3             48
  CLUS_2            5             71
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MC3R MUTATED        5      1      2      1      0      4      0      0      0
  MC3R WILD-TYPE     64     47     37     15     53     16     21     38     50
D1767V10, multiclass
        clus
vv       MC3R MUTATED MC3R WILD-TYPE
  CLUS_1            5             64
  CLUS_2            1             47
  CLUS_3            2             37
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            4             16
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MC3R MUTATED        1      1      0      1      0      1
  MC3R WILD-TYPE     12     15     14     10     11      8
D1767V11, multiclass
        clus
vv       MC3R MUTATED MC3R WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            0             11
  CLUS_6            1              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MC3R MUTATED        2      0      1      0      0      0      0      0      1
  MC3R WILD-TYPE      9      7      6      9      8      7     11      9      4
D1767V12, multiclass
        clus
vv       MC3R MUTATED MC3R WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            0              8
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1768) Variable = ACTL6B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL6B MUTATED        1      0      0      0      0
  ACTL6B WILD-TYPE     31     18     46     27     23
D1768V1, multiclass
[1] "Remove cluster labels:" "ACTL6B MUTATED"        
clus
  ACTL6B MUTATED ACTL6B WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AY-4071 
"ACTL6B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL6B MUTATED        1      0      0
  ACTL6B WILD-TYPE     42     67     36
D1768V2, multiclass
[1] "Remove cluster labels:" "ACTL6B MUTATED"        
clus
  ACTL6B MUTATED ACTL6B WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3930       TCGA-AA-3939 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AY-4071 
"ACTL6B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL6B MUTATED        1      5      3
  ACTL6B WILD-TYPE     41    168    144
D1768V3, multiclass
        clus
vv       ACTL6B MUTATED ACTL6B WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL6B MUTATED        0      2      5
  ACTL6B WILD-TYPE     62     71     70
D1768V4, multiclass
        clus
vv       ACTL6B MUTATED ACTL6B WILD-TYPE
  CLUS_1              0               62
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTL6B MUTATED        0      2      5
  ACTL6B WILD-TYPE     70    118     95
D1768V5, multiclass
        clus
vv       ACTL6B MUTATED ACTL6B WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL6B MUTATED        1      0      1      1      0      3      1      0
  ACTL6B WILD-TYPE     40     26     29     28     39     66     19     14
                  vv
clus               CLUS_9
  ACTL6B MUTATED        0
  ACTL6B WILD-TYPE     22
D1768V6, multiclass
        clus
vv       ACTL6B MUTATED ACTL6B WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACTL6B MUTATED        3      3      1      2
  ACTL6B WILD-TYPE     97     69     71    119
D1768V7, multiclass
        clus
vv       ACTL6B MUTATED ACTL6B WILD-TYPE
  CLUS_1              3               97
  CLUS_2              3               69
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL6B MUTATED        2      2      3      1      1
  ACTL6B WILD-TYPE     57     73     71    118     37
D1768V8, multiclass
        clus
vv       ACTL6B MUTATED ACTL6B WILD-TYPE
  CLUS_1              2               57
  CLUS_2              2               73
  CLUS_3              3               71
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTL6B MUTATED        2      4      1      0      2
  ACTL6B WILD-TYPE     49     72     60     71     93
D1768V9, multiclass
        clus
vv       ACTL6B MUTATED ACTL6B WILD-TYPE
  CLUS_1              2               49
  CLUS_2              4               72
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL6B MUTATED        5      1      1      0      0      0      1      0
  ACTL6B WILD-TYPE     64     47     38     16     53     20     20     38
                  vv
clus               CLUS_9
  ACTL6B MUTATED        1
  ACTL6B WILD-TYPE     49
D1768V10, multiclass
        clus
vv       ACTL6B MUTATED ACTL6B WILD-TYPE
  CLUS_1              5               64
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              1               20
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACTL6B MUTATED        1      0      0      0      0      1
  ACTL6B WILD-TYPE     12     16     14     11     11      8
D1768V11, multiclass
[1] "Remove cluster labels:" "ACTL6B MUTATED"        
clus
  ACTL6B MUTATED ACTL6B WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6534       TCGA-D5-6536 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTL6B MUTATED        1      0      0      0      0      0      0      1
  ACTL6B WILD-TYPE     10      7      7      9      8      7     11      8
                  vv
clus               CLUS_9
  ACTL6B MUTATED        0
  ACTL6B WILD-TYPE      5
D1768V12, multiclass
[1] "Remove cluster labels:" "ACTL6B MUTATED"        
clus
  ACTL6B MUTATED ACTL6B WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-6167       TCGA-CM-6674 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6534       TCGA-D5-6536 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" "ACTL6B WILD-TYPE" 

Clustering(1769) Variable = BACH2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BACH2 MUTATED        1      0      1      2      1
  BACH2 WILD-TYPE     31     18     45     25     22
D1769V1, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BACH2 MUTATED        2      1      2
  BACH2 WILD-TYPE     41     66     34
D1769V2, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BACH2 MUTATED        3      5      8
  BACH2 WILD-TYPE     39    168    139
D1769V3, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             5             168
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BACH2 MUTATED        9      1      1
  BACH2 WILD-TYPE     53     72     74
D1769V4, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             9              53
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BACH2 MUTATED        2      4      9
  BACH2 WILD-TYPE     68    116     91
D1769V5, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             116
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BACH2 MUTATED        3      1      1      2      1      6      1      0
  BACH2 WILD-TYPE     38     25     29     27     38     63     19     14
                 vv
clus              CLUS_9
  BACH2 MUTATED        0
  BACH2 WILD-TYPE     22
D1769V6, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BACH2 MUTATED        0      5      6      5
  BACH2 WILD-TYPE    100     67     66    116
D1769V7, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             6              66
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BACH2 MUTATED        3      1      6      4      2
  BACH2 WILD-TYPE     56     74     68    115     36
D1769V8, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             6              68
  CLUS_4             4             115
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BACH2 MUTATED        2      7      2      2      3
  BACH2 WILD-TYPE     49     69     59     69     92
D1769V9, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BACH2 MUTATED        3      5      0      1      0      2      2      2
  BACH2 WILD-TYPE     66     43     39     15     53     18     19     36
                 vv
clus              CLUS_9
  BACH2 MUTATED        1
  BACH2 WILD-TYPE     49
D1769V10, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BACH2 MUTATED        0      1      1      0      2      0
  BACH2 WILD-TYPE     13     15     13     11      9      9
D1769V11, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BACH2 MUTATED        2      0      0      0      0      0      2      0
  BACH2 WILD-TYPE      9      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  BACH2 MUTATED        0
  BACH2 WILD-TYPE      5
D1769V12, multiclass
        clus
vv       BACH2 MUTATED BACH2 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1770) Variable = PGM2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PGM2 MUTATED        0      0      0      0      0
  PGM2 WILD-TYPE     32     18     46     27     23
D1770V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PGM2 MUTATED        0      0      0
  PGM2 WILD-TYPE     43     67     36
D1770V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PGM2 MUTATED        0      2      1
  PGM2 WILD-TYPE     42    171    146
D1770V3, multiclass
        clus
vv       PGM2 MUTATED PGM2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            1            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PGM2 MUTATED        1      0      2
  PGM2 WILD-TYPE     61     73     73
D1770V4, multiclass
        clus
vv       PGM2 MUTATED PGM2 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PGM2 MUTATED        0      1      2
  PGM2 WILD-TYPE     70    119     98
D1770V5, multiclass
        clus
vv       PGM2 MUTATED PGM2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PGM2 MUTATED        1      0      0      0      1      1      0      0      0
  PGM2 WILD-TYPE     40     26     30     29     38     68     20     14     22
D1770V6, multiclass
        clus
vv       PGM2 MUTATED PGM2 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PGM2 MUTATED        1      1      1      0
  PGM2 WILD-TYPE     99     71     71    121
D1770V7, multiclass
        clus
vv       PGM2 MUTATED PGM2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PGM2 MUTATED        2      0      1      0      0
  PGM2 WILD-TYPE     57     75     73    119     38
D1770V8, multiclass
        clus
vv       PGM2 MUTATED PGM2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            0             75
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PGM2 MUTATED        1      2      0      0      0
  PGM2 WILD-TYPE     50     74     61     71     95
D1770V9, multiclass
        clus
vv       PGM2 MUTATED PGM2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            0             95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PGM2 MUTATED        1      1      0      1      0      0      0      0      0
  PGM2 WILD-TYPE     68     47     39     15     53     20     21     38     50
D1770V10, multiclass
        clus
vv       PGM2 MUTATED PGM2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PGM2 MUTATED        0      0      0      0      1      1
  PGM2 WILD-TYPE     13     16     14     11     10      8
D1770V11, multiclass
[1] "Remove cluster labels:" "PGM2 MUTATED"          
clus
  PGM2 MUTATED PGM2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  PGM2 MUTATED        1      0      0      1      0      0      0      0      0
  PGM2 WILD-TYPE     10      7      7      8      8      7     11      9      5
D1770V12, multiclass
[1] "Remove cluster labels:" "PGM2 MUTATED"          
clus
  PGM2 MUTATED PGM2 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6654 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" "PGM2 WILD-TYPE" 

Clustering(1771) Variable = EPHB1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHB1 MUTATED        1      0      0      2      1
  EPHB1 WILD-TYPE     31     18     46     25     22
D1771V1, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHB1 MUTATED        2      1      1
  EPHB1 WILD-TYPE     41     66     35
D1771V2, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHB1 MUTATED        6     14     16
  EPHB1 WILD-TYPE     36    159    131
D1771V3, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1             6              36
  CLUS_2            14             159
  CLUS_3            16             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHB1 MUTATED       10     10      9
  EPHB1 WILD-TYPE     52     63     66
D1771V4, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1            10              52
  CLUS_2            10              63
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHB1 MUTATED        7      8     16
  EPHB1 WILD-TYPE     63    112     84
D1771V5, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1             7              63
  CLUS_2             8             112
  CLUS_3            16              84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHB1 MUTATED        3      2      1      1      5     14      2      2
  EPHB1 WILD-TYPE     38     24     29     28     34     55     18     12
                 vv
clus              CLUS_9
  EPHB1 MUTATED        1
  EPHB1 WILD-TYPE     21
D1771V6, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             5              34
  CLUS_6            14              55
  CLUS_7             2              18
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPHB1 MUTATED       11     11     10      3
  EPHB1 WILD-TYPE     89     61     62    118
D1771V7, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1            11              89
  CLUS_2            11              61
  CLUS_3            10              62
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHB1 MUTATED        4     13     14      1      3
  EPHB1 WILD-TYPE     55     62     60    118     35
D1771V8, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1             4              55
  CLUS_2            13              62
  CLUS_3            14              60
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPHB1 MUTATED        9     13      6      2      6
  EPHB1 WILD-TYPE     42     63     55     69     89
D1771V9, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1             9              42
  CLUS_2            13              63
  CLUS_3             6              55
  CLUS_4             2              69
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHB1 MUTATED       10      5      4      2      7      2      1      3
  EPHB1 WILD-TYPE     59     43     35     14     46     18     20     35
                 vv
clus              CLUS_9
  EPHB1 MUTATED        2
  EPHB1 WILD-TYPE     48
D1771V10, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1            10              59
  CLUS_2             5              43
  CLUS_3             4              35
  CLUS_4             2              14
  CLUS_5             7              46
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EPHB1 MUTATED        2      3      2      1      2      1
  EPHB1 WILD-TYPE     11     13     12     10      9      8
D1771V11, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             3              13
  CLUS_3             2              12
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EPHB1 MUTATED        3      0      1      1      1      1      2      1
  EPHB1 WILD-TYPE      8      7      6      8      7      6      9      8
                 vv
clus              CLUS_9
  EPHB1 MUTATED        1
  EPHB1 WILD-TYPE      4
D1771V12, multiclass
        clus
vv       EPHB1 MUTATED EPHB1 WILD-TYPE
  CLUS_1             3               8
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1772) Variable = NFS1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFS1 MUTATED        2      0      0      0      0
  NFS1 WILD-TYPE     30     18     46     27     23
D1772V1, multiclass
[1] "Remove cluster labels:" "NFS1 MUTATED"          
clus
  NFS1 MUTATED NFS1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NFS1 MUTATED        2      0      0
  NFS1 WILD-TYPE     41     67     36
D1772V2, multiclass
[1] "Remove cluster labels:" "NFS1 MUTATED"          
clus
  NFS1 MUTATED NFS1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NFS1 MUTATED        0      0      5
  NFS1 WILD-TYPE     42    173    142
D1772V3, multiclass
        clus
vv       NFS1 MUTATED NFS1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NFS1 MUTATED        1      0      1
  NFS1 WILD-TYPE     61     73     74
D1772V4, multiclass
[1] "Remove cluster labels:" "NFS1 MUTATED"          
clus
  NFS1 MUTATED NFS1 WILD-TYPE 
             2            208 
    TCGA-A6-2671     TCGA-A6-2677     TCGA-A6-3809     TCGA-A6-3810 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-4105     TCGA-A6-5656     TCGA-A6-5657     TCGA-A6-5659 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662     TCGA-A6-5664 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137     TCGA-A6-6138 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648     TCGA-A6-6649 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653     TCGA-A6-6654 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502     TCGA-AA-3510 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AA-3655     TCGA-AA-3660     TCGA-AA-3662 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3663     TCGA-AA-3697     TCGA-AA-3712     TCGA-AA-3713 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6888     TCGA-AD-6889 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AD-6890     TCGA-AD-6895     TCGA-AD-6899     TCGA-AD-6901 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AU-3779 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AU-6004     TCGA-AY-5543     TCGA-AY-6196     TCGA-AY-6197 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AY-6386     TCGA-AZ-4315     TCGA-AZ-4323     TCGA-AZ-4616 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AZ-4681     TCGA-AZ-4682     TCGA-AZ-5403     TCGA-AZ-5407 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6599     TCGA-AZ-6600     TCGA-AZ-6603 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6606     TCGA-AZ-6607     TCGA-AZ-6608 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CA-5254     TCGA-CA-5255     TCGA-CA-5796     TCGA-CA-5797 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CA-6715     TCGA-CA-6716     TCGA-CA-6717     TCGA-CA-6718 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CA-6719     TCGA-CK-4947     TCGA-CK-4948     TCGA-CK-4950 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CK-4952     TCGA-CK-5912     TCGA-CK-5913     TCGA-CK-5914 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CK-5915     TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-4746     TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-5344     TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-5861     TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-5868     TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-6164     TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-6168     TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6172 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6534 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537     TCGA-D5-6538 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541     TCGA-D5-6898 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923     TCGA-D5-6924 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-D5-6926     TCGA-D5-6927     TCGA-D5-6928     TCGA-D5-6929 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932     TCGA-D5-7000 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28C 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A28E     TCGA-DM-A28F     TCGA-DM-A28G     TCGA-DM-A28H 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A28K     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NFS1 MUTATED        0      1      4
  NFS1 WILD-TYPE     70    119     96
D1772V5, multiclass
        clus
vv       NFS1 MUTATED NFS1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            119
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NFS1 MUTATED        0      0      1      0      0      4      0      0      0
  NFS1 WILD-TYPE     41     26     29     29     39     65     20     14     22
D1772V6, multiclass
        clus
vv       NFS1 MUTATED NFS1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFS1 MUTATED        0      1      1      3
  NFS1 WILD-TYPE    100     71     71    118
D1772V7, multiclass
        clus
vv       NFS1 MUTATED NFS1 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFS1 MUTATED        0      0      2      0      3
  NFS1 WILD-TYPE     59     75     72    119     35
D1772V8, multiclass
        clus
vv       NFS1 MUTATED NFS1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            0             75
  CLUS_3            2             72
  CLUS_4            0            119
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFS1 MUTATED        0      2      0      0      2
  NFS1 WILD-TYPE     51     74     61     71     93
D1772V9, multiclass
        clus
vv       NFS1 MUTATED NFS1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            2             74
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NFS1 MUTATED        0      1      0      1      0      0      0      2      0
  NFS1 WILD-TYPE     69     47     39     15     53     20     21     36     50
D1772V10, multiclass
        clus
vv       NFS1 MUTATED NFS1 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFS1 MUTATED        0      0      0      0      1      0
  NFS1 WILD-TYPE     13     16     14     11     10      9
D1772V11, multiclass
[1] "Remove cluster labels:" "NFS1 MUTATED"          
clus
  NFS1 MUTATED NFS1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-G4-6628 
"NFS1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NFS1 MUTATED        0      0      0      0      0      0      1      0      0
  NFS1 WILD-TYPE     11      7      7      9      8      7     10      9      5
D1772V12, multiclass
[1] "Remove cluster labels:" "NFS1 MUTATED"          
clus
  NFS1 MUTATED NFS1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6603     TCGA-AZ-6605 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" "NFS1 WILD-TYPE" 
    TCGA-G4-6628 
"NFS1 WILD-TYPE" 

Clustering(1773) Variable = CLDN17 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLDN17 MUTATED        3      0      0      2      0
  CLDN17 WILD-TYPE     29     18     46     25     23
D1773V1, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLDN17 MUTATED        4      1      0
  CLDN17 WILD-TYPE     39     66     36
D1773V2, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLDN17 MUTATED        1      3      9
  CLDN17 WILD-TYPE     41    170    138
D1773V3, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLDN17 MUTATED        6      1      1
  CLDN17 WILD-TYPE     56     72     74
D1773V4, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              6               56
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLDN17 MUTATED        1      2      8
  CLDN17 WILD-TYPE     69    118     92
D1773V5, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              8               92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLDN17 MUTATED        3      0      1      1      0      5      1      0
  CLDN17 WILD-TYPE     38     26     29     28     39     64     19     14
                  vv
clus               CLUS_9
  CLDN17 MUTATED        0
  CLDN17 WILD-TYPE     22
D1773V6, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              3               38
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLDN17 MUTATED        2      1      5      5
  CLDN17 WILD-TYPE     98     71     67    116
D1773V7, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              5               67
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLDN17 MUTATED        3      3      2      1      4
  CLDN17 WILD-TYPE     56     72     72    118     34
D1773V8, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              3               72
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLDN17 MUTATED        1      3      3      0      4
  CLDN17 WILD-TYPE     50     73     58     71     91
D1773V9, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              3               73
  CLUS_3              3               58
  CLUS_4              0               71
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLDN17 MUTATED        1      3      2      0      1      1      0      2
  CLDN17 WILD-TYPE     68     45     37     16     52     19     21     36
                  vv
clus               CLUS_9
  CLDN17 MUTATED        1
  CLDN17 WILD-TYPE     49
D1773V10, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               45
  CLUS_3              2               37
  CLUS_4              0               16
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLDN17 MUTATED        1      1      2      1      0      0
  CLDN17 WILD-TYPE     12     15     12     10     11      9
D1773V11, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              1               10
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CLDN17 MUTATED        0      0      0      0      2      1      1      1
  CLDN17 WILD-TYPE     11      7      7      9      6      6     10      8
                  vv
clus               CLUS_9
  CLDN17 MUTATED        0
  CLDN17 WILD-TYPE      5
D1773V12, multiclass
        clus
vv       CLDN17 MUTATED CLDN17 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1774) Variable = UEVLD MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UEVLD MUTATED        0      0      0      0      0
  UEVLD WILD-TYPE     32     18     46     27     23
D1774V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UEVLD MUTATED        0      0      0
  UEVLD WILD-TYPE     43     67     36
D1774V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UEVLD MUTATED        0      0      3
  UEVLD WILD-TYPE     42    173    144
D1774V3, multiclass
        clus
vv       UEVLD MUTATED UEVLD WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UEVLD MUTATED        2      0      1
  UEVLD WILD-TYPE     60     73     74
D1774V4, multiclass
        clus
vv       UEVLD MUTATED UEVLD WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UEVLD MUTATED        0      0      1
  UEVLD WILD-TYPE     70    120     99
D1774V5, multiclass
[1] "Remove cluster labels:" "UEVLD MUTATED"         
clus
  UEVLD MUTATED UEVLD WILD-TYPE 
              1             289 
     TCGA-A6-2671      TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-A6-5656      TCGA-A6-5657 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-5659      TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-5664      TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3489      TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3510      TCGA-AA-3511      TCGA-AA-3514      TCGA-AA-3517 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3525      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3548      TCGA-AA-3552 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3558 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3655 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3681 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696      TCGA-AA-3697 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3712      TCGA-AA-3713      TCGA-AA-3715 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3950 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982      TCGA-AA-3986 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00E 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01I      TCGA-AA-A01K 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02K      TCGA-AA-A02O      TCGA-AA-A02W 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A02Y      TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AD-5900 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6899      TCGA-AD-6965 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-4682 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CA-5796      TCGA-CA-5797      TCGA-CA-6715      TCGA-CA-6716 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CA-6717      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5914 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5538 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-5539      TCGA-D5-5540      TCGA-D5-5541      TCGA-D5-6529 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6532      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6535 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6537      TCGA-D5-6538      TCGA-D5-6539 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6540      TCGA-D5-6541      TCGA-D5-6898      TCGA-D5-6920 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6923      TCGA-D5-6924      TCGA-D5-6926 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6927      TCGA-D5-6928      TCGA-D5-6930      TCGA-D5-6931 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6932      TCGA-DM-A0X9      TCGA-DM-A0XF      TCGA-DM-A1D0 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A28C      TCGA-DM-A28E 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A28F      TCGA-DM-A28G      TCGA-F4-6459      TCGA-F4-6460 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-F4-6809      TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6293      TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6315      TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6586      TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6628 
"UEVLD WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UEVLD MUTATED        0      0      0      0      0      1      0      0
  UEVLD WILD-TYPE     41     26     30     29     39     68     20     14
                 vv
clus              CLUS_9
  UEVLD MUTATED        0
  UEVLD WILD-TYPE     22
D1774V6, multiclass
[1] "Remove cluster labels:" "UEVLD MUTATED"         
clus
  UEVLD MUTATED UEVLD WILD-TYPE 
              1             289 
     TCGA-A6-2671      TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-A6-5656      TCGA-A6-5657 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-5659      TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-5664      TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-6138      TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3489      TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3510      TCGA-AA-3511      TCGA-AA-3514      TCGA-AA-3517 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521      TCGA-AA-3522 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3525      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3548      TCGA-AA-3552 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555      TCGA-AA-3558 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3560      TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3655 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678      TCGA-AA-3681 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696      TCGA-AA-3697 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3712      TCGA-AA-3713      TCGA-AA-3715 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3811      TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3950 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982      TCGA-AA-3986 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00E 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01I      TCGA-AA-A01K 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02K      TCGA-AA-A02O      TCGA-AA-A02W 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-A02Y      TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AD-5900 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6899      TCGA-AD-6965 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-4682 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-5407      TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-6607      TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CA-5796      TCGA-CA-5797      TCGA-CA-6715      TCGA-CA-6716 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CA-6717      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5914 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6746      TCGA-CK-6747      TCGA-CK-6748 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744      TCGA-CM-4746 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341      TCGA-CM-5344 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860      TCGA-CM-5861 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864      TCGA-CM-5868 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163      TCGA-CM-6164 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167      TCGA-CM-6168 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171      TCGA-CM-6172 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676      TCGA-CM-6677 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5538 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-5539      TCGA-D5-5540      TCGA-D5-5541      TCGA-D5-6529 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6532      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6535 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6537      TCGA-D5-6538      TCGA-D5-6539 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6540      TCGA-D5-6541      TCGA-D5-6898      TCGA-D5-6920 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6923      TCGA-D5-6924      TCGA-D5-6926 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6927      TCGA-D5-6928      TCGA-D5-6930      TCGA-D5-6931 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6932      TCGA-DM-A0X9      TCGA-DM-A0XF      TCGA-DM-A1D0 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7      TCGA-DM-A1D8 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB      TCGA-DM-A1HA 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A28C      TCGA-DM-A28E 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A28F      TCGA-DM-A28G      TCGA-F4-6459      TCGA-F4-6460 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-F4-6809      TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6293      TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6315      TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6586      TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6628 
"UEVLD WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UEVLD MUTATED        0      2      1      0
  UEVLD WILD-TYPE    100     70     71    121
D1774V7, multiclass
        clus
vv       UEVLD MUTATED UEVLD WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UEVLD MUTATED        0      1      2      0      0
  UEVLD WILD-TYPE     59     74     72    119     38
D1774V8, multiclass
        clus
vv       UEVLD MUTATED UEVLD WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UEVLD MUTATED        0      1      1      0      1
  UEVLD WILD-TYPE     51     75     60     71     94
D1774V9, multiclass
        clus
vv       UEVLD MUTATED UEVLD WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UEVLD MUTATED        0      0      0      0      1      1      0      0
  UEVLD WILD-TYPE     69     48     39     16     52     19     21     38
                 vv
clus              CLUS_9
  UEVLD MUTATED        1
  UEVLD WILD-TYPE     49
D1774V10, multiclass
        clus
vv       UEVLD MUTATED UEVLD WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UEVLD MUTATED        0      0      1      0      0      0
  UEVLD WILD-TYPE     13     16     13     11     11      9
D1774V11, multiclass
[1] "Remove cluster labels:" "UEVLD MUTATED"         
clus
  UEVLD MUTATED UEVLD WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6628 
"UEVLD WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  UEVLD MUTATED        0      0      0      0      1      0      0      0
  UEVLD WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  UEVLD MUTATED        0
  UEVLD WILD-TYPE      5
D1774V12, multiclass
[1] "Remove cluster labels:" "UEVLD MUTATED"         
clus
  UEVLD MUTATED UEVLD WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" "UEVLD WILD-TYPE" 
     TCGA-G4-6628 
"UEVLD WILD-TYPE" 

Clustering(1775) Variable = GABRQ MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRQ MUTATED        5      0      0      1      0
  GABRQ WILD-TYPE     27     18     46     26     23
D1775V1, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABRQ MUTATED        4      1      1
  GABRQ WILD-TYPE     39     66     35
D1775V2, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABRQ MUTATED        1      4     10
  GABRQ WILD-TYPE     41    169    137
D1775V3, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABRQ MUTATED        4      2      3
  GABRQ WILD-TYPE     58     71     72
D1775V4, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABRQ MUTATED        1      5      7
  GABRQ WILD-TYPE     69    115     93
D1775V5, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABRQ MUTATED        2      0      1      1      1      5      1      1
  GABRQ WILD-TYPE     39     26     29     28     38     64     19     13
                 vv
clus              CLUS_9
  GABRQ MUTATED        1
  GABRQ WILD-TYPE     21
D1775V6, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GABRQ MUTATED        1      5      3      6
  GABRQ WILD-TYPE     99     67     69    115
D1775V7, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRQ MUTATED        2      2      5      1      5
  GABRQ WILD-TYPE     57     73     69    118     33
D1775V8, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             1             118
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRQ MUTATED        2      3      2      3      5
  GABRQ WILD-TYPE     49     73     59     68     90
D1775V9, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             3              68
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABRQ MUTATED        1      2      0      2      3      2      2      3
  GABRQ WILD-TYPE     68     46     39     14     50     18     19     35
                 vv
clus              CLUS_9
  GABRQ MUTATED        0
  GABRQ WILD-TYPE     50
D1775V10, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             2              19
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GABRQ MUTATED        1      1      1      0      0      0
  GABRQ WILD-TYPE     12     15     13     11     11      9
D1775V11, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABRQ MUTATED        0      0      0      1      1      1      0      0
  GABRQ WILD-TYPE     11      7      7      8      7      6     11      9
                 vv
clus              CLUS_9
  GABRQ MUTATED        0
  GABRQ WILD-TYPE      5
D1775V12, multiclass
        clus
vv       GABRQ MUTATED GABRQ WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1776) Variable = NTSR2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTSR2 MUTATED        3      0      0      1      0
  NTSR2 WILD-TYPE     29     18     46     26     23
D1776V1, multiclass
        clus
vv       NTSR2 MUTATED NTSR2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTSR2 MUTATED        4      0      0
  NTSR2 WILD-TYPE     39     67     36
D1776V2, multiclass
        clus
vv       NTSR2 MUTATED NTSR2 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTSR2 MUTATED        0      1      7
  NTSR2 WILD-TYPE     42    172    140
D1776V3, multiclass
        clus
vv       NTSR2 MUTATED NTSR2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTSR2 MUTATED        2      1      1
  NTSR2 WILD-TYPE     60     72     74
D1776V4, multiclass
        clus
vv       NTSR2 MUTATED NTSR2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTSR2 MUTATED        1      3      4
  NTSR2 WILD-TYPE     69    117     96
D1776V5, multiclass
        clus
vv       NTSR2 MUTATED NTSR2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTSR2 MUTATED        2      0      0      0      4      1      0      1
  NTSR2 WILD-TYPE     39     26     30     29     35     68     20     13
                 vv
clus              CLUS_9
  NTSR2 MUTATED        0
  NTSR2 WILD-TYPE     22
D1776V6, multiclass
        clus
vv       NTSR2 MUTATED NTSR2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             4              35
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NTSR2 MUTATED        0      3      1      4
  NTSR2 WILD-TYPE    100     69     71    117
D1776V7, multiclass
        clus
vv       NTSR2 MUTATED NTSR2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTSR2 MUTATED        1      0      3      0      4
  NTSR2 WILD-TYPE     58     75     71    119     34
D1776V8, multiclass
        clus
vv       NTSR2 MUTATED NTSR2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTSR2 MUTATED        0      1      1      1      4
  NTSR2 WILD-TYPE     51     75     60     70     91
D1776V9, multiclass
        clus
vv       NTSR2 MUTATED NTSR2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             1              75
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTSR2 MUTATED        1      1      0      1      1      0      0      3
  NTSR2 WILD-TYPE     68     47     39     15     52     20     21     35
                 vv
clus              CLUS_9
  NTSR2 MUTATED        0
  NTSR2 WILD-TYPE     50
D1776V10, multiclass
        clus
vv       NTSR2 MUTATED NTSR2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NTSR2 MUTATED        0      0      0      0      1      0
  NTSR2 WILD-TYPE     13     16     14     11     10      9
D1776V11, multiclass
[1] "Remove cluster labels:" "NTSR2 MUTATED"         
clus
  NTSR2 MUTATED NTSR2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-G4-6628 
"NTSR2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NTSR2 MUTATED        0      0      0      1      0      0      0      0
  NTSR2 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  NTSR2 MUTATED        0
  NTSR2 WILD-TYPE      5
D1776V12, multiclass
[1] "Remove cluster labels:" "NTSR2 MUTATED"         
clus
  NTSR2 MUTATED NTSR2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6625 
"NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" "NTSR2 WILD-TYPE" 
     TCGA-G4-6628 
"NTSR2 WILD-TYPE" 

Clustering(1777) Variable = FRAS1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRAS1 MUTATED        6      1      0      1      0
  FRAS1 WILD-TYPE     26     17     46     26     23
D1777V1, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             1              17
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRAS1 MUTATED        5      3      0
  FRAS1 WILD-TYPE     38     64     36
D1777V2, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRAS1 MUTATED        2      7     26
  FRAS1 WILD-TYPE     40    166    121
D1777V3, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             7             166
  CLUS_3            26             121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRAS1 MUTATED       10      6     12
  FRAS1 WILD-TYPE     52     67     63
D1777V4, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1            10              52
  CLUS_2             6              67
  CLUS_3            12              63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRAS1 MUTATED        6     10     17
  FRAS1 WILD-TYPE     64    110     83
D1777V5, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1             6              64
  CLUS_2            10             110
  CLUS_3            17              83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FRAS1 MUTATED        1      2      2      4      3     14      3      2
  FRAS1 WILD-TYPE     40     24     28     25     36     55     17     12
                 vv
clus              CLUS_9
  FRAS1 MUTATED        2
  FRAS1 WILD-TYPE     20
D1777V6, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             4              25
  CLUS_5             3              36
  CLUS_6            14              55
  CLUS_7             3              17
  CLUS_8             2              12
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FRAS1 MUTATED        3     15     10      8
  FRAS1 WILD-TYPE     97     57     62    113
D1777V7, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2            15              57
  CLUS_3            10              62
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRAS1 MUTATED        4      5     18      5      4
  FRAS1 WILD-TYPE     55     70     56    114     34
D1777V8, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             5              70
  CLUS_3            18              56
  CLUS_4             5             114
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRAS1 MUTATED        4     17      5      5      6
  FRAS1 WILD-TYPE     47     59     56     66     89
D1777V9, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1             4              47
  CLUS_2            17              59
  CLUS_3             5              56
  CLUS_4             5              66
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FRAS1 MUTATED        8      6      2      6      4      2      4      3
  FRAS1 WILD-TYPE     61     42     37     10     49     18     17     35
                 vv
clus              CLUS_9
  FRAS1 MUTATED        2
  FRAS1 WILD-TYPE     48
D1777V10, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1             8              61
  CLUS_2             6              42
  CLUS_3             2              37
  CLUS_4             6              10
  CLUS_5             4              49
  CLUS_6             2              18
  CLUS_7             4              17
  CLUS_8             3              35
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FRAS1 MUTATED        1      1      1      1      3      1
  FRAS1 WILD-TYPE     12     15     13     10      8      8
D1777V11, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             3               8
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FRAS1 MUTATED        2      0      0      2      1      0      2      1
  FRAS1 WILD-TYPE      9      7      7      7      7      7      9      8
                 vv
clus              CLUS_9
  FRAS1 MUTATED        0
  FRAS1 WILD-TYPE      5
D1777V12, multiclass
        clus
vv       FRAS1 MUTATED FRAS1 WILD-TYPE
  CLUS_1             2               9
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             2               7
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1778) Variable = NDUFV2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDUFV2 MUTATED        0      0      0      0      0
  NDUFV2 WILD-TYPE     32     18     46     27     23
D1778V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NDUFV2 MUTATED        0      0      0
  NDUFV2 WILD-TYPE     43     67     36
D1778V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NDUFV2 MUTATED        1      0      2
  NDUFV2 WILD-TYPE     41    173    145
D1778V3, multiclass
        clus
vv       NDUFV2 MUTATED NDUFV2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NDUFV2 MUTATED        1      1      1
  NDUFV2 WILD-TYPE     61     72     74
D1778V4, multiclass
        clus
vv       NDUFV2 MUTATED NDUFV2 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NDUFV2 MUTATED        0      1      1
  NDUFV2 WILD-TYPE     70    119     99
D1778V5, multiclass
[1] "Remove cluster labels:" "NDUFV2 MUTATED"        
clus
  NDUFV2 MUTATED NDUFV2 WILD-TYPE 
               2              288 
      TCGA-A6-2671       TCGA-A6-2672       TCGA-A6-2676       TCGA-A6-2677 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-A6-5656       TCGA-A6-5657 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-5659       TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-5664       TCGA-A6-5666       TCGA-A6-6137       TCGA-A6-6138 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648       TCGA-A6-6649 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653       TCGA-A6-6654 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502       TCGA-AA-3510 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AA-3514       TCGA-AA-3517       TCGA-AA-3519 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3520       TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3525 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531       TCGA-AA-3532 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3534       TCGA-AA-3548       TCGA-AA-3552       TCGA-AA-3553 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3558       TCGA-AA-3560 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3655       TCGA-AA-3664 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681       TCGA-AA-3688 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3697       TCGA-AA-3710 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3712       TCGA-AA-3713       TCGA-AA-3715       TCGA-AA-3811 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848       TCGA-AA-3850 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856       TCGA-AA-3861 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869       TCGA-AA-3872 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3930       TCGA-AA-3947       TCGA-AA-3950       TCGA-AA-3955 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00E       TCGA-AA-A00F 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01P 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S       TCGA-AA-A01T 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022       TCGA-AA-A024 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H       TCGA-AA-A02J 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A02K       TCGA-AA-A02O       TCGA-AA-A02W       TCGA-AA-A02Y 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AD-5900       TCGA-AD-6548 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AD-6889       TCGA-AD-6899       TCGA-AD-6965       TCGA-AU-6004 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4682 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AZ-5407       TCGA-AZ-6598       TCGA-AZ-6599       TCGA-AZ-6600 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6606 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-AZ-6608       TCGA-CA-5254       TCGA-CA-5255 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CA-5796       TCGA-CA-5797       TCGA-CA-6715       TCGA-CA-6716 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CA-6717       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5914 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747       TCGA-CK-6748 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744       TCGA-CM-4746 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341       TCGA-CM-5344 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5538 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541       TCGA-D5-6529 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6535 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538       TCGA-D5-6539 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898       TCGA-D5-6920 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924       TCGA-D5-6926 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-6928       TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D4 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA       TCGA-DM-A1HB 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A28C       TCGA-DM-A28E       TCGA-DM-A28F 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-DM-A28G       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDUFV2 MUTATED        0      0      0      1      0      1      0      0
  NDUFV2 WILD-TYPE     41     26     30     28     39     68     20     14
                  vv
clus               CLUS_9
  NDUFV2 MUTATED        0
  NDUFV2 WILD-TYPE     22
D1778V6, multiclass
[1] "Remove cluster labels:" "NDUFV2 MUTATED"        
clus
  NDUFV2 MUTATED NDUFV2 WILD-TYPE 
               2              288 
      TCGA-A6-2671       TCGA-A6-2672       TCGA-A6-2676       TCGA-A6-2677 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-A6-5656       TCGA-A6-5657 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-5659       TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-5664       TCGA-A6-5666       TCGA-A6-6137       TCGA-A6-6138 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648       TCGA-A6-6649 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653       TCGA-A6-6654 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502       TCGA-AA-3510 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AA-3514       TCGA-AA-3517       TCGA-AA-3519 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3520       TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3525 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531       TCGA-AA-3532 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3534       TCGA-AA-3548       TCGA-AA-3552       TCGA-AA-3553 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3554       TCGA-AA-3555       TCGA-AA-3558       TCGA-AA-3560 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3655       TCGA-AA-3664 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681       TCGA-AA-3688 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3697       TCGA-AA-3710 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3712       TCGA-AA-3713       TCGA-AA-3715       TCGA-AA-3811 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848       TCGA-AA-3850 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856       TCGA-AA-3861 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869       TCGA-AA-3872 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3930       TCGA-AA-3947       TCGA-AA-3950       TCGA-AA-3955 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3982       TCGA-AA-3986       TCGA-AA-3989 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00E       TCGA-AA-A00F 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01P 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S       TCGA-AA-A01T 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022       TCGA-AA-A024 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H       TCGA-AA-A02J 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A02K       TCGA-AA-A02O       TCGA-AA-A02W       TCGA-AA-A02Y 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AD-5900       TCGA-AD-6548 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AD-6889       TCGA-AD-6899       TCGA-AD-6965       TCGA-AU-6004 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4682 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AZ-5407       TCGA-AZ-6598       TCGA-AZ-6599       TCGA-AZ-6600 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6606 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-AZ-6608       TCGA-CA-5254       TCGA-CA-5255 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CA-5796       TCGA-CA-5797       TCGA-CA-6715       TCGA-CA-6716 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CA-6717       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5914 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747       TCGA-CK-6748 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744       TCGA-CM-4746 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341       TCGA-CM-5344 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5538 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541       TCGA-D5-6529 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6535 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538       TCGA-D5-6539 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898       TCGA-D5-6920 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924       TCGA-D5-6926 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-D5-6928       TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D4 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA       TCGA-DM-A1HB 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A28C       TCGA-DM-A28E       TCGA-DM-A28F 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-DM-A28G       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" "NDUFV2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NDUFV2 MUTATED        1      1      1      0
  NDUFV2 WILD-TYPE     99     71     71    121
D1778V7, multiclass
        clus
vv       NDUFV2 MUTATED NDUFV2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              1               71
  CLUS_3              1               71
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDUFV2 MUTATED        0      1      2      0      0
  NDUFV2 WILD-TYPE     59     74     72    119     38
D1778V8, multiclass
        clus
vv       NDUFV2 MUTATED NDUFV2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDUFV2 MUTATED        1      2      0      0      0
  NDUFV2 WILD-TYPE     50     74     61     71     95
D1778V9, multiclass
        clus
vv       NDUFV2 MUTATED NDUFV2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              0               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDUFV2 MUTATED        1      1      1      0      0      0      0      0
  NDUFV2 WILD-TYPE     68     47     38     16     53     20     21     38
                  vv
clus               CLUS_9
  NDUFV2 MUTATED        0
  NDUFV2 WILD-TYPE     50
D1778V10, multiclass
        clus
vv       NDUFV2 MUTATED NDUFV2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NDUFV2 MUTATED        0      0      0      0      0      0
  NDUFV2 WILD-TYPE     13     16     14     11     11      9
D1778V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDUFV2 MUTATED        0      0      0      0      0      0      0      0
  NDUFV2 WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  NDUFV2 MUTATED        0
  NDUFV2 WILD-TYPE      5
D1778V12, multiclass

Clustering(1779) Variable = ATP2B4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP2B4 MUTATED        3      0      0      2      0
  ATP2B4 WILD-TYPE     29     18     46     25     23
D1779V1, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP2B4 MUTATED        2      2      1
  ATP2B4 WILD-TYPE     41     65     35
D1779V2, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP2B4 MUTATED        3      4     11
  ATP2B4 WILD-TYPE     39    169    136
D1779V3, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              4              169
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP2B4 MUTATED        3      6      4
  ATP2B4 WILD-TYPE     59     67     71
D1779V4, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              6               67
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP2B4 MUTATED        0      8      6
  ATP2B4 WILD-TYPE     70    112     94
D1779V5, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              8              112
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP2B4 MUTATED        0      3      1      2      0      5      0      2
  ATP2B4 WILD-TYPE     41     23     29     27     39     64     20     12
                  vv
clus               CLUS_9
  ATP2B4 MUTATED        1
  ATP2B4 WILD-TYPE     21
D1779V6, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              3               23
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              0               20
  CLUS_8              2               12
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP2B4 MUTATED        7      5      2      4
  ATP2B4 WILD-TYPE     93     67     70    117
D1779V7, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              7               93
  CLUS_2              5               67
  CLUS_3              2               70
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP2B4 MUTATED        4      4      5      3      2
  ATP2B4 WILD-TYPE     55     71     69    116     36
D1779V8, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              4               71
  CLUS_3              5               69
  CLUS_4              3              116
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP2B4 MUTATED        4      6      2      2      4
  ATP2B4 WILD-TYPE     47     70     59     69     91
D1779V9, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              6               70
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP2B4 MUTATED        3      3      4      2      2      1      0      2
  ATP2B4 WILD-TYPE     66     45     35     14     51     19     21     36
                  vv
clus               CLUS_9
  ATP2B4 MUTATED        1
  ATP2B4 WILD-TYPE     49
D1779V10, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               45
  CLUS_3              4               35
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP2B4 MUTATED        0      1      0      1      2      0
  ATP2B4 WILD-TYPE     13     15     14     10      9      9
D1779V11, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              1               10
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP2B4 MUTATED        1      0      0      1      0      0      1      1
  ATP2B4 WILD-TYPE     10      7      7      8      8      7     10      8
                  vv
clus               CLUS_9
  ATP2B4 MUTATED        0
  ATP2B4 WILD-TYPE      5
D1779V12, multiclass
        clus
vv       ATP2B4 MUTATED ATP2B4 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1780) Variable = PLEKHA4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHA4 MUTATED        2      0      0      0      0
  PLEKHA4 WILD-TYPE     30     18     46     27     23
D1780V1, multiclass
[1] "Remove cluster labels:" "PLEKHA4 MUTATED"       
clus
  PLEKHA4 MUTATED PLEKHA4 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHA4 MUTATED        1      1      0
  PLEKHA4 WILD-TYPE     42     66     36
D1780V2, multiclass
[1] "Remove cluster labels:" "PLEKHA4 MUTATED"       
clus
  PLEKHA4 MUTATED PLEKHA4 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" "PLEKHA4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHA4 MUTATED        0      4      5
  PLEKHA4 WILD-TYPE     42    169    142
D1780V3, multiclass
        clus
vv       PLEKHA4 MUTATED PLEKHA4 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               4               169
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHA4 MUTATED        4      1      3
  PLEKHA4 WILD-TYPE     58     72     72
D1780V4, multiclass
        clus
vv       PLEKHA4 MUTATED PLEKHA4 WILD-TYPE
  CLUS_1               4                58
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHA4 MUTATED        0      4      5
  PLEKHA4 WILD-TYPE     70    116     95
D1780V5, multiclass
        clus
vv       PLEKHA4 MUTATED PLEKHA4 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               4               116
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHA4 MUTATED        0      1      1      1      0      4      2      0
  PLEKHA4 WILD-TYPE     41     25     29     28     39     65     18     14
                   vv
clus                CLUS_9
  PLEKHA4 MUTATED        0
  PLEKHA4 WILD-TYPE     22
D1780V6, multiclass
        clus
vv       PLEKHA4 MUTATED PLEKHA4 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               4                65
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLEKHA4 MUTATED        3      2      3      2
  PLEKHA4 WILD-TYPE     97     70     69    119
D1780V7, multiclass
        clus
vv       PLEKHA4 MUTATED PLEKHA4 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHA4 MUTATED        1      3      4      1      1
  PLEKHA4 WILD-TYPE     58     72     70    118     37
D1780V8, multiclass
        clus
vv       PLEKHA4 MUTATED PLEKHA4 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               3                72
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHA4 MUTATED        2      4      0      2      2
  PLEKHA4 WILD-TYPE     49     72     61     69     93
D1780V9, multiclass
        clus
vv       PLEKHA4 MUTATED PLEKHA4 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               4                72
  CLUS_3               0                61
  CLUS_4               2                69
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHA4 MUTATED        2      2      0      0      2      1      0      1
  PLEKHA4 WILD-TYPE     67     46     39     16     51     19     21     37
                   vv
clus                CLUS_9
  PLEKHA4 MUTATED        2
  PLEKHA4 WILD-TYPE     48
D1780V10, multiclass
        clus
vv       PLEKHA4 MUTATED PLEKHA4 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLEKHA4 MUTATED        1      0      1      0      1      0
  PLEKHA4 WILD-TYPE     12     16     13     11     10      9
D1780V11, multiclass
        clus
vv       PLEKHA4 MUTATED PLEKHA4 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PLEKHA4 MUTATED        0      0      0      1      0      0      1      1
  PLEKHA4 WILD-TYPE     11      7      7      8      8      7     10      8
                   vv
clus                CLUS_9
  PLEKHA4 MUTATED        0
  PLEKHA4 WILD-TYPE      5
D1780V12, multiclass
        clus
vv       PLEKHA4 MUTATED PLEKHA4 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1781) Variable = AHNAK MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AHNAK MUTATED        8      0      1      3      0
  AHNAK WILD-TYPE     24     18     45     24     23
D1781V1, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1             8              24
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             3              24
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AHNAK MUTATED       10      2      0
  AHNAK WILD-TYPE     33     65     36
D1781V2, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1            10              33
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AHNAK MUTATED        2      6     30
  AHNAK WILD-TYPE     40    167    117
D1781V3, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1             2              40
  CLUS_2             6             167
  CLUS_3            30             117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AHNAK MUTATED       12      4      9
  AHNAK WILD-TYPE     50     69     66
D1781V4, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1            12              50
  CLUS_2             4              69
  CLUS_3             9              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AHNAK MUTATED        5     16     16
  AHNAK WILD-TYPE     65    104     84
D1781V5, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1             5              65
  CLUS_2            16             104
  CLUS_3            16              84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AHNAK MUTATED        3      3      3      4      5     12      3      2
  AHNAK WILD-TYPE     38     23     27     25     34     57     17     12
                 vv
clus              CLUS_9
  AHNAK MUTATED        2
  AHNAK WILD-TYPE     20
D1781V6, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1             3              38
  CLUS_2             3              23
  CLUS_3             3              27
  CLUS_4             4              25
  CLUS_5             5              34
  CLUS_6            12              57
  CLUS_7             3              17
  CLUS_8             2              12
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHNAK MUTATED        5     12      8     14
  AHNAK WILD-TYPE     95     60     64    107
D1781V7, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1             5              95
  CLUS_2            12              60
  CLUS_3             8              64
  CLUS_4            14             107
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AHNAK MUTATED        1      6     16      5     11
  AHNAK WILD-TYPE     58     69     58    114     27
D1781V8, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1             1              58
  CLUS_2             6              69
  CLUS_3            16              58
  CLUS_4             5             114
  CLUS_5            11              27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AHNAK MUTATED        3     12      6      2     14
  AHNAK WILD-TYPE     48     64     55     69     81
D1781V9, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1             3              48
  CLUS_2            12              64
  CLUS_3             6              55
  CLUS_4             2              69
  CLUS_5            14              81
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AHNAK MUTATED        5      7      2      5      1      4      2      9
  AHNAK WILD-TYPE     64     41     37     11     52     16     19     29
                 vv
clus              CLUS_9
  AHNAK MUTATED        2
  AHNAK WILD-TYPE     48
D1781V10, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1             5              64
  CLUS_2             7              41
  CLUS_3             2              37
  CLUS_4             5              11
  CLUS_5             1              52
  CLUS_6             4              16
  CLUS_7             2              19
  CLUS_8             9              29
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AHNAK MUTATED        1      1      1      0      4      1
  AHNAK WILD-TYPE     12     15     13     11      7      8
D1781V11, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             4               7
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AHNAK MUTATED        0      0      0      3      2      1      1      1
  AHNAK WILD-TYPE     11      7      7      6      6      6     10      8
                 vv
clus              CLUS_9
  AHNAK MUTATED        0
  AHNAK WILD-TYPE      5
D1781V12, multiclass
        clus
vv       AHNAK MUTATED AHNAK WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             3               6
  CLUS_5             2               6
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1782) Variable = TRIM25 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM25 MUTATED        1      0      0      0      0
  TRIM25 WILD-TYPE     31     18     46     27     23
D1782V1, multiclass
[1] "Remove cluster labels:" "TRIM25 MUTATED"        
clus
  TRIM25 MUTATED TRIM25 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AY-4071 
"TRIM25 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM25 MUTATED        1      0      0
  TRIM25 WILD-TYPE     42     67     36
D1782V2, multiclass
[1] "Remove cluster labels:" "TRIM25 MUTATED"        
clus
  TRIM25 MUTATED TRIM25 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AY-4071 
"TRIM25 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM25 MUTATED        0      0      4
  TRIM25 WILD-TYPE     42    173    143
D1782V3, multiclass
        clus
vv       TRIM25 MUTATED TRIM25 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM25 MUTATED        0      2      1
  TRIM25 WILD-TYPE     62     71     74
D1782V4, multiclass
        clus
vv       TRIM25 MUTATED TRIM25 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              2               71
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM25 MUTATED        1      2      1
  TRIM25 WILD-TYPE     69    118     99
D1782V5, multiclass
        clus
vv       TRIM25 MUTATED TRIM25 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM25 MUTATED        0      0      0      0      2      2      0      0
  TRIM25 WILD-TYPE     41     26     30     29     37     67     20     14
                  vv
clus               CLUS_9
  TRIM25 MUTATED        0
  TRIM25 WILD-TYPE     22
D1782V6, multiclass
        clus
vv       TRIM25 MUTATED TRIM25 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM25 MUTATED        2      1      0      1
  TRIM25 WILD-TYPE     98     71     72    120
D1782V7, multiclass
        clus
vv       TRIM25 MUTATED TRIM25 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              1               71
  CLUS_3              0               72
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM25 MUTATED        1      1      1      0      1
  TRIM25 WILD-TYPE     58     74     73    119     37
D1782V8, multiclass
        clus
vv       TRIM25 MUTATED TRIM25 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM25 MUTATED        0      1      0      1      2
  TRIM25 WILD-TYPE     51     75     61     70     93
D1782V9, multiclass
        clus
vv       TRIM25 MUTATED TRIM25 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              1               75
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM25 MUTATED        2      0      0      0      0      0      0      2
  TRIM25 WILD-TYPE     67     48     39     16     53     20     21     36
                  vv
clus               CLUS_9
  TRIM25 MUTATED        0
  TRIM25 WILD-TYPE     50
D1782V10, multiclass
        clus
vv       TRIM25 MUTATED TRIM25 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM25 MUTATED        0      0      0      1      0      0
  TRIM25 WILD-TYPE     13     16     14     10     11      9
D1782V11, multiclass
[1] "Remove cluster labels:" "TRIM25 MUTATED"        
clus
  TRIM25 MUTATED TRIM25 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6679 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-G4-6628 
"TRIM25 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TRIM25 MUTATED        0      0      0      0      0      0      1      0
  TRIM25 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  TRIM25 MUTATED        0
  TRIM25 WILD-TYPE      5
D1782V12, multiclass
[1] "Remove cluster labels:" "TRIM25 MUTATED"        
clus
  TRIM25 MUTATED TRIM25 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6679 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" "TRIM25 WILD-TYPE" 
      TCGA-G4-6628 
"TRIM25 WILD-TYPE" 

Clustering(1783) Variable = STK10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK10 MUTATED        2      0      0      0      0
  STK10 WILD-TYPE     30     18     46     27     23
D1783V1, multiclass
[1] "Remove cluster labels:" "STK10 MUTATED"         
clus
  STK10 MUTATED STK10 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK10 MUTATED        2      0      0
  STK10 WILD-TYPE     41     67     36
D1783V2, multiclass
[1] "Remove cluster labels:" "STK10 MUTATED"         
clus
  STK10 MUTATED STK10 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979      TCGA-AA-3980 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK10 MUTATED        1      2     11
  STK10 WILD-TYPE     41    171    136
D1783V3, multiclass
        clus
vv       STK10 MUTATED STK10 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK10 MUTATED        4      0      7
  STK10 WILD-TYPE     58     73     68
D1783V4, multiclass
        clus
vv       STK10 MUTATED STK10 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK10 MUTATED        1      5      5
  STK10 WILD-TYPE     69    115     95
D1783V5, multiclass
        clus
vv       STK10 MUTATED STK10 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK10 MUTATED        0      2      1      0      2      5      1      0
  STK10 WILD-TYPE     41     24     29     29     37     64     19     14
                 vv
clus              CLUS_9
  STK10 MUTATED        0
  STK10 WILD-TYPE     22
D1783V6, multiclass
        clus
vv       STK10 MUTATED STK10 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2              24
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK10 MUTATED        1      9      2      2
  STK10 WILD-TYPE     99     63     70    119
D1783V7, multiclass
        clus
vv       STK10 MUTATED STK10 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             9              63
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK10 MUTATED        2      1      9      1      1
  STK10 WILD-TYPE     57     74     65    118     37
D1783V8, multiclass
        clus
vv       STK10 MUTATED STK10 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             9              65
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK10 MUTATED        2      9      0      0      3
  STK10 WILD-TYPE     49     67     61     71     92
D1783V9, multiclass
        clus
vv       STK10 MUTATED STK10 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             9              67
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK10 MUTATED        5      2      0      3      1      0      1      1
  STK10 WILD-TYPE     64     46     39     13     52     20     20     37
                 vv
clus              CLUS_9
  STK10 MUTATED        1
  STK10 WILD-TYPE     49
D1783V10, multiclass
        clus
vv       STK10 MUTATED STK10 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK10 MUTATED        0      0      1      0      1      0
  STK10 WILD-TYPE     13     16     13     11     10      9
D1783V11, multiclass
[1] "Remove cluster labels:" "STK10 MUTATED"         
clus
  STK10 MUTATED STK10 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK10 MUTATED        0      0      0      1      0      0      1      0
  STK10 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  STK10 MUTATED        0
  STK10 WILD-TYPE      5
D1783V12, multiclass
[1] "Remove cluster labels:" "STK10 MUTATED"         
clus
  STK10 MUTATED STK10 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" "STK10 WILD-TYPE" 

Clustering(1784) Variable = TLR9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TLR9 MUTATED        2      0      1      2      0
  TLR9 WILD-TYPE     30     18     45     25     23
D1784V1, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TLR9 MUTATED        2      2      1
  TLR9 WILD-TYPE     41     65     35
D1784V2, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TLR9 MUTATED        1      0     10
  TLR9 WILD-TYPE     41    173    137
D1784V3, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0            173
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TLR9 MUTATED        4      0      2
  TLR9 WILD-TYPE     58     73     73
D1784V4, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TLR9 MUTATED        2      1      5
  TLR9 WILD-TYPE     68    119     95
D1784V5, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            1            119
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TLR9 MUTATED        0      0      1      0      2      4      1      0      0
  TLR9 WILD-TYPE     41     26     29     29     37     65     19     14     22
D1784V6, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            2             37
  CLUS_6            4             65
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TLR9 MUTATED        0      1      5      5
  TLR9 WILD-TYPE    100     71     67    116
D1784V7, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            1             71
  CLUS_3            5             67
  CLUS_4            5            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TLR9 MUTATED        0      1      5      3      2
  TLR9 WILD-TYPE     59     74     69    116     36
D1784V8, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            3            116
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TLR9 MUTATED        0      4      2      1      4
  TLR9 WILD-TYPE     51     72     59     70     91
D1784V9, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            4             72
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TLR9 MUTATED        2      3      0      1      1      2      0      1      1
  TLR9 WILD-TYPE     67     45     39     15     52     18     21     37     49
D1784V10, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TLR9 MUTATED        0      0      1      0      2      0
  TLR9 WILD-TYPE     13     16     13     11      9      9
D1784V11, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TLR9 MUTATED        0      0      0      0      1      2      0      0      0
  TLR9 WILD-TYPE     11      7      7      9      7      5     11      9      5
D1784V12, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            2              5
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1785) Variable = VWA3A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VWA3A MUTATED        3      0      0      1      1
  VWA3A WILD-TYPE     29     18     46     26     22
D1785V1, multiclass
        clus
vv       VWA3A MUTATED VWA3A WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VWA3A MUTATED        3      0      2
  VWA3A WILD-TYPE     40     67     34
D1785V2, multiclass
        clus
vv       VWA3A MUTATED VWA3A WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VWA3A MUTATED        0      2      9
  VWA3A WILD-TYPE     42    171    138
D1785V3, multiclass
        clus
vv       VWA3A MUTATED VWA3A WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VWA3A MUTATED        5      1      0
  VWA3A WILD-TYPE     57     72     75
D1785V4, multiclass
        clus
vv       VWA3A MUTATED VWA3A WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VWA3A MUTATED        1      1      6
  VWA3A WILD-TYPE     69    119     94
D1785V5, multiclass
        clus
vv       VWA3A MUTATED VWA3A WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VWA3A MUTATED        1      1      0      0      0      5      0      0
  VWA3A WILD-TYPE     40     25     30     29     39     64     20     14
                 vv
clus              CLUS_9
  VWA3A MUTATED        1
  VWA3A WILD-TYPE     21
D1785V6, multiclass
        clus
vv       VWA3A MUTATED VWA3A WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VWA3A MUTATED        1      2      2      6
  VWA3A WILD-TYPE     99     70     70    115
D1785V7, multiclass
        clus
vv       VWA3A MUTATED VWA3A WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VWA3A MUTATED        1      0      4      3      3
  VWA3A WILD-TYPE     58     75     70    116     35
D1785V8, multiclass
        clus
vv       VWA3A MUTATED VWA3A WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             3             116
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VWA3A MUTATED        0      4      2      2      2
  VWA3A WILD-TYPE     51     72     59     69     93
D1785V9, multiclass
        clus
vv       VWA3A MUTATED VWA3A WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VWA3A MUTATED        4      1      0      0      1      0      1      1
  VWA3A WILD-TYPE     65     47     39     16     52     20     20     37
                 vv
clus              CLUS_9
  VWA3A MUTATED        2
  VWA3A WILD-TYPE     48
D1785V10, multiclass
        clus
vv       VWA3A MUTATED VWA3A WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VWA3A MUTATED        0      0      1      0      1      0
  VWA3A WILD-TYPE     13     16     13     11     10      9
D1785V11, multiclass
[1] "Remove cluster labels:" "VWA3A MUTATED"         
clus
  VWA3A MUTATED VWA3A WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VWA3A MUTATED        0      0      0      0      0      1      1      0
  VWA3A WILD-TYPE     11      7      7      9      8      6     10      9
                 vv
clus              CLUS_9
  VWA3A MUTATED        0
  VWA3A WILD-TYPE      5
D1785V12, multiclass
[1] "Remove cluster labels:" "VWA3A MUTATED"         
clus
  VWA3A MUTATED VWA3A WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" "VWA3A WILD-TYPE" 

Clustering(1786) Variable = S1PR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  S1PR1 MUTATED        3      0      0      0      1
  S1PR1 WILD-TYPE     29     18     46     27     22
D1786V1, multiclass
        clus
vv       S1PR1 MUTATED S1PR1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  S1PR1 MUTATED        3      0      1
  S1PR1 WILD-TYPE     40     67     35
D1786V2, multiclass
        clus
vv       S1PR1 MUTATED S1PR1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  S1PR1 MUTATED        2      3      6
  S1PR1 WILD-TYPE     40    170    141
D1786V3, multiclass
        clus
vv       S1PR1 MUTATED S1PR1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  S1PR1 MUTATED        2      2      3
  S1PR1 WILD-TYPE     60     71     72
D1786V4, multiclass
        clus
vv       S1PR1 MUTATED S1PR1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  S1PR1 MUTATED        3      1      4
  S1PR1 WILD-TYPE     67    119     96
D1786V5, multiclass
        clus
vv       S1PR1 MUTATED S1PR1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  S1PR1 MUTATED        0      1      0      0      2      2      1      1
  S1PR1 WILD-TYPE     41     25     30     29     37     67     19     13
                 vv
clus              CLUS_9
  S1PR1 MUTATED        1
  S1PR1 WILD-TYPE     21
D1786V6, multiclass
        clus
vv       S1PR1 MUTATED S1PR1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  S1PR1 MUTATED        4      1      2      4
  S1PR1 WILD-TYPE     96     71     70    117
D1786V7, multiclass
        clus
vv       S1PR1 MUTATED S1PR1 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             1              71
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  S1PR1 MUTATED        1      3      3      1      3
  S1PR1 WILD-TYPE     58     72     71    118     35
D1786V8, multiclass
        clus
vv       S1PR1 MUTATED S1PR1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  S1PR1 MUTATED        1      2      2      5      1
  S1PR1 WILD-TYPE     50     74     59     66     94
D1786V9, multiclass
        clus
vv       S1PR1 MUTATED S1PR1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             5              66
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  S1PR1 MUTATED        1      2      1      0      2      1      0      2
  S1PR1 WILD-TYPE     68     46     38     16     51     19     21     36
                 vv
clus              CLUS_9
  S1PR1 MUTATED        2
  S1PR1 WILD-TYPE     48
D1786V10, multiclass
        clus
vv       S1PR1 MUTATED S1PR1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  S1PR1 MUTATED        0      0      1      0      0      0
  S1PR1 WILD-TYPE     13     16     13     11     11      9
D1786V11, multiclass
[1] "Remove cluster labels:" "S1PR1 MUTATED"         
clus
  S1PR1 MUTATED S1PR1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-G4-6628 
"S1PR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  S1PR1 MUTATED        0      0      0      0      0      0      0      0
  S1PR1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  S1PR1 MUTATED        1
  S1PR1 WILD-TYPE      4
D1786V12, multiclass
[1] "Remove cluster labels:" "S1PR1 MUTATED"         
clus
  S1PR1 MUTATED S1PR1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" "S1PR1 WILD-TYPE" 
     TCGA-G4-6628 
"S1PR1 WILD-TYPE" 

Clustering(1787) Variable = RAPGEF2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAPGEF2 MUTATED        4      0      0      2      0
  RAPGEF2 WILD-TYPE     28     18     46     25     23
D1787V1, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAPGEF2 MUTATED        4      1      1
  RAPGEF2 WILD-TYPE     39     66     35
D1787V2, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               4                39
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAPGEF2 MUTATED        0      0     21
  RAPGEF2 WILD-TYPE     42    173    126
D1787V3, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3              21               126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAPGEF2 MUTATED        5      1      8
  RAPGEF2 WILD-TYPE     57     72     67
D1787V4, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               1                72
  CLUS_3               8                67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RAPGEF2 MUTATED        4      3      9
  RAPGEF2 WILD-TYPE     66    117     91
D1787V5, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               4                66
  CLUS_2               3               117
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAPGEF2 MUTATED        2      1      1      1      2      8      0      1
  RAPGEF2 WILD-TYPE     39     25     29     28     37     61     20     13
                   vv
clus                CLUS_9
  RAPGEF2 MUTATED        0
  RAPGEF2 WILD-TYPE     22
D1787V6, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               8                61
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAPGEF2 MUTATED        0      8      7      6
  RAPGEF2 WILD-TYPE    100     64     65    115
D1787V7, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               8                64
  CLUS_3               7                65
  CLUS_4               6               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAPGEF2 MUTATED        1      2     12      2      4
  RAPGEF2 WILD-TYPE     58     73     62    117     34
D1787V8, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3              12                62
  CLUS_4               2               117
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAPGEF2 MUTATED        0      9      4      3      5
  RAPGEF2 WILD-TYPE     51     67     57     68     90
D1787V9, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               9                67
  CLUS_3               4                57
  CLUS_4               3                68
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAPGEF2 MUTATED        5      5      0      2      1      2      2      3
  RAPGEF2 WILD-TYPE     64     43     39     14     52     18     19     35
                   vv
clus                CLUS_9
  RAPGEF2 MUTATED        1
  RAPGEF2 WILD-TYPE     49
D1787V10, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               5                64
  CLUS_2               5                43
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               2                18
  CLUS_7               2                19
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAPGEF2 MUTATED        0      1      2      0      3      0
  RAPGEF2 WILD-TYPE     13     15     12     11      8      9
D1787V11, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               2                12
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RAPGEF2 MUTATED        0      0      0      0      1      1      3      0
  RAPGEF2 WILD-TYPE     11      7      7      9      7      6      8      9
                   vv
clus                CLUS_9
  RAPGEF2 MUTATED        1
  RAPGEF2 WILD-TYPE      4
D1787V12, multiclass
        clus
vv       RAPGEF2 MUTATED RAPGEF2 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               1                 7
  CLUS_6               1                 6
  CLUS_7               3                 8
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1788) Variable = SFRS2IP MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS2IP MUTATED        4      0      2      1      0
  SFRS2IP WILD-TYPE     28     18     44     26     23
D1788V1, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               4                28
  CLUS_2               0                18
  CLUS_3               2                44
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SFRS2IP MUTATED        3      3      1
  SFRS2IP WILD-TYPE     40     64     35
D1788V2, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               3                40
  CLUS_2               3                64
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SFRS2IP MUTATED        1      5     20
  SFRS2IP WILD-TYPE     41    168    127
D1788V3, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               1                41
  CLUS_2               5               168
  CLUS_3              20               127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SFRS2IP MUTATED        8      4      6
  SFRS2IP WILD-TYPE     54     69     69
D1788V4, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               8                54
  CLUS_2               4                69
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SFRS2IP MUTATED        5      7      9
  SFRS2IP WILD-TYPE     65    113     91
D1788V5, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               5                65
  CLUS_2               7               113
  CLUS_3               9                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS2IP MUTATED        3      2      2      2      2      6      3      1
  SFRS2IP WILD-TYPE     38     24     28     27     37     63     17     13
                   vv
clus                CLUS_9
  SFRS2IP MUTATED        0
  SFRS2IP WILD-TYPE     22
D1788V6, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               3                38
  CLUS_2               2                24
  CLUS_3               2                28
  CLUS_4               2                27
  CLUS_5               2                37
  CLUS_6               6                63
  CLUS_7               3                17
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SFRS2IP MUTATED        4      9      6      7
  SFRS2IP WILD-TYPE     96     63     66    114
D1788V7, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               4                96
  CLUS_2               9                63
  CLUS_3               6                66
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS2IP MUTATED        4      3     11      6      2
  SFRS2IP WILD-TYPE     55     72     63    113     36
D1788V8, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               4                55
  CLUS_2               3                72
  CLUS_3              11                63
  CLUS_4               6               113
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRS2IP MUTATED        1     11      4      2      7
  SFRS2IP WILD-TYPE     50     65     57     69     88
D1788V9, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               1                50
  CLUS_2              11                65
  CLUS_3               4                57
  CLUS_4               2                69
  CLUS_5               7                88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS2IP MUTATED        3      4      2      4      3      3      2      1
  SFRS2IP WILD-TYPE     66     44     37     12     50     17     19     37
                   vv
clus                CLUS_9
  SFRS2IP MUTATED        3
  SFRS2IP WILD-TYPE     47
D1788V10, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               3                66
  CLUS_2               4                44
  CLUS_3               2                37
  CLUS_4               4                12
  CLUS_5               3                50
  CLUS_6               3                17
  CLUS_7               2                19
  CLUS_8               1                37
  CLUS_9               3                47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SFRS2IP MUTATED        0      1      1      0      2      1
  SFRS2IP WILD-TYPE     13     15     13     11      9      8
D1788V11, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               0                13
  CLUS_2               1                15
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFRS2IP MUTATED        1      0      0      2      0      0      2      0
  SFRS2IP WILD-TYPE     10      7      7      7      8      7      9      9
                   vv
clus                CLUS_9
  SFRS2IP MUTATED        0
  SFRS2IP WILD-TYPE      5
D1788V12, multiclass
        clus
vv       SFRS2IP MUTATED SFRS2IP WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1789) Variable = LUZP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LUZP1 MUTATED        0      1      1      2      0
  LUZP1 WILD-TYPE     32     17     45     25     23
D1789V1, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             0              32
  CLUS_2             1              17
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LUZP1 MUTATED        1      3      0
  LUZP1 WILD-TYPE     42     64     36
D1789V2, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             3              64
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LUZP1 MUTATED        1      2     12
  LUZP1 WILD-TYPE     41    171    135
D1789V3, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             171
  CLUS_3            12             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LUZP1 MUTATED        4      0      6
  LUZP1 WILD-TYPE     58     73     69
D1789V4, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LUZP1 MUTATED        3      7      5
  LUZP1 WILD-TYPE     67    113     95
D1789V5, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             7             113
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LUZP1 MUTATED        1      3      2      2      1      5      1      0
  LUZP1 WILD-TYPE     40     23     28     27     38     64     19     14
                 vv
clus              CLUS_9
  LUZP1 MUTATED        0
  LUZP1 WILD-TYPE     22
D1789V6, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             3              23
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LUZP1 MUTATED        1      6      3      5
  LUZP1 WILD-TYPE     99     66     69    116
D1789V7, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             6              66
  CLUS_3             3              69
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LUZP1 MUTATED        0      3      7      4      1
  LUZP1 WILD-TYPE     59     72     67    115     37
D1789V8, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             7              67
  CLUS_4             4             115
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LUZP1 MUTATED        1      6      0      1      7
  LUZP1 WILD-TYPE     50     70     61     70     88
D1789V9, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LUZP1 MUTATED        2      2      2      1      1      2      1      1
  LUZP1 WILD-TYPE     67     46     37     15     52     18     20     37
                 vv
clus              CLUS_9
  LUZP1 MUTATED        3
  LUZP1 WILD-TYPE     47
D1789V10, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             2              37
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LUZP1 MUTATED        0      0      1      0      2      0
  LUZP1 WILD-TYPE     13     16     13     11      9      9
D1789V11, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LUZP1 MUTATED        0      0      0      1      0      1      1      0
  LUZP1 WILD-TYPE     11      7      7      8      8      6     10      9
                 vv
clus              CLUS_9
  LUZP1 MUTATED        0
  LUZP1 WILD-TYPE      5
D1789V12, multiclass
        clus
vv       LUZP1 MUTATED LUZP1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1790) Variable = NDUFB2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDUFB2 MUTATED        1      0      0      0      0
  NDUFB2 WILD-TYPE     31     18     46     27     23
D1790V1, multiclass
[1] "Remove cluster labels:" "NDUFB2 MUTATED"        
clus
  NDUFB2 MUTATED NDUFB2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3846 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AY-4071 
"NDUFB2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NDUFB2 MUTATED        1      0      0
  NDUFB2 WILD-TYPE     42     67     36
D1790V2, multiclass
[1] "Remove cluster labels:" "NDUFB2 MUTATED"        
clus
  NDUFB2 MUTATED NDUFB2 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3846 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AY-4071 
"NDUFB2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NDUFB2 MUTATED        1      0      2
  NDUFB2 WILD-TYPE     41    173    145
D1790V3, multiclass
        clus
vv       NDUFB2 MUTATED NDUFB2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0              173
  CLUS_3              2              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NDUFB2 MUTATED        0      1      1
  NDUFB2 WILD-TYPE     62     72     74
D1790V4, multiclass
[1] "Remove cluster labels:" "NDUFB2 MUTATED"        
clus
  NDUFB2 MUTATED NDUFB2 WILD-TYPE 
               2              208 
      TCGA-A6-2671       TCGA-A6-2677       TCGA-A6-3809       TCGA-A6-3810 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-4105       TCGA-A6-5656       TCGA-A6-5657       TCGA-A6-5659 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662       TCGA-A6-5664 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137       TCGA-A6-6138 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648       TCGA-A6-6649 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653       TCGA-A6-6654 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502       TCGA-AA-3510 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AA-3655       TCGA-AA-3660       TCGA-AA-3662 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3663       TCGA-AA-3697       TCGA-AA-3712       TCGA-AA-3713 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6888       TCGA-AD-6889 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AD-6890       TCGA-AD-6895       TCGA-AD-6899       TCGA-AD-6901 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AU-3779 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AU-6004       TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AY-6386       TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AZ-4681       TCGA-AZ-4682       TCGA-AZ-5403       TCGA-AZ-5407 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AZ-6599       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6606       TCGA-AZ-6607       TCGA-AZ-6608 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796       TCGA-CA-5797 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6717       TCGA-CA-6718 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CA-6719       TCGA-CK-4947       TCGA-CK-4948       TCGA-CK-4950 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CK-4952       TCGA-CK-5912       TCGA-CK-5913       TCGA-CK-5914 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CK-5915       TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-4746       TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-5344       TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-5861       TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-5868       TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-6164       TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-6168       TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-6172       TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-5538       TCGA-D5-5539       TCGA-D5-5540 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-D5-5541       TCGA-D5-6529       TCGA-D5-6532       TCGA-D5-6533 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6535       TCGA-D5-6536       TCGA-D5-6538 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-D5-6539       TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-D5-6920       TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-D5-6926       TCGA-D5-6927       TCGA-D5-6928       TCGA-D5-6929 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932       TCGA-D5-7000 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A1D4       TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A1HB       TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28C 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A28E       TCGA-DM-A28F       TCGA-DM-A28G       TCGA-DM-A28H 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A28K       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NDUFB2 MUTATED        0      2      1
  NDUFB2 WILD-TYPE     70    118     99
D1790V5, multiclass
        clus
vv       NDUFB2 MUTATED NDUFB2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDUFB2 MUTATED        0      0      0      1      1      1      0      0
  NDUFB2 WILD-TYPE     41     26     30     28     38     68     20     14
                  vv
clus               CLUS_9
  NDUFB2 MUTATED        0
  NDUFB2 WILD-TYPE     22
D1790V6, multiclass
        clus
vv       NDUFB2 MUTATED NDUFB2 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              1               38
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NDUFB2 MUTATED        1      1      0      1
  NDUFB2 WILD-TYPE     99     71     72    120
D1790V7, multiclass
        clus
vv       NDUFB2 MUTATED NDUFB2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              1               71
  CLUS_3              0               72
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDUFB2 MUTATED        0      1      1      0      1
  NDUFB2 WILD-TYPE     59     74     73    119     37
D1790V8, multiclass
        clus
vv       NDUFB2 MUTATED NDUFB2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              1               74
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDUFB2 MUTATED        0      2      0      0      1
  NDUFB2 WILD-TYPE     51     74     61     71     94
D1790V9, multiclass
        clus
vv       NDUFB2 MUTATED NDUFB2 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDUFB2 MUTATED        1      0      0      1      1      0      0      0
  NDUFB2 WILD-TYPE     68     48     39     15     52     20     21     38
                  vv
clus               CLUS_9
  NDUFB2 MUTATED        0
  NDUFB2 WILD-TYPE     50
D1790V10, multiclass
        clus
vv       NDUFB2 MUTATED NDUFB2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NDUFB2 MUTATED        0      0      0      0      1      0
  NDUFB2 WILD-TYPE     13     16     14     11     10      9
D1790V11, multiclass
[1] "Remove cluster labels:" "NDUFB2 MUTATED"        
clus
  NDUFB2 MUTATED NDUFB2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-G4-6628 
"NDUFB2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDUFB2 MUTATED        0      0      0      1      0      0      0      0
  NDUFB2 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  NDUFB2 MUTATED        0
  NDUFB2 WILD-TYPE      5
D1790V12, multiclass
[1] "Remove cluster labels:" "NDUFB2 MUTATED"        
clus
  NDUFB2 MUTATED NDUFB2 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" "NDUFB2 WILD-TYPE" 
      TCGA-G4-6628 
"NDUFB2 WILD-TYPE" 

Clustering(1791) Variable = LRRFIP1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRFIP1 MUTATED        1      0      1      2      0
  LRRFIP1 WILD-TYPE     31     18     45     25     23
D1791V1, multiclass
        clus
vv       LRRFIP1 MUTATED LRRFIP1 WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRFIP1 MUTATED        2      2      0
  LRRFIP1 WILD-TYPE     41     65     36
D1791V2, multiclass
        clus
vv       LRRFIP1 MUTATED LRRFIP1 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRFIP1 MUTATED        0      3      9
  LRRFIP1 WILD-TYPE     42    170    138
D1791V3, multiclass
        clus
vv       LRRFIP1 MUTATED LRRFIP1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRFIP1 MUTATED        3      0      5
  LRRFIP1 WILD-TYPE     59     73     70
D1791V4, multiclass
        clus
vv       LRRFIP1 MUTATED LRRFIP1 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRFIP1 MUTATED        1      3      6
  LRRFIP1 WILD-TYPE     69    117     94
D1791V5, multiclass
        clus
vv       LRRFIP1 MUTATED LRRFIP1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRFIP1 MUTATED        0      0      1      2      1      5      0      0
  LRRFIP1 WILD-TYPE     41     26     29     27     38     64     20     14
                   vv
clus                CLUS_9
  LRRFIP1 MUTATED        1
  LRRFIP1 WILD-TYPE     21
D1791V6, multiclass
        clus
vv       LRRFIP1 MUTATED LRRFIP1 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRRFIP1 MUTATED        2      4      2      4
  LRRFIP1 WILD-TYPE     98     68     70    117
D1791V7, multiclass
        clus
vv       LRRFIP1 MUTATED LRRFIP1 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               4                68
  CLUS_3               2                70
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRFIP1 MUTATED        2      2      4      2      2
  LRRFIP1 WILD-TYPE     57     73     70    117     36
D1791V8, multiclass
        clus
vv       LRRFIP1 MUTATED LRRFIP1 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               4                70
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRFIP1 MUTATED        1      5      1      0      4
  LRRFIP1 WILD-TYPE     50     71     60     71     91
D1791V9, multiclass
        clus
vv       LRRFIP1 MUTATED LRRFIP1 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               5                71
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRFIP1 MUTATED        2      2      1      1      2      1      0      1
  LRRFIP1 WILD-TYPE     67     46     38     15     51     19     21     37
                   vv
clus                CLUS_9
  LRRFIP1 MUTATED        1
  LRRFIP1 WILD-TYPE     49
D1791V10, multiclass
        clus
vv       LRRFIP1 MUTATED LRRFIP1 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LRRFIP1 MUTATED        0      0      0      0      2      0
  LRRFIP1 WILD-TYPE     13     16     14     11      9      9
D1791V11, multiclass
[1] "Remove cluster labels:" "LRRFIP1 MUTATED"       
clus
  LRRFIP1 MUTATED LRRFIP1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6654 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-6748 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LRRFIP1 MUTATED        0      0      0      1      0      0      1      0
  LRRFIP1 WILD-TYPE     11      7      7      8      8      7     10      9
                   vv
clus                CLUS_9
  LRRFIP1 MUTATED        0
  LRRFIP1 WILD-TYPE      5
D1791V12, multiclass
[1] "Remove cluster labels:" "LRRFIP1 MUTATED"       
clus
  LRRFIP1 MUTATED LRRFIP1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6654 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-6748 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" "LRRFIP1 WILD-TYPE" 

Clustering(1792) Variable = PTPRN MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRN MUTATED        3      0      0      1      0
  PTPRN WILD-TYPE     29     18     46     26     23
D1792V1, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRN MUTATED        3      1      0
  PTPRN WILD-TYPE     40     66     36
D1792V2, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRN MUTATED        1      0     13
  PTPRN WILD-TYPE     41    173    134
D1792V3, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRN MUTATED        5      0      4
  PTPRN WILD-TYPE     57     73     71
D1792V4, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRN MUTATED        1      7      4
  PTPRN WILD-TYPE     69    113     96
D1792V5, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             1              69
  CLUS_2             7             113
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRN MUTATED        1      2      2      2      0      3      1      0
  PTPRN WILD-TYPE     40     24     28     27     39     66     19     14
                 vv
clus              CLUS_9
  PTPRN MUTATED        1
  PTPRN WILD-TYPE     21
D1792V6, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             1              40
  CLUS_2             2              24
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRN MUTATED        0      5      3      6
  PTPRN WILD-TYPE    100     67     69    115
D1792V7, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             0             100
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRN MUTATED        1      1      6      2      4
  PTPRN WILD-TYPE     58     74     68    117     34
D1792V8, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRN MUTATED        0      6      1      1      6
  PTPRN WILD-TYPE     51     70     60     70     89
D1792V9, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRN MUTATED        2      1      0      4      0      1      0      4
  PTPRN WILD-TYPE     67     47     39     12     53     19     21     34
                 vv
clus              CLUS_9
  PTPRN MUTATED        2
  PTPRN WILD-TYPE     48
D1792V10, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPRN MUTATED        0      0      1      0      3      0
  PTPRN WILD-TYPE     13     16     13     11      8      9
D1792V11, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTPRN MUTATED        0      0      0      1      1      1      1      0
  PTPRN WILD-TYPE     11      7      7      8      7      6     10      9
                 vv
clus              CLUS_9
  PTPRN MUTATED        0
  PTPRN WILD-TYPE      5
D1792V12, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1793) Variable = AVPR1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AVPR1A MUTATED        1      0      0      1      0
  AVPR1A WILD-TYPE     31     18     46     26     23
D1793V1, multiclass
[1] "Remove cluster labels:" "AVPR1A MUTATED"        
clus
  AVPR1A MUTATED AVPR1A WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AVPR1A MUTATED        1      1      0
  AVPR1A WILD-TYPE     42     66     36
D1793V2, multiclass
[1] "Remove cluster labels:" "AVPR1A MUTATED"        
clus
  AVPR1A MUTATED AVPR1A WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3811       TCGA-AA-3812 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AVPR1A MUTATED        0      0     11
  AVPR1A WILD-TYPE     42    173    136
D1793V3, multiclass
        clus
vv       AVPR1A MUTATED AVPR1A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AVPR1A MUTATED        4      0      4
  AVPR1A WILD-TYPE     58     73     71
D1793V4, multiclass
        clus
vv       AVPR1A MUTATED AVPR1A WILD-TYPE
  CLUS_1              4               58
  CLUS_2              0               73
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AVPR1A MUTATED        2      3      5
  AVPR1A WILD-TYPE     68    117     95
D1793V5, multiclass
        clus
vv       AVPR1A MUTATED AVPR1A WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              117
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AVPR1A MUTATED        1      0      2      1      2      3      1      0
  AVPR1A WILD-TYPE     40     26     28     28     37     66     19     14
                  vv
clus               CLUS_9
  AVPR1A MUTATED        0
  AVPR1A WILD-TYPE     22
D1793V6, multiclass
        clus
vv       AVPR1A MUTATED AVPR1A WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AVPR1A MUTATED        0      4      4      3
  AVPR1A WILD-TYPE    100     68     68    118
D1793V7, multiclass
        clus
vv       AVPR1A MUTATED AVPR1A WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               68
  CLUS_3              4               68
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AVPR1A MUTATED        1      1      6      1      2
  AVPR1A WILD-TYPE     58     74     68    118     36
D1793V8, multiclass
        clus
vv       AVPR1A MUTATED AVPR1A WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AVPR1A MUTATED        0      7      1      0      3
  AVPR1A WILD-TYPE     51     69     60     71     92
D1793V9, multiclass
        clus
vv       AVPR1A MUTATED AVPR1A WILD-TYPE
  CLUS_1              0               51
  CLUS_2              7               69
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AVPR1A MUTATED        3      3      0      1      1      1      0      2
  AVPR1A WILD-TYPE     66     45     39     15     52     19     21     36
                  vv
clus               CLUS_9
  AVPR1A MUTATED        0
  AVPR1A WILD-TYPE     50
D1793V10, multiclass
        clus
vv       AVPR1A MUTATED AVPR1A WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               45
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AVPR1A MUTATED        0      0      1      0      0      0
  AVPR1A WILD-TYPE     13     16     13     11     11      9
D1793V11, multiclass
[1] "Remove cluster labels:" "AVPR1A MUTATED"        
clus
  AVPR1A MUTATED AVPR1A WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-G4-6625 
"AVPR1A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AVPR1A MUTATED        0      0      0      0      0      0      1      0
  AVPR1A WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  AVPR1A MUTATED        0
  AVPR1A WILD-TYPE      5
D1793V12, multiclass
[1] "Remove cluster labels:" "AVPR1A MUTATED"        
clus
  AVPR1A MUTATED AVPR1A WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309 
"AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" "AVPR1A WILD-TYPE" 
      TCGA-G4-6625 
"AVPR1A WILD-TYPE" 

Clustering(1794) Variable = KCNC4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNC4 MUTATED        2      0      0      0      0
  KCNC4 WILD-TYPE     30     18     46     27     23
D1794V1, multiclass
[1] "Remove cluster labels:" "KCNC4 MUTATED"         
clus
  KCNC4 MUTATED KCNC4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3952 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNC4 MUTATED        2      0      0
  KCNC4 WILD-TYPE     41     67     36
D1794V2, multiclass
[1] "Remove cluster labels:" "KCNC4 MUTATED"         
clus
  KCNC4 MUTATED KCNC4 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3952 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" "KCNC4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNC4 MUTATED        0      2      6
  KCNC4 WILD-TYPE     42    171    141
D1794V3, multiclass
        clus
vv       KCNC4 MUTATED KCNC4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNC4 MUTATED        4      0      2
  KCNC4 WILD-TYPE     58     73     73
D1794V4, multiclass
        clus
vv       KCNC4 MUTATED KCNC4 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNC4 MUTATED        1      1      5
  KCNC4 WILD-TYPE     69    119     95
D1794V5, multiclass
        clus
vv       KCNC4 MUTATED KCNC4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNC4 MUTATED        0      0      0      0      0      5      1      1
  KCNC4 WILD-TYPE     41     26     30     29     39     64     19     13
                 vv
clus              CLUS_9
  KCNC4 MUTATED        0
  KCNC4 WILD-TYPE     22
D1794V6, multiclass
        clus
vv       KCNC4 MUTATED KCNC4 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCNC4 MUTATED        1      3      2      2
  KCNC4 WILD-TYPE     99     69     70    119
D1794V7, multiclass
        clus
vv       KCNC4 MUTATED KCNC4 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNC4 MUTATED        2      0      4      0      2
  KCNC4 WILD-TYPE     57     75     70    119     36
D1794V8, multiclass
        clus
vv       KCNC4 MUTATED KCNC4 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNC4 MUTATED        0      4      2      0      2
  KCNC4 WILD-TYPE     51     72     59     71     93
D1794V9, multiclass
        clus
vv       KCNC4 MUTATED KCNC4 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNC4 MUTATED        1      0      1      2      1      2      0      1
  KCNC4 WILD-TYPE     68     48     38     14     52     18     21     37
                 vv
clus              CLUS_9
  KCNC4 MUTATED        0
  KCNC4 WILD-TYPE     50
D1794V10, multiclass
        clus
vv       KCNC4 MUTATED KCNC4 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KCNC4 MUTATED        0      1      0      2      0      0
  KCNC4 WILD-TYPE     13     15     14      9     11      9
D1794V11, multiclass
        clus
vv       KCNC4 MUTATED KCNC4 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             0              14
  CLUS_4             2               9
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNC4 MUTATED        1      0      0      0      0      1      1      0
  KCNC4 WILD-TYPE     10      7      7      9      8      6     10      9
                 vv
clus              CLUS_9
  KCNC4 MUTATED        0
  KCNC4 WILD-TYPE      5
D1794V12, multiclass
        clus
vv       KCNC4 MUTATED KCNC4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1795) Variable = RPAP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPAP2 MUTATED        1      0      0      1      0
  RPAP2 WILD-TYPE     31     18     46     26     23
D1795V1, multiclass
[1] "Remove cluster labels:" "RPAP2 MUTATED"         
clus
  RPAP2 MUTATED RPAP2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RPAP2 MUTATED        1      1      0
  RPAP2 WILD-TYPE     42     66     36
D1795V2, multiclass
[1] "Remove cluster labels:" "RPAP2 MUTATED"         
clus
  RPAP2 MUTATED RPAP2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" "RPAP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RPAP2 MUTATED        0      0      6
  RPAP2 WILD-TYPE     42    173    141
D1795V3, multiclass
        clus
vv       RPAP2 MUTATED RPAP2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RPAP2 MUTATED        1      0      3
  RPAP2 WILD-TYPE     61     73     72
D1795V4, multiclass
        clus
vv       RPAP2 MUTATED RPAP2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RPAP2 MUTATED        0      1      4
  RPAP2 WILD-TYPE     70    119     96
D1795V5, multiclass
        clus
vv       RPAP2 MUTATED RPAP2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPAP2 MUTATED        0      0      1      0      0      4      0      0
  RPAP2 WILD-TYPE     41     26     29     29     39     65     20     14
                 vv
clus              CLUS_9
  RPAP2 MUTATED        0
  RPAP2 WILD-TYPE     22
D1795V6, multiclass
        clus
vv       RPAP2 MUTATED RPAP2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPAP2 MUTATED        0      4      0      2
  RPAP2 WILD-TYPE    100     68     72    119
D1795V7, multiclass
        clus
vv       RPAP2 MUTATED RPAP2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPAP2 MUTATED        0      1      3      2      0
  RPAP2 WILD-TYPE     59     74     71    117     38
D1795V8, multiclass
        clus
vv       RPAP2 MUTATED RPAP2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             2             117
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPAP2 MUTATED        0      3      0      0      3
  RPAP2 WILD-TYPE     51     73     61     71     92
D1795V9, multiclass
        clus
vv       RPAP2 MUTATED RPAP2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPAP2 MUTATED        0      0      0      3      0      1      1      0
  RPAP2 WILD-TYPE     69     48     39     13     53     19     20     38
                 vv
clus              CLUS_9
  RPAP2 MUTATED        1
  RPAP2 WILD-TYPE     49
D1795V10, multiclass
        clus
vv       RPAP2 MUTATED RPAP2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RPAP2 MUTATED        0      0      0      0      0      0
  RPAP2 WILD-TYPE     13     16     14     11     11      9
D1795V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPAP2 MUTATED        0      0      0      0      0      0      0      0
  RPAP2 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  RPAP2 MUTATED        0
  RPAP2 WILD-TYPE      5
D1795V12, multiclass

Clustering(1796) Variable = DDX24 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX24 MUTATED        1      0      0      2      0
  DDX24 WILD-TYPE     31     18     46     25     23
D1796V1, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX24 MUTATED        1      2      0
  DDX24 WILD-TYPE     42     65     36
D1796V2, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX24 MUTATED        2      1     10
  DDX24 WILD-TYPE     40    172    137
D1796V3, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3            10             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX24 MUTATED        5      0      5
  DDX24 WILD-TYPE     57     73     70
D1796V4, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX24 MUTATED        1      5      7
  DDX24 WILD-TYPE     69    115     93
D1796V5, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             115
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX24 MUTATED        1      0      2      1      1      5      3      0
  DDX24 WILD-TYPE     40     26     28     28     38     64     17     14
                 vv
clus              CLUS_9
  DDX24 MUTATED        0
  DDX24 WILD-TYPE     22
D1796V6, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDX24 MUTATED        2      4      5      2
  DDX24 WILD-TYPE     98     68     67    119
D1796V7, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             5              67
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX24 MUTATED        1      1      8      2      1
  DDX24 WILD-TYPE     58     74     66    117     37
D1796V8, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             8              66
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX24 MUTATED        1      8      1      1      1
  DDX24 WILD-TYPE     50     68     60     70     94
D1796V9, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             8              68
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX24 MUTATED        1      3      1      3      2      2      0      0
  DDX24 WILD-TYPE     68     45     38     13     51     18     21     38
                 vv
clus              CLUS_9
  DDX24 MUTATED        0
  DDX24 WILD-TYPE     50
D1796V10, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             3              13
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDX24 MUTATED        0      0      1      0      3      0
  DDX24 WILD-TYPE     13     16     13     11      8      9
D1796V11, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX24 MUTATED        0      0      0      0      1      0      3      0
  DDX24 WILD-TYPE     11      7      7      9      7      7      8      9
                 vv
clus              CLUS_9
  DDX24 MUTATED        0
  DDX24 WILD-TYPE      5
D1796V12, multiclass
        clus
vv       DDX24 MUTATED DDX24 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1797) Variable = CUL1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUL1 MUTATED        6      0      0      1      0
  CUL1 WILD-TYPE     26     18     46     26     23
D1797V1, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            6             26
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            1             26
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL1 MUTATED        6      1      0
  CUL1 WILD-TYPE     37     66     36
D1797V2, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            6             37
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL1 MUTATED        0      2     12
  CUL1 WILD-TYPE     42    171    135
D1797V3, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3           12            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL1 MUTATED        4      0      4
  CUL1 WILD-TYPE     58     73     71
D1797V4, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            0             73
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL1 MUTATED        2      4      6
  CUL1 WILD-TYPE     68    116     94
D1797V5, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4            116
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUL1 MUTATED        1      0      1      1      2      4      3      0      0
  CUL1 WILD-TYPE     40     26     29     28     37     65     17     14     22
D1797V6, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            4             65
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CUL1 MUTATED        1      4      4      6
  CUL1 WILD-TYPE     99     68     68    115
D1797V7, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            4             68
  CLUS_3            4             68
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUL1 MUTATED        2      0      6      1      6
  CUL1 WILD-TYPE     57     75     68    118     32
D1797V8, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            0             75
  CLUS_3            6             68
  CLUS_4            1            118
  CLUS_5            6             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUL1 MUTATED        1      5      2      0      7
  CUL1 WILD-TYPE     50     71     59     71     88
D1797V9, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            7             88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUL1 MUTATED        1      2      0      3      2      1      1      5      0
  CUL1 WILD-TYPE     68     46     39     13     51     19     20     33     50
D1797V10, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            5             33
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CUL1 MUTATED        0      1      0      0      3      0
  CUL1 WILD-TYPE     13     15     14     11      8      9
D1797V11, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            0             14
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CUL1 MUTATED        0      1      0      1      1      0      1      0      0
  CUL1 WILD-TYPE     11      6      7      8      7      7     10      9      5
D1797V12, multiclass
        clus
vv       CUL1 MUTATED CUL1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1798) Variable = FOXF2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOXF2 MUTATED        1      0      0      0      0
  FOXF2 WILD-TYPE     31     18     46     27     23
D1798V1, multiclass
[1] "Remove cluster labels:" "FOXF2 MUTATED"         
clus
  FOXF2 MUTATED FOXF2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AY-4071 
"FOXF2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXF2 MUTATED        0      0      1
  FOXF2 WILD-TYPE     43     67     35
D1798V2, multiclass
[1] "Remove cluster labels:" "FOXF2 MUTATED"         
clus
  FOXF2 MUTATED FOXF2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3986 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AY-4071 
"FOXF2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXF2 MUTATED        1      0      3
  FOXF2 WILD-TYPE     41    173    144
D1798V3, multiclass
        clus
vv       FOXF2 MUTATED FOXF2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXF2 MUTATED        1      0      2
  FOXF2 WILD-TYPE     61     73     73
D1798V4, multiclass
        clus
vv       FOXF2 MUTATED FOXF2 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXF2 MUTATED        1      1      1
  FOXF2 WILD-TYPE     69    119     99
D1798V5, multiclass
        clus
vv       FOXF2 MUTATED FOXF2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOXF2 MUTATED        0      0      0      1      1      1      0      0
  FOXF2 WILD-TYPE     41     26     30     28     38     68     20     14
                 vv
clus              CLUS_9
  FOXF2 MUTATED        0
  FOXF2 WILD-TYPE     22
D1798V6, multiclass
        clus
vv       FOXF2 MUTATED FOXF2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FOXF2 MUTATED        0      2      1      1
  FOXF2 WILD-TYPE    100     70     71    120
D1798V7, multiclass
        clus
vv       FOXF2 MUTATED FOXF2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOXF2 MUTATED        0      0      3      1      0
  FOXF2 WILD-TYPE     59     75     71    118     38
D1798V8, multiclass
        clus
vv       FOXF2 MUTATED FOXF2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOXF2 MUTATED        0      2      0      1      1
  FOXF2 WILD-TYPE     51     74     61     70     94
D1798V9, multiclass
        clus
vv       FOXF2 MUTATED FOXF2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOXF2 MUTATED        0      1      0      1      1      0      0      1
  FOXF2 WILD-TYPE     69     47     39     15     52     20     21     37
                 vv
clus              CLUS_9
  FOXF2 MUTATED        0
  FOXF2 WILD-TYPE     50
D1798V10, multiclass
        clus
vv       FOXF2 MUTATED FOXF2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FOXF2 MUTATED        0      0      0      0      2      0
  FOXF2 WILD-TYPE     13     16     14     11      9      9
D1798V11, multiclass
[1] "Remove cluster labels:" "FOXF2 MUTATED"         
clus
  FOXF2 MUTATED FOXF2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FOXF2 MUTATED        0      0      0      1      0      0      1      0
  FOXF2 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  FOXF2 MUTATED        0
  FOXF2 WILD-TYPE      5
D1798V12, multiclass
[1] "Remove cluster labels:" "FOXF2 MUTATED"         
clus
  FOXF2 MUTATED FOXF2 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" "FOXF2 WILD-TYPE" 

Clustering(1799) Variable = CNKSR3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNKSR3 MUTATED        0      0      0      1      1
  CNKSR3 WILD-TYPE     32     18     46     26     22
D1799V1, multiclass
[1] "Remove cluster labels:" "CNKSR3 MUTATED"        
clus
  CNKSR3 MUTATED CNKSR3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A01K       TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A02F 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CNKSR3 MUTATED        0      1      1
  CNKSR3 WILD-TYPE     43     66     35
D1799V2, multiclass
[1] "Remove cluster labels:" "CNKSR3 MUTATED"        
clus
  CNKSR3 MUTATED CNKSR3 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A00A       TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A00J       TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A00O       TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A01D       TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A01K       TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A02F 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" "CNKSR3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CNKSR3 MUTATED        3      3      3
  CNKSR3 WILD-TYPE     39    170    144
D1799V3, multiclass
        clus
vv       CNKSR3 MUTATED CNKSR3 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              3              170
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CNKSR3 MUTATED        0      2      5
  CNKSR3 WILD-TYPE     62     71     70
D1799V4, multiclass
        clus
vv       CNKSR3 MUTATED CNKSR3 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CNKSR3 MUTATED        0      4      2
  CNKSR3 WILD-TYPE     70    116     98
D1799V5, multiclass
        clus
vv       CNKSR3 MUTATED CNKSR3 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNKSR3 MUTATED        0      1      1      2      0      2      0      0
  CNKSR3 WILD-TYPE     41     25     29     27     39     67     20     14
                  vv
clus               CLUS_9
  CNKSR3 MUTATED        0
  CNKSR3 WILD-TYPE     22
D1799V6, multiclass
        clus
vv       CNKSR3 MUTATED CNKSR3 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CNKSR3 MUTATED        1      4      2      2
  CNKSR3 WILD-TYPE     99     68     70    119
D1799V7, multiclass
        clus
vv       CNKSR3 MUTATED CNKSR3 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNKSR3 MUTATED        1      2      4      2      0
  CNKSR3 WILD-TYPE     58     73     70    117     38
D1799V8, multiclass
        clus
vv       CNKSR3 MUTATED CNKSR3 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              4               70
  CLUS_4              2              117
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CNKSR3 MUTATED        0      5      2      1      1
  CNKSR3 WILD-TYPE     51     71     59     70     94
D1799V9, multiclass
        clus
vv       CNKSR3 MUTATED CNKSR3 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNKSR3 MUTATED        2      1      1      2      1      0      0      1
  CNKSR3 WILD-TYPE     67     47     38     14     52     20     21     37
                  vv
clus               CLUS_9
  CNKSR3 MUTATED        1
  CNKSR3 WILD-TYPE     49
D1799V10, multiclass
        clus
vv       CNKSR3 MUTATED CNKSR3 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CNKSR3 MUTATED        2      0      1      0      1      1
  CNKSR3 WILD-TYPE     11     16     13     11     10      8
D1799V11, multiclass
        clus
vv       CNKSR3 MUTATED CNKSR3 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              0               16
  CLUS_3              1               13
  CLUS_4              0               11
  CLUS_5              1               10
  CLUS_6              1                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CNKSR3 MUTATED        1      0      0      2      0      0      1      1
  CNKSR3 WILD-TYPE     10      7      7      7      8      7     10      8
                  vv
clus               CLUS_9
  CNKSR3 MUTATED        0
  CNKSR3 WILD-TYPE      5
D1799V12, multiclass
        clus
vv       CNKSR3 MUTATED CNKSR3 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1800) Variable = C1ORF116 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF116 MUTATED        1      0      0      0      1
  C1ORF116 WILD-TYPE     31     18     46     27     22
D1800V1, multiclass
[1] "Remove cluster labels:" "C1ORF116 MUTATED"      
clus
  C1ORF116 MUTATED C1ORF116 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00J         TCGA-AA-A00K 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF116 MUTATED        1      0      1
  C1ORF116 WILD-TYPE     42     67     35
D1800V2, multiclass
[1] "Remove cluster labels:" "C1ORF116 MUTATED"      
clus
  C1ORF116 MUTATED C1ORF116 WILD-TYPE 
                 2                144 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3815 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3818         TCGA-AA-3819         TCGA-AA-3821 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3831         TCGA-AA-3833         TCGA-AA-3837 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3842         TCGA-AA-3844         TCGA-AA-3845 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3846         TCGA-AA-3848         TCGA-AA-3850 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3851         TCGA-AA-3852         TCGA-AA-3854 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3855         TCGA-AA-3856         TCGA-AA-3858 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3860         TCGA-AA-3861         TCGA-AA-3864 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3867         TCGA-AA-3869 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3870         TCGA-AA-3872         TCGA-AA-3875 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3877         TCGA-AA-3930         TCGA-AA-3939 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3941         TCGA-AA-3947         TCGA-AA-3949 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00J         TCGA-AA-A00K 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00O 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A00Q         TCGA-AA-A00R         TCGA-AA-A00U 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A00W         TCGA-AA-A00Z         TCGA-AA-A010 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A017         TCGA-AA-A01D         TCGA-AA-A01F 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A01G         TCGA-AA-A01I         TCGA-AA-A01K 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A01Q         TCGA-AA-A024         TCGA-AA-A029 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AY-4070         TCGA-AY-4071 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF116 MUTATED        0      2      4
  C1ORF116 WILD-TYPE     42    171    143
D1800V3, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                2                171
  CLUS_3                4                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF116 MUTATED        2      1      1
  C1ORF116 WILD-TYPE     60     72     74
D1800V4, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                1                 72
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF116 MUTATED        1      2      3
  C1ORF116 WILD-TYPE     69    118     97
D1800V5, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                2                118
  CLUS_3                3                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF116 MUTATED        1      1      1      0      1      2      0      0
  C1ORF116 WILD-TYPE     40     25     29     29     38     67     20     14
                    vv
clus                 CLUS_9
  C1ORF116 MUTATED        0
  C1ORF116 WILD-TYPE     22
D1800V6, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 25
  CLUS_3                1                 29
  CLUS_4                0                 29
  CLUS_5                1                 38
  CLUS_6                2                 67
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF116 MUTATED        1      2      1      2
  C1ORF116 WILD-TYPE     99     70     71    119
D1800V7, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                2                 70
  CLUS_3                1                 71
  CLUS_4                2                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF116 MUTATED        1      2      1      1      1
  C1ORF116 WILD-TYPE     58     73     73    118     37
D1800V8, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                2                 73
  CLUS_3                1                 73
  CLUS_4                1                118
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF116 MUTATED        0      2      1      0      2
  C1ORF116 WILD-TYPE     51     74     60     71     93
D1800V9, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                2                 74
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                2                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF116 MUTATED        1      1      0      1      0      0      0      1
  C1ORF116 WILD-TYPE     68     47     39     15     53     20     21     37
                    vv
clus                 CLUS_9
  C1ORF116 MUTATED        1
  C1ORF116 WILD-TYPE     49
D1800V10, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                1                 15
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C1ORF116 MUTATED        0      0      0      0      1      0
  C1ORF116 WILD-TYPE     13     16     14     11     10      9
D1800V11, multiclass
[1] "Remove cluster labels:" "C1ORF116 MUTATED"      
clus
  C1ORF116 MUTATED C1ORF116 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-G4-6628 
"C1ORF116 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C1ORF116 MUTATED        0      0      0      1      0      0      0      0
  C1ORF116 WILD-TYPE     11      7      7      8      8      7     11      9
                    vv
clus                 CLUS_9
  C1ORF116 MUTATED        0
  C1ORF116 WILD-TYPE      5
D1800V12, multiclass
[1] "Remove cluster labels:" "C1ORF116 MUTATED"      
clus
  C1ORF116 MUTATED C1ORF116 WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-G4-6628 
"C1ORF116 WILD-TYPE" 

Clustering(1801) Variable = DENND2C MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DENND2C MUTATED        4      1      0      2      0
  DENND2C WILD-TYPE     28     17     46     25     23
D1801V1, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               4                28
  CLUS_2               1                17
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DENND2C MUTATED        4      2      1
  DENND2C WILD-TYPE     39     65     35
D1801V2, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               4                39
  CLUS_2               2                65
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DENND2C MUTATED        3      0     15
  DENND2C WILD-TYPE     39    173    132
D1801V3, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               3                39
  CLUS_2               0               173
  CLUS_3              15               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DENND2C MUTATED        4      0      6
  DENND2C WILD-TYPE     58     73     69
D1801V4, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               4                58
  CLUS_2               0                73
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DENND2C MUTATED        3      6      7
  DENND2C WILD-TYPE     67    114     93
D1801V5, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               3                67
  CLUS_2               6               114
  CLUS_3               7                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DENND2C MUTATED        3      1      2      1      3      4      2      0
  DENND2C WILD-TYPE     38     25     28     28     36     65     18     14
                   vv
clus                CLUS_9
  DENND2C MUTATED        0
  DENND2C WILD-TYPE     22
D1801V6, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               3                38
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               3                36
  CLUS_6               4                65
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DENND2C MUTATED        1      8      2      7
  DENND2C WILD-TYPE     99     64     70    114
D1801V7, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               1                99
  CLUS_2               8                64
  CLUS_3               2                70
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DENND2C MUTATED        1      2      6      5      4
  DENND2C WILD-TYPE     58     73     68    114     34
D1801V8, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               6                68
  CLUS_4               5               114
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DENND2C MUTATED        0      4      2      2     10
  DENND2C WILD-TYPE     51     72     59     69     85
D1801V9, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5              10                85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DENND2C MUTATED        1      2      0      2      4      1      1      6
  DENND2C WILD-TYPE     68     46     39     14     49     19     20     32
                   vv
clus                CLUS_9
  DENND2C MUTATED        1
  DENND2C WILD-TYPE     49
D1801V10, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               4                49
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               6                32
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DENND2C MUTATED        1      0      0      0      2      0
  DENND2C WILD-TYPE     12     16     14     11      9      9
D1801V11, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DENND2C MUTATED        0      0      0      1      0      0      1      1
  DENND2C WILD-TYPE     11      7      7      8      8      7     10      8
                   vv
clus                CLUS_9
  DENND2C MUTATED        0
  DENND2C WILD-TYPE      5
D1801V12, multiclass
        clus
vv       DENND2C MUTATED DENND2C WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1802) Variable = ITGA9 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITGA9 MUTATED        3      0      1      0      0
  ITGA9 WILD-TYPE     29     18     45     27     23
D1802V1, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGA9 MUTATED        2      1      1
  ITGA9 WILD-TYPE     41     66     35
D1802V2, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGA9 MUTATED        2      1      6
  ITGA9 WILD-TYPE     40    172    141
D1802V3, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGA9 MUTATED        2      2      1
  ITGA9 WILD-TYPE     60     71     74
D1802V4, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGA9 MUTATED        1      3      3
  ITGA9 WILD-TYPE     69    117     97
D1802V5, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITGA9 MUTATED        1      0      0      0      1      1      1      2
  ITGA9 WILD-TYPE     40     26     30     29     38     68     19     12
                 vv
clus              CLUS_9
  ITGA9 MUTATED        1
  ITGA9 WILD-TYPE     21
D1802V6, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITGA9 MUTATED        2      1      3      3
  ITGA9 WILD-TYPE     98     71     69    118
D1802V7, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITGA9 MUTATED        2      1      2      2      2
  ITGA9 WILD-TYPE     57     74     72    117     36
D1802V8, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITGA9 MUTATED        1      1      3      2      2
  ITGA9 WILD-TYPE     50     75     58     69     93
D1802V9, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITGA9 MUTATED        1      3      1      0      1      1      0      2
  ITGA9 WILD-TYPE     68     45     38     16     52     19     21     36
                 vv
clus              CLUS_9
  ITGA9 MUTATED        0
  ITGA9 WILD-TYPE     50
D1802V10, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ITGA9 MUTATED        0      1      1      0      1      0
  ITGA9 WILD-TYPE     13     15     13     11     10      9
D1802V11, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ITGA9 MUTATED        0      0      0      0      1      1      1      0
  ITGA9 WILD-TYPE     11      7      7      9      7      6     10      9
                 vv
clus              CLUS_9
  ITGA9 MUTATED        0
  ITGA9 WILD-TYPE      5
D1802V12, multiclass
        clus
vv       ITGA9 MUTATED ITGA9 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1803) Variable = COPB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COPB2 MUTATED        1      0      0      2      1
  COPB2 WILD-TYPE     31     18     46     25     22
D1803V1, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  COPB2 MUTATED        2      1      1
  COPB2 WILD-TYPE     41     66     35
D1803V2, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  COPB2 MUTATED        1      5      7
  COPB2 WILD-TYPE     41    168    140
D1803V3, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5             168
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  COPB2 MUTATED        2      3      4
  COPB2 WILD-TYPE     60     70     71
D1803V4, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             3              70
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  COPB2 MUTATED        2      3      7
  COPB2 WILD-TYPE     68    117     93
D1803V5, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COPB2 MUTATED        1      0      1      1      1      6      0      1
  COPB2 WILD-TYPE     40     26     29     28     38     63     20     13
                 vv
clus              CLUS_9
  COPB2 MUTATED        1
  COPB2 WILD-TYPE     21
D1803V6, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COPB2 MUTATED        2      5      2      4
  COPB2 WILD-TYPE     98     67     70    117
D1803V7, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COPB2 MUTATED        3      1      5      2      2
  COPB2 WILD-TYPE     56     74     69    117     36
D1803V8, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COPB2 MUTATED        3      4      1      1      3
  COPB2 WILD-TYPE     48     72     60     70     92
D1803V9, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COPB2 MUTATED        1      0      3      4      1      1      0      2
  COPB2 WILD-TYPE     68     48     36     12     52     19     21     36
                 vv
clus              CLUS_9
  COPB2 MUTATED        0
  COPB2 WILD-TYPE     50
D1803V10, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             3              36
  CLUS_4             4              12
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  COPB2 MUTATED        0      0      1      1      1      0
  COPB2 WILD-TYPE     13     16     13     10     10      9
D1803V11, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COPB2 MUTATED        1      0      0      1      0      0      0      1
  COPB2 WILD-TYPE     10      7      7      8      8      7     11      8
                 vv
clus              CLUS_9
  COPB2 MUTATED        0
  COPB2 WILD-TYPE      5
D1803V12, multiclass
        clus
vv       COPB2 MUTATED COPB2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1804) Variable = GATAD2A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATAD2A MUTATED        0      0      0      1      0
  GATAD2A WILD-TYPE     32     18     46     26     23
D1804V1, multiclass
[1] "Remove cluster labels:" "GATAD2A MUTATED"       
clus
  GATAD2A MUTATED GATAD2A WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A01K        TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A02F 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AY-4071 
"GATAD2A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GATAD2A MUTATED        0      1      0
  GATAD2A WILD-TYPE     43     66     36
D1804V2, multiclass
[1] "Remove cluster labels:" "GATAD2A MUTATED"       
clus
  GATAD2A MUTATED GATAD2A WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3939        TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3950        TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3966        TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3979        TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A01K        TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A02F 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" "GATAD2A WILD-TYPE" 
       TCGA-AY-4071 
"GATAD2A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GATAD2A MUTATED        1      0      8
  GATAD2A WILD-TYPE     41    173    139
D1804V3, multiclass
        clus
vv       GATAD2A MUTATED GATAD2A WILD-TYPE
  CLUS_1               1                41
  CLUS_2               0               173
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GATAD2A MUTATED        3      0      4
  GATAD2A WILD-TYPE     59     73     71
D1804V4, multiclass
        clus
vv       GATAD2A MUTATED GATAD2A WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GATAD2A MUTATED        3      2      4
  GATAD2A WILD-TYPE     67    118     96
D1804V5, multiclass
        clus
vv       GATAD2A MUTATED GATAD2A WILD-TYPE
  CLUS_1               3                67
  CLUS_2               2               118
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATAD2A MUTATED        1      0      2      0      1      3      2      0
  GATAD2A WILD-TYPE     40     26     28     29     38     66     18     14
                   vv
clus                CLUS_9
  GATAD2A MUTATED        0
  GATAD2A WILD-TYPE     22
D1804V6, multiclass
        clus
vv       GATAD2A MUTATED GATAD2A WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               2                28
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               3                66
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GATAD2A MUTATED        0      4      3      2
  GATAD2A WILD-TYPE    100     68     69    119
D1804V7, multiclass
        clus
vv       GATAD2A MUTATED GATAD2A WILD-TYPE
  CLUS_1               0               100
  CLUS_2               4                68
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATAD2A MUTATED        0      1      6      1      1
  GATAD2A WILD-TYPE     59     74     68    118     37
D1804V8, multiclass
        clus
vv       GATAD2A MUTATED GATAD2A WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               6                68
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATAD2A MUTATED        0      5      1      0      3
  GATAD2A WILD-TYPE     51     71     60     71     92
D1804V9, multiclass
        clus
vv       GATAD2A MUTATED GATAD2A WILD-TYPE
  CLUS_1               0                51
  CLUS_2               5                71
  CLUS_3               1                60
  CLUS_4               0                71
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATAD2A MUTATED        1      2      0      2      0      1      0      2
  GATAD2A WILD-TYPE     68     46     39     14     53     19     21     36
                   vv
clus                CLUS_9
  GATAD2A MUTATED        1
  GATAD2A WILD-TYPE     49
D1804V10, multiclass
        clus
vv       GATAD2A MUTATED GATAD2A WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GATAD2A MUTATED        0      2      0      0      1      0
  GATAD2A WILD-TYPE     13     14     14     11     10      9
D1804V11, multiclass
        clus
vv       GATAD2A MUTATED GATAD2A WILD-TYPE
  CLUS_1               0                13
  CLUS_2               2                14
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATAD2A MUTATED        1      0      0      0      1      0      1      0
  GATAD2A WILD-TYPE     10      7      7      9      7      7     10      9
                   vv
clus                CLUS_9
  GATAD2A MUTATED        0
  GATAD2A WILD-TYPE      5
D1804V12, multiclass
        clus
vv       GATAD2A MUTATED GATAD2A WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1805) Variable = TAOK1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAOK1 MUTATED        2      0      1      1      0
  TAOK1 WILD-TYPE     30     18     45     26     23
D1805V1, multiclass
        clus
vv       TAOK1 MUTATED TAOK1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAOK1 MUTATED        2      2      0
  TAOK1 WILD-TYPE     41     65     36
D1805V2, multiclass
        clus
vv       TAOK1 MUTATED TAOK1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              65
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAOK1 MUTATED        1      4     11
  TAOK1 WILD-TYPE     41    169    136
D1805V3, multiclass
        clus
vv       TAOK1 MUTATED TAOK1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAOK1 MUTATED        4      2      6
  TAOK1 WILD-TYPE     58     71     69
D1805V4, multiclass
        clus
vv       TAOK1 MUTATED TAOK1 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             2              71
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAOK1 MUTATED        3      5      4
  TAOK1 WILD-TYPE     67    115     96
D1805V5, multiclass
        clus
vv       TAOK1 MUTATED TAOK1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             5             115
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAOK1 MUTATED        3      1      2      1      2      2      0      0
  TAOK1 WILD-TYPE     38     25     28     28     37     67     20     14
                 vv
clus              CLUS_9
  TAOK1 MUTATED        1
  TAOK1 WILD-TYPE     21
D1805V6, multiclass
        clus
vv       TAOK1 MUTATED TAOK1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAOK1 MUTATED        2      6      2      6
  TAOK1 WILD-TYPE     98     66     70    115
D1805V7, multiclass
        clus
vv       TAOK1 MUTATED TAOK1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             6              66
  CLUS_3             2              70
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAOK1 MUTATED        1      2      7      4      2
  TAOK1 WILD-TYPE     58     73     67    115     36
D1805V8, multiclass
        clus
vv       TAOK1 MUTATED TAOK1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             7              67
  CLUS_4             4             115
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAOK1 MUTATED        2      4      2      1      7
  TAOK1 WILD-TYPE     49     72     59     70     88
D1805V9, multiclass
        clus
vv       TAOK1 MUTATED TAOK1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             7              88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAOK1 MUTATED        3      2      1      2      0      2      0      4
  TAOK1 WILD-TYPE     66     46     38     14     53     18     21     34
                 vv
clus              CLUS_9
  TAOK1 MUTATED        2
  TAOK1 WILD-TYPE     48
D1805V10, multiclass
        clus
vv       TAOK1 MUTATED TAOK1 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAOK1 MUTATED        0      1      1      0      0      0
  TAOK1 WILD-TYPE     13     15     13     11     11      9
D1805V11, multiclass
[1] "Remove cluster labels:" "TAOK1 MUTATED"         
clus
  TAOK1 MUTATED TAOK1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XF 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TAOK1 MUTATED        1      0      0      0      0      0      0      0
  TAOK1 WILD-TYPE     10      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  TAOK1 MUTATED        1
  TAOK1 WILD-TYPE      4
D1805V12, multiclass
[1] "Remove cluster labels:" "TAOK1 MUTATED"         
clus
  TAOK1 MUTATED TAOK1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XF 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" "TAOK1 WILD-TYPE" 

Clustering(1806) Variable = KRT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT1 MUTATED        0      1      0      2      0
  KRT1 WILD-TYPE     32     17     46     25     23
D1806V1, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            0             32
  CLUS_2            1             17
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRT1 MUTATED        2      1      0
  KRT1 WILD-TYPE     41     66     36
D1806V2, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRT1 MUTATED        0      3     10
  KRT1 WILD-TYPE     42    170    137
D1806V3, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3           10            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRT1 MUTATED        4      2      5
  KRT1 WILD-TYPE     58     71     70
D1806V4, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            2             71
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRT1 MUTATED        2      4      7
  KRT1 WILD-TYPE     68    116     93
D1806V5, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4            116
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KRT1 MUTATED        3      0      2      0      0      5      2      1      0
  KRT1 WILD-TYPE     38     26     28     29     39     64     18     13     22
D1806V6, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            5             64
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRT1 MUTATED        2      4      6      2
  KRT1 WILD-TYPE     98     68     66    119
D1806V7, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            6             66
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT1 MUTATED        3      2      6      1      2
  KRT1 WILD-TYPE     56     73     68    118     36
D1806V8, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3            6             68
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT1 MUTATED        3      4      3      1      2
  KRT1 WILD-TYPE     48     72     58     70     93
D1806V9, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            4             72
  CLUS_3            3             58
  CLUS_4            1             70
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KRT1 MUTATED        1      4      1      1      1      3      1      0      1
  KRT1 WILD-TYPE     68     44     38     15     52     17     20     38     49
D1806V10, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            4             44
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            3             17
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRT1 MUTATED        2      0      2      0      2      0
  KRT1 WILD-TYPE     11     16     12     11      9      9
D1806V11, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            0             16
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KRT1 MUTATED        0      0      1      0      1      0      2      1      1
  KRT1 WILD-TYPE     11      7      6      9      7      7      9      8      4
D1806V12, multiclass
        clus
vv       KRT1 MUTATED KRT1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            0              9
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            1              8
  CLUS_9            1              4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1807) Variable = TACC2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TACC2 MUTATED        6      0      0      1      1
  TACC2 WILD-TYPE     26     18     46     26     22
D1807V1, multiclass
        clus
vv       TACC2 MUTATED TACC2 WILD-TYPE
  CLUS_1             6              26
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TACC2 MUTATED        6      1      1
  TACC2 WILD-TYPE     37     66     35
D1807V2, multiclass
        clus
vv       TACC2 MUTATED TACC2 WILD-TYPE
  CLUS_1             6              37
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TACC2 MUTATED        0      1     24
  TACC2 WILD-TYPE     42    172    123
D1807V3, multiclass
        clus
vv       TACC2 MUTATED TACC2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3            24             123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TACC2 MUTATED        5      1     11
  TACC2 WILD-TYPE     57     72     64
D1807V4, multiclass
        clus
vv       TACC2 MUTATED TACC2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3            11              64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TACC2 MUTATED        5      5     11
  TACC2 WILD-TYPE     65    115     89
D1807V5, multiclass
        clus
vv       TACC2 MUTATED TACC2 WILD-TYPE
  CLUS_1             5              65
  CLUS_2             5             115
  CLUS_3            11              89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TACC2 MUTATED        3      0      1      2      2      9      3      0
  TACC2 WILD-TYPE     38     26     29     27     37     60     17     14
                 vv
clus              CLUS_9
  TACC2 MUTATED        1
  TACC2 WILD-TYPE     21
D1807V6, multiclass
        clus
vv       TACC2 MUTATED TACC2 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             9              60
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TACC2 MUTATED        1      9      7      8
  TACC2 WILD-TYPE     99     63     65    113
D1807V7, multiclass
        clus
vv       TACC2 MUTATED TACC2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             9              63
  CLUS_3             7              65
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TACC2 MUTATED        1      1     15      3      5
  TACC2 WILD-TYPE     58     74     59    116     33
D1807V8, multiclass
        clus
vv       TACC2 MUTATED TACC2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3            15              59
  CLUS_4             3             116
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TACC2 MUTATED        0     11      4      0      8
  TACC2 WILD-TYPE     51     65     57     71     87
D1807V9, multiclass
        clus
vv       TACC2 MUTATED TACC2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2            11              65
  CLUS_3             4              57
  CLUS_4             0              71
  CLUS_5             8              87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TACC2 MUTATED        3      6      1      4      1      2      0      5
  TACC2 WILD-TYPE     66     42     38     12     52     18     21     33
                 vv
clus              CLUS_9
  TACC2 MUTATED        1
  TACC2 WILD-TYPE     49
D1807V10, multiclass
        clus
vv       TACC2 MUTATED TACC2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             6              42
  CLUS_3             1              38
  CLUS_4             4              12
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             5              33
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TACC2 MUTATED        0      0      0      0      1      0
  TACC2 WILD-TYPE     13     16     14     11     10      9
D1807V11, multiclass
[1] "Remove cluster labels:" "TACC2 MUTATED"         
clus
  TACC2 MUTATED TACC2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-G4-6628 
"TACC2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TACC2 MUTATED        0      0      0      0      1      0      0      0
  TACC2 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  TACC2 MUTATED        0
  TACC2 WILD-TYPE      5
D1807V12, multiclass
[1] "Remove cluster labels:" "TACC2 MUTATED"         
clus
  TACC2 MUTATED TACC2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-DM-A0XD      TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-DM-A282      TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-F4-6460      TCGA-F4-6569      TCGA-F4-6704      TCGA-F4-6805 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" "TACC2 WILD-TYPE" 
     TCGA-G4-6628 
"TACC2 WILD-TYPE" 

Clustering(1808) Variable = GATA6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATA6 MUTATED        0      0      0      2      0
  GATA6 WILD-TYPE     32     18     46     25     23
D1808V1, multiclass
[1] "Remove cluster labels:" "GATA6 MUTATED"         
clus
  GATA6 MUTATED GATA6 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3819 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866      TCGA-AA-3867 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA6 MUTATED        1      1      0
  GATA6 WILD-TYPE     42     66     36
D1808V2, multiclass
[1] "Remove cluster labels:" "GATA6 MUTATED"         
clus
  GATA6 MUTATED GATA6 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3819 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866      TCGA-AA-3867 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA6 MUTATED        1      0      3
  GATA6 WILD-TYPE     41    173    144
D1808V3, multiclass
        clus
vv       GATA6 MUTATED GATA6 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA6 MUTATED        0      0      2
  GATA6 WILD-TYPE     62     73     73
D1808V4, multiclass
[1] "Remove cluster labels:" "GATA6 MUTATED"         
clus
  GATA6 MUTATED GATA6 WILD-TYPE 
              2             208 
     TCGA-A6-2671      TCGA-A6-2677      TCGA-A6-3809      TCGA-A6-3810 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-A6-4105      TCGA-A6-5656      TCGA-A6-5657      TCGA-A6-5659 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662      TCGA-A6-5664 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502      TCGA-AA-3510 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AA-3655      TCGA-AA-3660      TCGA-AA-3662 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AA-3663      TCGA-AA-3697      TCGA-AA-3712      TCGA-AA-3713 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6888      TCGA-AD-6889 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AD-6890      TCGA-AD-6895      TCGA-AD-6899      TCGA-AD-6901 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AU-3779 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AZ-4681      TCGA-AZ-4682      TCGA-AZ-5403      TCGA-AZ-5407 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600      TCGA-AZ-6601 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606      TCGA-AZ-6607 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255      TCGA-CA-5796 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CA-5797      TCGA-CA-6715      TCGA-CA-6716      TCGA-CA-6717 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-4947      TCGA-CK-4948 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CK-4950      TCGA-CK-4952      TCGA-CK-5912      TCGA-CK-5913 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CK-5914      TCGA-CK-5915      TCGA-CK-5916      TCGA-CK-6746 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CK-6751      TCGA-CM-4743      TCGA-CM-4744 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CM-4746      TCGA-CM-4747      TCGA-CM-4752      TCGA-CM-5341 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CM-5344      TCGA-CM-5348      TCGA-CM-5349      TCGA-CM-5860 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CM-5861      TCGA-CM-5862      TCGA-CM-5863      TCGA-CM-5864 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CM-5868      TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CM-6164      TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CM-6168      TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CM-6172      TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-5538      TCGA-D5-5539      TCGA-D5-5540 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-D5-5541      TCGA-D5-6529      TCGA-D5-6532      TCGA-D5-6533 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6535      TCGA-D5-6536      TCGA-D5-6537 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-D5-6538      TCGA-D5-6539      TCGA-D5-6540      TCGA-D5-6541 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-D5-6898      TCGA-D5-6920      TCGA-D5-6922      TCGA-D5-6923 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-D5-6924      TCGA-D5-6926      TCGA-D5-6927      TCGA-D5-6928 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-D5-6929      TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-D5-7000      TCGA-DM-A0X9      TCGA-DM-A0XD      TCGA-DM-A0XF 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-DM-A1HA      TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A285 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-DM-A28C      TCGA-DM-A28E      TCGA-DM-A28F      TCGA-DM-A28G 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-DM-A28H      TCGA-DM-A28K      TCGA-F4-6459      TCGA-F4-6460 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-F4-6809      TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304      TCGA-G4-6306 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310      TCGA-G4-6315 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323      TCGA-G4-6586 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
     TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626      TCGA-G4-6628 
"GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" "GATA6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GATA6 MUTATED        1      3      0
  GATA6 WILD-TYPE     69    117    100
D1808V5, multiclass
        clus
vv       GATA6 MUTATED GATA6 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             0             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATA6 MUTATED        1      1      0      0      1      0      1      0
  GATA6 WILD-TYPE     40     25     30     29     38     69     19     14
                 vv
clus              CLUS_9
  GATA6 MUTATED        0
  GATA6 WILD-TYPE     22
D1808V6, multiclass
        clus
vv       GATA6 MUTATED GATA6 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             0              69
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GATA6 MUTATED        0      2      0      2
  GATA6 WILD-TYPE    100     70     72    119
D1808V7, multiclass
        clus
vv       GATA6 MUTATED GATA6 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATA6 MUTATED        0      2      0      1      1
  GATA6 WILD-TYPE     59     73     74    118     37
D1808V8, multiclass
        clus
vv       GATA6 MUTATED GATA6 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             0              74
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GATA6 MUTATED        2      0      1      0      1
  GATA6 WILD-TYPE     49     76     60     71     94
D1808V9, multiclass
        clus
vv       GATA6 MUTATED GATA6 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             0              76
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATA6 MUTATED        1      0      0      0      0      1      1      1
  GATA6 WILD-TYPE     68     48     39     16     53     19     20     37
                 vv
clus              CLUS_9
  GATA6 MUTATED        0
  GATA6 WILD-TYPE     50
D1808V10, multiclass
        clus
vv       GATA6 MUTATED GATA6 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GATA6 MUTATED        0      0      0      0      0      0
  GATA6 WILD-TYPE     13     16     14     11     11      9
D1808V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GATA6 MUTATED        0      0      0      0      0      0      0      0
  GATA6 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  GATA6 MUTATED        0
  GATA6 WILD-TYPE      5
D1808V12, multiclass

Clustering(1809) Variable = NDC80 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDC80 MUTATED        1      0      0      1      0
  NDC80 WILD-TYPE     31     18     46     26     23
D1809V1, multiclass
[1] "Remove cluster labels:" "NDC80 MUTATED"         
clus
  NDC80 MUTATED NDC80 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NDC80 MUTATED        1      1      0
  NDC80 WILD-TYPE     42     66     36
D1809V2, multiclass
[1] "Remove cluster labels:" "NDC80 MUTATED"         
clus
  NDC80 MUTATED NDC80 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NDC80 MUTATED        0      2      6
  NDC80 WILD-TYPE     42    171    141
D1809V3, multiclass
        clus
vv       NDC80 MUTATED NDC80 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NDC80 MUTATED        2      2      2
  NDC80 WILD-TYPE     60     71     73
D1809V4, multiclass
        clus
vv       NDC80 MUTATED NDC80 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NDC80 MUTATED        0      1      7
  NDC80 WILD-TYPE     70    119     93
D1809V5, multiclass
        clus
vv       NDC80 MUTATED NDC80 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDC80 MUTATED        2      0      1      0      1      4      0      0
  NDC80 WILD-TYPE     39     26     29     29     38     65     20     14
                 vv
clus              CLUS_9
  NDC80 MUTATED        0
  NDC80 WILD-TYPE     22
D1809V6, multiclass
        clus
vv       NDC80 MUTATED NDC80 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NDC80 MUTATED        2      2      2      2
  NDC80 WILD-TYPE     98     70     70    119
D1809V7, multiclass
        clus
vv       NDC80 MUTATED NDC80 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDC80 MUTATED        2      1      3      1      1
  NDC80 WILD-TYPE     57     74     71    118     37
D1809V8, multiclass
        clus
vv       NDC80 MUTATED NDC80 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDC80 MUTATED        0      4      2      0      2
  NDC80 WILD-TYPE     51     72     59     71     93
D1809V9, multiclass
        clus
vv       NDC80 MUTATED NDC80 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDC80 MUTATED        1      3      0      1      1      1      0      1
  NDC80 WILD-TYPE     68     45     39     15     52     19     21     37
                 vv
clus              CLUS_9
  NDC80 MUTATED        0
  NDC80 WILD-TYPE     50
D1809V10, multiclass
        clus
vv       NDC80 MUTATED NDC80 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NDC80 MUTATED        0      0      0      0      1      0
  NDC80 WILD-TYPE     13     16     14     11     10      9
D1809V11, multiclass
[1] "Remove cluster labels:" "NDC80 MUTATED"         
clus
  NDC80 MUTATED NDC80 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-G4-6628 
"NDC80 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NDC80 MUTATED        0      0      0      0      0      0      1      0
  NDC80 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  NDC80 MUTATED        0
  NDC80 WILD-TYPE      5
D1809V12, multiclass
[1] "Remove cluster labels:" "NDC80 MUTATED"         
clus
  NDC80 MUTATED NDC80 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" "NDC80 WILD-TYPE" 
     TCGA-G4-6628 
"NDC80 WILD-TYPE" 

Clustering(1810) Variable = HLA-G MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HLA-G MUTATED        2      0      0      0      0
  HLA-G WILD-TYPE     30     18     46     27     23
D1810V1, multiclass
[1] "Remove cluster labels:" "HLA-G MUTATED"         
clus
  HLA-G MUTATED HLA-G WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3968 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-G MUTATED        2      0      0
  HLA-G WILD-TYPE     41     67     36
D1810V2, multiclass
[1] "Remove cluster labels:" "HLA-G MUTATED"         
clus
  HLA-G MUTATED HLA-G WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3968 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" "HLA-G WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-G MUTATED        0      6      4
  HLA-G WILD-TYPE     42    167    143
D1810V3, multiclass
        clus
vv       HLA-G MUTATED HLA-G WILD-TYPE
  CLUS_1             0              42
  CLUS_2             6             167
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-G MUTATED        3      4      2
  HLA-G WILD-TYPE     59     69     73
D1810V4, multiclass
        clus
vv       HLA-G MUTATED HLA-G WILD-TYPE
  CLUS_1             3              59
  CLUS_2             4              69
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-G MUTATED        0      6      3
  HLA-G WILD-TYPE     70    114     97
D1810V5, multiclass
        clus
vv       HLA-G MUTATED HLA-G WILD-TYPE
  CLUS_1             0              70
  CLUS_2             6             114
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HLA-G MUTATED        0      0      0      1      0      3      2      2
  HLA-G WILD-TYPE     41     26     30     28     39     66     18     12
                 vv
clus              CLUS_9
  HLA-G MUTATED        1
  HLA-G WILD-TYPE     21
D1810V6, multiclass
        clus
vv       HLA-G MUTATED HLA-G WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             2              18
  CLUS_8             2              12
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HLA-G MUTATED        4      4      1      2
  HLA-G WILD-TYPE     96     68     71    119
D1810V7, multiclass
        clus
vv       HLA-G MUTATED HLA-G WILD-TYPE
  CLUS_1             4              96
  CLUS_2             4              68
  CLUS_3             1              71
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HLA-G MUTATED        2      4      3      0      2
  HLA-G WILD-TYPE     57     71     71    119     36
D1810V8, multiclass
        clus
vv       HLA-G MUTATED HLA-G WILD-TYPE
  CLUS_1             2              57
  CLUS_2             4              71
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HLA-G MUTATED        2      4      1      2      2
  HLA-G WILD-TYPE     49     72     60     69     93
D1810V9, multiclass
        clus
vv       HLA-G MUTATED HLA-G WILD-TYPE
  CLUS_1             2              49
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HLA-G MUTATED        4      0      0      0      3      2      0      2
  HLA-G WILD-TYPE     65     48     39     16     50     18     21     36
                 vv
clus              CLUS_9
  HLA-G MUTATED        0
  HLA-G WILD-TYPE     50
D1810V10, multiclass
        clus
vv       HLA-G MUTATED HLA-G WILD-TYPE
  CLUS_1             4              65
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HLA-G MUTATED        1      1      1      1      0      0
  HLA-G WILD-TYPE     12     15     13     10     11      9
D1810V11, multiclass
        clus
vv       HLA-G MUTATED HLA-G WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HLA-G MUTATED        0      1      0      1      1      0      0      1
  HLA-G WILD-TYPE     11      6      7      8      7      7     11      8
                 vv
clus              CLUS_9
  HLA-G MUTATED        0
  HLA-G WILD-TYPE      5
D1810V12, multiclass
        clus
vv       HLA-G MUTATED HLA-G WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1               6
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1811) Variable = TNNT2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNNT2 MUTATED        1      0      1      1      0
  TNNT2 WILD-TYPE     31     18     45     26     23
D1811V1, multiclass
        clus
vv       TNNT2 MUTATED TNNT2 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TNNT2 MUTATED        2      0      1
  TNNT2 WILD-TYPE     41     67     35
D1811V2, multiclass
        clus
vv       TNNT2 MUTATED TNNT2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TNNT2 MUTATED        0      1      7
  TNNT2 WILD-TYPE     42    172    140
D1811V3, multiclass
        clus
vv       TNNT2 MUTATED TNNT2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TNNT2 MUTATED        3      0      2
  TNNT2 WILD-TYPE     59     73     73
D1811V4, multiclass
        clus
vv       TNNT2 MUTATED TNNT2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TNNT2 MUTATED        0      2      3
  TNNT2 WILD-TYPE     70    118     97
D1811V5, multiclass
        clus
vv       TNNT2 MUTATED TNNT2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNNT2 MUTATED        0      0      0      0      1      1      3      0
  TNNT2 WILD-TYPE     41     26     30     29     38     68     17     14
                 vv
clus              CLUS_9
  TNNT2 MUTATED        0
  TNNT2 WILD-TYPE     22
D1811V6, multiclass
        clus
vv       TNNT2 MUTATED TNNT2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             3              17
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNNT2 MUTATED        0      3      2      3
  TNNT2 WILD-TYPE    100     69     70    118
D1811V7, multiclass
        clus
vv       TNNT2 MUTATED TNNT2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNNT2 MUTATED        0      0      5      2      1
  TNNT2 WILD-TYPE     59     75     69    117     37
D1811V8, multiclass
        clus
vv       TNNT2 MUTATED TNNT2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             5              69
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TNNT2 MUTATED        0      4      1      0      2
  TNNT2 WILD-TYPE     51     72     60     71     93
D1811V9, multiclass
        clus
vv       TNNT2 MUTATED TNNT2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNNT2 MUTATED        0      1      0      1      3      1      0      1
  TNNT2 WILD-TYPE     69     47     39     15     50     19     21     37
                 vv
clus              CLUS_9
  TNNT2 MUTATED        0
  TNNT2 WILD-TYPE     50
D1811V10, multiclass
        clus
vv       TNNT2 MUTATED TNNT2 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TNNT2 MUTATED        0      0      1      0      0      0
  TNNT2 WILD-TYPE     13     16     13     11     11      9
D1811V11, multiclass
[1] "Remove cluster labels:" "TNNT2 MUTATED"         
clus
  TNNT2 MUTATED TNNT2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-G4-6628 
"TNNT2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TNNT2 MUTATED        0      0      0      0      1      0      0      0
  TNNT2 WILD-TYPE     11      7      7      9      7      7     11      9
                 vv
clus              CLUS_9
  TNNT2 MUTATED        0
  TNNT2 WILD-TYPE      5
D1811V12, multiclass
[1] "Remove cluster labels:" "TNNT2 MUTATED"         
clus
  TNNT2 MUTATED TNNT2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" "TNNT2 WILD-TYPE" 
     TCGA-G4-6628 
"TNNT2 WILD-TYPE" 

Clustering(1812) Variable = PPM1B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPM1B MUTATED        1      0      0      0      0
  PPM1B WILD-TYPE     31     18     46     27     23
D1812V1, multiclass
[1] "Remove cluster labels:" "PPM1B MUTATED"         
clus
  PPM1B MUTATED PPM1B WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2677      TCGA-A6-2678 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3809 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AY-4071 
"PPM1B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1B MUTATED        1      0      0
  PPM1B WILD-TYPE     42     67     36
D1812V2, multiclass
[1] "Remove cluster labels:" "PPM1B MUTATED"         
clus
  PPM1B MUTATED PPM1B WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2677      TCGA-A6-2678 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3809 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516      TCGA-AA-3517 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520      TCGA-AA-3521 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525      TCGA-AA-3526 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530      TCGA-AA-3531 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538      TCGA-AA-3542 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548      TCGA-AA-3549 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554      TCGA-AA-3555 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666      TCGA-AA-3667 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678      TCGA-AA-3679 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684      TCGA-AA-3685 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" "PPM1B WILD-TYPE" 
     TCGA-AY-4071 
"PPM1B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1B MUTATED        0      1      4
  PPM1B WILD-TYPE     42    172    143
D1812V3, multiclass
        clus
vv       PPM1B MUTATED PPM1B WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1B MUTATED        0      1      3
  PPM1B WILD-TYPE     62     72     72
D1812V4, multiclass
        clus
vv       PPM1B MUTATED PPM1B WILD-TYPE
  CLUS_1             0              62
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1B MUTATED        0      3      1
  PPM1B WILD-TYPE     70    117     99
D1812V5, multiclass
        clus
vv       PPM1B MUTATED PPM1B WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPM1B MUTATED        0      0      0      3      0      1      0      0
  PPM1B WILD-TYPE     41     26     30     26     39     68     20     14
                 vv
clus              CLUS_9
  PPM1B MUTATED        0
  PPM1B WILD-TYPE     22
D1812V6, multiclass
        clus
vv       PPM1B MUTATED PPM1B WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             0              39
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPM1B MUTATED        1      3      0      1
  PPM1B WILD-TYPE     99     69     72    120
D1812V7, multiclass
        clus
vv       PPM1B MUTATED PPM1B WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPM1B MUTATED        0      2      2      0      1
  PPM1B WILD-TYPE     59     73     72    119     37
D1812V8, multiclass
        clus
vv       PPM1B MUTATED PPM1B WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPM1B MUTATED        0      3      0      1      1
  PPM1B WILD-TYPE     51     73     61     70     94
D1812V9, multiclass
        clus
vv       PPM1B MUTATED PPM1B WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPM1B MUTATED        3      0      0      1      0      0      0      1
  PPM1B WILD-TYPE     66     48     39     15     53     20     21     37
                 vv
clus              CLUS_9
  PPM1B MUTATED        0
  PPM1B WILD-TYPE     50
D1812V10, multiclass
        clus
vv       PPM1B MUTATED PPM1B WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPM1B MUTATED        0      0      0      0      0      0
  PPM1B WILD-TYPE     13     16     14     11     11      9
D1812V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPM1B MUTATED        0      0      0      0      0      0      0      0
  PPM1B WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  PPM1B MUTATED        0
  PPM1B WILD-TYPE      5
D1812V12, multiclass

Clustering(1813) Variable = ZNF232 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF232 MUTATED        0      0      0      0      0
  ZNF232 WILD-TYPE     32     18     46     27     23
D1813V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF232 MUTATED        0      0      0
  ZNF232 WILD-TYPE     43     67     36
D1813V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF232 MUTATED        0      1      3
  ZNF232 WILD-TYPE     42    172    144
D1813V3, multiclass
        clus
vv       ZNF232 MUTATED ZNF232 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF232 MUTATED        1      1      2
  ZNF232 WILD-TYPE     61     72     73
D1813V4, multiclass
        clus
vv       ZNF232 MUTATED ZNF232 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF232 MUTATED        1      0      3
  ZNF232 WILD-TYPE     69    120     97
D1813V5, multiclass
        clus
vv       ZNF232 MUTATED ZNF232 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              0              120
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF232 MUTATED        1      0      0      0      0      3      0      0
  ZNF232 WILD-TYPE     40     26     30     29     39     66     20     14
                  vv
clus               CLUS_9
  ZNF232 MUTATED        0
  ZNF232 WILD-TYPE     22
D1813V6, multiclass
        clus
vv       ZNF232 MUTATED ZNF232 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF232 MUTATED        1      3      0      0
  ZNF232 WILD-TYPE     99     69     72    121
D1813V7, multiclass
        clus
vv       ZNF232 MUTATED ZNF232 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              0               72
  CLUS_4              0              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF232 MUTATED        1      1      2      0      0
  ZNF232 WILD-TYPE     58     74     72    119     38
D1813V8, multiclass
        clus
vv       ZNF232 MUTATED ZNF232 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              0               38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF232 MUTATED        0      2      1      0      1
  ZNF232 WILD-TYPE     51     74     60     71     94
D1813V9, multiclass
        clus
vv       ZNF232 MUTATED ZNF232 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF232 MUTATED        1      1      0      1      0      0      0      0
  ZNF232 WILD-TYPE     68     47     39     15     53     20     21     38
                  vv
clus               CLUS_9
  ZNF232 MUTATED        1
  ZNF232 WILD-TYPE     49
D1813V10, multiclass
        clus
vv       ZNF232 MUTATED ZNF232 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              0               38
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF232 MUTATED        0      0      0      1      0      0
  ZNF232 WILD-TYPE     13     16     14     10     11      9
D1813V11, multiclass
[1] "Remove cluster labels:" "ZNF232 MUTATED"        
clus
  ZNF232 MUTATED ZNF232 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6460 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF232 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF232 MUTATED        0      0      1      0      0      0      0      0
  ZNF232 WILD-TYPE     11      7      6      9      8      7     11      9
                  vv
clus               CLUS_9
  ZNF232 MUTATED        0
  ZNF232 WILD-TYPE      5
D1813V12, multiclass
[1] "Remove cluster labels:" "ZNF232 MUTATED"        
clus
  ZNF232 MUTATED ZNF232 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6460 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" "ZNF232 WILD-TYPE" 
      TCGA-G4-6628 
"ZNF232 WILD-TYPE" 

Clustering(1814) Variable = HRASLS5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HRASLS5 MUTATED        1      0      0      0      0
  HRASLS5 WILD-TYPE     31     18     46     27     23
D1814V1, multiclass
[1] "Remove cluster labels:" "HRASLS5 MUTATED"       
clus
  HRASLS5 MUTATED HRASLS5 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AY-4071 
"HRASLS5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HRASLS5 MUTATED        1      0      0
  HRASLS5 WILD-TYPE     42     67     36
D1814V2, multiclass
[1] "Remove cluster labels:" "HRASLS5 MUTATED"       
clus
  HRASLS5 MUTATED HRASLS5 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AY-4071 
"HRASLS5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HRASLS5 MUTATED        0      3      2
  HRASLS5 WILD-TYPE     42    170    145
D1814V3, multiclass
        clus
vv       HRASLS5 MUTATED HRASLS5 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               2               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HRASLS5 MUTATED        1      2      0
  HRASLS5 WILD-TYPE     61     71     75
D1814V4, multiclass
        clus
vv       HRASLS5 MUTATED HRASLS5 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               2                71
  CLUS_3               0                75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HRASLS5 MUTATED        1      2      1
  HRASLS5 WILD-TYPE     69    118     99
D1814V5, multiclass
        clus
vv       HRASLS5 MUTATED HRASLS5 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               1                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HRASLS5 MUTATED        1      1      1      0      0      1      0      0
  HRASLS5 WILD-TYPE     40     25     29     29     39     68     20     14
                   vv
clus                CLUS_9
  HRASLS5 MUTATED        0
  HRASLS5 WILD-TYPE     22
D1814V6, multiclass
        clus
vv       HRASLS5 MUTATED HRASLS5 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HRASLS5 MUTATED        2      1      1      1
  HRASLS5 WILD-TYPE     98     71     71    120
D1814V7, multiclass
        clus
vv       HRASLS5 MUTATED HRASLS5 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               1                71
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HRASLS5 MUTATED        2      2      0      0      1
  HRASLS5 WILD-TYPE     57     73     74    119     37
D1814V8, multiclass
        clus
vv       HRASLS5 MUTATED HRASLS5 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               0                74
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HRASLS5 MUTATED        0      1      2      0      2
  HRASLS5 WILD-TYPE     51     75     59     71     93
D1814V9, multiclass
        clus
vv       HRASLS5 MUTATED HRASLS5 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               1                75
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HRASLS5 MUTATED        0      2      1      0      0      1      0      0
  HRASLS5 WILD-TYPE     69     46     38     16     53     19     21     38
                   vv
clus                CLUS_9
  HRASLS5 MUTATED        1
  HRASLS5 WILD-TYPE     49
D1814V10, multiclass
        clus
vv       HRASLS5 MUTATED HRASLS5 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HRASLS5 MUTATED        1      1      0      0      0      0
  HRASLS5 WILD-TYPE     12     15     14     11     11      9
D1814V11, multiclass
[1] "Remove cluster labels:" "HRASLS5 MUTATED"       
clus
  HRASLS5 MUTATED HRASLS5 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6534        TCGA-D5-6536 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HRASLS5 MUTATED        0      1      0      0      0      0      0      1
  HRASLS5 WILD-TYPE     11      6      7      9      8      7     11      8
                   vv
clus                CLUS_9
  HRASLS5 MUTATED        0
  HRASLS5 WILD-TYPE      5
D1814V12, multiclass
[1] "Remove cluster labels:" "HRASLS5 MUTATED"       
clus
  HRASLS5 MUTATED HRASLS5 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6534        TCGA-D5-6536 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" "HRASLS5 WILD-TYPE" 

Clustering(1815) Variable = PRSS35 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRSS35 MUTATED        2      1      1      2      0
  PRSS35 WILD-TYPE     30     17     45     25     23
D1815V1, multiclass
        clus
vv       PRSS35 MUTATED PRSS35 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              1               17
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRSS35 MUTATED        3      2      1
  PRSS35 WILD-TYPE     40     65     35
D1815V2, multiclass
        clus
vv       PRSS35 MUTATED PRSS35 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               65
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRSS35 MUTATED        0      4      8
  PRSS35 WILD-TYPE     42    169    139
D1815V3, multiclass
        clus
vv       PRSS35 MUTATED PRSS35 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRSS35 MUTATED        5      0      1
  PRSS35 WILD-TYPE     57     73     74
D1815V4, multiclass
        clus
vv       PRSS35 MUTATED PRSS35 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              0               73
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PRSS35 MUTATED        2      1      6
  PRSS35 WILD-TYPE     68    119     94
D1815V5, multiclass
        clus
vv       PRSS35 MUTATED PRSS35 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1              119
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRSS35 MUTATED        2      1      1      0      0      4      1      0
  PRSS35 WILD-TYPE     39     25     29     29     39     65     19     14
                  vv
clus               CLUS_9
  PRSS35 MUTATED        0
  PRSS35 WILD-TYPE     22
D1815V6, multiclass
        clus
vv       PRSS35 MUTATED PRSS35 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              4               65
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRSS35 MUTATED        2      2      3      5
  PRSS35 WILD-TYPE     98     70     69    116
D1815V7, multiclass
        clus
vv       PRSS35 MUTATED PRSS35 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              3               69
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRSS35 MUTATED        2      1      2      4      3
  PRSS35 WILD-TYPE     57     74     72    115     35
D1815V8, multiclass
        clus
vv       PRSS35 MUTATED PRSS35 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              2               72
  CLUS_4              4              115
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRSS35 MUTATED        1      2      2      2      4
  PRSS35 WILD-TYPE     50     74     59     69     91
D1815V9, multiclass
        clus
vv       PRSS35 MUTATED PRSS35 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              2               74
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRSS35 MUTATED        0      2      1      1      3      1      0      2
  PRSS35 WILD-TYPE     69     46     38     15     50     19     21     36
                  vv
clus               CLUS_9
  PRSS35 MUTATED        1
  PRSS35 WILD-TYPE     49
D1815V10, multiclass
        clus
vv       PRSS35 MUTATED PRSS35 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              1               15
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRSS35 MUTATED        0      0      0      1      0      0
  PRSS35 WILD-TYPE     13     16     14     10     11      9
D1815V11, multiclass
[1] "Remove cluster labels:" "PRSS35 MUTATED"        
clus
  PRSS35 MUTATED PRSS35 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-G4-6628 
"PRSS35 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRSS35 MUTATED        0      0      0      0      0      1      0      0
  PRSS35 WILD-TYPE     11      7      7      9      8      6     11      9
                  vv
clus               CLUS_9
  PRSS35 MUTATED        0
  PRSS35 WILD-TYPE      5
D1815V12, multiclass
[1] "Remove cluster labels:" "PRSS35 MUTATED"        
clus
  PRSS35 MUTATED PRSS35 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653       TCGA-A6-6654 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" "PRSS35 WILD-TYPE" 
      TCGA-G4-6628 
"PRSS35 WILD-TYPE" 

Clustering(1816) Variable = SF3B2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SF3B2 MUTATED        1      0      0      1      0
  SF3B2 WILD-TYPE     31     18     46     26     23
D1816V1, multiclass
[1] "Remove cluster labels:" "SF3B2 MUTATED"         
clus
  SF3B2 MUTATED SF3B2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3812 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SF3B2 MUTATED        1      1      0
  SF3B2 WILD-TYPE     42     66     36
D1816V2, multiclass
[1] "Remove cluster labels:" "SF3B2 MUTATED"         
clus
  SF3B2 MUTATED SF3B2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3812 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" "SF3B2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SF3B2 MUTATED        3      1      6
  SF3B2 WILD-TYPE     39    172    141
D1816V3, multiclass
        clus
vv       SF3B2 MUTATED SF3B2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SF3B2 MUTATED        2      1      5
  SF3B2 WILD-TYPE     60     72     70
D1816V4, multiclass
        clus
vv       SF3B2 MUTATED SF3B2 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SF3B2 MUTATED        1      7      2
  SF3B2 WILD-TYPE     69    113     98
D1816V5, multiclass
        clus
vv       SF3B2 MUTATED SF3B2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             7             113
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SF3B2 MUTATED        1      0      1      2      1      2      2      1
  SF3B2 WILD-TYPE     40     26     29     27     38     67     18     13
                 vv
clus              CLUS_9
  SF3B2 MUTATED        0
  SF3B2 WILD-TYPE     22
D1816V6, multiclass
        clus
vv       SF3B2 MUTATED SF3B2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             2              18
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SF3B2 MUTATED        1      5      2      2
  SF3B2 WILD-TYPE     99     67     70    119
D1816V7, multiclass
        clus
vv       SF3B2 MUTATED SF3B2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             2              70
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SF3B2 MUTATED        0      1      7      1      1
  SF3B2 WILD-TYPE     59     74     67    118     37
D1816V8, multiclass
        clus
vv       SF3B2 MUTATED SF3B2 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             7              67
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SF3B2 MUTATED        3      5      0      1      1
  SF3B2 WILD-TYPE     48     71     61     70     94
D1816V9, multiclass
        clus
vv       SF3B2 MUTATED SF3B2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             5              71
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SF3B2 MUTATED        3      0      1      2      2      2      0      0
  SF3B2 WILD-TYPE     66     48     38     14     51     18     21     38
                 vv
clus              CLUS_9
  SF3B2 MUTATED        0
  SF3B2 WILD-TYPE     50
D1816V10, multiclass
        clus
vv       SF3B2 MUTATED SF3B2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SF3B2 MUTATED        0      0      0      0      3      0
  SF3B2 WILD-TYPE     13     16     14     11      8      9
D1816V11, multiclass
        clus
vv       SF3B2 MUTATED SF3B2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SF3B2 MUTATED        0      0      0      1      1      1      0      0
  SF3B2 WILD-TYPE     11      7      7      8      7      6     11      9
                 vv
clus              CLUS_9
  SF3B2 MUTATED        0
  SF3B2 WILD-TYPE      5
D1816V12, multiclass
        clus
vv       SF3B2 MUTATED SF3B2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1817) Variable = OR5L2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5L2 MUTATED        0      0      1      0      0
  OR5L2 WILD-TYPE     32     18     45     27     23
D1817V1, multiclass
[1] "Remove cluster labels:" "OR5L2 MUTATED"         
clus
  OR5L2 MUTATED OR5L2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AY-4071 
"OR5L2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5L2 MUTATED        0      0      1
  OR5L2 WILD-TYPE     43     67     35
D1817V2, multiclass
[1] "Remove cluster labels:" "OR5L2 MUTATED"         
clus
  OR5L2 MUTATED OR5L2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" "OR5L2 WILD-TYPE" 
     TCGA-AY-4071 
"OR5L2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5L2 MUTATED        2      4      8
  OR5L2 WILD-TYPE     40    169    139
D1817V3, multiclass
        clus
vv       OR5L2 MUTATED OR5L2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4             169
  CLUS_3             8             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5L2 MUTATED        5      2      6
  OR5L2 WILD-TYPE     57     71     69
D1817V4, multiclass
        clus
vv       OR5L2 MUTATED OR5L2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             2              71
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5L2 MUTATED        2      3      6
  OR5L2 WILD-TYPE     68    117     94
D1817V5, multiclass
        clus
vv       OR5L2 MUTATED OR5L2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5L2 MUTATED        1      0      0      3      2      3      2      0
  OR5L2 WILD-TYPE     40     26     30     26     37     66     18     14
                 vv
clus              CLUS_9
  OR5L2 MUTATED        0
  OR5L2 WILD-TYPE     22
D1817V6, multiclass
        clus
vv       OR5L2 MUTATED OR5L2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             2              37
  CLUS_6             3              66
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR5L2 MUTATED        4      5      4      1
  OR5L2 WILD-TYPE     96     67     68    120
D1817V7, multiclass
        clus
vv       OR5L2 MUTATED OR5L2 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             5              67
  CLUS_3             4              68
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5L2 MUTATED        3      4      6      1      0
  OR5L2 WILD-TYPE     56     71     68    118     38
D1817V8, multiclass
        clus
vv       OR5L2 MUTATED OR5L2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             4              71
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5L2 MUTATED        2      7      1      3      1
  OR5L2 WILD-TYPE     49     69     60     68     94
D1817V9, multiclass
        clus
vv       OR5L2 MUTATED OR5L2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             7              69
  CLUS_3             1              60
  CLUS_4             3              68
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5L2 MUTATED        3      5      0      2      1      1      0      1
  OR5L2 WILD-TYPE     66     43     39     14     52     19     21     37
                 vv
clus              CLUS_9
  OR5L2 MUTATED        1
  OR5L2 WILD-TYPE     49
D1817V10, multiclass
        clus
vv       OR5L2 MUTATED OR5L2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             5              43
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR5L2 MUTATED        0      0      0      2      1      0
  OR5L2 WILD-TYPE     13     16     14      9     10      9
D1817V11, multiclass
        clus
vv       OR5L2 MUTATED OR5L2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             2               9
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR5L2 MUTATED        0      0      0      0      0      0      3      0
  OR5L2 WILD-TYPE     11      7      7      9      8      7      8      9
                 vv
clus              CLUS_9
  OR5L2 MUTATED        0
  OR5L2 WILD-TYPE      5
D1817V12, multiclass
        clus
vv       OR5L2 MUTATED OR5L2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             3               8
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1818) Variable = APAF1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APAF1 MUTATED        4      0      0      2      0
  APAF1 WILD-TYPE     28     18     46     25     23
D1818V1, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  APAF1 MUTATED        5      1      0
  APAF1 WILD-TYPE     38     66     36
D1818V2, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  APAF1 MUTATED        1      4     13
  APAF1 WILD-TYPE     41    169    134
D1818V3, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4             169
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  APAF1 MUTATED        1      4      7
  APAF1 WILD-TYPE     61     69     68
D1818V4, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             4              69
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  APAF1 MUTATED        4      5      7
  APAF1 WILD-TYPE     66    115     93
D1818V5, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             5             115
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APAF1 MUTATED        1      0      1      3      3      5      1      0
  APAF1 WILD-TYPE     40     26     29     26     36     64     19     14
                 vv
clus              CLUS_9
  APAF1 MUTATED        2
  APAF1 WILD-TYPE     20
D1818V6, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             3              26
  CLUS_5             3              36
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             2              20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APAF1 MUTATED        3      5      3      7
  APAF1 WILD-TYPE     97     67     69    114
D1818V7, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             7             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APAF1 MUTATED        2      3      6      2      5
  APAF1 WILD-TYPE     57     72     68    117     33
D1818V8, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             3              72
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APAF1 MUTATED        4      5      1      2      5
  APAF1 WILD-TYPE     47     71     60     69     90
D1818V9, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             2              69
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APAF1 MUTATED        4      1      1      1      3      2      1      3
  APAF1 WILD-TYPE     65     47     38     15     50     18     20     35
                 vv
clus              CLUS_9
  APAF1 MUTATED        1
  APAF1 WILD-TYPE     49
D1818V10, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             3              50
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  APAF1 MUTATED        0      0      1      0      1      0
  APAF1 WILD-TYPE     13     16     13     11     10      9
D1818V11, multiclass
[1] "Remove cluster labels:" "APAF1 MUTATED"         
clus
  APAF1 MUTATED APAF1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6303 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APAF1 MUTATED        0      0      0      0      1      0      1      0
  APAF1 WILD-TYPE     11      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  APAF1 MUTATED        0
  APAF1 WILD-TYPE      5
D1818V12, multiclass
[1] "Remove cluster labels:" "APAF1 MUTATED"         
clus
  APAF1 MUTATED APAF1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6719      TCGA-CK-5916 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6303 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 

Clustering(1819) Variable = KRT39 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT39 MUTATED        1      0      0      1      0
  KRT39 WILD-TYPE     31     18     46     26     23
D1819V1, multiclass
[1] "Remove cluster labels:" "KRT39 MUTATED"         
clus
  KRT39 MUTATED KRT39 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3864      TCGA-AA-3866 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT39 MUTATED        1      1      0
  KRT39 WILD-TYPE     42     66     36
D1819V2, multiclass
[1] "Remove cluster labels:" "KRT39 MUTATED"         
clus
  KRT39 MUTATED KRT39 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3864      TCGA-AA-3866 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT39 MUTATED        0      4      2
  KRT39 WILD-TYPE     42    169    145
D1819V3, multiclass
        clus
vv       KRT39 MUTATED KRT39 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             169
  CLUS_3             2             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT39 MUTATED        2      1      2
  KRT39 WILD-TYPE     60     72     73
D1819V4, multiclass
        clus
vv       KRT39 MUTATED KRT39 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT39 MUTATED        1      3      3
  KRT39 WILD-TYPE     69    117     97
D1819V5, multiclass
        clus
vv       KRT39 MUTATED KRT39 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT39 MUTATED        1      0      1      1      1      1      2      0
  KRT39 WILD-TYPE     40     26     29     28     38     68     18     14
                 vv
clus              CLUS_9
  KRT39 MUTATED        0
  KRT39 WILD-TYPE     22
D1819V6, multiclass
        clus
vv       KRT39 MUTATED KRT39 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRT39 MUTATED        3      2      1      1
  KRT39 WILD-TYPE     97     70     71    120
D1819V7, multiclass
        clus
vv       KRT39 MUTATED KRT39 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT39 MUTATED        2      2      1      1      1
  KRT39 WILD-TYPE     57     73     73    118     37
D1819V8, multiclass
        clus
vv       KRT39 MUTATED KRT39 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT39 MUTATED        2      1      0      1      3
  KRT39 WILD-TYPE     49     75     61     70     92
D1819V9, multiclass
        clus
vv       KRT39 MUTATED KRT39 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             1              75
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT39 MUTATED        1      2      0      0      1      1      0      1
  KRT39 WILD-TYPE     68     46     39     16     52     19     21     37
                 vv
clus              CLUS_9
  KRT39 MUTATED        1
  KRT39 WILD-TYPE     49
D1819V10, multiclass
        clus
vv       KRT39 MUTATED KRT39 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRT39 MUTATED        0      0      0      1      1      0
  KRT39 WILD-TYPE     13     16     14     10     10      9
D1819V11, multiclass
[1] "Remove cluster labels:" "KRT39 MUTATED"         
clus
  KRT39 MUTATED KRT39 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A282      TCGA-DM-A285 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRT39 MUTATED        0      0      0      1      0      0      1      0
  KRT39 WILD-TYPE     11      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  KRT39 MUTATED        0
  KRT39 WILD-TYPE      5
D1819V12, multiclass
[1] "Remove cluster labels:" "KRT39 MUTATED"         
clus
  KRT39 MUTATED KRT39 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-CM-6679      TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A282      TCGA-DM-A285 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" "KRT39 WILD-TYPE" 

Clustering(1820) Variable = IL3 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL3 MUTATED        2      0      0      0      1
  IL3 WILD-TYPE     30     18     46     27     22
D1820V1, multiclass
        clus
vv       IL3 MUTATED IL3 WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           0            27
  CLUS_5           1            22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IL3 MUTATED        2      0      1
  IL3 WILD-TYPE     41     67     35
D1820V2, multiclass
        clus
vv       IL3 MUTATED IL3 WILD-TYPE
  CLUS_1           2            41
  CLUS_2           0            67
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IL3 MUTATED        0      3      3
  IL3 WILD-TYPE     42    170    144
D1820V3, multiclass
        clus
vv       IL3 MUTATED IL3 WILD-TYPE
  CLUS_1           0            42
  CLUS_2           3           170
  CLUS_3           3           144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IL3 MUTATED        1      2      0
  IL3 WILD-TYPE     61     71     75
D1820V4, multiclass
        clus
vv       IL3 MUTATED IL3 WILD-TYPE
  CLUS_1           1            61
  CLUS_2           2            71
  CLUS_3           0            75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IL3 MUTATED        1      0      4
  IL3 WILD-TYPE     69    120     96
D1820V5, multiclass
        clus
vv       IL3 MUTATED IL3 WILD-TYPE
  CLUS_1           1            69
  CLUS_2           0           120
  CLUS_3           4            96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL3 MUTATED        1      0      0      0      0      3      1      0      0
  IL3 WILD-TYPE     40     26     30     29     39     66     19     14     22
D1820V6, multiclass
        clus
vv       IL3 MUTATED IL3 WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           0            30
  CLUS_4           0            29
  CLUS_5           0            39
  CLUS_6           3            66
  CLUS_7           1            19
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL3 MUTATED        2      0      1      3
  IL3 WILD-TYPE     98     72     71    118
D1820V7, multiclass
        clus
vv       IL3 MUTATED IL3 WILD-TYPE
  CLUS_1           2            98
  CLUS_2           0            72
  CLUS_3           1            71
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL3 MUTATED        2      1      0      3      0
  IL3 WILD-TYPE     57     74     74    116     38
D1820V8, multiclass
        clus
vv       IL3 MUTATED IL3 WILD-TYPE
  CLUS_1           2            57
  CLUS_2           1            74
  CLUS_3           0            74
  CLUS_4           3           116
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL3 MUTATED        2      0      1      1      1
  IL3 WILD-TYPE     49     76     60     70     94
D1820V9, multiclass
        clus
vv       IL3 MUTATED IL3 WILD-TYPE
  CLUS_1           2            49
  CLUS_2           0            76
  CLUS_3           1            60
  CLUS_4           1            70
  CLUS_5           1            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL3 MUTATED        2      1      0      0      0      0      2      0      0
  IL3 WILD-TYPE     67     47     39     16     53     20     19     38     50
D1820V10, multiclass
        clus
vv       IL3 MUTATED IL3 WILD-TYPE
  CLUS_1           2            67
  CLUS_2           1            47
  CLUS_3           0            39
  CLUS_4           0            16
  CLUS_5           0            53
  CLUS_6           0            20
  CLUS_7           2            19
  CLUS_8           0            38
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL3 MUTATED        0      1      0      0      0      0
  IL3 WILD-TYPE     13     15     14     11     11      9
D1820V11, multiclass
[1] "Remove cluster labels:" "IL3 MUTATED"           
clus
  IL3 MUTATED IL3 WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-CA-6718    TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  IL3 MUTATED        0      1      0      0      0      0      0      0      0
  IL3 WILD-TYPE     11      6      7      9      8      7     11      9      5
D1820V12, multiclass
[1] "Remove cluster labels:" "IL3 MUTATED"           
clus
  IL3 MUTATED IL3 WILD-TYPE 
            1            73 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-CA-6718    TCGA-CA-6719    TCGA-CK-5916    TCGA-CK-6748    TCGA-CM-5860 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6570    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-F4-6808    TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 
   TCGA-G4-6309    TCGA-G4-6625    TCGA-G4-6628 
"IL3 WILD-TYPE" "IL3 WILD-TYPE" "IL3 WILD-TYPE" 

Clustering(1821) Variable = UST MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UST MUTATED        0      0      1      0      0
  UST WILD-TYPE     32     18     45     27     23
D1821V1, multiclass
[1] "Remove cluster labels:" "UST MUTATED"           
clus
  UST MUTATED UST WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3956    TCGA-AA-3966 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  UST MUTATED        0      0      1
  UST WILD-TYPE     43     67     35
D1821V2, multiclass
[1] "Remove cluster labels:" "UST MUTATED"           
clus
  UST MUTATED UST WILD-TYPE 
            1           145 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3950    TCGA-AA-3952    TCGA-AA-3956    TCGA-AA-3966 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00N    TCGA-AA-A00O    TCGA-AA-A00Q 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A00R    TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A017    TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A01K    TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
   TCGA-AA-A02H    TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" "UST WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  UST MUTATED        1      4      4
  UST WILD-TYPE     41    169    143
D1821V3, multiclass
        clus
vv       UST MUTATED UST WILD-TYPE
  CLUS_1           1            41
  CLUS_2           4           169
  CLUS_3           4           143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  UST MUTATED        3      1      4
  UST WILD-TYPE     59     72     71
D1821V4, multiclass
        clus
vv       UST MUTATED UST WILD-TYPE
  CLUS_1           3            59
  CLUS_2           1            72
  CLUS_3           4            71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  UST MUTATED        3      2      4
  UST WILD-TYPE     67    118     96
D1821V5, multiclass
        clus
vv       UST MUTATED UST WILD-TYPE
  CLUS_1           3            67
  CLUS_2           2           118
  CLUS_3           4            96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UST MUTATED        2      1      1      0      1      3      0      1      0
  UST WILD-TYPE     39     25     29     29     38     66     20     13     22
D1821V6, multiclass
        clus
vv       UST MUTATED UST WILD-TYPE
  CLUS_1           2            39
  CLUS_2           1            25
  CLUS_3           1            29
  CLUS_4           0            29
  CLUS_5           1            38
  CLUS_6           3            66
  CLUS_7           0            20
  CLUS_8           1            13
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UST MUTATED        2      5      1      1
  UST WILD-TYPE     98     67     71    120
D1821V7, multiclass
        clus
vv       UST MUTATED UST WILD-TYPE
  CLUS_1           2            98
  CLUS_2           5            67
  CLUS_3           1            71
  CLUS_4           1           120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UST MUTATED        0      2      5      2      0
  UST WILD-TYPE     59     73     69    117     38
D1821V8, multiclass
        clus
vv       UST MUTATED UST WILD-TYPE
  CLUS_1           0            59
  CLUS_2           2            73
  CLUS_3           5            69
  CLUS_4           2           117
  CLUS_5           0            38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  UST MUTATED        1      4      2      1      1
  UST WILD-TYPE     50     72     59     70     94
D1821V9, multiclass
        clus
vv       UST MUTATED UST WILD-TYPE
  CLUS_1           1            50
  CLUS_2           4            72
  CLUS_3           2            59
  CLUS_4           1            70
  CLUS_5           1            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UST MUTATED        4      2      0      1      0      0      0      0      2
  UST WILD-TYPE     65     46     39     15     53     20     21     38     48
D1821V10, multiclass
        clus
vv       UST MUTATED UST WILD-TYPE
  CLUS_1           4            65
  CLUS_2           2            46
  CLUS_3           0            39
  CLUS_4           1            15
  CLUS_5           0            53
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           0            38
  CLUS_9           2            48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  UST MUTATED        0      2      1      0      0      0
  UST WILD-TYPE     13     14     13     11     11      9
D1821V11, multiclass
        clus
vv       UST MUTATED UST WILD-TYPE
  CLUS_1           0            13
  CLUS_2           2            14
  CLUS_3           1            13
  CLUS_4           0            11
  CLUS_5           0            11
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  UST MUTATED        1      0      0      0      1      0      1      0      0
  UST WILD-TYPE     10      7      7      9      7      7     10      9      5
D1821V12, multiclass
        clus
vv       UST MUTATED UST WILD-TYPE
  CLUS_1           1            10
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           0             9
  CLUS_5           1             7
  CLUS_6           0             7
  CLUS_7           1            10
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1822) Variable = CYTSA MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYTSA MUTATED        4      0      1      1      0
  CYTSA WILD-TYPE     28     18     45     26     23
D1822V1, multiclass
        clus
vv       CYTSA MUTATED CYTSA WILD-TYPE
  CLUS_1             4              28
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYTSA MUTATED        5      1      0
  CYTSA WILD-TYPE     38     66     36
D1822V2, multiclass
        clus
vv       CYTSA MUTATED CYTSA WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYTSA MUTATED        0      2      9
  CYTSA WILD-TYPE     42    171    138
D1822V3, multiclass
        clus
vv       CYTSA MUTATED CYTSA WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYTSA MUTATED        4      1      0
  CYTSA WILD-TYPE     58     72     75
D1822V4, multiclass
        clus
vv       CYTSA MUTATED CYTSA WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             0              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYTSA MUTATED        1      2      5
  CYTSA WILD-TYPE     69    118     95
D1822V5, multiclass
        clus
vv       CYTSA MUTATED CYTSA WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYTSA MUTATED        1      0      0      1      1      4      0      0
  CYTSA WILD-TYPE     40     26     30     28     38     65     20     14
                 vv
clus              CLUS_9
  CYTSA MUTATED        1
  CYTSA WILD-TYPE     21
D1822V6, multiclass
        clus
vv       CYTSA MUTATED CYTSA WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYTSA MUTATED        0      2      3      6
  CYTSA WILD-TYPE    100     70     69    115
D1822V7, multiclass
        clus
vv       CYTSA MUTATED CYTSA WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             6             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYTSA MUTATED        2      1      2      2      4
  CYTSA WILD-TYPE     57     74     72    117     34
D1822V8, multiclass
        clus
vv       CYTSA MUTATED CYTSA WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYTSA MUTATED        0      2      2      1      5
  CYTSA WILD-TYPE     51     74     59     70     90
D1822V9, multiclass
        clus
vv       CYTSA MUTATED CYTSA WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYTSA MUTATED        1      2      0      1      0      0      1      3
  CYTSA WILD-TYPE     68     46     39     15     53     20     20     35
                 vv
clus              CLUS_9
  CYTSA MUTATED        2
  CYTSA WILD-TYPE     48
D1822V10, multiclass
        clus
vv       CYTSA MUTATED CYTSA WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CYTSA MUTATED        0      1      0      0      0      0
  CYTSA WILD-TYPE     13     15     14     11     11      9
D1822V11, multiclass
[1] "Remove cluster labels:" "CYTSA MUTATED"         
clus
  CYTSA MUTATED CYTSA WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-G4-6628 
"CYTSA WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CYTSA MUTATED        1      0      0      0      0      0      0      0
  CYTSA WILD-TYPE     10      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  CYTSA MUTATED        0
  CYTSA WILD-TYPE      5
D1822V12, multiclass
[1] "Remove cluster labels:" "CYTSA MUTATED"         
clus
  CYTSA MUTATED CYTSA WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" "CYTSA WILD-TYPE" 
     TCGA-G4-6628 
"CYTSA WILD-TYPE" 

Clustering(1823) Variable = PEAR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PEAR1 MUTATED        3      0      0      0      0
  PEAR1 WILD-TYPE     29     18     46     27     23
D1823V1, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PEAR1 MUTATED        3      0      0
  PEAR1 WILD-TYPE     40     67     36
D1823V2, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PEAR1 MUTATED        1      1      9
  PEAR1 WILD-TYPE     41    172    138
D1823V3, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PEAR1 MUTATED        3      0      5
  PEAR1 WILD-TYPE     59     73     70
D1823V4, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PEAR1 MUTATED        1      3      5
  PEAR1 WILD-TYPE     69    117     95
D1823V5, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PEAR1 MUTATED        0      1      1      1      0      4      2      0
  PEAR1 WILD-TYPE     41     25     29     28     39     65     18     14
                 vv
clus              CLUS_9
  PEAR1 MUTATED        0
  PEAR1 WILD-TYPE     22
D1823V6, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PEAR1 MUTATED        1      3      3      4
  PEAR1 WILD-TYPE     99     69     69    117
D1823V7, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PEAR1 MUTATED        0      1      6      1      3
  PEAR1 WILD-TYPE     59     74     68    118     35
D1823V8, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PEAR1 MUTATED        1      5      1      0      4
  PEAR1 WILD-TYPE     50     71     60     71     91
D1823V9, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             5              71
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PEAR1 MUTATED        1      1      0      4      1      1      0      2
  PEAR1 WILD-TYPE     68     47     39     12     52     19     21     36
                 vv
clus              CLUS_9
  PEAR1 MUTATED        1
  PEAR1 WILD-TYPE     49
D1823V10, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             4              12
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PEAR1 MUTATED        1      0      0      0      3      0
  PEAR1 WILD-TYPE     12     16     14     11      8      9
D1823V11, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             0              11
  CLUS_5             3               8
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PEAR1 MUTATED        0      0      0      1      1      1      0      0
  PEAR1 WILD-TYPE     11      7      7      8      7      6     11      9
                 vv
clus              CLUS_9
  PEAR1 MUTATED        1
  PEAR1 WILD-TYPE      4
D1823V12, multiclass
        clus
vv       PEAR1 MUTATED PEAR1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             1               7
  CLUS_6             1               6
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1824) Variable = HIST1H1B MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1B MUTATED        1      0      0      0      0
  HIST1H1B WILD-TYPE     31     18     46     27     23
D1824V1, multiclass
[1] "Remove cluster labels:" "HIST1H1B MUTATED"      
clus
  HIST1H1B MUTATED HIST1H1B WILD-TYPE 
                 1                145 
        TCGA-A6-2674         TCGA-A6-2676         TCGA-A6-2677 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-A6-2678         TCGA-A6-2683         TCGA-A6-3807 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-A6-3808         TCGA-A6-3809         TCGA-A6-3810 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3514         TCGA-AA-3516         TCGA-AA-3517 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3518         TCGA-AA-3519         TCGA-AA-3520 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AY-4071 
"HIST1H1B WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1B MUTATED        1      0      0
  HIST1H1B WILD-TYPE     42     67     36
D1824V2, multiclass
[1] "Remove cluster labels:" "HIST1H1B MUTATED"      
clus
  HIST1H1B MUTATED HIST1H1B WILD-TYPE 
                 1                145 
        TCGA-A6-2674         TCGA-A6-2676         TCGA-A6-2677 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-A6-2678         TCGA-A6-2683         TCGA-A6-3807 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-A6-3808         TCGA-A6-3809         TCGA-A6-3810 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3514         TCGA-AA-3516         TCGA-AA-3517 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3518         TCGA-AA-3519         TCGA-AA-3520 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3678         TCGA-AA-3679 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3680         TCGA-AA-3681         TCGA-AA-3684 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AY-4071 
"HIST1H1B WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1B MUTATED        1      1      5
  HIST1H1B WILD-TYPE     41    172    142
D1824V3, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                1                172
  CLUS_3                5                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1B MUTATED        3      1      2
  HIST1H1B WILD-TYPE     59     72     73
D1824V4, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                1                 72
  CLUS_3                2                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1B MUTATED        0      2      4
  HIST1H1B WILD-TYPE     70    118     96
D1824V5, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                118
  CLUS_3                4                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1B MUTATED        0      0      0      1      1      3      0      0
  HIST1H1B WILD-TYPE     41     26     30     28     38     66     20     14
                    vv
clus                 CLUS_9
  HIST1H1B MUTATED        1
  HIST1H1B WILD-TYPE     21
D1824V6, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                1                 28
  CLUS_5                1                 38
  CLUS_6                3                 66
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST1H1B MUTATED        1      1      4      1
  HIST1H1B WILD-TYPE     99     71     68    120
D1824V7, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                1                 71
  CLUS_3                4                 68
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1B MUTATED        1      1      4      0      1
  HIST1H1B WILD-TYPE     58     74     70    119     37
D1824V8, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                1                 74
  CLUS_3                4                 70
  CLUS_4                0                119
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST1H1B MUTATED        1      2      3      0      1
  HIST1H1B WILD-TYPE     50     74     58     71     94
D1824V9, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                2                 74
  CLUS_3                3                 58
  CLUS_4                0                 71
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1B MUTATED        2      3      0      0      1      0      0      1
  HIST1H1B WILD-TYPE     67     45     39     16     52     20     21     37
                    vv
clus                 CLUS_9
  HIST1H1B MUTATED        0
  HIST1H1B WILD-TYPE     50
D1824V10, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                3                 45
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                1                 52
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIST1H1B MUTATED        0      0      0      0      1      0
  HIST1H1B WILD-TYPE     13     16     14     11     10      9
D1824V11, multiclass
[1] "Remove cluster labels:" "HIST1H1B MUTATED"      
clus
  HIST1H1B MUTATED HIST1H1B WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-G4-6628 
"HIST1H1B WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST1H1B MUTATED        0      0      0      0      0      1      0      0
  HIST1H1B WILD-TYPE     11      7      7      9      8      6     11      9
                    vv
clus                 CLUS_9
  HIST1H1B MUTATED        0
  HIST1H1B WILD-TYPE      5
D1824V12, multiclass
[1] "Remove cluster labels:" "HIST1H1B MUTATED"      
clus
  HIST1H1B MUTATED HIST1H1B WILD-TYPE 
                 1                 73 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-A6-6782         TCGA-AA-3489         TCGA-AA-3511 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6303 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6625 
"HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" "HIST1H1B WILD-TYPE" 
        TCGA-G4-6628 
"HIST1H1B WILD-TYPE" 

Clustering(1825) Variable = SIRT4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIRT4 MUTATED        1      0      0      2      0
  SIRT4 WILD-TYPE     31     18     46     25     23
D1825V1, multiclass
        clus
vv       SIRT4 MUTATED SIRT4 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIRT4 MUTATED        2      0      1
  SIRT4 WILD-TYPE     41     67     35
D1825V2, multiclass
        clus
vv       SIRT4 MUTATED SIRT4 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIRT4 MUTATED        0      0      6
  SIRT4 WILD-TYPE     42    173    141
D1825V3, multiclass
        clus
vv       SIRT4 MUTATED SIRT4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIRT4 MUTATED        1      0      2
  SIRT4 WILD-TYPE     61     73     73
D1825V4, multiclass
        clus
vv       SIRT4 MUTATED SIRT4 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIRT4 MUTATED        0      2      3
  SIRT4 WILD-TYPE     70    118     97
D1825V5, multiclass
        clus
vv       SIRT4 MUTATED SIRT4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SIRT4 MUTATED        0      0      0      0      1      3      1      0
  SIRT4 WILD-TYPE     41     26     30     29     38     66     19     14
                 vv
clus              CLUS_9
  SIRT4 MUTATED        0
  SIRT4 WILD-TYPE     22
D1825V6, multiclass
        clus
vv       SIRT4 MUTATED SIRT4 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SIRT4 MUTATED        0      2      1      3
  SIRT4 WILD-TYPE    100     70     71    118
D1825V7, multiclass
        clus
vv       SIRT4 MUTATED SIRT4 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIRT4 MUTATED        0      0      3      1      2
  SIRT4 WILD-TYPE     59     75     71    118     36
D1825V8, multiclass
        clus
vv       SIRT4 MUTATED SIRT4 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIRT4 MUTATED        0      3      0      1      1
  SIRT4 WILD-TYPE     51     73     61     70     94
D1825V9, multiclass
        clus
vv       SIRT4 MUTATED SIRT4 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SIRT4 MUTATED        0      1      0      1      2      0      0      1
  SIRT4 WILD-TYPE     69     47     39     15     51     20     21     37
                 vv
clus              CLUS_9
  SIRT4 MUTATED        0
  SIRT4 WILD-TYPE     50
D1825V10, multiclass
        clus
vv       SIRT4 MUTATED SIRT4 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SIRT4 MUTATED        0      0      0      0      1      0
  SIRT4 WILD-TYPE     13     16     14     11     10      9
D1825V11, multiclass
[1] "Remove cluster labels:" "SIRT4 MUTATED"         
clus
  SIRT4 MUTATED SIRT4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-G4-6628 
"SIRT4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SIRT4 MUTATED        0      0      0      0      0      0      1      0
  SIRT4 WILD-TYPE     11      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  SIRT4 MUTATED        0
  SIRT4 WILD-TYPE      5
D1825V12, multiclass
[1] "Remove cluster labels:" "SIRT4 MUTATED"         
clus
  SIRT4 MUTATED SIRT4 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6603      TCGA-AZ-6605 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" "SIRT4 WILD-TYPE" 
     TCGA-G4-6628 
"SIRT4 WILD-TYPE" 

Clustering(1826) Variable = OLFM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OLFM1 MUTATED        1      0      0      2      0
  OLFM1 WILD-TYPE     31     18     46     25     23
D1826V1, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OLFM1 MUTATED        2      1      0
  OLFM1 WILD-TYPE     41     66     36
D1826V2, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OLFM1 MUTATED        1      3      7
  OLFM1 WILD-TYPE     41    170    140
D1826V3, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OLFM1 MUTATED        1      1      5
  OLFM1 WILD-TYPE     61     72     70
D1826V4, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             1              72
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OLFM1 MUTATED        2      5      3
  OLFM1 WILD-TYPE     68    115     97
D1826V5, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             115
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OLFM1 MUTATED        1      1      3      1      0      3      0      1
  OLFM1 WILD-TYPE     40     25     27     28     39     66     20     13
                 vv
clus              CLUS_9
  OLFM1 MUTATED        0
  OLFM1 WILD-TYPE     22
D1826V6, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             3              27
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OLFM1 MUTATED        1      5      1      4
  OLFM1 WILD-TYPE     99     67     71    117
D1826V7, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             1              71
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OLFM1 MUTATED        1      3      2      2      3
  OLFM1 WILD-TYPE     58     72     72    117     35
D1826V8, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OLFM1 MUTATED        2      3      2      0      4
  OLFM1 WILD-TYPE     49     73     59     71     91
D1826V9, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OLFM1 MUTATED        1      0      0      2      2      2      1      3
  OLFM1 WILD-TYPE     68     48     39     14     51     18     20     35
                 vv
clus              CLUS_9
  OLFM1 MUTATED        0
  OLFM1 WILD-TYPE     50
D1826V10, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             2              51
  CLUS_6             2              18
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OLFM1 MUTATED        1      0      1      0      1      0
  OLFM1 WILD-TYPE     12     16     13     11     10      9
D1826V11, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OLFM1 MUTATED        1      0      0      1      0      0      0      0
  OLFM1 WILD-TYPE     10      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  OLFM1 MUTATED        1
  OLFM1 WILD-TYPE      4
D1826V12, multiclass
        clus
vv       OLFM1 MUTATED OLFM1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             0              11
  CLUS_8             0               9
  CLUS_9             1               4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1827) Variable = DDX55 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX55 MUTATED        1      0      1      1      0
  DDX55 WILD-TYPE     31     18     45     26     23
D1827V1, multiclass
        clus
vv       DDX55 MUTATED DDX55 WILD-TYPE
  CLUS_1             1              31
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX55 MUTATED        2      1      0
  DDX55 WILD-TYPE     41     66     36
D1827V2, multiclass
        clus
vv       DDX55 MUTATED DDX55 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX55 MUTATED        1      3      6
  DDX55 WILD-TYPE     41    170    141
D1827V3, multiclass
        clus
vv       DDX55 MUTATED DDX55 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX55 MUTATED        2      0      5
  DDX55 WILD-TYPE     60     73     70
D1827V4, multiclass
        clus
vv       DDX55 MUTATED DDX55 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             5              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DDX55 MUTATED        0      4      4
  DDX55 WILD-TYPE     70    116     96
D1827V5, multiclass
        clus
vv       DDX55 MUTATED DDX55 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             116
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX55 MUTATED        2      0      0      2      2      2      0      0
  DDX55 WILD-TYPE     39     26     30     27     37     67     20     14
                 vv
clus              CLUS_9
  DDX55 MUTATED        0
  DDX55 WILD-TYPE     22
D1827V6, multiclass
        clus
vv       DDX55 MUTATED DDX55 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DDX55 MUTATED        2      3      3      2
  DDX55 WILD-TYPE     98     69     69    119
D1827V7, multiclass
        clus
vv       DDX55 MUTATED DDX55 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX55 MUTATED        2      1      4      1      2
  DDX55 WILD-TYPE     57     74     70    118     36
D1827V8, multiclass
        clus
vv       DDX55 MUTATED DDX55 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DDX55 MUTATED        2      3      2      0      3
  DDX55 WILD-TYPE     49     73     59     71     92
D1827V9, multiclass
        clus
vv       DDX55 MUTATED DDX55 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX55 MUTATED        1      3      2      2      0      0      0      2
  DDX55 WILD-TYPE     68     45     37     14     53     20     21     36
                 vv
clus              CLUS_9
  DDX55 MUTATED        0
  DDX55 WILD-TYPE     50
D1827V10, multiclass
        clus
vv       DDX55 MUTATED DDX55 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              45
  CLUS_3             2              37
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DDX55 MUTATED        0      0      0      0      1      0
  DDX55 WILD-TYPE     13     16     14     11     10      9
D1827V11, multiclass
[1] "Remove cluster labels:" "DDX55 MUTATED"         
clus
  DDX55 MUTATED DDX55 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-G4-6628 
"DDX55 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  DDX55 MUTATED        0      0      0      1      0      0      0      0
  DDX55 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  DDX55 MUTATED        0
  DDX55 WILD-TYPE      5
D1827V12, multiclass
[1] "Remove cluster labels:" "DDX55 MUTATED"         
clus
  DDX55 MUTATED DDX55 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" "DDX55 WILD-TYPE" 
     TCGA-G4-6628 
"DDX55 WILD-TYPE" 

Clustering(1828) Variable = CLGN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLGN MUTATED        1      0      0      0      0
  CLGN WILD-TYPE     31     18     46     27     23
D1828V1, multiclass
[1] "Remove cluster labels:" "CLGN MUTATED"          
clus
  CLGN MUTATED CLGN WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AY-4071 
"CLGN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CLGN MUTATED        1      0      0
  CLGN WILD-TYPE     42     67     36
D1828V2, multiclass
[1] "Remove cluster labels:" "CLGN MUTATED"          
clus
  CLGN MUTATED CLGN WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AY-4071 
"CLGN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CLGN MUTATED        0      2      9
  CLGN WILD-TYPE     42    171    138
D1828V3, multiclass
        clus
vv       CLGN MUTATED CLGN WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            171
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CLGN MUTATED        3      1      6
  CLGN WILD-TYPE     59     72     69
D1828V4, multiclass
        clus
vv       CLGN MUTATED CLGN WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            6             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CLGN MUTATED        2      3      5
  CLGN WILD-TYPE     68    117     95
D1828V5, multiclass
        clus
vv       CLGN MUTATED CLGN WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CLGN MUTATED        2      2      0      1      1      2      1      1      0
  CLGN WILD-TYPE     39     24     30     28     38     67     19     13     22
D1828V6, multiclass
        clus
vv       CLGN MUTATED CLGN WILD-TYPE
  CLUS_1            2             39
  CLUS_2            2             24
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            2             67
  CLUS_7            1             19
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLGN MUTATED        2      5      2      2
  CLGN WILD-TYPE     98     67     70    119
D1828V7, multiclass
        clus
vv       CLGN MUTATED CLGN WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLGN MUTATED        1      4      3      2      1
  CLGN WILD-TYPE     58     71     71    117     37
D1828V8, multiclass
        clus
vv       CLGN MUTATED CLGN WILD-TYPE
  CLUS_1            1             58
  CLUS_2            4             71
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLGN MUTATED        1      5      1      0      4
  CLGN WILD-TYPE     50     71     60     71     91
D1828V9, multiclass
        clus
vv       CLGN MUTATED CLGN WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CLGN MUTATED        2      2      1      2      0      0      0      2      2
  CLGN WILD-TYPE     67     46     38     14     53     20     21     36     48
D1828V10, multiclass
        clus
vv       CLGN MUTATED CLGN WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            1             38
  CLUS_4            2             14
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLGN MUTATED        0      1      0      0      0      0
  CLGN WILD-TYPE     13     15     14     11     11      9
D1828V11, multiclass
[1] "Remove cluster labels:" "CLGN MUTATED"          
clus
  CLGN MUTATED CLGN WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-G4-6628 
"CLGN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CLGN MUTATED        0      0      0      0      0      0      1      0      0
  CLGN WILD-TYPE     11      7      7      9      8      7     10      9      5
D1828V12, multiclass
[1] "Remove cluster labels:" "CLGN MUTATED"          
clus
  CLGN MUTATED CLGN WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" "CLGN WILD-TYPE" 
    TCGA-G4-6628 
"CLGN WILD-TYPE" 

Clustering(1829) Variable = EHBP1L1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EHBP1L1 MUTATED        0      0      0      1      1
  EHBP1L1 WILD-TYPE     32     18     46     26     22
D1829V1, multiclass
[1] "Remove cluster labels:" "EHBP1L1 MUTATED"       
clus
  EHBP1L1 MUTATED EHBP1L1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3866        TCGA-AA-3867 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EHBP1L1 MUTATED        1      0      1
  EHBP1L1 WILD-TYPE     42     67     35
D1829V2, multiclass
[1] "Remove cluster labels:" "EHBP1L1 MUTATED"       
clus
  EHBP1L1 MUTATED EHBP1L1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3866        TCGA-AA-3867 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EHBP1L1 MUTATED        0      2      5
  EHBP1L1 WILD-TYPE     42    171    142
D1829V3, multiclass
        clus
vv       EHBP1L1 MUTATED EHBP1L1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EHBP1L1 MUTATED        2      0      3
  EHBP1L1 WILD-TYPE     60     73     72
D1829V4, multiclass
        clus
vv       EHBP1L1 MUTATED EHBP1L1 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EHBP1L1 MUTATED        0      2      3
  EHBP1L1 WILD-TYPE     70    118     97
D1829V5, multiclass
        clus
vv       EHBP1L1 MUTATED EHBP1L1 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EHBP1L1 MUTATED        0      0      0      1      1      2      1      0
  EHBP1L1 WILD-TYPE     41     26     30     28     38     67     19     14
                   vv
clus                CLUS_9
  EHBP1L1 MUTATED        0
  EHBP1L1 WILD-TYPE     22
D1829V6, multiclass
        clus
vv       EHBP1L1 MUTATED EHBP1L1 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EHBP1L1 MUTATED        1      3      2      1
  EHBP1L1 WILD-TYPE     99     69     70    120
D1829V7, multiclass
        clus
vv       EHBP1L1 MUTATED EHBP1L1 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EHBP1L1 MUTATED        0      1      5      0      1
  EHBP1L1 WILD-TYPE     59     74     69    119     37
D1829V8, multiclass
        clus
vv       EHBP1L1 MUTATED EHBP1L1 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               5                69
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EHBP1L1 MUTATED        1      4      0      1      1
  EHBP1L1 WILD-TYPE     50     72     61     70     94
D1829V9, multiclass
        clus
vv       EHBP1L1 MUTATED EHBP1L1 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               4                72
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EHBP1L1 MUTATED        1      1      0      2      0      1      0      1
  EHBP1L1 WILD-TYPE     68     47     39     14     53     19     21     37
                   vv
clus                CLUS_9
  EHBP1L1 MUTATED        1
  EHBP1L1 WILD-TYPE     49
D1829V10, multiclass
        clus
vv       EHBP1L1 MUTATED EHBP1L1 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EHBP1L1 MUTATED        0      0      0      0      2      0
  EHBP1L1 WILD-TYPE     13     16     14     11      9      9
D1829V11, multiclass
[1] "Remove cluster labels:" "EHBP1L1 MUTATED"       
clus
  EHBP1L1 MUTATED EHBP1L1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6654 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511        TCGA-AD-5900 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901        TCGA-AD-6963 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196        TCGA-AZ-4323 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598        TCGA-AZ-6600 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EHBP1L1 MUTATED        0      0      0      1      0      1      0      0
  EHBP1L1 WILD-TYPE     11      7      7      8      8      6     11      9
                   vv
clus                CLUS_9
  EHBP1L1 MUTATED        0
  EHBP1L1 WILD-TYPE      5
D1829V12, multiclass
[1] "Remove cluster labels:" "EHBP1L1 MUTATED"       
clus
  EHBP1L1 MUTATED EHBP1L1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6654 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511        TCGA-AD-5900 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901        TCGA-AD-6963 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196        TCGA-AZ-4323 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598        TCGA-AZ-6600 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" "EHBP1L1 WILD-TYPE" 

Clustering(1830) Variable = ATP2A2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP2A2 MUTATED        4      0      0      1      0
  ATP2A2 WILD-TYPE     28     18     46     26     23
D1830V1, multiclass
        clus
vv       ATP2A2 MUTATED ATP2A2 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP2A2 MUTATED        5      0      0
  ATP2A2 WILD-TYPE     38     67     36
D1830V2, multiclass
        clus
vv       ATP2A2 MUTATED ATP2A2 WILD-TYPE
  CLUS_1              5               38
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP2A2 MUTATED        2      1     11
  ATP2A2 WILD-TYPE     40    172    136
D1830V3, multiclass
        clus
vv       ATP2A2 MUTATED ATP2A2 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1              172
  CLUS_3             11              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP2A2 MUTATED        2      2      6
  ATP2A2 WILD-TYPE     60     71     69
D1830V4, multiclass
        clus
vv       ATP2A2 MUTATED ATP2A2 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              2               71
  CLUS_3              6               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP2A2 MUTATED        1      6      7
  ATP2A2 WILD-TYPE     69    114     93
D1830V5, multiclass
        clus
vv       ATP2A2 MUTATED ATP2A2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              6              114
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP2A2 MUTATED        1      1      1      3      0      5      3      0
  ATP2A2 WILD-TYPE     40     25     29     26     39     64     17     14
                  vv
clus               CLUS_9
  ATP2A2 MUTATED        0
  ATP2A2 WILD-TYPE     22
D1830V6, multiclass
        clus
vv       ATP2A2 MUTATED ATP2A2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              3               17
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP2A2 MUTATED        2      7      1      5
  ATP2A2 WILD-TYPE     98     65     71    116
D1830V7, multiclass
        clus
vv       ATP2A2 MUTATED ATP2A2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              7               65
  CLUS_3              1               71
  CLUS_4              5              116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP2A2 MUTATED        0      3      6      1      5
  ATP2A2 WILD-TYPE     59     72     68    118     33
D1830V8, multiclass
        clus
vv       ATP2A2 MUTATED ATP2A2 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              6               68
  CLUS_4              1              118
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP2A2 MUTATED        1      7      0      1      4
  ATP2A2 WILD-TYPE     50     69     61     70     91
D1830V9, multiclass
        clus
vv       ATP2A2 MUTATED ATP2A2 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              7               69
  CLUS_3              0               61
  CLUS_4              1               70
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP2A2 MUTATED        1      1      0      4      2      1      0      3
  ATP2A2 WILD-TYPE     68     47     39     12     51     19     21     35
                  vv
clus               CLUS_9
  ATP2A2 MUTATED        1
  ATP2A2 WILD-TYPE     49
D1830V10, multiclass
        clus
vv       ATP2A2 MUTATED ATP2A2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              4               12
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP2A2 MUTATED        0      1      0      0      1      0
  ATP2A2 WILD-TYPE     13     15     14     11     10      9
D1830V11, multiclass
[1] "Remove cluster labels:" "ATP2A2 MUTATED"        
clus
  ATP2A2 MUTATED ATP2A2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6600 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP2A2 MUTATED        0      0      0      1      0      0      1      0
  ATP2A2 WILD-TYPE     11      7      7      8      8      7     10      9
                  vv
clus               CLUS_9
  ATP2A2 MUTATED        0
  ATP2A2 WILD-TYPE      5
D1830V12, multiclass
[1] "Remove cluster labels:" "ATP2A2 MUTATED"        
clus
  ATP2A2 MUTATED ATP2A2 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6600 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" "ATP2A2 WILD-TYPE" 

Clustering(1831) Variable = GRAMD1C MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRAMD1C MUTATED        1      1      0      1      0
  GRAMD1C WILD-TYPE     31     17     46     26     23
D1831V1, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               1                31
  CLUS_2               1                17
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GRAMD1C MUTATED        0      1      2
  GRAMD1C WILD-TYPE     43     66     34
D1831V2, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               0                43
  CLUS_2               1                66
  CLUS_3               2                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GRAMD1C MUTATED        0      4      7
  GRAMD1C WILD-TYPE     42    169    140
D1831V3, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               0                42
  CLUS_2               4               169
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GRAMD1C MUTATED        4      2      2
  GRAMD1C WILD-TYPE     58     71     73
D1831V4, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               4                58
  CLUS_2               2                71
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GRAMD1C MUTATED        1      5      4
  GRAMD1C WILD-TYPE     69    115     96
D1831V5, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               115
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRAMD1C MUTATED        2      2      2      0      0      2      0      1
  GRAMD1C WILD-TYPE     39     24     28     29     39     67     20     13
                   vv
clus                CLUS_9
  GRAMD1C MUTATED        1
  GRAMD1C WILD-TYPE     21
D1831V6, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               2                39
  CLUS_2               2                24
  CLUS_3               2                28
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               1                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRAMD1C MUTATED        2      3      3      3
  GRAMD1C WILD-TYPE     98     69     69    118
D1831V7, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               2                98
  CLUS_2               3                69
  CLUS_3               3                69
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRAMD1C MUTATED        3      3      2      3      0
  GRAMD1C WILD-TYPE     56     72     72    116     38
D1831V8, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               3                56
  CLUS_2               3                72
  CLUS_3               2                72
  CLUS_4               3               116
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRAMD1C MUTATED        2      2      3      2      2
  GRAMD1C WILD-TYPE     49     74     58     69     93
D1831V9, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               2                49
  CLUS_2               2                74
  CLUS_3               3                58
  CLUS_4               2                69
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRAMD1C MUTATED        3      2      1      0      2      1      1      0
  GRAMD1C WILD-TYPE     66     46     38     16     51     19     20     38
                   vv
clus                CLUS_9
  GRAMD1C MUTATED        1
  GRAMD1C WILD-TYPE     49
D1831V10, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               3                66
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               0                38
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GRAMD1C MUTATED        1      1      2      2      0      0
  GRAMD1C WILD-TYPE     12     15     12      9     11      9
D1831V11, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               1                12
  CLUS_2               1                15
  CLUS_3               2                12
  CLUS_4               2                 9
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GRAMD1C MUTATED        0      1      1      0      0      0      3      0
  GRAMD1C WILD-TYPE     11      6      6      9      8      7      8      9
                   vv
clus                CLUS_9
  GRAMD1C MUTATED        1
  GRAMD1C WILD-TYPE      4
D1831V12, multiclass
        clus
vv       GRAMD1C MUTATED GRAMD1C WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                 6
  CLUS_3               1                 6
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               0                 7
  CLUS_7               3                 8
  CLUS_8               0                 9
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1832) Variable = TIPARP MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIPARP MUTATED        1      0      0      2      0
  TIPARP WILD-TYPE     31     18     46     25     23
D1832V1, multiclass
        clus
vv       TIPARP MUTATED TIPARP WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TIPARP MUTATED        2      1      0
  TIPARP WILD-TYPE     41     66     36
D1832V2, multiclass
        clus
vv       TIPARP MUTATED TIPARP WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TIPARP MUTATED        0      0      5
  TIPARP WILD-TYPE     42    173    142
D1832V3, multiclass
        clus
vv       TIPARP MUTATED TIPARP WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TIPARP MUTATED        1      0      1
  TIPARP WILD-TYPE     61     73     74
D1832V4, multiclass
[1] "Remove cluster labels:" "TIPARP MUTATED"        
clus
  TIPARP MUTATED TIPARP WILD-TYPE 
               2              208 
      TCGA-A6-2671       TCGA-A6-2677       TCGA-A6-3809       TCGA-A6-3810 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-A6-4105       TCGA-A6-5656       TCGA-A6-5657       TCGA-A6-5659 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662       TCGA-A6-5664 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137       TCGA-A6-6138 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648       TCGA-A6-6649 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653       TCGA-A6-6654 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-A6-6780       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AA-3492       TCGA-AA-3496       TCGA-AA-3502       TCGA-AA-3510 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AA-3511       TCGA-AA-3655       TCGA-AA-3660       TCGA-AA-3662 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AA-3663       TCGA-AA-3697       TCGA-AA-3712       TCGA-AA-3713 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6888       TCGA-AD-6889 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AD-6890       TCGA-AD-6895       TCGA-AD-6899       TCGA-AD-6901 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AU-3779 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AU-6004       TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AY-6386       TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AZ-4681       TCGA-AZ-4682       TCGA-AZ-5403       TCGA-AZ-5407 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6599       TCGA-AZ-6600       TCGA-AZ-6601 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6606       TCGA-AZ-6607 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-AZ-6608       TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CA-5797       TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6718 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CA-6719       TCGA-CK-4947       TCGA-CK-4948       TCGA-CK-4950 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CK-4952       TCGA-CK-5912       TCGA-CK-5913       TCGA-CK-5914 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CK-5915       TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CK-6748       TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CM-4746       TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CM-5344       TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CM-5861       TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CM-5868       TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CM-6164       TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CM-6168       TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CM-6172       TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-D5-5538       TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-D5-6529       TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-D5-6535       TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-D5-6539       TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-D5-6920       TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-D5-6926       TCGA-D5-6927       TCGA-D5-6928       TCGA-D5-6929 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932       TCGA-D5-7000 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-DM-A1D4       TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-DM-A1HB       TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28C 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-DM-A28E       TCGA-DM-A28F       TCGA-DM-A28G       TCGA-DM-A28H 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-DM-A28K       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" "TIPARP WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TIPARP MUTATED        0      2      2
  TIPARP WILD-TYPE     70    118     98
D1832V5, multiclass
        clus
vv       TIPARP MUTATED TIPARP WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              118
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TIPARP MUTATED        1      0      1      1      0      1      0      0
  TIPARP WILD-TYPE     40     26     29     28     39     68     20     14
                  vv
clus               CLUS_9
  TIPARP MUTATED        0
  TIPARP WILD-TYPE     22
D1832V6, multiclass
        clus
vv       TIPARP MUTATED TIPARP WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TIPARP MUTATED        0      1      1      3
  TIPARP WILD-TYPE    100     71     71    118
D1832V7, multiclass
        clus
vv       TIPARP MUTATED TIPARP WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIPARP MUTATED        1      0      1      1      2
  TIPARP WILD-TYPE     58     75     73    118     36
D1832V8, multiclass
        clus
vv       TIPARP MUTATED TIPARP WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIPARP MUTATED        0      1      1      0      2
  TIPARP WILD-TYPE     51     75     60     71     93
D1832V9, multiclass
        clus
vv       TIPARP MUTATED TIPARP WILD-TYPE
  CLUS_1              0               51
  CLUS_2              1               75
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TIPARP MUTATED        1      1      0      0      0      1      0      1
  TIPARP WILD-TYPE     68     47     39     16     53     19     21     37
                  vv
clus               CLUS_9
  TIPARP MUTATED        0
  TIPARP WILD-TYPE     50
D1832V10, multiclass
        clus
vv       TIPARP MUTATED TIPARP WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TIPARP MUTATED        0      0      0      0      0      0
  TIPARP WILD-TYPE     13     16     14     11     11      9
D1832V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TIPARP MUTATED        0      0      0      0      0      0      0      0
  TIPARP WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  TIPARP MUTATED        0
  TIPARP WILD-TYPE      5
D1832V12, multiclass

Clustering(1833) Variable = POLA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLA1 MUTATED        2      0      1      1      0
  POLA1 WILD-TYPE     30     18     45     26     23
D1833V1, multiclass
        clus
vv       POLA1 MUTATED POLA1 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  POLA1 MUTATED        1      2      1
  POLA1 WILD-TYPE     42     65     35
D1833V2, multiclass
        clus
vv       POLA1 MUTATED POLA1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              65
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  POLA1 MUTATED        1      3      5
  POLA1 WILD-TYPE     41    170    142
D1833V3, multiclass
        clus
vv       POLA1 MUTATED POLA1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3             170
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  POLA1 MUTATED        0      3      2
  POLA1 WILD-TYPE     62     70     73
D1833V4, multiclass
        clus
vv       POLA1 MUTATED POLA1 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             3              70
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  POLA1 MUTATED        0      6      2
  POLA1 WILD-TYPE     70    114     98
D1833V5, multiclass
        clus
vv       POLA1 MUTATED POLA1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             6             114
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POLA1 MUTATED        0      0      3      2      1      1      0      1
  POLA1 WILD-TYPE     41     26     27     27     38     68     20     13
                 vv
clus              CLUS_9
  POLA1 MUTATED        0
  POLA1 WILD-TYPE     22
D1833V6, multiclass
        clus
vv       POLA1 MUTATED POLA1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             3              27
  CLUS_4             2              27
  CLUS_5             1              38
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  POLA1 MUTATED        2      3      0      4
  POLA1 WILD-TYPE     98     69     72    117
D1833V7, multiclass
        clus
vv       POLA1 MUTATED POLA1 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             3              69
  CLUS_3             0              72
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLA1 MUTATED        0      3      2      3      1
  POLA1 WILD-TYPE     59     72     72    116     37
D1833V8, multiclass
        clus
vv       POLA1 MUTATED POLA1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3              72
  CLUS_3             2              72
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  POLA1 MUTATED        3      2      0      1      3
  POLA1 WILD-TYPE     48     74     61     70     92
D1833V9, multiclass
        clus
vv       POLA1 MUTATED POLA1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             2              74
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POLA1 MUTATED        1      0      1      2      1      2      0      2
  POLA1 WILD-TYPE     68     48     38     14     52     18     21     36
                 vv
clus              CLUS_9
  POLA1 MUTATED        0
  POLA1 WILD-TYPE     50
D1833V10, multiclass
        clus
vv       POLA1 MUTATED POLA1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  POLA1 MUTATED        0      0      0      0      0      0
  POLA1 WILD-TYPE     13     16     14     11     11      9
D1833V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  POLA1 MUTATED        0      0      0      0      0      0      0      0
  POLA1 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  POLA1 MUTATED        0
  POLA1 WILD-TYPE      5
D1833V12, multiclass

Clustering(1834) Variable = SAPS3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAPS3 MUTATED        2      0      0      1      0
  SAPS3 WILD-TYPE     30     18     46     26     23
D1834V1, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAPS3 MUTATED        2      0      1
  SAPS3 WILD-TYPE     41     67     35
D1834V2, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAPS3 MUTATED        1      1      9
  SAPS3 WILD-TYPE     41    172    138
D1834V3, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAPS3 MUTATED        3      2      2
  SAPS3 WILD-TYPE     59     71     73
D1834V4, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             2              71
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAPS3 MUTATED        1      3      6
  SAPS3 WILD-TYPE     69    117     94
D1834V5, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAPS3 MUTATED        3      0      0      3      1      3      0      0
  SAPS3 WILD-TYPE     38     26     30     26     38     66     20     14
                 vv
clus              CLUS_9
  SAPS3 MUTATED        0
  SAPS3 WILD-TYPE     22
D1834V6, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             3              26
  CLUS_5             1              38
  CLUS_6             3              66
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SAPS3 MUTATED        2      1      5      3
  SAPS3 WILD-TYPE     98     71     67    118
D1834V7, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             5              67
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAPS3 MUTATED        3      1      4      1      2
  SAPS3 WILD-TYPE     56     74     70    118     36
D1834V8, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAPS3 MUTATED        0      4      3      2      1
  SAPS3 WILD-TYPE     51     72     58     69     94
D1834V9, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             3              58
  CLUS_4             2              69
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAPS3 MUTATED        4      3      1      0      1      0      0      1
  SAPS3 WILD-TYPE     65     45     38     16     52     20     21     37
                 vv
clus              CLUS_9
  SAPS3 MUTATED        0
  SAPS3 WILD-TYPE     50
D1834V10, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              45
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SAPS3 MUTATED        0      1      1      1      1      0
  SAPS3 WILD-TYPE     13     15     13     10     10      9
D1834V11, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             1              10
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAPS3 MUTATED        0      0      1      0      0      1      2      0
  SAPS3 WILD-TYPE     11      7      6      9      8      6      9      9
                 vv
clus              CLUS_9
  SAPS3 MUTATED        0
  SAPS3 WILD-TYPE      5
D1834V12, multiclass
        clus
vv       SAPS3 MUTATED SAPS3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             1               6
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1835) Variable = ZFP1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFP1 MUTATED        1      0      0      1      0
  ZFP1 WILD-TYPE     31     18     46     26     23
D1835V1, multiclass
[1] "Remove cluster labels:" "ZFP1 MUTATED"          
clus
  ZFP1 MUTATED ZFP1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZFP1 MUTATED        1      1      0
  ZFP1 WILD-TYPE     42     66     36
D1835V2, multiclass
[1] "Remove cluster labels:" "ZFP1 MUTATED"          
clus
  ZFP1 MUTATED ZFP1 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZFP1 MUTATED        0      0      4
  ZFP1 WILD-TYPE     42    173    143
D1835V3, multiclass
        clus
vv       ZFP1 MUTATED ZFP1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            4            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZFP1 MUTATED        1      1      0
  ZFP1 WILD-TYPE     61     72     75
D1835V4, multiclass
[1] "Remove cluster labels:" "ZFP1 MUTATED"          
clus
  ZFP1 MUTATED ZFP1 WILD-TYPE 
             2            208 
    TCGA-A6-2671     TCGA-A6-2677     TCGA-A6-3809     TCGA-A6-3810 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-4105     TCGA-A6-5656     TCGA-A6-5657     TCGA-A6-5659 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662     TCGA-A6-5664 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137     TCGA-A6-6138 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648     TCGA-A6-6649 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653     TCGA-A6-6654 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502     TCGA-AA-3511 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3655     TCGA-AA-3660     TCGA-AA-3662     TCGA-AA-3663 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3697     TCGA-AA-3712     TCGA-AA-3713     TCGA-AD-5900 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6888     TCGA-AD-6889     TCGA-AD-6895 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AD-6899     TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AD-6965     TCGA-AU-3779     TCGA-AU-6004     TCGA-AY-5543 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AY-6197     TCGA-AY-6386     TCGA-AZ-4315 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-4681     TCGA-AZ-4682 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-5403     TCGA-AZ-5407     TCGA-AZ-6598     TCGA-AZ-6599 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-6606     TCGA-AZ-6607     TCGA-AZ-6608     TCGA-CA-5254 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CA-5255     TCGA-CA-5796     TCGA-CA-5797     TCGA-CA-6715 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CA-6716     TCGA-CA-6717     TCGA-CA-6718     TCGA-CA-6719 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CK-4947     TCGA-CK-4948     TCGA-CK-4950     TCGA-CK-4952 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CK-5912     TCGA-CK-5913     TCGA-CK-5914     TCGA-CK-5915 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747     TCGA-CK-6748 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744     TCGA-CM-4746 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341     TCGA-CM-5344 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860     TCGA-CM-5861 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864     TCGA-CM-5868 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163     TCGA-CM-6164 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167     TCGA-CM-6168 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171     TCGA-CM-6172 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6534 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537     TCGA-D5-6538 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541     TCGA-D5-6898 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923     TCGA-D5-6924 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6926     TCGA-D5-6927     TCGA-D5-6928     TCGA-D5-6929 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932     TCGA-D5-7000 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28C 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A28E     TCGA-DM-A28F     TCGA-DM-A28G     TCGA-DM-A28H 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A28K     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZFP1 MUTATED        0      2      0
  ZFP1 WILD-TYPE     70    118    100
D1835V5, multiclass
[1] "Remove cluster labels:" "ZFP1 MUTATED"          
clus
  ZFP1 MUTATED ZFP1 WILD-TYPE 
             2            288 
    TCGA-A6-2671     TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-A6-5656     TCGA-A6-5657 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-5659     TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-5664     TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3489     TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AA-3514     TCGA-AA-3517     TCGA-AA-3519 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3520     TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3525 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531     TCGA-AA-3532 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3534     TCGA-AA-3548     TCGA-AA-3552     TCGA-AA-3553 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3554     TCGA-AA-3555     TCGA-AA-3558     TCGA-AA-3560 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3655     TCGA-AA-3664 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681     TCGA-AA-3688 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3697     TCGA-AA-3710 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3712     TCGA-AA-3713     TCGA-AA-3715     TCGA-AA-3811 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848     TCGA-AA-3850 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856     TCGA-AA-3861 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869     TCGA-AA-3872 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3950     TCGA-AA-3955 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00E     TCGA-AA-A00F 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01P     TCGA-AA-A01Q 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A01R     TCGA-AA-A01S     TCGA-AA-A01T     TCGA-AA-A01V 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A01X     TCGA-AA-A022     TCGA-AA-A024     TCGA-AA-A029 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A02F     TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02K 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A02O     TCGA-AA-A02W     TCGA-AA-A02Y     TCGA-AA-A03F 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A03J     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AD-6899     TCGA-AD-6965     TCGA-AU-6004     TCGA-AY-5543 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AY-6197     TCGA-AY-6386     TCGA-AZ-4315 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-4682     TCGA-AZ-5407 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6599     TCGA-AZ-6600     TCGA-AZ-6601 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6606     TCGA-AZ-6607 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-6608     TCGA-CA-5254     TCGA-CA-5255     TCGA-CA-5796 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CA-5797     TCGA-CA-6715     TCGA-CA-6716     TCGA-CA-6717 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5914     TCGA-CK-5916 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CK-6746     TCGA-CK-6747     TCGA-CK-6748     TCGA-CK-6751 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-4743     TCGA-CM-4744     TCGA-CM-4746     TCGA-CM-4747 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-4752     TCGA-CM-5341     TCGA-CM-5344     TCGA-CM-5348 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-5349     TCGA-CM-5860     TCGA-CM-5861     TCGA-CM-5862 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-5863     TCGA-CM-5864     TCGA-CM-5868     TCGA-CM-6161 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6162     TCGA-CM-6163     TCGA-CM-6164     TCGA-CM-6165 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6166     TCGA-CM-6167     TCGA-CM-6168     TCGA-CM-6169 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6170     TCGA-CM-6171     TCGA-CM-6172     TCGA-CM-6674 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5538     TCGA-D5-5539 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-5540     TCGA-D5-5541     TCGA-D5-6529     TCGA-D5-6532 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6535     TCGA-D5-6536 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6537     TCGA-D5-6538     TCGA-D5-6539     TCGA-D5-6540 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6541     TCGA-D5-6898     TCGA-D5-6920     TCGA-D5-6922 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6923     TCGA-D5-6924     TCGA-D5-6926     TCGA-D5-6927 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6928     TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D4 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA     TCGA-DM-A1HB 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A28C     TCGA-DM-A28E     TCGA-DM-A28F 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A28G     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZFP1 MUTATED        0      1      1      0      0      0      0      0      0
  ZFP1 WILD-TYPE     41     25     29     29     39     69     20     14     22
D1835V6, multiclass
[1] "Remove cluster labels:" "ZFP1 MUTATED"          
clus
  ZFP1 MUTATED ZFP1 WILD-TYPE 
             2            288 
    TCGA-A6-2671     TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-A6-5656     TCGA-A6-5657 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-5659     TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-5664     TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3489     TCGA-AA-3492     TCGA-AA-3496     TCGA-AA-3502 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AA-3514     TCGA-AA-3517     TCGA-AA-3519 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3520     TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3525 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531     TCGA-AA-3532 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3534     TCGA-AA-3548     TCGA-AA-3552     TCGA-AA-3553 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3554     TCGA-AA-3555     TCGA-AA-3558     TCGA-AA-3560 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3655     TCGA-AA-3664 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681     TCGA-AA-3688 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3697     TCGA-AA-3710 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3712     TCGA-AA-3713     TCGA-AA-3715     TCGA-AA-3811 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848     TCGA-AA-3850 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856     TCGA-AA-3861 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869     TCGA-AA-3872 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3950     TCGA-AA-3955 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00E     TCGA-AA-A00F 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01P     TCGA-AA-A01Q 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A01R     TCGA-AA-A01S     TCGA-AA-A01T     TCGA-AA-A01V 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A01X     TCGA-AA-A022     TCGA-AA-A024     TCGA-AA-A029 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A02F     TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02K 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A02O     TCGA-AA-A02W     TCGA-AA-A02Y     TCGA-AA-A03F 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AA-A03J     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AD-6899     TCGA-AD-6965     TCGA-AU-6004     TCGA-AY-5543 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AY-6197     TCGA-AY-6386     TCGA-AZ-4315 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-4682     TCGA-AZ-5407 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6599     TCGA-AZ-6600     TCGA-AZ-6601 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6606     TCGA-AZ-6607 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-AZ-6608     TCGA-CA-5254     TCGA-CA-5255     TCGA-CA-5796 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CA-5797     TCGA-CA-6715     TCGA-CA-6716     TCGA-CA-6717 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5914     TCGA-CK-5916 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CK-6746     TCGA-CK-6747     TCGA-CK-6748     TCGA-CK-6751 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-4743     TCGA-CM-4744     TCGA-CM-4746     TCGA-CM-4747 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-4752     TCGA-CM-5341     TCGA-CM-5344     TCGA-CM-5348 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-5349     TCGA-CM-5860     TCGA-CM-5861     TCGA-CM-5862 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-5863     TCGA-CM-5864     TCGA-CM-5868     TCGA-CM-6161 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6162     TCGA-CM-6163     TCGA-CM-6164     TCGA-CM-6165 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6166     TCGA-CM-6167     TCGA-CM-6168     TCGA-CM-6169 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6170     TCGA-CM-6171     TCGA-CM-6172     TCGA-CM-6674 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5538     TCGA-D5-5539 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-5540     TCGA-D5-5541     TCGA-D5-6529     TCGA-D5-6532 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6535     TCGA-D5-6536 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6537     TCGA-D5-6538     TCGA-D5-6539     TCGA-D5-6540 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6541     TCGA-D5-6898     TCGA-D5-6920     TCGA-D5-6922 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6923     TCGA-D5-6924     TCGA-D5-6926     TCGA-D5-6927 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-D5-6928     TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D4 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA     TCGA-DM-A1HB 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A28C     TCGA-DM-A28E     TCGA-DM-A28F 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-DM-A28G     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" "ZFP1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFP1 MUTATED        1      0      0      3
  ZFP1 WILD-TYPE     99     72     72    118
D1835V7, multiclass
        clus
vv       ZFP1 MUTATED ZFP1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            0             72
  CLUS_3            0             72
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFP1 MUTATED        0      1      0      2      1
  ZFP1 WILD-TYPE     59     74     74    117     37
D1835V8, multiclass
        clus
vv       ZFP1 MUTATED ZFP1 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            0             74
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFP1 MUTATED        1      0      0      0      3
  ZFP1 WILD-TYPE     50     76     61     71     92
D1835V9, multiclass
        clus
vv       ZFP1 MUTATED ZFP1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            0             76
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZFP1 MUTATED        1      0      0      0      0      1      0      1      1
  ZFP1 WILD-TYPE     68     48     39     16     53     19     21     37     49
D1835V10, multiclass
        clus
vv       ZFP1 MUTATED ZFP1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            0             48
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZFP1 MUTATED        0      0      0      0      0      0
  ZFP1 WILD-TYPE     13     16     14     11     11      9
D1835V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ZFP1 MUTATED        0      0      0      0      0      0      0      0      0
  ZFP1 WILD-TYPE     11      7      7      9      8      7     11      9      5
D1835V12, multiclass

Clustering(1836) Variable = MLL MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL MUTATED        6      0      0      4      0
  MLL WILD-TYPE     26     18     46     23     23
D1836V1, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1           6            26
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           4            23
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MLL MUTATED        6      3      1
  MLL WILD-TYPE     37     64     35
D1836V2, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1           6            37
  CLUS_2           3            64
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MLL MUTATED        3     11     24
  MLL WILD-TYPE     39    162    123
D1836V3, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1           3            39
  CLUS_2          11           162
  CLUS_3          24           123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MLL MUTATED       14      5      9
  MLL WILD-TYPE     48     68     66
D1836V4, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1          14            48
  CLUS_2           5            68
  CLUS_3           9            66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MLL MUTATED        3     14     17
  MLL WILD-TYPE     67    106     83
D1836V5, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1           3            67
  CLUS_2          14           106
  CLUS_3          17            83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL MUTATED        2      3      1      3      4     14      5      2      0
  MLL WILD-TYPE     39     23     29     26     35     55     15     12     22
D1836V6, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1           2            39
  CLUS_2           3            23
  CLUS_3           1            29
  CLUS_4           3            26
  CLUS_5           4            35
  CLUS_6          14            55
  CLUS_7           5            15
  CLUS_8           2            12
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLL MUTATED        7     11     10     10
  MLL WILD-TYPE     93     61     62    111
D1836V7, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1           7            93
  CLUS_2          11            61
  CLUS_3          10            62
  CLUS_4          10           111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL MUTATED        5      6     15      7      5
  MLL WILD-TYPE     54     69     59    112     33
D1836V8, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1           5            54
  CLUS_2           6            69
  CLUS_3          15            59
  CLUS_4           7           112
  CLUS_5           5            33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLL MUTATED        3     14      7      4     10
  MLL WILD-TYPE     48     62     54     67     85
D1836V9, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1           3            48
  CLUS_2          14            62
  CLUS_3           7            54
  CLUS_4           4            67
  CLUS_5          10            85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL MUTATED        4      9      0      9      6      2      1      4      3
  MLL WILD-TYPE     65     39     39      7     47     18     20     34     47
D1836V10, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1           4            65
  CLUS_2           9            39
  CLUS_3           0            39
  CLUS_4           9             7
  CLUS_5           6            47
  CLUS_6           2            18
  CLUS_7           1            20
  CLUS_8           4            34
  CLUS_9           3            47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MLL MUTATED        2      2      0      2      5      0
  MLL WILD-TYPE     11     14     14      9      6      9
D1836V11, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1           2            11
  CLUS_2           2            14
  CLUS_3           0            14
  CLUS_4           2             9
  CLUS_5           5             6
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MLL MUTATED        1      1      1      5      1      1      1      0      0
  MLL WILD-TYPE     10      6      6      4      7      6     10      9      5
D1836V12, multiclass
        clus
vv       MLL MUTATED MLL WILD-TYPE
  CLUS_1           1            10
  CLUS_2           1             6
  CLUS_3           1             6
  CLUS_4           5             4
  CLUS_5           1             7
  CLUS_6           1             6
  CLUS_7           1            10
  CLUS_8           0             9
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1837) Variable = TSC2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSC2 MUTATED        0      0      0      1      0
  TSC2 WILD-TYPE     32     18     46     26     23
D1837V1, multiclass
[1] "Remove cluster labels:" "TSC2 MUTATED"          
clus
  TSC2 MUTATED TSC2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AY-4071 
"TSC2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSC2 MUTATED        0      1      0
  TSC2 WILD-TYPE     43     66     36
D1837V2, multiclass
[1] "Remove cluster labels:" "TSC2 MUTATED"          
clus
  TSC2 MUTATED TSC2 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" "TSC2 WILD-TYPE" 
    TCGA-AY-4071 
"TSC2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSC2 MUTATED        4      6      5
  TSC2 WILD-TYPE     38    167    142
D1837V3, multiclass
        clus
vv       TSC2 MUTATED TSC2 WILD-TYPE
  CLUS_1            4             38
  CLUS_2            6            167
  CLUS_3            5            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSC2 MUTATED        5      4      5
  TSC2 WILD-TYPE     57     69     70
D1837V4, multiclass
        clus
vv       TSC2 MUTATED TSC2 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            4             69
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSC2 MUTATED        4      7      4
  TSC2 WILD-TYPE     66    113     96
D1837V5, multiclass
        clus
vv       TSC2 MUTATED TSC2 WILD-TYPE
  CLUS_1            4             66
  CLUS_2            7            113
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TSC2 MUTATED        3      2      0      1      2      2      3      0      2
  TSC2 WILD-TYPE     38     24     30     28     37     67     17     14     20
D1837V6, multiclass
        clus
vv       TSC2 MUTATED TSC2 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            2             24
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            2             67
  CLUS_7            3             17
  CLUS_8            0             14
  CLUS_9            2             20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TSC2 MUTATED        2      6      7      0
  TSC2 WILD-TYPE     98     66     65    121
D1837V7, multiclass
        clus
vv       TSC2 MUTATED TSC2 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            6             66
  CLUS_3            7             65
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSC2 MUTATED        6      1      7      1      0
  TSC2 WILD-TYPE     53     74     67    118     38
D1837V8, multiclass
        clus
vv       TSC2 MUTATED TSC2 WILD-TYPE
  CLUS_1            6             53
  CLUS_2            1             74
  CLUS_3            7             67
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TSC2 MUTATED        2      9      2      0      2
  TSC2 WILD-TYPE     49     67     59     71     93
D1837V9, multiclass
        clus
vv       TSC2 MUTATED TSC2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            9             67
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            2             93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TSC2 MUTATED        6      3      0      2      2      1      0      1      0
  TSC2 WILD-TYPE     63     45     39     14     51     19     21     37     50
D1837V10, multiclass
        clus
vv       TSC2 MUTATED TSC2 WILD-TYPE
  CLUS_1            6             63
  CLUS_2            3             45
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TSC2 MUTATED        0      2      1      2      1      0
  TSC2 WILD-TYPE     13     14     13      9     10      9
D1837V11, multiclass
        clus
vv       TSC2 MUTATED TSC2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            1             13
  CLUS_4            2              9
  CLUS_5            1             10
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TSC2 MUTATED        2      0      1      1      1      0      1      0      0
  TSC2 WILD-TYPE      9      7      6      8      7      7     10      9      5
D1837V12, multiclass
        clus
vv       TSC2 MUTATED TSC2 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0              7
  CLUS_3            1              6
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1838) Variable = MAK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAK MUTATED        1      0      0      1      0
  MAK WILD-TYPE     31     18     46     26     23
D1838V1, multiclass
[1] "Remove cluster labels:" "MAK MUTATED"           
clus
  MAK MUTATED MAK WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00O    TCGA-AA-A00Q    TCGA-AA-A00R 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MAK MUTATED        2      0      0
  MAK WILD-TYPE     41     67     36
D1838V2, multiclass
[1] "Remove cluster labels:" "MAK MUTATED"           
clus
  MAK MUTATED MAK WILD-TYPE 
            2           144 
   TCGA-A6-2672    TCGA-A6-2674    TCGA-A6-2676    TCGA-A6-2677    TCGA-A6-2678 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-A6-2683    TCGA-A6-3807    TCGA-A6-3808    TCGA-A6-3809    TCGA-A6-3810 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3514    TCGA-AA-3516    TCGA-AA-3517    TCGA-AA-3518    TCGA-AA-3519 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3520    TCGA-AA-3521    TCGA-AA-3522    TCGA-AA-3524    TCGA-AA-3525 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3526    TCGA-AA-3527    TCGA-AA-3529    TCGA-AA-3530    TCGA-AA-3531 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3532    TCGA-AA-3534    TCGA-AA-3538    TCGA-AA-3542    TCGA-AA-3543 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3544    TCGA-AA-3548    TCGA-AA-3549    TCGA-AA-3552    TCGA-AA-3553 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3554    TCGA-AA-3555    TCGA-AA-3556    TCGA-AA-3558    TCGA-AA-3560 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3561    TCGA-AA-3562    TCGA-AA-3664    TCGA-AA-3666    TCGA-AA-3667 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3672    TCGA-AA-3673    TCGA-AA-3678    TCGA-AA-3679    TCGA-AA-3680 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3681    TCGA-AA-3684    TCGA-AA-3685    TCGA-AA-3688    TCGA-AA-3692 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3693    TCGA-AA-3696    TCGA-AA-3710    TCGA-AA-3715    TCGA-AA-3811 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3812    TCGA-AA-3814    TCGA-AA-3815    TCGA-AA-3818    TCGA-AA-3819 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3821    TCGA-AA-3831    TCGA-AA-3833    TCGA-AA-3837    TCGA-AA-3842 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3844    TCGA-AA-3845    TCGA-AA-3846    TCGA-AA-3848    TCGA-AA-3850 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3851    TCGA-AA-3852    TCGA-AA-3854    TCGA-AA-3855    TCGA-AA-3856 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3858    TCGA-AA-3860    TCGA-AA-3861    TCGA-AA-3864    TCGA-AA-3866 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3867    TCGA-AA-3869    TCGA-AA-3870    TCGA-AA-3872    TCGA-AA-3875 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3877    TCGA-AA-3930    TCGA-AA-3939    TCGA-AA-3941    TCGA-AA-3947 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3949    TCGA-AA-3952    TCGA-AA-3955    TCGA-AA-3956    TCGA-AA-3966 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3968    TCGA-AA-3971    TCGA-AA-3972    TCGA-AA-3973    TCGA-AA-3975 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3976    TCGA-AA-3977    TCGA-AA-3979    TCGA-AA-3980    TCGA-AA-3982 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-3984    TCGA-AA-3986    TCGA-AA-3989    TCGA-AA-3994    TCGA-AA-A004 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A00A    TCGA-AA-A00D    TCGA-AA-A00E    TCGA-AA-A00F    TCGA-AA-A00J 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A00K    TCGA-AA-A00L    TCGA-AA-A00O    TCGA-AA-A00Q    TCGA-AA-A00R 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A00U    TCGA-AA-A00W    TCGA-AA-A00Z    TCGA-AA-A010    TCGA-AA-A017 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A01D    TCGA-AA-A01F    TCGA-AA-A01G    TCGA-AA-A01I    TCGA-AA-A01K 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A01Q    TCGA-AA-A024    TCGA-AA-A029    TCGA-AA-A02F    TCGA-AA-A02H 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AA-A02J    TCGA-AA-A02W    TCGA-AY-4070    TCGA-AY-4071 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MAK MUTATED        0      0      9
  MAK WILD-TYPE     42    173    138
D1838V3, multiclass
        clus
vv       MAK MUTATED MAK WILD-TYPE
  CLUS_1           0            42
  CLUS_2           0           173
  CLUS_3           9           138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MAK MUTATED        1      0      5
  MAK WILD-TYPE     61     73     70
D1838V4, multiclass
        clus
vv       MAK MUTATED MAK WILD-TYPE
  CLUS_1           1            61
  CLUS_2           0            73
  CLUS_3           5            70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MAK MUTATED        2      2      5
  MAK WILD-TYPE     68    118     95
D1838V5, multiclass
        clus
vv       MAK MUTATED MAK WILD-TYPE
  CLUS_1           2            68
  CLUS_2           2           118
  CLUS_3           5            95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAK MUTATED        1      1      1      0      1      4      1      0      0
  MAK WILD-TYPE     40     25     29     29     38     65     19     14     22
D1838V6, multiclass
        clus
vv       MAK MUTATED MAK WILD-TYPE
  CLUS_1           1            40
  CLUS_2           1            25
  CLUS_3           1            29
  CLUS_4           0            29
  CLUS_5           1            38
  CLUS_6           4            65
  CLUS_7           1            19
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAK MUTATED        0      3      3      3
  MAK WILD-TYPE    100     69     69    118
D1838V7, multiclass
        clus
vv       MAK MUTATED MAK WILD-TYPE
  CLUS_1           0           100
  CLUS_2           3            69
  CLUS_3           3            69
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAK MUTATED        1      0      4      1      3
  MAK WILD-TYPE     58     75     70    118     35
D1838V8, multiclass
        clus
vv       MAK MUTATED MAK WILD-TYPE
  CLUS_1           1            58
  CLUS_2           0            75
  CLUS_3           4            70
  CLUS_4           1           118
  CLUS_5           3            35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAK MUTATED        0      4      1      0      3
  MAK WILD-TYPE     51     72     60     71     92
D1838V9, multiclass
        clus
vv       MAK MUTATED MAK WILD-TYPE
  CLUS_1           0            51
  CLUS_2           4            72
  CLUS_3           1            60
  CLUS_4           0            71
  CLUS_5           3            92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAK MUTATED        1      2      0      2      0      0      0      3      0
  MAK WILD-TYPE     68     46     39     14     53     20     21     35     50
D1838V10, multiclass
        clus
vv       MAK MUTATED MAK WILD-TYPE
  CLUS_1           1            68
  CLUS_2           2            46
  CLUS_3           0            39
  CLUS_4           2            14
  CLUS_5           0            53
  CLUS_6           0            20
  CLUS_7           0            21
  CLUS_8           3            35
  CLUS_9           0            50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAK MUTATED        0      0      0      0      2      0
  MAK WILD-TYPE     13     16     14     11      9      9
D1838V11, multiclass
[1] "Remove cluster labels:" "MAK MUTATED"           
clus
  MAK MUTATED MAK WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-CA-6718    TCGA-CA-6719    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"MAK WILD-TYPE" "MAK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MAK MUTATED        0      0      0      0      1      0      1      0      0
  MAK WILD-TYPE     11      7      7      9      7      7     10      9      5
D1838V12, multiclass
[1] "Remove cluster labels:" "MAK MUTATED"           
clus
  MAK MUTATED MAK WILD-TYPE 
            2            72 
   TCGA-A6-5657    TCGA-A6-6137    TCGA-A6-6138    TCGA-A6-6141    TCGA-A6-6142 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-A6-6649    TCGA-A6-6651    TCGA-A6-6653    TCGA-A6-6654    TCGA-A6-6781 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-A6-6782    TCGA-AA-3489    TCGA-AA-3511    TCGA-AD-5900    TCGA-AD-6548 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AD-6889    TCGA-AD-6901    TCGA-AD-6963    TCGA-AD-6964    TCGA-AD-6965 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AY-6196    TCGA-AZ-4323    TCGA-AZ-4616    TCGA-AZ-5403    TCGA-AZ-6598 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-AZ-6600    TCGA-AZ-6601    TCGA-AZ-6603    TCGA-AZ-6605    TCGA-AZ-6607 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-CA-6718    TCGA-CA-6719    TCGA-CK-6748    TCGA-CM-5860    TCGA-CM-6167 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-CM-6674    TCGA-CM-6676    TCGA-CM-6677    TCGA-CM-6678    TCGA-CM-6679 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-CM-6680    TCGA-D5-5537    TCGA-D5-6533    TCGA-D5-6534    TCGA-D5-6536 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-D5-6922    TCGA-D5-6924    TCGA-DM-A0XD    TCGA-DM-A0XF    TCGA-DM-A1D0 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-DM-A1D7    TCGA-DM-A1D8    TCGA-DM-A1D9    TCGA-DM-A1DA    TCGA-DM-A1HA 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-DM-A282    TCGA-DM-A285    TCGA-DM-A28F    TCGA-F4-6459    TCGA-F4-6460 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-F4-6569    TCGA-F4-6704    TCGA-F4-6805    TCGA-F4-6807    TCGA-F4-6808 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-F4-6809    TCGA-G4-6299    TCGA-G4-6303    TCGA-G4-6306    TCGA-G4-6309 
"MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" "MAK WILD-TYPE" 
   TCGA-G4-6625    TCGA-G4-6628 
"MAK WILD-TYPE" "MAK WILD-TYPE" 

Clustering(1839) Variable = FAAH2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAAH2 MUTATED        3      0      1      0      1
  FAAH2 WILD-TYPE     29     18     45     27     22
D1839V1, multiclass
        clus
vv       FAAH2 MUTATED FAAH2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             1              22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAAH2 MUTATED        3      1      1
  FAAH2 WILD-TYPE     40     66     35
D1839V2, multiclass
        clus
vv       FAAH2 MUTATED FAAH2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAAH2 MUTATED        0      6      4
  FAAH2 WILD-TYPE     42    167    143
D1839V3, multiclass
        clus
vv       FAAH2 MUTATED FAAH2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             6             167
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAAH2 MUTATED        0      3      3
  FAAH2 WILD-TYPE     62     70     72
D1839V4, multiclass
        clus
vv       FAAH2 MUTATED FAAH2 WILD-TYPE
  CLUS_1             0              62
  CLUS_2             3              70
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAAH2 MUTATED        2      6      1
  FAAH2 WILD-TYPE     68    114     99
D1839V5, multiclass
        clus
vv       FAAH2 MUTATED FAAH2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             114
  CLUS_3             1              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAAH2 MUTATED        0      1      3      1      0      0      3      1
  FAAH2 WILD-TYPE     41     25     27     28     39     69     17     13
                 vv
clus              CLUS_9
  FAAH2 MUTATED        0
  FAAH2 WILD-TYPE     22
D1839V6, multiclass
        clus
vv       FAAH2 MUTATED FAAH2 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             1              25
  CLUS_3             3              27
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             0              69
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAAH2 MUTATED        2      5      0      4
  FAAH2 WILD-TYPE     98     67     72    117
D1839V7, multiclass
        clus
vv       FAAH2 MUTATED FAAH2 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             5              67
  CLUS_3             0              72
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAAH2 MUTATED        1      4      1      2      3
  FAAH2 WILD-TYPE     58     71     73    117     35
D1839V8, multiclass
        clus
vv       FAAH2 MUTATED FAAH2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4              71
  CLUS_3             1              73
  CLUS_4             2             117
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAAH2 MUTATED        2      3      0      1      3
  FAAH2 WILD-TYPE     49     73     61     70     92
D1839V9, multiclass
        clus
vv       FAAH2 MUTATED FAAH2 WILD-TYPE
  CLUS_1             2              49
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             1              70
  CLUS_5             3              92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAAH2 MUTATED        3      0      1      0      1      1      0      3
  FAAH2 WILD-TYPE     66     48     38     16     52     19     21     35
                 vv
clus              CLUS_9
  FAAH2 MUTATED        0
  FAAH2 WILD-TYPE     50
D1839V10, multiclass
        clus
vv       FAAH2 MUTATED FAAH2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAAH2 MUTATED        0      0      0      1      0      0
  FAAH2 WILD-TYPE     13     16     14     10     11      9
D1839V11, multiclass
[1] "Remove cluster labels:" "FAAH2 MUTATED"         
clus
  FAAH2 MUTATED FAAH2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-G4-6628 
"FAAH2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAAH2 MUTATED        0      0      0      0      0      0      0      1
  FAAH2 WILD-TYPE     11      7      7      9      8      7     11      8
                 vv
clus              CLUS_9
  FAAH2 MUTATED        0
  FAAH2 WILD-TYPE      5
D1839V12, multiclass
[1] "Remove cluster labels:" "FAAH2 MUTATED"         
clus
  FAAH2 MUTATED FAAH2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-CK-5916      TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-CM-6674      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" "FAAH2 WILD-TYPE" 
     TCGA-G4-6628 
"FAAH2 WILD-TYPE" 

Clustering(1840) Variable = KIAA0355 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0355 MUTATED        1      0      0      0      0
  KIAA0355 WILD-TYPE     31     18     46     27     23
D1840V1, multiclass
[1] "Remove cluster labels:" "KIAA0355 MUTATED"      
clus
  KIAA0355 MUTATED KIAA0355 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3811         TCGA-AA-3812 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AY-4071 
"KIAA0355 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0355 MUTATED        1      0      0
  KIAA0355 WILD-TYPE     42     67     36
D1840V2, multiclass
[1] "Remove cluster labels:" "KIAA0355 MUTATED"      
clus
  KIAA0355 MUTATED KIAA0355 WILD-TYPE 
                 1                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3808         TCGA-A6-3809 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-3810         TCGA-AA-3514         TCGA-AA-3516 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3518         TCGA-AA-3519 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3520         TCGA-AA-3521         TCGA-AA-3522 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3524         TCGA-AA-3525         TCGA-AA-3526 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3527         TCGA-AA-3529         TCGA-AA-3530 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3531         TCGA-AA-3532         TCGA-AA-3534 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3538         TCGA-AA-3542         TCGA-AA-3543 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3544         TCGA-AA-3548         TCGA-AA-3549 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3556         TCGA-AA-3558 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3560         TCGA-AA-3561         TCGA-AA-3562 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3664         TCGA-AA-3666         TCGA-AA-3667 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3673         TCGA-AA-3678 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3681 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3684         TCGA-AA-3685         TCGA-AA-3688 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3692         TCGA-AA-3693         TCGA-AA-3696 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3811         TCGA-AA-3812 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3815         TCGA-AA-3818 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3821         TCGA-AA-3831 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3833         TCGA-AA-3837         TCGA-AA-3842 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3861         TCGA-AA-3864         TCGA-AA-3866 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3867         TCGA-AA-3869         TCGA-AA-3870 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3872         TCGA-AA-3875         TCGA-AA-3877 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3939         TCGA-AA-3941 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3947         TCGA-AA-3949         TCGA-AA-3950 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3952         TCGA-AA-3955         TCGA-AA-3956 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3966         TCGA-AA-3968         TCGA-AA-3971 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3976         TCGA-AA-3977         TCGA-AA-3979 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3980         TCGA-AA-3982         TCGA-AA-3984 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01D 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A01F         TCGA-AA-A01G         TCGA-AA-A01I 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01Q         TCGA-AA-A024 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A029         TCGA-AA-A02F         TCGA-AA-A02H 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AA-A02J         TCGA-AA-A02W         TCGA-AY-4070 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AY-4071 
"KIAA0355 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0355 MUTATED        0      3      4
  KIAA0355 WILD-TYPE     42    170    143
D1840V3, multiclass
        clus
vv       KIAA0355 MUTATED KIAA0355 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                170
  CLUS_3                4                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0355 MUTATED        1      4      1
  KIAA0355 WILD-TYPE     61     69     74
D1840V4, multiclass
        clus
vv       KIAA0355 MUTATED KIAA0355 WILD-TYPE
  CLUS_1                1                 61
  CLUS_2                4                 69
  CLUS_3                1                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA0355 MUTATED        3      1      2
  KIAA0355 WILD-TYPE     67    119     98
D1840V5, multiclass
        clus
vv       KIAA0355 MUTATED KIAA0355 WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                1                119
  CLUS_3                2                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0355 MUTATED        1      0      0      0      3      1      0      0
  KIAA0355 WILD-TYPE     40     26     30     29     36     68     20     14
                    vv
clus                 CLUS_9
  KIAA0355 MUTATED        1
  KIAA0355 WILD-TYPE     21
D1840V6, multiclass
        clus
vv       KIAA0355 MUTATED KIAA0355 WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 26
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                3                 36
  CLUS_6                1                 68
  CLUS_7                0                 20
  CLUS_8                0                 14
  CLUS_9                1                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0355 MUTATED        1      3      2      1
  KIAA0355 WILD-TYPE     99     69     70    120
D1840V7, multiclass
        clus
vv       KIAA0355 MUTATED KIAA0355 WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                3                 69
  CLUS_3                2                 70
  CLUS_4                1                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0355 MUTATED        2      2      2      0      1
  KIAA0355 WILD-TYPE     57     73     72    119     37
D1840V8, multiclass
        clus
vv       KIAA0355 MUTATED KIAA0355 WILD-TYPE
  CLUS_1                2                 57
  CLUS_2                2                 73
  CLUS_3                2                 72
  CLUS_4                0                119
  CLUS_5                1                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0355 MUTATED        0      3      2      1      1
  KIAA0355 WILD-TYPE     51     73     59     70     94
D1840V9, multiclass
        clus
vv       KIAA0355 MUTATED KIAA0355 WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                3                 73
  CLUS_3                2                 59
  CLUS_4                1                 70
  CLUS_5                1                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0355 MUTATED        5      1      0      0      0      0      0      1
  KIAA0355 WILD-TYPE     64     47     39     16     53     20     21     37
                    vv
clus                 CLUS_9
  KIAA0355 MUTATED        0
  KIAA0355 WILD-TYPE     50
D1840V10, multiclass
        clus
vv       KIAA0355 MUTATED KIAA0355 WILD-TYPE
  CLUS_1                5                 64
  CLUS_2                1                 47
  CLUS_3                0                 39
  CLUS_4                0                 16
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                1                 37
  CLUS_9                0                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA0355 MUTATED        0      0      0      1      0      1
  KIAA0355 WILD-TYPE     13     16     14     10     11      8
D1840V11, multiclass
[1] "Remove cluster labels:" "KIAA0355 MUTATED"      
clus
  KIAA0355 MUTATED KIAA0355 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-6781         TCGA-AA-3489         TCGA-AA-3511 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6306 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA0355 MUTATED        1      0      1      0      0      0      0      0
  KIAA0355 WILD-TYPE     10      7      6      9      8      7     11      9
                    vv
clus                 CLUS_9
  KIAA0355 MUTATED        0
  KIAA0355 WILD-TYPE      5
D1840V12, multiclass
[1] "Remove cluster labels:" "KIAA0355 MUTATED"      
clus
  KIAA0355 MUTATED KIAA0355 WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-A6-6781         TCGA-AA-3489         TCGA-AA-3511 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6889 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AD-6901         TCGA-AD-6963         TCGA-AD-6964 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AD-6965         TCGA-AY-6196         TCGA-AZ-4323 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AZ-4616         TCGA-AZ-5403         TCGA-AZ-6598 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6607         TCGA-CA-6718 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6299         TCGA-G4-6306 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" "KIAA0355 WILD-TYPE" 

Clustering(1841) Variable = SLC17A6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC17A6 MUTATED        1      0      0      0      0
  SLC17A6 WILD-TYPE     31     18     46     27     23
D1841V1, multiclass
[1] "Remove cluster labels:" "SLC17A6 MUTATED"       
clus
  SLC17A6 MUTATED SLC17A6 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AY-4071 
"SLC17A6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A6 MUTATED        1      0      0
  SLC17A6 WILD-TYPE     42     67     36
D1841V2, multiclass
[1] "Remove cluster labels:" "SLC17A6 MUTATED"       
clus
  SLC17A6 MUTATED SLC17A6 WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" "SLC17A6 WILD-TYPE" 
       TCGA-AY-4071 
"SLC17A6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A6 MUTATED        2      2      8
  SLC17A6 WILD-TYPE     40    171    139
D1841V3, multiclass
        clus
vv       SLC17A6 MUTATED SLC17A6 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               2               171
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A6 MUTATED        3      1      8
  SLC17A6 WILD-TYPE     59     72     67
D1841V4, multiclass
        clus
vv       SLC17A6 MUTATED SLC17A6 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               8                67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A6 MUTATED        4      4      5
  SLC17A6 WILD-TYPE     66    116     95
D1841V5, multiclass
        clus
vv       SLC17A6 MUTATED SLC17A6 WILD-TYPE
  CLUS_1               4                66
  CLUS_2               4               116
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC17A6 MUTATED        2      0      0      2      0      3      3      1
  SLC17A6 WILD-TYPE     39     26     30     27     39     66     17     13
                   vv
clus                CLUS_9
  SLC17A6 MUTATED        2
  SLC17A6 WILD-TYPE     20
D1841V6, multiclass
        clus
vv       SLC17A6 MUTATED SLC17A6 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               3                17
  CLUS_8               1                13
  CLUS_9               2                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC17A6 MUTATED        2      6      4      1
  SLC17A6 WILD-TYPE     98     66     68    120
D1841V7, multiclass
        clus
vv       SLC17A6 MUTATED SLC17A6 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               6                66
  CLUS_3               4                68
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC17A6 MUTATED        3      3      6      0      1
  SLC17A6 WILD-TYPE     56     72     68    119     37
D1841V8, multiclass
        clus
vv       SLC17A6 MUTATED SLC17A6 WILD-TYPE
  CLUS_1               3                56
  CLUS_2               3                72
  CLUS_3               6                68
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC17A6 MUTATED        1      8      3      0      1
  SLC17A6 WILD-TYPE     50     68     58     71     94
D1841V9, multiclass
        clus
vv       SLC17A6 MUTATED SLC17A6 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               8                68
  CLUS_3               3                58
  CLUS_4               0                71
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC17A6 MUTATED        2      3      0      3      3      0      0      1
  SLC17A6 WILD-TYPE     67     45     39     13     50     20     21     37
                   vv
clus                CLUS_9
  SLC17A6 MUTATED        1
  SLC17A6 WILD-TYPE     49
D1841V10, multiclass
        clus
vv       SLC17A6 MUTATED SLC17A6 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               3                50
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC17A6 MUTATED        1      1      0      0      2      0
  SLC17A6 WILD-TYPE     12     15     14     11      9      9
D1841V11, multiclass
        clus
vv       SLC17A6 MUTATED SLC17A6 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               1                15
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC17A6 MUTATED        0      1      0      2      1      0      0      0
  SLC17A6 WILD-TYPE     11      6      7      7      7      7     11      9
                   vv
clus                CLUS_9
  SLC17A6 MUTATED        0
  SLC17A6 WILD-TYPE      5
D1841V12, multiclass
        clus
vv       SLC17A6 MUTATED SLC17A6 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                 6
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1842) Variable = HDAC2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC2 MUTATED        1      0      0      1      0
  HDAC2 WILD-TYPE     31     18     46     26     23
D1842V1, multiclass
[1] "Remove cluster labels:" "HDAC2 MUTATED"         
clus
  HDAC2 MUTATED HDAC2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC2 MUTATED        1      1      0
  HDAC2 WILD-TYPE     42     66     36
D1842V2, multiclass
[1] "Remove cluster labels:" "HDAC2 MUTATED"         
clus
  HDAC2 MUTATED HDAC2 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3811      TCGA-AA-3812 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC2 MUTATED        2      1      4
  HDAC2 WILD-TYPE     40    172    143
D1842V3, multiclass
        clus
vv       HDAC2 MUTATED HDAC2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC2 MUTATED        3      0      2
  HDAC2 WILD-TYPE     59     73     73
D1842V4, multiclass
        clus
vv       HDAC2 MUTATED HDAC2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HDAC2 MUTATED        1      4      2
  HDAC2 WILD-TYPE     69    116     98
D1842V5, multiclass
        clus
vv       HDAC2 MUTATED HDAC2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             116
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC2 MUTATED        1      0      2      1      2      1      0      0
  HDAC2 WILD-TYPE     40     26     28     28     37     68     20     14
                 vv
clus              CLUS_9
  HDAC2 MUTATED        0
  HDAC2 WILD-TYPE     22
D1842V6, multiclass
        clus
vv       HDAC2 MUTATED HDAC2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             1              68
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HDAC2 MUTATED        0      2      3      2
  HDAC2 WILD-TYPE    100     70     69    119
D1842V7, multiclass
        clus
vv       HDAC2 MUTATED HDAC2 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC2 MUTATED        2      1      2      1      1
  HDAC2 WILD-TYPE     57     74     72    118     37
D1842V8, multiclass
        clus
vv       HDAC2 MUTATED HDAC2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC2 MUTATED        0      2      3      0      2
  HDAC2 WILD-TYPE     51     74     58     71     93
D1842V9, multiclass
        clus
vv       HDAC2 MUTATED HDAC2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             3              58
  CLUS_4             0              71
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC2 MUTATED        1      2      0      1      1      1      0      1
  HDAC2 WILD-TYPE     68     46     39     15     52     19     21     37
                 vv
clus              CLUS_9
  HDAC2 MUTATED        0
  HDAC2 WILD-TYPE     50
D1842V10, multiclass
        clus
vv       HDAC2 MUTATED HDAC2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HDAC2 MUTATED        0      0      0      0      1      0
  HDAC2 WILD-TYPE     13     16     14     11     10      9
D1842V11, multiclass
[1] "Remove cluster labels:" "HDAC2 MUTATED"         
clus
  HDAC2 MUTATED HDAC2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-G4-6628 
"HDAC2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC2 MUTATED        0      0      0      1      0      0      0      0
  HDAC2 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  HDAC2 MUTATED        0
  HDAC2 WILD-TYPE      5
D1842V12, multiclass
[1] "Remove cluster labels:" "HDAC2 MUTATED"         
clus
  HDAC2 MUTATED HDAC2 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" "HDAC2 WILD-TYPE" 
     TCGA-G4-6628 
"HDAC2 WILD-TYPE" 

Clustering(1843) Variable = F9 MUTATION ANALYSIS
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F9 MUTATED        3      0      0      3      0
  F9 WILD-TYPE     29     18     46     24     23
D1843V1, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          3           29
  CLUS_2          0           18
  CLUS_3          0           46
  CLUS_4          3           24
  CLUS_5          0           23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  F9 MUTATED        4      1      1
  F9 WILD-TYPE     39     66     35
D1843V2, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          4           39
  CLUS_2          1           66
  CLUS_3          1           35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  F9 MUTATED        2      4     13
  F9 WILD-TYPE     40    169    134
D1843V3, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          2           40
  CLUS_2          4          169
  CLUS_3         13          134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  F9 MUTATED        6      3      4
  F9 WILD-TYPE     56     70     71
D1843V4, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          6           56
  CLUS_2          3           70
  CLUS_3          4           71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  F9 MUTATED        4      7      5
  F9 WILD-TYPE     66    113     95
D1843V5, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          4           66
  CLUS_2          7          113
  CLUS_3          5           95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  F9 MUTATED        2      1      2      0      1      3      2      4      1
  F9 WILD-TYPE     39     25     28     29     38     66     18     10     21
D1843V6, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          2           39
  CLUS_2          1           25
  CLUS_3          2           28
  CLUS_4          0           29
  CLUS_5          1           38
  CLUS_6          3           66
  CLUS_7          2           18
  CLUS_8          4           10
  CLUS_9          1           21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4
  F9 MUTATED        4      3      5      7
  F9 WILD-TYPE     96     69     67    114
D1843V7, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          4           96
  CLUS_2          3           69
  CLUS_3          5           67
  CLUS_4          7          114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F9 MUTATED        3      4      5      3      4
  F9 WILD-TYPE     56     71     69    116     34
D1843V8, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          3           56
  CLUS_2          4           71
  CLUS_3          5           69
  CLUS_4          3          116
  CLUS_5          4           34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  F9 MUTATED        3      3      5      4      3
  F9 WILD-TYPE     48     73     56     67     92
D1843V9, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          3           48
  CLUS_2          3           73
  CLUS_3          5           56
  CLUS_4          4           67
  CLUS_5          3           92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  F9 MUTATED        4      3      3      2      2      1      1      2      0
  F9 WILD-TYPE     65     45     36     14     51     19     20     36     50
D1843V10, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          4           65
  CLUS_2          3           45
  CLUS_3          3           36
  CLUS_4          2           14
  CLUS_5          2           51
  CLUS_6          1           19
  CLUS_7          1           20
  CLUS_8          2           36
  CLUS_9          0           50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  F9 MUTATED        1      0      1      2      2      0
  F9 WILD-TYPE     12     16     13      9      9      9
D1843V11, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          1           12
  CLUS_2          0           16
  CLUS_3          1           13
  CLUS_4          2            9
  CLUS_5          2            9
  CLUS_6          0            9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  F9 MUTATED        0      0      0      1      2      0      1      2      0
  F9 WILD-TYPE     11      7      7      8      6      7     10      7      5
D1843V12, multiclass
        clus
vv       F9 MUTATED F9 WILD-TYPE
  CLUS_1          0           11
  CLUS_2          0            7
  CLUS_3          0            7
  CLUS_4          1            8
  CLUS_5          2            6
  CLUS_6          0            7
  CLUS_7          1           10
  CLUS_8          2            7
  CLUS_9          0            5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1844) Variable = ZNF185 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF185 MUTATED        3      0      0      0      0
  ZNF185 WILD-TYPE     29     18     46     27     23
D1844V1, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF185 MUTATED        2      0      1
  ZNF185 WILD-TYPE     41     67     35
D1844V2, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF185 MUTATED        0      2      8
  ZNF185 WILD-TYPE     42    171    139
D1844V3, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              8              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF185 MUTATED        1      1      5
  ZNF185 WILD-TYPE     61     72     70
D1844V4, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF185 MUTATED        1      5      3
  ZNF185 WILD-TYPE     69    115     97
D1844V5, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF185 MUTATED        2      1      0      3      3      0      0      0
  ZNF185 WILD-TYPE     39     25     30     26     36     69     20     14
                  vv
clus               CLUS_9
  ZNF185 MUTATED        0
  ZNF185 WILD-TYPE     22
D1844V6, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              3               26
  CLUS_5              3               36
  CLUS_6              0               69
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF185 MUTATED        1      3      3      3
  ZNF185 WILD-TYPE     99     69     69    118
D1844V7, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              3               69
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF185 MUTATED        1      1      5      1      2
  ZNF185 WILD-TYPE     58     74     69    118     36
D1844V8, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              1               74
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF185 MUTATED        0      5      1      2      2
  ZNF185 WILD-TYPE     51     71     60     69     93
D1844V9, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF185 MUTATED        5      1      0      0      2      0      0      2
  ZNF185 WILD-TYPE     64     47     39     16     51     20     21     36
                  vv
clus               CLUS_9
  ZNF185 MUTATED        0
  ZNF185 WILD-TYPE     50
D1844V10, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF185 MUTATED        0      1      2      0      0      0
  ZNF185 WILD-TYPE     13     15     12     11     11      9
D1844V11, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF185 MUTATED        0      0      0      0      2      0      1      0
  ZNF185 WILD-TYPE     11      7      7      9      6      7     10      9
                  vv
clus               CLUS_9
  ZNF185 MUTATED        0
  ZNF185 WILD-TYPE      5
D1844V12, multiclass
        clus
vv       ZNF185 MUTATED ZNF185 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1845) Variable = NXT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NXT1 MUTATED        0      1      0      0      0
  NXT1 WILD-TYPE     32     17     46     27     23
D1845V1, multiclass
[1] "Remove cluster labels:" "NXT1 MUTATED"          
clus
  NXT1 MUTATED NXT1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AY-4071 
"NXT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXT1 MUTATED        1      0      0
  NXT1 WILD-TYPE     42     67     36
D1845V2, multiclass
[1] "Remove cluster labels:" "NXT1 MUTATED"          
clus
  NXT1 MUTATED NXT1 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3979     TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AY-4071 
"NXT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXT1 MUTATED        1      2      2
  NXT1 WILD-TYPE     41    171    145
D1845V3, multiclass
        clus
vv       NXT1 MUTATED NXT1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXT1 MUTATED        1      2      1
  NXT1 WILD-TYPE     61     71     74
D1845V4, multiclass
        clus
vv       NXT1 MUTATED NXT1 WILD-TYPE
  CLUS_1            1             61
  CLUS_2            2             71
  CLUS_3            1             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXT1 MUTATED        2      2      1
  NXT1 WILD-TYPE     68    118     99
D1845V5, multiclass
        clus
vv       NXT1 MUTATED NXT1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            2            118
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NXT1 MUTATED        1      1      0      2      0      1      0      0      0
  NXT1 WILD-TYPE     40     25     30     27     39     68     20     14     22
D1845V6, multiclass
        clus
vv       NXT1 MUTATED NXT1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NXT1 MUTATED        2      1      1      1
  NXT1 WILD-TYPE     98     71     71    120
D1845V7, multiclass
        clus
vv       NXT1 MUTATED NXT1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             71
  CLUS_3            1             71
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NXT1 MUTATED        1      1      2      1      0
  NXT1 WILD-TYPE     58     74     72    118     38
D1845V8, multiclass
        clus
vv       NXT1 MUTATED NXT1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            1             74
  CLUS_3            2             72
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NXT1 MUTATED        1      1      2      0      1
  NXT1 WILD-TYPE     50     75     59     71     94
D1845V9, multiclass
        clus
vv       NXT1 MUTATED NXT1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NXT1 MUTATED        1      2      0      1      0      0      0      1      0
  NXT1 WILD-TYPE     68     46     39     15     53     20     21     37     50
D1845V10, multiclass
        clus
vv       NXT1 MUTATED NXT1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NXT1 MUTATED        1      0      0      0      0      0
  NXT1 WILD-TYPE     12     16     14     11     11      9
D1845V11, multiclass
[1] "Remove cluster labels:" "NXT1 MUTATED"          
clus
  NXT1 MUTATED NXT1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1HA     TCGA-DM-A282 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-G4-6628 
"NXT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NXT1 MUTATED        0      0      0      1      0      0      0      0      0
  NXT1 WILD-TYPE     11      7      7      8      8      7     11      9      5
D1845V12, multiclass
[1] "Remove cluster labels:" "NXT1 MUTATED"          
clus
  NXT1 MUTATED NXT1 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1HA     TCGA-DM-A282 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" "NXT1 WILD-TYPE" 
    TCGA-G4-6628 
"NXT1 WILD-TYPE" 

Clustering(1846) Variable = CHGB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHGB MUTATED        2      0      0      2      0
  CHGB WILD-TYPE     30     18     46     25     23
D1846V1, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            2             30
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHGB MUTATED        3      1      0
  CHGB WILD-TYPE     40     66     36
D1846V2, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             66
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHGB MUTATED        1      2      9
  CHGB WILD-TYPE     41    171    138
D1846V3, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHGB MUTATED        3      2      3
  CHGB WILD-TYPE     59     71     72
D1846V4, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            3             59
  CLUS_2            2             71
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHGB MUTATED        1      4      7
  CHGB WILD-TYPE     69    116     93
D1846V5, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            116
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHGB MUTATED        1      0      1      1      1      6      1      0      1
  CHGB WILD-TYPE     40     26     29     28     38     63     19     14     21
D1846V6, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            1             38
  CLUS_6            6             63
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHGB MUTATED        1      3      4      4
  CHGB WILD-TYPE     99     69     68    117
D1846V7, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            4             68
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHGB MUTATED        3      2      3      2      2
  CHGB WILD-TYPE     56     73     71    117     36
D1846V8, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            3             56
  CLUS_2            2             73
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHGB MUTATED        3      2      2      0      4
  CHGB WILD-TYPE     48     74     59     71     91
D1846V9, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            3             48
  CLUS_2            2             74
  CLUS_3            2             59
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHGB MUTATED        1      2      0      2      1      2      1      1      1
  CHGB WILD-TYPE     68     46     39     14     52     18     20     37     49
D1846V10, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            1             52
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHGB MUTATED        0      0      0      0      1      0
  CHGB WILD-TYPE     13     16     14     11     10      9
D1846V11, multiclass
[1] "Remove cluster labels:" "CHGB MUTATED"          
clus
  CHGB MUTATED CHGB WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-G4-6628 
"CHGB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CHGB MUTATED        0      0      0      0      1      0      0      0      0
  CHGB WILD-TYPE     11      7      7      9      7      7     11      9      5
D1846V12, multiclass
[1] "Remove cluster labels:" "CHGB MUTATED"          
clus
  CHGB MUTATED CHGB WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-G4-6628 
"CHGB WILD-TYPE" 

Clustering(1847) Variable = OR14J1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR14J1 MUTATED        1      0      0      1      0
  OR14J1 WILD-TYPE     31     18     46     26     23
D1847V1, multiclass
[1] "Remove cluster labels:" "OR14J1 MUTATED"        
clus
  OR14J1 MUTATED OR14J1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR14J1 MUTATED        1      1      0
  OR14J1 WILD-TYPE     42     66     36
D1847V2, multiclass
[1] "Remove cluster labels:" "OR14J1 MUTATED"        
clus
  OR14J1 MUTATED OR14J1 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR14J1 MUTATED        0      4      3
  OR14J1 WILD-TYPE     42    169    144
D1847V3, multiclass
        clus
vv       OR14J1 MUTATED OR14J1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR14J1 MUTATED        1      2      3
  OR14J1 WILD-TYPE     61     71     72
D1847V4, multiclass
        clus
vv       OR14J1 MUTATED OR14J1 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              2               71
  CLUS_3              3               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR14J1 MUTATED        0      5      3
  OR14J1 WILD-TYPE     70    115     97
D1847V5, multiclass
        clus
vv       OR14J1 MUTATED OR14J1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              115
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR14J1 MUTATED        0      0      2      1      0      2      2      0
  OR14J1 WILD-TYPE     41     26     28     28     39     67     18     14
                  vv
clus               CLUS_9
  OR14J1 MUTATED        1
  OR14J1 WILD-TYPE     21
D1847V6, multiclass
        clus
vv       OR14J1 MUTATED OR14J1 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR14J1 MUTATED        3      2      1      2
  OR14J1 WILD-TYPE     97     70     71    119
D1847V7, multiclass
        clus
vv       OR14J1 MUTATED OR14J1 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              2               70
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR14J1 MUTATED        0      4      2      1      1
  OR14J1 WILD-TYPE     59     71     72    118     37
D1847V8, multiclass
        clus
vv       OR14J1 MUTATED OR14J1 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              4               71
  CLUS_3              2               72
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR14J1 MUTATED        2      3      1      0      2
  OR14J1 WILD-TYPE     49     73     60     71     93
D1847V9, multiclass
        clus
vv       OR14J1 MUTATED OR14J1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR14J1 MUTATED        3      0      1      0      2      1      0      1
  OR14J1 WILD-TYPE     66     48     38     16     51     19     21     37
                  vv
clus               CLUS_9
  OR14J1 MUTATED        0
  OR14J1 WILD-TYPE     50
D1847V10, multiclass
        clus
vv       OR14J1 MUTATED OR14J1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              2               51
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR14J1 MUTATED        0      0      1      0      0      0
  OR14J1 WILD-TYPE     13     16     13     11     11      9
D1847V11, multiclass
[1] "Remove cluster labels:" "OR14J1 MUTATED"        
clus
  OR14J1 MUTATED OR14J1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-G4-6625 
"OR14J1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OR14J1 MUTATED        0      0      0      0      0      0      1      0
  OR14J1 WILD-TYPE     11      7      7      9      8      7     10      9
                  vv
clus               CLUS_9
  OR14J1 MUTATED        0
  OR14J1 WILD-TYPE      5
D1847V12, multiclass
[1] "Remove cluster labels:" "OR14J1 MUTATED"        
clus
  OR14J1 MUTATED OR14J1 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-F4-6460       TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309 
"OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" "OR14J1 WILD-TYPE" 
      TCGA-G4-6625 
"OR14J1 WILD-TYPE" 

Clustering(1848) Variable = LYST MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LYST MUTATED       10      1      1      2      0
  LYST WILD-TYPE     22     17     45     25     23
D1848V1, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1           10             22
  CLUS_2            1             17
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LYST MUTATED       11      2      1
  LYST WILD-TYPE     32     65     35
D1848V2, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1           11             32
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LYST MUTATED        1      5     28
  LYST WILD-TYPE     41    168    119
D1848V3, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1            1             41
  CLUS_2            5            168
  CLUS_3           28            119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LYST MUTATED        8      4      8
  LYST WILD-TYPE     54     69     67
D1848V4, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1            8             54
  CLUS_2            4             69
  CLUS_3            8             67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LYST MUTATED        4     10     12
  LYST WILD-TYPE     66    110     88
D1848V5, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1            4             66
  CLUS_2           10            110
  CLUS_3           12             88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LYST MUTATED        3      0      1      3      2      9      3      2      3
  LYST WILD-TYPE     38     26     29     26     37     60     17     12     19
D1848V6, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1            3             38
  CLUS_2            0             26
  CLUS_3            1             29
  CLUS_4            3             26
  CLUS_5            2             37
  CLUS_6            9             60
  CLUS_7            3             17
  CLUS_8            2             12
  CLUS_9            3             19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LYST MUTATED        5     10      7     12
  LYST WILD-TYPE     95     62     65    109
D1848V7, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1            5             95
  CLUS_2           10             62
  CLUS_3            7             65
  CLUS_4           12            109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LYST MUTATED        3      4     13      5      9
  LYST WILD-TYPE     56     71     61    114     29
D1848V8, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1            3             56
  CLUS_2            4             71
  CLUS_3           13             61
  CLUS_4            5            114
  CLUS_5            9             29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LYST MUTATED        1      9      9      2     10
  LYST WILD-TYPE     50     67     52     69     85
D1848V9, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1            1             50
  CLUS_2            9             67
  CLUS_3            9             52
  CLUS_4            2             69
  CLUS_5           10             85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LYST MUTATED        5      6      0      5      4      1      2      7      1
  LYST WILD-TYPE     64     42     39     11     49     19     19     31     49
D1848V10, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1            5             64
  CLUS_2            6             42
  CLUS_3            0             39
  CLUS_4            5             11
  CLUS_5            4             49
  CLUS_6            1             19
  CLUS_7            2             19
  CLUS_8            7             31
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LYST MUTATED        0      1      2      0      2      0
  LYST WILD-TYPE     13     15     12     11      9      9
D1848V11, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             15
  CLUS_3            2             12
  CLUS_4            0             11
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  LYST MUTATED        0      1      0      1      2      1      0      0      0
  LYST WILD-TYPE     11      6      7      8      6      6     11      9      5
D1848V12, multiclass
        clus
vv       LYST MUTATED LYST WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            2              6
  CLUS_6            1              6
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1849) Variable = PPP2R2B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R2B MUTATED        1      0      0      0      0
  PPP2R2B WILD-TYPE     31     18     46     27     23
D1849V1, multiclass
[1] "Remove cluster labels:" "PPP2R2B MUTATED"       
clus
  PPP2R2B MUTATED PPP2R2B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3930        TCGA-AA-3939 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AY-4071 
"PPP2R2B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R2B MUTATED        1      0      0
  PPP2R2B WILD-TYPE     42     67     36
D1849V2, multiclass
[1] "Remove cluster labels:" "PPP2R2B MUTATED"       
clus
  PPP2R2B MUTATED PPP2R2B WILD-TYPE 
                1               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3872        TCGA-AA-3875        TCGA-AA-3930        TCGA-AA-3939 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AA-A02H        TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070 
"PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" "PPP2R2B WILD-TYPE" 
       TCGA-AY-4071 
"PPP2R2B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R2B MUTATED        0      2      6
  PPP2R2B WILD-TYPE     42    171    141
D1849V3, multiclass
        clus
vv       PPP2R2B MUTATED PPP2R2B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R2B MUTATED        2      1      4
  PPP2R2B WILD-TYPE     60     72     71
D1849V4, multiclass
        clus
vv       PPP2R2B MUTATED PPP2R2B WILD-TYPE
  CLUS_1               2                60
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R2B MUTATED        1      2      2
  PPP2R2B WILD-TYPE     69    118     98
D1849V5, multiclass
        clus
vv       PPP2R2B MUTATED PPP2R2B WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP2R2B MUTATED        2      1      0      0      0      2      0      0
  PPP2R2B WILD-TYPE     39     25     30     29     39     67     20     14
                   vv
clus                CLUS_9
  PPP2R2B MUTATED        0
  PPP2R2B WILD-TYPE     22
D1849V6, multiclass
        clus
vv       PPP2R2B MUTATED PPP2R2B WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R2B MUTATED        1      3      3      1
  PPP2R2B WILD-TYPE     99     69     69    120
D1849V7, multiclass
        clus
vv       PPP2R2B MUTATED PPP2R2B WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               3                69
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R2B MUTATED        1      0      6      0      1
  PPP2R2B WILD-TYPE     58     75     68    119     37
D1849V8, multiclass
        clus
vv       PPP2R2B MUTATED PPP2R2B WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               6                68
  CLUS_4               0               119
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R2B MUTATED        1      3      2      1      1
  PPP2R2B WILD-TYPE     50     73     59     70     94
D1849V9, multiclass
        clus
vv       PPP2R2B MUTATED PPP2R2B WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP2R2B MUTATED        1      3      0      2      1      0      1      0
  PPP2R2B WILD-TYPE     68     45     39     14     52     20     20     38
                   vv
clus                CLUS_9
  PPP2R2B MUTATED        0
  PPP2R2B WILD-TYPE     50
D1849V10, multiclass
        clus
vv       PPP2R2B MUTATED PPP2R2B WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               0                38
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPP2R2B MUTATED        0      0      1      0      2      0
  PPP2R2B WILD-TYPE     13     16     13     11      9      9
D1849V11, multiclass
        clus
vv       PPP2R2B MUTATED PPP2R2B WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               0                11
  CLUS_5               2                 9
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PPP2R2B MUTATED        0      0      0      2      1      0      0      0
  PPP2R2B WILD-TYPE     11      7      7      7      7      7     11      9
                   vv
clus                CLUS_9
  PPP2R2B MUTATED        0
  PPP2R2B WILD-TYPE      5
D1849V12, multiclass
        clus
vv       PPP2R2B MUTATED PPP2R2B WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               2                 7
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               0                11
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1850) Variable = ACTBL2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTBL2 MUTATED        8      0      0      0      0
  ACTBL2 WILD-TYPE     24     18     46     27     23
D1850V1, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              8               24
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTBL2 MUTATED        7      0      1
  ACTBL2 WILD-TYPE     36     67     35
D1850V2, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              7               36
  CLUS_2              0               67
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTBL2 MUTATED        1      2     12
  ACTBL2 WILD-TYPE     41    171    135
D1850V3, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTBL2 MUTATED        3      1      4
  ACTBL2 WILD-TYPE     59     72     71
D1850V4, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACTBL2 MUTATED        3      3      7
  ACTBL2 WILD-TYPE     67    117     93
D1850V5, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              3              117
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTBL2 MUTATED        2      0      1      1      3      3      2      1
  ACTBL2 WILD-TYPE     39     26     29     28     36     66     18     13
                  vv
clus               CLUS_9
  ACTBL2 MUTATED        0
  ACTBL2 WILD-TYPE     22
D1850V6, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              3               66
  CLUS_7              2               18
  CLUS_8              1               13
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACTBL2 MUTATED        1      3      4      8
  ACTBL2 WILD-TYPE     99     69     68    113
D1850V7, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              3               69
  CLUS_3              4               68
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTBL2 MUTATED        2      1      5      1      7
  ACTBL2 WILD-TYPE     57     74     69    118     31
D1850V8, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              5               69
  CLUS_4              1              118
  CLUS_5              7               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACTBL2 MUTATED        2      4      2      2      5
  ACTBL2 WILD-TYPE     49     72     59     69     90
D1850V9, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              4               72
  CLUS_3              2               59
  CLUS_4              2               69
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTBL2 MUTATED        2      2      0      3      2      0      0      6
  ACTBL2 WILD-TYPE     67     46     39     13     51     20     21     32
                  vv
clus               CLUS_9
  ACTBL2 MUTATED        0
  ACTBL2 WILD-TYPE     50
D1850V10, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              3               13
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              6               32
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ACTBL2 MUTATED        0      0      0      0      3      0
  ACTBL2 WILD-TYPE     13     16     14     11      8      9
D1850V11, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ACTBL2 MUTATED        0      0      0      2      1      0      0      0
  ACTBL2 WILD-TYPE     11      7      7      7      7      7     11      9
                  vv
clus               CLUS_9
  ACTBL2 MUTATED        0
  ACTBL2 WILD-TYPE      5
D1850V12, multiclass
        clus
vv       ACTBL2 MUTATED ACTBL2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1851) Variable = C9ORF41 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF41 MUTATED        3      0      0      1      0
  C9ORF41 WILD-TYPE     29     18     46     26     23
D1851V1, multiclass
        clus
vv       C9ORF41 MUTATED C9ORF41 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF41 MUTATED        3      1      0
  C9ORF41 WILD-TYPE     40     66     36
D1851V2, multiclass
        clus
vv       C9ORF41 MUTATED C9ORF41 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF41 MUTATED        0      2      8
  C9ORF41 WILD-TYPE     42    171    139
D1851V3, multiclass
        clus
vv       C9ORF41 MUTATED C9ORF41 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2               171
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF41 MUTATED        2      2      3
  C9ORF41 WILD-TYPE     60     71     72
D1851V4, multiclass
        clus
vv       C9ORF41 MUTATED C9ORF41 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               2                71
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C9ORF41 MUTATED        0      4      5
  C9ORF41 WILD-TYPE     70    116     95
D1851V5, multiclass
        clus
vv       C9ORF41 MUTATED C9ORF41 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               4               116
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF41 MUTATED        1      1      2      1      1      3      0      0
  C9ORF41 WILD-TYPE     40     25     28     28     38     66     20     14
                   vv
clus                CLUS_9
  C9ORF41 MUTATED        0
  C9ORF41 WILD-TYPE     22
D1851V6, multiclass
        clus
vv       C9ORF41 MUTATED C9ORF41 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               2                28
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C9ORF41 MUTATED        1      3      2      4
  C9ORF41 WILD-TYPE     99     69     70    117
D1851V7, multiclass
        clus
vv       C9ORF41 MUTATED C9ORF41 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               2                70
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF41 MUTATED        2      3      1      2      2
  C9ORF41 WILD-TYPE     57     72     73    117     36
D1851V8, multiclass
        clus
vv       C9ORF41 MUTATED C9ORF41 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               3                72
  CLUS_3               1                73
  CLUS_4               2               117
  CLUS_5               2                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C9ORF41 MUTATED        0      2      2      1      5
  C9ORF41 WILD-TYPE     51     74     59     70     90
D1851V9, multiclass
        clus
vv       C9ORF41 MUTATED C9ORF41 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               5                90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF41 MUTATED        1      2      1      1      0      1      1      2
  C9ORF41 WILD-TYPE     68     46     38     15     53     19     20     36
                   vv
clus                CLUS_9
  C9ORF41 MUTATED        1
  C9ORF41 WILD-TYPE     49
D1851V10, multiclass
        clus
vv       C9ORF41 MUTATED C9ORF41 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               1                19
  CLUS_7               1                20
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C9ORF41 MUTATED        1      0      0      0      0      0
  C9ORF41 WILD-TYPE     12     16     14     11     11      9
D1851V11, multiclass
[1] "Remove cluster labels:" "C9ORF41 MUTATED"       
clus
  C9ORF41 MUTATED C9ORF41 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-G4-6628 
"C9ORF41 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  C9ORF41 MUTATED        0      0      0      0      0      0      0      1
  C9ORF41 WILD-TYPE     11      7      7      9      8      7     11      8
                   vv
clus                CLUS_9
  C9ORF41 MUTATED        0
  C9ORF41 WILD-TYPE      5
D1851V12, multiclass
[1] "Remove cluster labels:" "C9ORF41 MUTATED"       
clus
  C9ORF41 MUTATED C9ORF41 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" "C9ORF41 WILD-TYPE" 
       TCGA-G4-6628 
"C9ORF41 WILD-TYPE" 

Clustering(1852) Variable = BATF3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BATF3 MUTATED        0      0      0      1      0
  BATF3 WILD-TYPE     32     18     46     26     23
D1852V1, multiclass
[1] "Remove cluster labels:" "BATF3 MUTATED"         
clus
  BATF3 MUTATED BATF3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3819 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AY-4071 
"BATF3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BATF3 MUTATED        0      1      0
  BATF3 WILD-TYPE     43     66     36
D1852V2, multiclass
[1] "Remove cluster labels:" "BATF3 MUTATED"         
clus
  BATF3 MUTATED BATF3 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3819 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833      TCGA-AA-3837 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" "BATF3 WILD-TYPE" 
     TCGA-AY-4071 
"BATF3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BATF3 MUTATED        1      0      3
  BATF3 WILD-TYPE     41    173    144
D1852V3, multiclass
        clus
vv       BATF3 MUTATED BATF3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BATF3 MUTATED        2      0      1
  BATF3 WILD-TYPE     60     73     74
D1852V4, multiclass
        clus
vv       BATF3 MUTATED BATF3 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BATF3 MUTATED        1      1      2
  BATF3 WILD-TYPE     69    119     98
D1852V5, multiclass
        clus
vv       BATF3 MUTATED BATF3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BATF3 MUTATED        1      0      0      1      0      2      0      0
  BATF3 WILD-TYPE     40     26     30     28     39     67     20     14
                 vv
clus              CLUS_9
  BATF3 MUTATED        0
  BATF3 WILD-TYPE     22
D1852V6, multiclass
        clus
vv       BATF3 MUTATED BATF3 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BATF3 MUTATED        0      3      0      1
  BATF3 WILD-TYPE    100     69     72    120
D1852V7, multiclass
        clus
vv       BATF3 MUTATED BATF3 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BATF3 MUTATED        0      1      2      1      0
  BATF3 WILD-TYPE     59     74     72    118     38
D1852V8, multiclass
        clus
vv       BATF3 MUTATED BATF3 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BATF3 MUTATED        0      2      1      0      1
  BATF3 WILD-TYPE     51     74     60     71     94
D1852V9, multiclass
        clus
vv       BATF3 MUTATED BATF3 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BATF3 MUTATED        0      0      0      2      0      0      1      0
  BATF3 WILD-TYPE     69     48     39     14     53     20     20     38
                 vv
clus              CLUS_9
  BATF3 MUTATED        1
  BATF3 WILD-TYPE     49
D1852V10, multiclass
        clus
vv       BATF3 MUTATED BATF3 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BATF3 MUTATED        0      0      0      0      0      0
  BATF3 WILD-TYPE     13     16     14     11     11      9
D1852V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BATF3 MUTATED        0      0      0      0      0      0      0      0
  BATF3 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  BATF3 MUTATED        0
  BATF3 WILD-TYPE      5
D1852V12, multiclass

Clustering(1853) Variable = SEC23IP MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEC23IP MUTATED        3      0      0      2      0
  SEC23IP WILD-TYPE     29     18     46     25     23
D1853V1, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC23IP MUTATED        4      1      0
  SEC23IP WILD-TYPE     39     66     36
D1853V2, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               4                39
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC23IP MUTATED        0      5     11
  SEC23IP WILD-TYPE     42    168    136
D1853V3, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               0                42
  CLUS_2               5               168
  CLUS_3              11               136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC23IP MUTATED        5      4      2
  SEC23IP WILD-TYPE     57     69     73
D1853V4, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               5                57
  CLUS_2               4                69
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC23IP MUTATED        1      8      5
  SEC23IP WILD-TYPE     69    112     95
D1853V5, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               1                69
  CLUS_2               8               112
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEC23IP MUTATED        2      1      3      1      0      3      1      1
  SEC23IP WILD-TYPE     39     25     27     28     39     66     19     13
                   vv
clus                CLUS_9
  SEC23IP MUTATED        2
  SEC23IP WILD-TYPE     20
D1853V6, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                25
  CLUS_3               3                27
  CLUS_4               1                28
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               2                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SEC23IP MUTATED        3      2      5      6
  SEC23IP WILD-TYPE     97     70     67    115
D1853V7, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               3                97
  CLUS_2               2                70
  CLUS_3               5                67
  CLUS_4               6               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEC23IP MUTATED        3      3      4      2      4
  SEC23IP WILD-TYPE     56     72     70    117     34
D1853V8, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               3                56
  CLUS_2               3                72
  CLUS_3               4                70
  CLUS_4               2               117
  CLUS_5               4                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEC23IP MUTATED        2      5      2      1      4
  SEC23IP WILD-TYPE     49     71     59     70     91
D1853V9, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               2                49
  CLUS_2               5                71
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEC23IP MUTATED        2      3      0      2      3      1      0      2
  SEC23IP WILD-TYPE     67     45     39     14     50     19     21     36
                   vv
clus                CLUS_9
  SEC23IP MUTATED        1
  SEC23IP WILD-TYPE     49
D1853V10, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               3                50
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SEC23IP MUTATED        0      0      0      0      3      0
  SEC23IP WILD-TYPE     13     16     14     11      8      9
D1853V11, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEC23IP MUTATED        0      0      0      1      1      0      1      0
  SEC23IP WILD-TYPE     11      7      7      8      7      7     10      9
                   vv
clus                CLUS_9
  SEC23IP MUTATED        0
  SEC23IP WILD-TYPE      5
D1853V12, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1854) Variable = GIMAP5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GIMAP5 MUTATED        2      0      1      1      0
  GIMAP5 WILD-TYPE     30     18     45     26     23
D1854V1, multiclass
        clus
vv       GIMAP5 MUTATED GIMAP5 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GIMAP5 MUTATED        3      1      0
  GIMAP5 WILD-TYPE     40     66     36
D1854V2, multiclass
        clus
vv       GIMAP5 MUTATED GIMAP5 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GIMAP5 MUTATED        1      2      3
  GIMAP5 WILD-TYPE     41    171    144
D1854V3, multiclass
        clus
vv       GIMAP5 MUTATED GIMAP5 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              171
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GIMAP5 MUTATED        0      0      2
  GIMAP5 WILD-TYPE     62     73     73
D1854V4, multiclass
[1] "Remove cluster labels:" "GIMAP5 MUTATED"        
clus
  GIMAP5 MUTATED GIMAP5 WILD-TYPE 
               2              208 
      TCGA-A6-2671       TCGA-A6-2677       TCGA-A6-3809       TCGA-A6-3810 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-A6-4105       TCGA-A6-5656       TCGA-A6-5657       TCGA-A6-5660 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-A6-5661       TCGA-A6-5662       TCGA-A6-5664       TCGA-A6-5665 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-A6-5666       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6648       TCGA-A6-6649       TCGA-A6-6651 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-A6-6652       TCGA-A6-6654       TCGA-A6-6780       TCGA-A6-6781 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3492       TCGA-AA-3496 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AA-3502       TCGA-AA-3510       TCGA-AA-3511       TCGA-AA-3655 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AA-3660       TCGA-AA-3662       TCGA-AA-3663       TCGA-AA-3697 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AA-3712       TCGA-AA-3713       TCGA-AD-5900       TCGA-AD-6548 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AD-6888       TCGA-AD-6889       TCGA-AD-6890       TCGA-AD-6895 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AD-6899       TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AD-6965       TCGA-AU-3779       TCGA-AU-6004       TCGA-AY-5543 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386       TCGA-AZ-4315 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4681       TCGA-AZ-4682 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AZ-5403       TCGA-AZ-5407       TCGA-AZ-6598       TCGA-AZ-6599 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AZ-6606       TCGA-AZ-6607       TCGA-AZ-6608       TCGA-CA-5254 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CA-5255       TCGA-CA-5796       TCGA-CA-5797       TCGA-CA-6715 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CA-6716       TCGA-CA-6717       TCGA-CA-6718       TCGA-CA-6719 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CK-4947       TCGA-CK-4948       TCGA-CK-4950       TCGA-CK-4952 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CK-5912       TCGA-CK-5913       TCGA-CK-5914       TCGA-CK-5915 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747       TCGA-CK-6748 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744       TCGA-CM-4746 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341       TCGA-CM-5344 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860       TCGA-CM-5861 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864       TCGA-CM-5868 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163       TCGA-CM-6164 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167       TCGA-CM-6168 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171       TCGA-CM-6172 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676       TCGA-CM-6677 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680       TCGA-D5-5537 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-D5-5538       TCGA-D5-5539       TCGA-D5-5540       TCGA-D5-5541 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-D5-6529       TCGA-D5-6532       TCGA-D5-6533       TCGA-D5-6534 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-D5-6535       TCGA-D5-6536       TCGA-D5-6537       TCGA-D5-6538 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-D5-6539       TCGA-D5-6540       TCGA-D5-6541       TCGA-D5-6898 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-D5-6920       TCGA-D5-6922       TCGA-D5-6923       TCGA-D5-6924 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-D5-6926       TCGA-D5-6927       TCGA-D5-6928       TCGA-D5-6929 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932       TCGA-D5-7000 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A0X9       TCGA-DM-A0XD       TCGA-DM-A0XF       TCGA-DM-A1D0 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A1D4       TCGA-DM-A1D6       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1DB       TCGA-DM-A1HA 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A1HB       TCGA-DM-A282       TCGA-DM-A285       TCGA-DM-A28C 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A28E       TCGA-DM-A28F       TCGA-DM-A28G       TCGA-DM-A28H 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A28K       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704       TCGA-F4-6805 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856       TCGA-G4-6293 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304       TCGA-G4-6306 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310       TCGA-G4-6315 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323       TCGA-G4-6586 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626       TCGA-G4-6628 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GIMAP5 MUTATED        1      3      2
  GIMAP5 WILD-TYPE     69    117     98
D1854V5, multiclass
        clus
vv       GIMAP5 MUTATED GIMAP5 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              117
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GIMAP5 MUTATED        1      0      1      0      1      2      0      0
  GIMAP5 WILD-TYPE     40     26     29     29     38     67     20     14
                  vv
clus               CLUS_9
  GIMAP5 MUTATED        1
  GIMAP5 WILD-TYPE     21
D1854V6, multiclass
        clus
vv       GIMAP5 MUTATED GIMAP5 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GIMAP5 MUTATED        1      1      0      4
  GIMAP5 WILD-TYPE     99     71     72    117
D1854V7, multiclass
        clus
vv       GIMAP5 MUTATED GIMAP5 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              1               71
  CLUS_3              0               72
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GIMAP5 MUTATED        1      0      1      1      3
  GIMAP5 WILD-TYPE     58     75     73    118     35
D1854V8, multiclass
        clus
vv       GIMAP5 MUTATED GIMAP5 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              1               73
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GIMAP5 MUTATED        1      1      0      2      1
  GIMAP5 WILD-TYPE     50     75     61     69     94
D1854V9, multiclass
        clus
vv       GIMAP5 MUTATED GIMAP5 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              0               61
  CLUS_4              2               69
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GIMAP5 MUTATED        0      1      0      1      1      0      0      1
  GIMAP5 WILD-TYPE     69     47     39     15     52     20     21     37
                  vv
clus               CLUS_9
  GIMAP5 MUTATED        1
  GIMAP5 WILD-TYPE     49
D1854V10, multiclass
        clus
vv       GIMAP5 MUTATED GIMAP5 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GIMAP5 MUTATED        0      0      0      0      1      0
  GIMAP5 WILD-TYPE     13     16     14     11     10      9
D1854V11, multiclass
[1] "Remove cluster labels:" "GIMAP5 MUTATED"        
clus
  GIMAP5 MUTATED GIMAP5 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-G4-6628 
"GIMAP5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GIMAP5 MUTATED        0      0      0      1      0      0      0      0
  GIMAP5 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  GIMAP5 MUTATED        0
  GIMAP5 WILD-TYPE      5
D1854V12, multiclass
[1] "Remove cluster labels:" "GIMAP5 MUTATED"        
clus
  GIMAP5 MUTATED GIMAP5 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6654 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" "GIMAP5 WILD-TYPE" 
      TCGA-G4-6628 
"GIMAP5 WILD-TYPE" 

Clustering(1855) Variable = FAM91A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM91A1 MUTATED        1      0      0      1      0
  FAM91A1 WILD-TYPE     31     18     46     26     23
D1855V1, multiclass
[1] "Remove cluster labels:" "FAM91A1 MUTATED"       
clus
  FAM91A1 MUTATED FAM91A1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM91A1 MUTATED        1      1      0
  FAM91A1 WILD-TYPE     42     66     36
D1855V2, multiclass
[1] "Remove cluster labels:" "FAM91A1 MUTATED"       
clus
  FAM91A1 MUTATED FAM91A1 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3975        TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3980        TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A00Z        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM91A1 MUTATED        0      3      6
  FAM91A1 WILD-TYPE     42    170    141
D1855V3, multiclass
        clus
vv       FAM91A1 MUTATED FAM91A1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               6               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM91A1 MUTATED        3      1      4
  FAM91A1 WILD-TYPE     59     72     71
D1855V4, multiclass
        clus
vv       FAM91A1 MUTATED FAM91A1 WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               4                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM91A1 MUTATED        0      5      3
  FAM91A1 WILD-TYPE     70    115     97
D1855V5, multiclass
        clus
vv       FAM91A1 MUTATED FAM91A1 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               5               115
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM91A1 MUTATED        1      1      1      2      0      1      2      0
  FAM91A1 WILD-TYPE     40     25     29     27     39     68     18     14
                   vv
clus                CLUS_9
  FAM91A1 MUTATED        0
  FAM91A1 WILD-TYPE     22
D1855V6, multiclass
        clus
vv       FAM91A1 MUTATED FAM91A1 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               2                18
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM91A1 MUTATED        3      3      2      2
  FAM91A1 WILD-TYPE     97     69     70    119
D1855V7, multiclass
        clus
vv       FAM91A1 MUTATED FAM91A1 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               3                69
  CLUS_3               2                70
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM91A1 MUTATED        1      4      3      1      1
  FAM91A1 WILD-TYPE     58     71     71    118     37
D1855V8, multiclass
        clus
vv       FAM91A1 MUTATED FAM91A1 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               4                71
  CLUS_3               3                71
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM91A1 MUTATED        2      2      2      1      3
  FAM91A1 WILD-TYPE     49     74     59     70     92
D1855V9, multiclass
        clus
vv       FAM91A1 MUTATED FAM91A1 WILD-TYPE
  CLUS_1               2                49
  CLUS_2               2                74
  CLUS_3               2                59
  CLUS_4               1                70
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM91A1 MUTATED        3      1      0      1      2      1      0      1
  FAM91A1 WILD-TYPE     66     47     39     15     51     19     21     37
                   vv
clus                CLUS_9
  FAM91A1 MUTATED        1
  FAM91A1 WILD-TYPE     49
D1855V10, multiclass
        clus
vv       FAM91A1 MUTATED FAM91A1 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM91A1 MUTATED        0      0      1      0      1      0
  FAM91A1 WILD-TYPE     13     16     13     11     10      9
D1855V11, multiclass
[1] "Remove cluster labels:" "FAM91A1 MUTATED"       
clus
  FAM91A1 MUTATED FAM91A1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6901 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196        TCGA-AZ-4323 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598        TCGA-AZ-6600 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM91A1 MUTATED        0      0      0      1      1      0      0      0
  FAM91A1 WILD-TYPE     11      7      7      8      7      7     11      9
                   vv
clus                CLUS_9
  FAM91A1 MUTATED        0
  FAM91A1 WILD-TYPE      5
D1855V12, multiclass
[1] "Remove cluster labels:" "FAM91A1 MUTATED"       
clus
  FAM91A1 MUTATED FAM91A1 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6901 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6965        TCGA-AY-6196        TCGA-AZ-4323 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598        TCGA-AZ-6600 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6607 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916        TCGA-CK-6748 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" "FAM91A1 WILD-TYPE" 

Clustering(1856) Variable = OSBPL5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSBPL5 MUTATED        3      0      0      0      0
  OSBPL5 WILD-TYPE     29     18     46     27     23
D1856V1, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OSBPL5 MUTATED        3      0      0
  OSBPL5 WILD-TYPE     40     67     36
D1856V2, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OSBPL5 MUTATED        0      4     10
  OSBPL5 WILD-TYPE     42    169    137
D1856V3, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4              169
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OSBPL5 MUTATED        4      2      4
  OSBPL5 WILD-TYPE     58     71     71
D1856V4, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              2               71
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OSBPL5 MUTATED        0      4      7
  OSBPL5 WILD-TYPE     70    116     93
D1856V5, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              7               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSBPL5 MUTATED        0      0      1      3      0      5      1      0
  OSBPL5 WILD-TYPE     41     26     29     26     39     64     19     14
                  vv
clus               CLUS_9
  OSBPL5 MUTATED        1
  OSBPL5 WILD-TYPE     21
D1856V6, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              0               39
  CLUS_6              5               64
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OSBPL5 MUTATED        2      2      6      4
  OSBPL5 WILD-TYPE     98     70     66    117
D1856V7, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              6               66
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSBPL5 MUTATED        1      2      7      1      3
  OSBPL5 WILD-TYPE     58     73     67    118     35
D1856V8, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              2               73
  CLUS_3              7               67
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OSBPL5 MUTATED        2      4      3      3      2
  OSBPL5 WILD-TYPE     49     72     58     68     93
D1856V9, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              4               72
  CLUS_3              3               58
  CLUS_4              3               68
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSBPL5 MUTATED        2      3      2      0      3      1      0      3
  OSBPL5 WILD-TYPE     67     45     37     16     50     19     21     35
                  vv
clus               CLUS_9
  OSBPL5 MUTATED        0
  OSBPL5 WILD-TYPE     50
D1856V10, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              3               45
  CLUS_3              2               37
  CLUS_4              0               16
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OSBPL5 MUTATED        1      0      2      0      2      0
  OSBPL5 WILD-TYPE     12     16     12     11      9      9
D1856V11, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              0               16
  CLUS_3              2               12
  CLUS_4              0               11
  CLUS_5              2                9
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OSBPL5 MUTATED        0      0      0      0      2      1      1      1
  OSBPL5 WILD-TYPE     11      7      7      9      6      6     10      8
                  vv
clus               CLUS_9
  OSBPL5 MUTATED        0
  OSBPL5 WILD-TYPE      5
D1856V12, multiclass
        clus
vv       OSBPL5 MUTATED OSBPL5 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              2                6
  CLUS_6              1                6
  CLUS_7              1               10
  CLUS_8              1                8
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1857) Variable = TTLL5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTLL5 MUTATED        1      0      0      1      0
  TTLL5 WILD-TYPE     31     18     46     26     23
D1857V1, multiclass
[1] "Remove cluster labels:" "TTLL5 MUTATED"         
clus
  TTLL5 MUTATED TTLL5 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3968 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TTLL5 MUTATED        2      0      0
  TTLL5 WILD-TYPE     41     67     36
D1857V2, multiclass
[1] "Remove cluster labels:" "TTLL5 MUTATED"         
clus
  TTLL5 MUTATED TTLL5 WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3866 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3968 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TTLL5 MUTATED        1      1      9
  TTLL5 WILD-TYPE     41    172    138
D1857V3, multiclass
        clus
vv       TTLL5 MUTATED TTLL5 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1             172
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TTLL5 MUTATED        4      1      4
  TTLL5 WILD-TYPE     58     72     71
D1857V4, multiclass
        clus
vv       TTLL5 MUTATED TTLL5 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TTLL5 MUTATED        1      2      5
  TTLL5 WILD-TYPE     69    118     95
D1857V5, multiclass
        clus
vv       TTLL5 MUTATED TTLL5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             118
  CLUS_3             5              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TTLL5 MUTATED        1      0      0      1      2      4      0      0
  TTLL5 WILD-TYPE     40     26     30     28     37     65     20     14
                 vv
clus              CLUS_9
  TTLL5 MUTATED        0
  TTLL5 WILD-TYPE     22
D1857V6, multiclass
        clus
vv       TTLL5 MUTATED TTLL5 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TTLL5 MUTATED        2      4      3      2
  TTLL5 WILD-TYPE     98     68     69    119
D1857V7, multiclass
        clus
vv       TTLL5 MUTATED TTLL5 WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              68
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTLL5 MUTATED        1      3      5      0      2
  TTLL5 WILD-TYPE     58     72     69    119     36
D1857V8, multiclass
        clus
vv       TTLL5 MUTATED TTLL5 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             3              72
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTLL5 MUTATED        0      4      2      1      4
  TTLL5 WILD-TYPE     51     72     59     70     91
D1857V9, multiclass
        clus
vv       TTLL5 MUTATED TTLL5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TTLL5 MUTATED        2      2      0      1      2      0      0      3
  TTLL5 WILD-TYPE     67     46     39     15     51     20     21     35
                 vv
clus              CLUS_9
  TTLL5 MUTATED        1
  TTLL5 WILD-TYPE     49
D1857V10, multiclass
        clus
vv       TTLL5 MUTATED TTLL5 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TTLL5 MUTATED        1      0      1      0      0      0
  TTLL5 WILD-TYPE     12     16     13     11     11      9
D1857V11, multiclass
[1] "Remove cluster labels:" "TTLL5 MUTATED"         
clus
  TTLL5 MUTATED TTLL5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TTLL5 MUTATED        0      0      0      1      1      0      0      0
  TTLL5 WILD-TYPE     11      7      7      8      7      7     11      9
                 vv
clus              CLUS_9
  TTLL5 MUTATED        0
  TTLL5 WILD-TYPE      5
D1857V12, multiclass
[1] "Remove cluster labels:" "TTLL5 MUTATED"         
clus
  TTLL5 MUTATED TTLL5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6965      TCGA-AY-6196 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" "TTLL5 WILD-TYPE" 

Clustering(1858) Variable = TMEM171 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM171 MUTATED        1      0      0      1      0
  TMEM171 WILD-TYPE     31     18     46     26     23
D1858V1, multiclass
[1] "Remove cluster labels:" "TMEM171 MUTATED"       
clus
  TMEM171 MUTATED TMEM171 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM171 MUTATED        2      0      0
  TMEM171 WILD-TYPE     41     67     36
D1858V2, multiclass
[1] "Remove cluster labels:" "TMEM171 MUTATED"       
clus
  TMEM171 MUTATED TMEM171 WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3673        TCGA-AA-3678        TCGA-AA-3679 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818        TCGA-AA-3819 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858        TCGA-AA-3860 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3861        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" "TMEM171 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM171 MUTATED        0      0      5
  TMEM171 WILD-TYPE     42    173    142
D1858V3, multiclass
        clus
vv       TMEM171 MUTATED TMEM171 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM171 MUTATED        2      0      1
  TMEM171 WILD-TYPE     60     73     74
D1858V4, multiclass
        clus
vv       TMEM171 MUTATED TMEM171 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               0                73
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM171 MUTATED        2      0      3
  TMEM171 WILD-TYPE     68    120     97
D1858V5, multiclass
        clus
vv       TMEM171 MUTATED TMEM171 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               0               120
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM171 MUTATED        0      1      0      0      1      2      1      0
  TMEM171 WILD-TYPE     41     25     30     29     38     67     19     14
                   vv
clus                CLUS_9
  TMEM171 MUTATED        0
  TMEM171 WILD-TYPE     22
D1858V6, multiclass
        clus
vv       TMEM171 MUTATED TMEM171 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               1                38
  CLUS_6               2                67
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM171 MUTATED        0      3      1      1
  TMEM171 WILD-TYPE    100     69     71    120
D1858V7, multiclass
        clus
vv       TMEM171 MUTATED TMEM171 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               3                69
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM171 MUTATED        0      1      2      1      1
  TMEM171 WILD-TYPE     59     74     72    118     37
D1858V8, multiclass
        clus
vv       TMEM171 MUTATED TMEM171 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM171 MUTATED        0      2      0      0      3
  TMEM171 WILD-TYPE     51     74     61     71     92
D1858V9, multiclass
        clus
vv       TMEM171 MUTATED TMEM171 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               0                61
  CLUS_4               0                71
  CLUS_5               3                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM171 MUTATED        1      1      0      0      0      0      1      1
  TMEM171 WILD-TYPE     68     47     39     16     53     20     20     37
                   vv
clus                CLUS_9
  TMEM171 MUTATED        1
  TMEM171 WILD-TYPE     49
D1858V10, multiclass
        clus
vv       TMEM171 MUTATED TMEM171 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM171 MUTATED        0      0      0      0      0      0
  TMEM171 WILD-TYPE     13     16     14     11     11      9
D1858V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM171 MUTATED        0      0      0      0      0      0      0      0
  TMEM171 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  TMEM171 MUTATED        0
  TMEM171 WILD-TYPE      5
D1858V12, multiclass

Clustering(1859) Variable = GPSM2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPSM2 MUTATED        0      0      0      1      0
  GPSM2 WILD-TYPE     32     18     46     26     23
D1859V1, multiclass
[1] "Remove cluster labels:" "GPSM2 MUTATED"         
clus
  GPSM2 MUTATED GPSM2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AY-4071 
"GPSM2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPSM2 MUTATED        0      1      0
  GPSM2 WILD-TYPE     43     66     36
D1859V2, multiclass
[1] "Remove cluster labels:" "GPSM2 MUTATED"         
clus
  GPSM2 MUTATED GPSM2 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" "GPSM2 WILD-TYPE" 
     TCGA-AY-4071 
"GPSM2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPSM2 MUTATED        2      1      9
  GPSM2 WILD-TYPE     40    172    138
D1859V3, multiclass
        clus
vv       GPSM2 MUTATED GPSM2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1             172
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPSM2 MUTATED        5      1      4
  GPSM2 WILD-TYPE     57     72     71
D1859V4, multiclass
        clus
vv       GPSM2 MUTATED GPSM2 WILD-TYPE
  CLUS_1             5              57
  CLUS_2             1              72
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPSM2 MUTATED        3      4      4
  GPSM2 WILD-TYPE     67    116     96
D1859V5, multiclass
        clus
vv       GPSM2 MUTATED GPSM2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             116
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPSM2 MUTATED        2      1      2      2      2      2      0      0
  GPSM2 WILD-TYPE     39     25     28     27     37     67     20     14
                 vv
clus              CLUS_9
  GPSM2 MUTATED        0
  GPSM2 WILD-TYPE     22
D1859V6, multiclass
        clus
vv       GPSM2 MUTATED GPSM2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             2              27
  CLUS_5             2              37
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPSM2 MUTATED        1      5      3      3
  GPSM2 WILD-TYPE     99     67     69    118
D1859V7, multiclass
        clus
vv       GPSM2 MUTATED GPSM2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             5              67
  CLUS_3             3              69
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPSM2 MUTATED        1      2      6      2      1
  GPSM2 WILD-TYPE     58     73     68    117     37
D1859V8, multiclass
        clus
vv       GPSM2 MUTATED GPSM2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             6              68
  CLUS_4             2             117
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPSM2 MUTATED        0      5      2      0      5
  GPSM2 WILD-TYPE     51     71     59     71     90
D1859V9, multiclass
        clus
vv       GPSM2 MUTATED GPSM2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             5              71
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPSM2 MUTATED        3      2      1      1      0      1      0      2
  GPSM2 WILD-TYPE     66     46     38     15     53     19     21     36
                 vv
clus              CLUS_9
  GPSM2 MUTATED        2
  GPSM2 WILD-TYPE     48
D1859V10, multiclass
        clus
vv       GPSM2 MUTATED GPSM2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              46
  CLUS_3             1              38
  CLUS_4             1              15
  CLUS_5             0              53
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             2              48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPSM2 MUTATED        1      1      1      0      0      0
  GPSM2 WILD-TYPE     12     15     13     11     11      9
D1859V11, multiclass
        clus
vv       GPSM2 MUTATED GPSM2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             1              15
  CLUS_3             1              13
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPSM2 MUTATED        1      0      0      1      0      0      1      0
  GPSM2 WILD-TYPE     10      7      7      8      8      7     10      9
                 vv
clus              CLUS_9
  GPSM2 MUTATED        0
  GPSM2 WILD-TYPE      5
D1859V12, multiclass
        clus
vv       GPSM2 MUTATED GPSM2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1860) Variable = ANKRD32 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD32 MUTATED        3      0      0      0      0
  ANKRD32 WILD-TYPE     29     18     46     27     23
D1860V1, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD32 MUTATED        3      0      0
  ANKRD32 WILD-TYPE     40     67     36
D1860V2, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               0                67
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD32 MUTATED        1      1     11
  ANKRD32 WILD-TYPE     41    172    136
D1860V3, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3              11               136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD32 MUTATED        5      1      5
  ANKRD32 WILD-TYPE     57     72     70
D1860V4, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               5                57
  CLUS_2               1                72
  CLUS_3               5                70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD32 MUTATED        1      3      8
  ANKRD32 WILD-TYPE     69    117     92
D1860V5, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               117
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD32 MUTATED        1      0      0      1      1      7      1      1
  ANKRD32 WILD-TYPE     40     26     30     28     38     62     19     13
                   vv
clus                CLUS_9
  ANKRD32 MUTATED        0
  ANKRD32 WILD-TYPE     22
D1860V6, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               1                38
  CLUS_6               7                62
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKRD32 MUTATED        3      3      4      3
  ANKRD32 WILD-TYPE     97     69     68    118
D1860V7, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               3                69
  CLUS_3               4                68
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD32 MUTATED        2      4      4      0      3
  ANKRD32 WILD-TYPE     57     71     70    119     35
D1860V8, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               4                71
  CLUS_3               4                70
  CLUS_4               0               119
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD32 MUTATED        0      4      2      3      4
  ANKRD32 WILD-TYPE     51     72     59     68     91
D1860V9, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               4                72
  CLUS_3               2                59
  CLUS_4               3                68
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD32 MUTATED        4      4      0      0      1      0      1      2
  ANKRD32 WILD-TYPE     65     44     39     16     52     20     20     36
                   vv
clus                CLUS_9
  ANKRD32 MUTATED        1
  ANKRD32 WILD-TYPE     49
D1860V10, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               4                44
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANKRD32 MUTATED        1      0      1      1      1      0
  ANKRD32 WILD-TYPE     12     16     13     10     10      9
D1860V11, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               1                13
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ANKRD32 MUTATED        0      0      0      0      1      0      2      1
  ANKRD32 WILD-TYPE     11      7      7      9      7      7      9      8
                   vv
clus                CLUS_9
  ANKRD32 MUTATED        0
  ANKRD32 WILD-TYPE      5
D1860V12, multiclass
        clus
vv       ANKRD32 MUTATED ANKRD32 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               0                 9
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               2                 9
  CLUS_8               1                 8
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1861) Variable = HDAC11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC11 MUTATED        1      0      0      0      0
  HDAC11 WILD-TYPE     31     18     46     27     23
D1861V1, multiclass
[1] "Remove cluster labels:" "HDAC11 MUTATED"        
clus
  HDAC11 MUTATED HDAC11 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3517 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AY-4071 
"HDAC11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HDAC11 MUTATED        1      0      0
  HDAC11 WILD-TYPE     42     67     36
D1861V2, multiclass
[1] "Remove cluster labels:" "HDAC11 MUTATED"        
clus
  HDAC11 MUTATED HDAC11 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3517 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AY-4071 
"HDAC11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HDAC11 MUTATED        0      1      7
  HDAC11 WILD-TYPE     42    172    140
D1861V3, multiclass
        clus
vv       HDAC11 MUTATED HDAC11 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1              172
  CLUS_3              7              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HDAC11 MUTATED        2      1      4
  HDAC11 WILD-TYPE     60     72     71
D1861V4, multiclass
        clus
vv       HDAC11 MUTATED HDAC11 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HDAC11 MUTATED        0      3      4
  HDAC11 WILD-TYPE     70    117     96
D1861V5, multiclass
        clus
vv       HDAC11 MUTATED HDAC11 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              117
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC11 MUTATED        0      0      0      2      0      3      2      0
  HDAC11 WILD-TYPE     41     26     30     27     39     66     18     14
                  vv
clus               CLUS_9
  HDAC11 MUTATED        0
  HDAC11 WILD-TYPE     22
D1861V6, multiclass
        clus
vv       HDAC11 MUTATED HDAC11 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              3               66
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HDAC11 MUTATED        1      4      2      1
  HDAC11 WILD-TYPE     99     68     70    120
D1861V7, multiclass
        clus
vv       HDAC11 MUTATED HDAC11 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              4               68
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC11 MUTATED        1      0      6      0      1
  HDAC11 WILD-TYPE     58     75     68    119     37
D1861V8, multiclass
        clus
vv       HDAC11 MUTATED HDAC11 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              0               75
  CLUS_3              6               68
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HDAC11 MUTATED        1      6      0      0      1
  HDAC11 WILD-TYPE     50     70     61     71     94
D1861V9, multiclass
        clus
vv       HDAC11 MUTATED HDAC11 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              6               70
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC11 MUTATED        1      2      0      2      2      0      0      1
  HDAC11 WILD-TYPE     68     46     39     14     51     20     21     37
                  vv
clus               CLUS_9
  HDAC11 MUTATED        0
  HDAC11 WILD-TYPE     50
D1861V10, multiclass
        clus
vv       HDAC11 MUTATED HDAC11 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              2               46
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HDAC11 MUTATED        0      0      1      0      1      0
  HDAC11 WILD-TYPE     13     16     13     11     10      9
D1861V11, multiclass
[1] "Remove cluster labels:" "HDAC11 MUTATED"        
clus
  HDAC11 MUTATED HDAC11 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HDAC11 MUTATED        0      0      0      0      0      0      2      0
  HDAC11 WILD-TYPE     11      7      7      9      8      7      9      9
                  vv
clus               CLUS_9
  HDAC11 MUTATED        0
  HDAC11 WILD-TYPE      5
D1861V12, multiclass
[1] "Remove cluster labels:" "HDAC11 MUTATED"        
clus
  HDAC11 MUTATED HDAC11 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6603       TCGA-AZ-6605 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" "HDAC11 WILD-TYPE" 

Clustering(1862) Variable = BUB1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BUB1 MUTATED        1      0      0      2      0
  BUB1 WILD-TYPE     31     18     46     25     23
D1862V1, multiclass
        clus
vv       BUB1 MUTATED BUB1 WILD-TYPE
  CLUS_1            1             31
  CLUS_2            0             18
  CLUS_3            0             46
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BUB1 MUTATED        1      1      1
  BUB1 WILD-TYPE     42     66     35
D1862V2, multiclass
        clus
vv       BUB1 MUTATED BUB1 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            1             66
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BUB1 MUTATED        1      3      9
  BUB1 WILD-TYPE     41    170    138
D1862V3, multiclass
        clus
vv       BUB1 MUTATED BUB1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            9            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BUB1 MUTATED        2      3      4
  BUB1 WILD-TYPE     60     70     71
D1862V4, multiclass
        clus
vv       BUB1 MUTATED BUB1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            3             70
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BUB1 MUTATED        2      3      6
  BUB1 WILD-TYPE     68    117     94
D1862V5, multiclass
        clus
vv       BUB1 MUTATED BUB1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BUB1 MUTATED        1      1      1      1      2      5      0      0      0
  BUB1 WILD-TYPE     40     25     29     28     37     64     20     14     22
D1862V6, multiclass
        clus
vv       BUB1 MUTATED BUB1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            1             28
  CLUS_5            2             37
  CLUS_6            5             64
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BUB1 MUTATED        2      5      3      3
  BUB1 WILD-TYPE     98     67     69    118
D1862V7, multiclass
        clus
vv       BUB1 MUTATED BUB1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            5             67
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BUB1 MUTATED        1      4      5      2      1
  BUB1 WILD-TYPE     58     71     69    117     37
D1862V8, multiclass
        clus
vv       BUB1 MUTATED BUB1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            4             71
  CLUS_3            5             69
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BUB1 MUTATED        1      5      2      1      3
  BUB1 WILD-TYPE     50     71     59     70     92
D1862V9, multiclass
        clus
vv       BUB1 MUTATED BUB1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BUB1 MUTATED        2      2      0      2      2      2      1      0      1
  BUB1 WILD-TYPE     67     46     39     14     51     18     20     38     49
D1862V10, multiclass
        clus
vv       BUB1 MUTATED BUB1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            2             14
  CLUS_5            2             51
  CLUS_6            2             18
  CLUS_7            1             20
  CLUS_8            0             38
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BUB1 MUTATED        1      0      0      1      0      0
  BUB1 WILD-TYPE     12     16     14     10     11      9
D1862V11, multiclass
[1] "Remove cluster labels:" "BUB1 MUTATED"          
clus
  BUB1 MUTATED BUB1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1HA     TCGA-DM-A282 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  BUB1 MUTATED        0      0      1      1      0      0      0      0      0
  BUB1 WILD-TYPE     11      7      6      8      8      7     11      9      5
D1862V12, multiclass
[1] "Remove cluster labels:" "BUB1 MUTATED"          
clus
  BUB1 MUTATED BUB1 WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1HA     TCGA-DM-A282 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" "BUB1 WILD-TYPE" 

Clustering(1863) Variable = KMO MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KMO MUTATED        2      0      0      1      0
  KMO WILD-TYPE     30     18     46     26     23
D1863V1, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           2            30
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           1            26
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KMO MUTATED        2      0      1
  KMO WILD-TYPE     41     67     35
D1863V2, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           2            41
  CLUS_2           0            67
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KMO MUTATED        1      2      9
  KMO WILD-TYPE     41    171    138
D1863V3, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           1            41
  CLUS_2           2           171
  CLUS_3           9           138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KMO MUTATED        4      2      3
  KMO WILD-TYPE     58     71     72
D1863V4, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           4            58
  CLUS_2           2            71
  CLUS_3           3            72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KMO MUTATED        1      4      4
  KMO WILD-TYPE     69    116     96
D1863V5, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           1            69
  CLUS_2           4           116
  CLUS_3           4            96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KMO MUTATED        2      1      0      2      1      3      0      0      0
  KMO WILD-TYPE     39     25     30     27     38     66     20     14     22
D1863V6, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           2            39
  CLUS_2           1            25
  CLUS_3           0            30
  CLUS_4           2            27
  CLUS_5           1            38
  CLUS_6           3            66
  CLUS_7           0            20
  CLUS_8           0            14
  CLUS_9           0            22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KMO MUTATED        2      2      4      4
  KMO WILD-TYPE     98     70     68    117
D1863V7, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           2            98
  CLUS_2           2            70
  CLUS_3           4            68
  CLUS_4           4           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KMO MUTATED        2      2      4      2      2
  KMO WILD-TYPE     57     73     70    117     36
D1863V8, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           2            57
  CLUS_2           2            73
  CLUS_3           4            70
  CLUS_4           2           117
  CLUS_5           2            36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KMO MUTATED        0      3      2      3      3
  KMO WILD-TYPE     51     73     59     68     92
D1863V9, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           0            51
  CLUS_2           3            73
  CLUS_3           2            59
  CLUS_4           3            68
  CLUS_5           3            92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KMO MUTATED        2      3      1      0      2      0      1      1      1
  KMO WILD-TYPE     67     45     38     16     51     20     20     37     49
D1863V10, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           2            67
  CLUS_2           3            45
  CLUS_3           1            38
  CLUS_4           0            16
  CLUS_5           2            51
  CLUS_6           0            20
  CLUS_7           1            20
  CLUS_8           1            37
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KMO MUTATED        0      0      2      0      1      1
  KMO WILD-TYPE     13     16     12     11     10      8
D1863V11, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           0            13
  CLUS_2           0            16
  CLUS_3           2            12
  CLUS_4           0            11
  CLUS_5           1            10
  CLUS_6           1             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KMO MUTATED        1      0      0      0      1      0      1      1      0
  KMO WILD-TYPE     10      7      7      9      7      7     10      8      5
D1863V12, multiclass
        clus
vv       KMO MUTATED KMO WILD-TYPE
  CLUS_1           1            10
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           0             9
  CLUS_5           1             7
  CLUS_6           0             7
  CLUS_7           1            10
  CLUS_8           1             8
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1864) Variable = COL6A3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL6A3 MUTATED       10      3      3      3      1
  COL6A3 WILD-TYPE     22     15     43     24     22
D1864V1, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1             10               22
  CLUS_2              3               15
  CLUS_3              3               43
  CLUS_4              3               24
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL6A3 MUTATED       11      7      2
  COL6A3 WILD-TYPE     32     60     34
D1864V2, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1             11               32
  CLUS_2              7               60
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL6A3 MUTATED        0     13     38
  COL6A3 WILD-TYPE     42    160    109
D1864V3, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2             13              160
  CLUS_3             38              109
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL6A3 MUTATED       14      5     12
  COL6A3 WILD-TYPE     48     68     63
D1864V4, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1             14               48
  CLUS_2              5               68
  CLUS_3             12               63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL6A3 MUTATED        8     14     22
  COL6A3 WILD-TYPE     62    106     78
D1864V5, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1              8               62
  CLUS_2             14              106
  CLUS_3             22               78
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL6A3 MUTATED        4      3      5      3      3     21      0      4
  COL6A3 WILD-TYPE     37     23     25     26     36     48     20     10
                  vv
clus               CLUS_9
  COL6A3 MUTATED        1
  COL6A3 WILD-TYPE     21
D1864V6, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1              4               37
  CLUS_2              3               23
  CLUS_3              5               25
  CLUS_4              3               26
  CLUS_5              3               36
  CLUS_6             21               48
  CLUS_7              0               20
  CLUS_8              4               10
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL6A3 MUTATED        9     17      7     18
  COL6A3 WILD-TYPE     91     55     65    103
D1864V7, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1              9               91
  CLUS_2             17               55
  CLUS_3              7               65
  CLUS_4             18              103
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL6A3 MUTATED        3      8     19      9     12
  COL6A3 WILD-TYPE     56     67     55    110     26
D1864V8, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              8               67
  CLUS_3             19               55
  CLUS_4              9              110
  CLUS_5             12               26
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL6A3 MUTATED        2     15     10      5     17
  COL6A3 WILD-TYPE     49     61     51     66     78
D1864V9, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1              2               49
  CLUS_2             15               61
  CLUS_3             10               51
  CLUS_4              5               66
  CLUS_5             17               78
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL6A3 MUTATED       10     10      4      6      3      1      3      9
  COL6A3 WILD-TYPE     59     38     35     10     50     19     18     29
                  vv
clus               CLUS_9
  COL6A3 MUTATED        3
  COL6A3 WILD-TYPE     47
D1864V10, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1             10               59
  CLUS_2             10               38
  CLUS_3              4               35
  CLUS_4              6               10
  CLUS_5              3               50
  CLUS_6              1               19
  CLUS_7              3               18
  CLUS_8              9               29
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  COL6A3 MUTATED        3      1      2      1      5      0
  COL6A3 WILD-TYPE     10     15     12     10      6      9
D1864V11, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1              3               10
  CLUS_2              1               15
  CLUS_3              2               12
  CLUS_4              1               10
  CLUS_5              5                6
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  COL6A3 MUTATED        0      1      1      4      1      2      2      0
  COL6A3 WILD-TYPE     11      6      6      5      7      5      9      9
                  vv
clus               CLUS_9
  COL6A3 MUTATED        1
  COL6A3 WILD-TYPE      4
D1864V12, multiclass
        clus
vv       COL6A3 MUTATED COL6A3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1                6
  CLUS_3              1                6
  CLUS_4              4                5
  CLUS_5              1                7
  CLUS_6              2                5
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1865) Variable = FKBP5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FKBP5 MUTATED        1      0      0      0      0
  FKBP5 WILD-TYPE     31     18     46     27     23
D1865V1, multiclass
[1] "Remove cluster labels:" "FKBP5 MUTATED"         
clus
  FKBP5 MUTATED FKBP5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AY-4071 
"FKBP5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FKBP5 MUTATED        1      0      0
  FKBP5 WILD-TYPE     42     67     36
D1865V2, multiclass
[1] "Remove cluster labels:" "FKBP5 MUTATED"         
clus
  FKBP5 MUTATED FKBP5 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3979 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AY-4071 
"FKBP5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FKBP5 MUTATED        0      1      5
  FKBP5 WILD-TYPE     42    172    142
D1865V3, multiclass
        clus
vv       FKBP5 MUTATED FKBP5 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FKBP5 MUTATED        2      1      2
  FKBP5 WILD-TYPE     60     72     73
D1865V4, multiclass
        clus
vv       FKBP5 MUTATED FKBP5 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1              72
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FKBP5 MUTATED        0      1      4
  FKBP5 WILD-TYPE     70    119     96
D1865V5, multiclass
        clus
vv       FKBP5 MUTATED FKBP5 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FKBP5 MUTATED        2      1      0      0      0      2      0      0
  FKBP5 WILD-TYPE     39     25     30     29     39     67     20     14
                 vv
clus              CLUS_9
  FKBP5 MUTATED        0
  FKBP5 WILD-TYPE     22
D1865V6, multiclass
        clus
vv       FKBP5 MUTATED FKBP5 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FKBP5 MUTATED        0      3      2      1
  FKBP5 WILD-TYPE    100     69     70    120
D1865V7, multiclass
        clus
vv       FKBP5 MUTATED FKBP5 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             3              69
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FKBP5 MUTATED        2      0      3      0      1
  FKBP5 WILD-TYPE     57     75     71    119     37
D1865V8, multiclass
        clus
vv       FKBP5 MUTATED FKBP5 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             0              75
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FKBP5 MUTATED        0      3      2      0      1
  FKBP5 WILD-TYPE     51     73     59     71     94
D1865V9, multiclass
        clus
vv       FKBP5 MUTATED FKBP5 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FKBP5 MUTATED        1      2      0      2      0      0      0      1
  FKBP5 WILD-TYPE     68     46     39     14     53     20     21     37
                 vv
clus              CLUS_9
  FKBP5 MUTATED        0
  FKBP5 WILD-TYPE     50
D1865V10, multiclass
        clus
vv       FKBP5 MUTATED FKBP5 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FKBP5 MUTATED        0      0      0      1      1      0
  FKBP5 WILD-TYPE     13     16     14     10     10      9
D1865V11, multiclass
[1] "Remove cluster labels:" "FKBP5 MUTATED"         
clus
  FKBP5 MUTATED FKBP5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FKBP5 MUTATED        0      0      1      1      0      0      0      0
  FKBP5 WILD-TYPE     11      7      6      8      8      7     11      9
                 vv
clus              CLUS_9
  FKBP5 MUTATED        0
  FKBP5 WILD-TYPE      5
D1865V12, multiclass
[1] "Remove cluster labels:" "FKBP5 MUTATED"         
clus
  FKBP5 MUTATED FKBP5 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" "FKBP5 WILD-TYPE" 

Clustering(1866) Variable = ASPN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASPN MUTATED        0      0      0      1      0
  ASPN WILD-TYPE     32     18     46     26     23
D1866V1, multiclass
[1] "Remove cluster labels:" "ASPN MUTATED"          
clus
  ASPN MUTATED ASPN WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3864     TCGA-AA-3866 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AY-4071 
"ASPN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPN MUTATED        0      1      0
  ASPN WILD-TYPE     43     66     36
D1866V2, multiclass
[1] "Remove cluster labels:" "ASPN MUTATED"          
clus
  ASPN MUTATED ASPN WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3864     TCGA-AA-3866 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AY-4071 
"ASPN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPN MUTATED        0      0      6
  ASPN WILD-TYPE     42    173    141
D1866V3, multiclass
        clus
vv       ASPN MUTATED ASPN WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0            173
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPN MUTATED        1      0      5
  ASPN WILD-TYPE     61     73     70
D1866V4, multiclass
        clus
vv       ASPN MUTATED ASPN WILD-TYPE
  CLUS_1            1             61
  CLUS_2            0             73
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASPN MUTATED        2      3      2
  ASPN WILD-TYPE     68    117     98
D1866V5, multiclass
        clus
vv       ASPN MUTATED ASPN WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            117
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ASPN MUTATED        0      0      0      2      0      3      2      0      0
  ASPN WILD-TYPE     41     26     30     27     39     66     18     14     22
D1866V6, multiclass
        clus
vv       ASPN MUTATED ASPN WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            2             18
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASPN MUTATED        0      5      2      0
  ASPN WILD-TYPE    100     67     70    121
D1866V7, multiclass
        clus
vv       ASPN MUTATED ASPN WILD-TYPE
  CLUS_1            0            100
  CLUS_2            5             67
  CLUS_3            2             70
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASPN MUTATED        0      1      5      1      0
  ASPN WILD-TYPE     59     74     69    118     38
D1866V8, multiclass
        clus
vv       ASPN MUTATED ASPN WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            0             38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASPN MUTATED        0      6      0      0      1
  ASPN WILD-TYPE     51     70     61     71     94
D1866V9, multiclass
        clus
vv       ASPN MUTATED ASPN WILD-TYPE
  CLUS_1            0             51
  CLUS_2            6             70
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ASPN MUTATED        3      1      0      1      1      1      0      0      0
  ASPN WILD-TYPE     66     47     39     15     52     19     21     38     50
D1866V10, multiclass
        clus
vv       ASPN MUTATED ASPN WILD-TYPE
  CLUS_1            3             66
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            0             38
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ASPN MUTATED        0      1      0      0      1      0
  ASPN WILD-TYPE     13     15     14     11     10      9
D1866V11, multiclass
[1] "Remove cluster labels:" "ASPN MUTATED"          
clus
  ASPN MUTATED ASPN WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ASPN MUTATED        1      0      0      0      1      0      0      0      0
  ASPN WILD-TYPE     10      7      7      9      7      7     11      9      5
D1866V12, multiclass
[1] "Remove cluster labels:" "ASPN MUTATED"          
clus
  ASPN MUTATED ASPN WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-F4-6569     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" "ASPN WILD-TYPE" 

Clustering(1867) Variable = RARS2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RARS2 MUTATED        2      0      0      1      0
  RARS2 WILD-TYPE     30     18     46     26     23
D1867V1, multiclass
        clus
vv       RARS2 MUTATED RARS2 WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RARS2 MUTATED        2      0      1
  RARS2 WILD-TYPE     41     67     35
D1867V2, multiclass
        clus
vv       RARS2 MUTATED RARS2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              67
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RARS2 MUTATED        0      1      6
  RARS2 WILD-TYPE     42    172    141
D1867V3, multiclass
        clus
vv       RARS2 MUTATED RARS2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             6             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RARS2 MUTATED        3      0      1
  RARS2 WILD-TYPE     59     73     74
D1867V4, multiclass
        clus
vv       RARS2 MUTATED RARS2 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RARS2 MUTATED        0      1      3
  RARS2 WILD-TYPE     70    119     97
D1867V5, multiclass
        clus
vv       RARS2 MUTATED RARS2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RARS2 MUTATED        1      0      0      0      1      2      0      0
  RARS2 WILD-TYPE     40     26     30     29     38     67     20     14
                 vv
clus              CLUS_9
  RARS2 MUTATED        0
  RARS2 WILD-TYPE     22
D1867V6, multiclass
        clus
vv       RARS2 MUTATED RARS2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RARS2 MUTATED        1      2      1      3
  RARS2 WILD-TYPE     99     70     71    118
D1867V7, multiclass
        clus
vv       RARS2 MUTATED RARS2 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RARS2 MUTATED        1      2      1      1      2
  RARS2 WILD-TYPE     58     73     73    118     36
D1867V8, multiclass
        clus
vv       RARS2 MUTATED RARS2 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             1              73
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RARS2 MUTATED        0      2      1      1      2
  RARS2 WILD-TYPE     51     74     60     70     93
D1867V9, multiclass
        clus
vv       RARS2 MUTATED RARS2 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             2              74
  CLUS_3             1              60
  CLUS_4             1              70
  CLUS_5             2              93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RARS2 MUTATED        1      1      0      0      2      0      0      1
  RARS2 WILD-TYPE     68     47     39     16     51     20     21     37
                 vv
clus              CLUS_9
  RARS2 MUTATED        1
  RARS2 WILD-TYPE     49
D1867V10, multiclass
        clus
vv       RARS2 MUTATED RARS2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             1              37
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RARS2 MUTATED        0      0      0      0      0      0
  RARS2 WILD-TYPE     13     16     14     11     11      9
D1867V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RARS2 MUTATED        0      0      0      0      0      0      0      0
  RARS2 WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  RARS2 MUTATED        0
  RARS2 WILD-TYPE      5
D1867V12, multiclass

Clustering(1868) Variable = SMPDL3B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMPDL3B MUTATED        0      0      1      1      0
  SMPDL3B WILD-TYPE     32     18     45     26     23
D1868V1, multiclass
[1] "Remove cluster labels:" "SMPDL3B MUTATED"       
clus
  SMPDL3B MUTATED SMPDL3B WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3866 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMPDL3B MUTATED        1      0      1
  SMPDL3B WILD-TYPE     42     67     35
D1868V2, multiclass
[1] "Remove cluster labels:" "SMPDL3B MUTATED"       
clus
  SMPDL3B MUTATED SMPDL3B WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3815        TCGA-AA-3818 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3819        TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3846        TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3858        TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3866 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3867        TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3875        TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3941        TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3952        TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3968        TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" "SMPDL3B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMPDL3B MUTATED        1      4      4
  SMPDL3B WILD-TYPE     41    169    143
D1868V3, multiclass
        clus
vv       SMPDL3B MUTATED SMPDL3B WILD-TYPE
  CLUS_1               1                41
  CLUS_2               4               169
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMPDL3B MUTATED        0      1      6
  SMPDL3B WILD-TYPE     62     72     69
D1868V4, multiclass
        clus
vv       SMPDL3B MUTATED SMPDL3B WILD-TYPE
  CLUS_1               0                62
  CLUS_2               1                72
  CLUS_3               6                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMPDL3B MUTATED        1      4      3
  SMPDL3B WILD-TYPE     69    116     97
D1868V5, multiclass
        clus
vv       SMPDL3B MUTATED SMPDL3B WILD-TYPE
  CLUS_1               1                69
  CLUS_2               4               116
  CLUS_3               3                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMPDL3B MUTATED        1      0      1      1      2      2      1      0
  SMPDL3B WILD-TYPE     40     26     29     28     37     67     19     14
                   vv
clus                CLUS_9
  SMPDL3B MUTATED        0
  SMPDL3B WILD-TYPE     22
D1868V6, multiclass
        clus
vv       SMPDL3B MUTATED SMPDL3B WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               2                67
  CLUS_7               1                19
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMPDL3B MUTATED        1      3      3      2
  SMPDL3B WILD-TYPE     99     69     69    119
D1868V7, multiclass
        clus
vv       SMPDL3B MUTATED SMPDL3B WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               3                69
  CLUS_4               2               119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMPDL3B MUTATED        1      2      4      1      1
  SMPDL3B WILD-TYPE     58     73     70    118     37
D1868V8, multiclass
        clus
vv       SMPDL3B MUTATED SMPDL3B WILD-TYPE
  CLUS_1               1                58
  CLUS_2               2                73
  CLUS_3               4                70
  CLUS_4               1               118
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMPDL3B MUTATED        3      4      0      1      1
  SMPDL3B WILD-TYPE     48     72     61     70     94
D1868V9, multiclass
        clus
vv       SMPDL3B MUTATED SMPDL3B WILD-TYPE
  CLUS_1               3                48
  CLUS_2               4                72
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               1                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMPDL3B MUTATED        2      1      0      2      1      1      0      1
  SMPDL3B WILD-TYPE     67     47     39     14     52     19     21     37
                   vv
clus                CLUS_9
  SMPDL3B MUTATED        1
  SMPDL3B WILD-TYPE     49
D1868V10, multiclass
        clus
vv       SMPDL3B MUTATED SMPDL3B WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                47
  CLUS_3               0                39
  CLUS_4               2                14
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMPDL3B MUTATED        0      0      0      0      3      1
  SMPDL3B WILD-TYPE     13     16     14     11      8      8
D1868V11, multiclass
        clus
vv       SMPDL3B MUTATED SMPDL3B WILD-TYPE
  CLUS_1               0                13
  CLUS_2               0                16
  CLUS_3               0                14
  CLUS_4               0                11
  CLUS_5               3                 8
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMPDL3B MUTATED        1      0      0      1      1      0      1      0
  SMPDL3B WILD-TYPE     10      7      7      8      7      7     10      9
                   vv
clus                CLUS_9
  SMPDL3B MUTATED        0
  SMPDL3B WILD-TYPE      5
D1868V12, multiclass
        clus
vv       SMPDL3B MUTATED SMPDL3B WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 7
  CLUS_7               1                10
  CLUS_8               0                 9
  CLUS_9               0                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1869) Variable = SEMA3C MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEMA3C MUTATED        1      0      0      0      0
  SEMA3C WILD-TYPE     31     18     46     27     23
D1869V1, multiclass
[1] "Remove cluster labels:" "SEMA3C MUTATED"        
clus
  SEMA3C MUTATED SEMA3C WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AY-4071 
"SEMA3C WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEMA3C MUTATED        0      0      1
  SEMA3C WILD-TYPE     43     67     35
D1869V2, multiclass
[1] "Remove cluster labels:" "SEMA3C MUTATED"        
clus
  SEMA3C MUTATED SEMA3C WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3819       TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3846       TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3858       TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3866       TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3872       TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3939       TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3950       TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3966       TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3979       TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3986 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" "SEMA3C WILD-TYPE" 
      TCGA-AY-4071 
"SEMA3C WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEMA3C MUTATED        2      1      9
  SEMA3C WILD-TYPE     40    172    138
D1869V3, multiclass
        clus
vv       SEMA3C MUTATED SEMA3C WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1              172
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEMA3C MUTATED        3      0      7
  SEMA3C WILD-TYPE     59     73     68
D1869V4, multiclass
        clus
vv       SEMA3C MUTATED SEMA3C WILD-TYPE
  CLUS_1              3               59
  CLUS_2              0               73
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEMA3C MUTATED        2      5      4
  SEMA3C WILD-TYPE     68    115     96
D1869V5, multiclass
        clus
vv       SEMA3C MUTATED SEMA3C WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              115
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEMA3C MUTATED        2      0      1      3      1      3      1      0
  SEMA3C WILD-TYPE     39     26     29     26     38     66     19     14
                  vv
clus               CLUS_9
  SEMA3C MUTATED        0
  SEMA3C WILD-TYPE     22
D1869V6, multiclass
        clus
vv       SEMA3C MUTATED SEMA3C WILD-TYPE
  CLUS_1              2               39
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              3               26
  CLUS_5              1               38
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SEMA3C MUTATED        0      5      5      2
  SEMA3C WILD-TYPE    100     67     67    119
D1869V7, multiclass
        clus
vv       SEMA3C MUTATED SEMA3C WILD-TYPE
  CLUS_1              0              100
  CLUS_2              5               67
  CLUS_3              5               67
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEMA3C MUTATED        2      0      8      1      1
  SEMA3C WILD-TYPE     57     75     66    118     37
D1869V8, multiclass
        clus
vv       SEMA3C MUTATED SEMA3C WILD-TYPE
  CLUS_1              2               57
  CLUS_2              0               75
  CLUS_3              8               66
  CLUS_4              1              118
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEMA3C MUTATED        1      7      2      1      1
  SEMA3C WILD-TYPE     50     69     59     70     94
D1869V9, multiclass
        clus
vv       SEMA3C MUTATED SEMA3C WILD-TYPE
  CLUS_1              1               50
  CLUS_2              7               69
  CLUS_3              2               59
  CLUS_4              1               70
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEMA3C MUTATED        1      4      0      5      1      0      0      1
  SEMA3C WILD-TYPE     68     44     39     11     52     20     21     37
                  vv
clus               CLUS_9
  SEMA3C MUTATED        0
  SEMA3C WILD-TYPE     50
D1869V10, multiclass
        clus
vv       SEMA3C MUTATED SEMA3C WILD-TYPE
  CLUS_1              1               68
  CLUS_2              4               44
  CLUS_3              0               39
  CLUS_4              5               11
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SEMA3C MUTATED        1      1      0      0      3      0
  SEMA3C WILD-TYPE     12     15     14     11      8      9
D1869V11, multiclass
        clus
vv       SEMA3C MUTATED SEMA3C WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SEMA3C MUTATED        0      0      1      2      1      0      1      0
  SEMA3C WILD-TYPE     11      7      6      7      7      7     10      9
                  vv
clus               CLUS_9
  SEMA3C MUTATED        0
  SEMA3C WILD-TYPE      5
D1869V12, multiclass
        clus
vv       SEMA3C MUTATED SEMA3C WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              1                6
  CLUS_4              2                7
  CLUS_5              1                7
  CLUS_6              0                7
  CLUS_7              1               10
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1870) Variable = GABRG2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRG2 MUTATED        4      0      0      1      0
  GABRG2 WILD-TYPE     28     18     46     26     23
D1870V1, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GABRG2 MUTATED        3      1      1
  GABRG2 WILD-TYPE     40     66     35
D1870V2, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GABRG2 MUTATED        2      6      6
  GABRG2 WILD-TYPE     40    167    141
D1870V3, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              6              167
  CLUS_3              6              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GABRG2 MUTATED        4      2      2
  GABRG2 WILD-TYPE     58     71     73
D1870V4, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              4               58
  CLUS_2              2               71
  CLUS_3              2               73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GABRG2 MUTATED        2      4      5
  GABRG2 WILD-TYPE     68    116     95
D1870V5, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              116
  CLUS_3              5               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABRG2 MUTATED        1      0      2      2      1      2      1      0
  GABRG2 WILD-TYPE     40     26     28     27     38     67     19     14
                  vv
clus               CLUS_9
  GABRG2 MUTATED        2
  GABRG2 WILD-TYPE     20
D1870V6, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              1               38
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GABRG2 MUTATED        2      2      4      6
  GABRG2 WILD-TYPE     98     70     68    115
D1870V7, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              2               98
  CLUS_2              2               70
  CLUS_3              4               68
  CLUS_4              6              115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRG2 MUTATED        2      4      2      3      3
  GABRG2 WILD-TYPE     57     71     72    116     35
D1870V8, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              4               71
  CLUS_3              2               72
  CLUS_4              3              116
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRG2 MUTATED        2      3      2      4      3
  GABRG2 WILD-TYPE     49     73     59     67     92
D1870V9, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              3               73
  CLUS_3              2               59
  CLUS_4              4               67
  CLUS_5              3               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABRG2 MUTATED        4      2      1      0      4      0      0      3
  GABRG2 WILD-TYPE     65     46     38     16     49     20     21     35
                  vv
clus               CLUS_9
  GABRG2 MUTATED        0
  GABRG2 WILD-TYPE     50
D1870V10, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              2               46
  CLUS_3              1               38
  CLUS_4              0               16
  CLUS_5              4               49
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GABRG2 MUTATED        1      1      1      1      0      0
  GABRG2 WILD-TYPE     12     15     13     10     11      9
D1870V11, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               15
  CLUS_3              1               13
  CLUS_4              1               10
  CLUS_5              0               11
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABRG2 MUTATED        1      1      0      0      0      1      0      0
  GABRG2 WILD-TYPE     10      6      7      9      8      6     11      9
                  vv
clus               CLUS_9
  GABRG2 MUTATED        1
  GABRG2 WILD-TYPE      4
D1870V12, multiclass
        clus
vv       GABRG2 MUTATED GABRG2 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              1                6
  CLUS_3              0                7
  CLUS_4              0                9
  CLUS_5              0                8
  CLUS_6              1                6
  CLUS_7              0               11
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1871) Variable = MTOR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTOR MUTATED        8      1      1      3      1
  MTOR WILD-TYPE     24     17     45     24     22
D1871V1, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            8             24
  CLUS_2            1             17
  CLUS_3            1             45
  CLUS_4            3             24
  CLUS_5            1             22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED        7      4      3
  MTOR WILD-TYPE     36     63     33
D1871V2, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            7             36
  CLUS_2            4             63
  CLUS_3            3             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED        2      9     22
  MTOR WILD-TYPE     40    164    125
D1871V3, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            2             40
  CLUS_2            9            164
  CLUS_3           22            125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED        6      4     10
  MTOR WILD-TYPE     56     69     65
D1871V4, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            6             56
  CLUS_2            4             69
  CLUS_3           10             65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED        4     12      7
  MTOR WILD-TYPE     66    108     93
D1871V5, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            4             66
  CLUS_2           12            108
  CLUS_3            7             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTOR MUTATED        1      3      2      3      2      6      2      3      1
  MTOR WILD-TYPE     40     23     28     26     37     63     18     11     21
D1871V6, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            1             40
  CLUS_2            3             23
  CLUS_3            2             28
  CLUS_4            3             26
  CLUS_5            2             37
  CLUS_6            6             63
  CLUS_7            2             18
  CLUS_8            3             11
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTOR MUTATED        7     10      4     13
  MTOR WILD-TYPE     93     62     68    108
D1871V7, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            7             93
  CLUS_2           10             62
  CLUS_3            4             68
  CLUS_4           13            108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTOR MUTATED        0      7     12      8      7
  MTOR WILD-TYPE     59     68     62    111     31
D1871V8, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            0             59
  CLUS_2            7             68
  CLUS_3           12             62
  CLUS_4            8            111
  CLUS_5            7             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTOR MUTATED        3     12      2      8      8
  MTOR WILD-TYPE     48     64     59     63     87
D1871V9, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            3             48
  CLUS_2           12             64
  CLUS_3            2             59
  CLUS_4            8             63
  CLUS_5            8             87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTOR MUTATED        6      2      2      4      6      3      3      6      1
  MTOR WILD-TYPE     63     46     37     12     47     17     18     32     49
D1871V10, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            6             63
  CLUS_2            2             46
  CLUS_3            2             37
  CLUS_4            4             12
  CLUS_5            6             47
  CLUS_6            3             17
  CLUS_7            3             18
  CLUS_8            6             32
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MTOR MUTATED        1      0      1      0      5      0
  MTOR WILD-TYPE     12     16     13     11      6      9
D1871V11, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            1             12
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            5              6
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  MTOR MUTATED        0      0      0      2      2      1      1      1      0
  MTOR WILD-TYPE     11      7      7      7      6      6     10      8      5
D1871V12, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            2              6
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            1              8
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1872) Variable = CD84 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD84 MUTATED        1      0      0      1      0
  CD84 WILD-TYPE     31     18     46     26     23
D1872V1, multiclass
[1] "Remove cluster labels:" "CD84 MUTATED"          
clus
  CD84 MUTATED CD84 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD84 MUTATED        2      0      0
  CD84 WILD-TYPE     41     67     36
D1872V2, multiclass
[1] "Remove cluster labels:" "CD84 MUTATED"          
clus
  CD84 MUTATED CD84 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979     TCGA-AA-3980 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD84 MUTATED        1      1      7
  CD84 WILD-TYPE     41    172    140
D1872V3, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1            172
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD84 MUTATED        4      1      2
  CD84 WILD-TYPE     58     72     73
D1872V4, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            2             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD84 MUTATED        1      2      4
  CD84 WILD-TYPE     69    118     96
D1872V5, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            118
  CLUS_3            4             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD84 MUTATED        1      2      0      1      0      3      0      0      0
  CD84 WILD-TYPE     40     24     30     28     39     66     20     14     22
D1872V6, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            0             30
  CLUS_4            1             28
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD84 MUTATED        1      3      3      2
  CD84 WILD-TYPE     99     69     69    119
D1872V7, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            3             69
  CLUS_3            3             69
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD84 MUTATED        2      1      3      1      2
  CD84 WILD-TYPE     57     74     71    118     36
D1872V8, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            1            118
  CLUS_5            2             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD84 MUTATED        0      3      2      1      3
  CD84 WILD-TYPE     51     73     59     70     92
D1872V9, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            3             73
  CLUS_3            2             59
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD84 MUTATED        2      2      0      1      1      0      0      2      1
  CD84 WILD-TYPE     67     46     39     15     52     20     21     36     49
D1872V10, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            2             36
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CD84 MUTATED        0      1      0      0      0      0
  CD84 WILD-TYPE     13     15     14     11     11      9
D1872V11, multiclass
[1] "Remove cluster labels:" "CD84 MUTATED"          
clus
  CD84 MUTATED CD84 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-G4-6628 
"CD84 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CD84 MUTATED        0      1      0      0      0      0      0      0      0
  CD84 WILD-TYPE     11      6      7      9      8      7     11      9      5
D1872V12, multiclass
[1] "Remove cluster labels:" "CD84 MUTATED"          
clus
  CD84 MUTATED CD84 WILD-TYPE 
             1             73 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-A6-6142     TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-A6-6654     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AA-3511     TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AD-6901     TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AZ-6598     TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-AZ-6605     TCGA-AZ-6607     TCGA-CA-6718     TCGA-CA-6719 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6748     TCGA-CM-5860     TCGA-CM-6167 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6676     TCGA-CM-6677     TCGA-CM-6678 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537     TCGA-D5-6533 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-D5-6534     TCGA-D5-6536     TCGA-D5-6922     TCGA-D5-6924 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0     TCGA-DM-A1D7 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-DM-A1D8     TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1HA 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28F     TCGA-F4-6459 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-F4-6460     TCGA-F4-6569     TCGA-F4-6570     TCGA-F4-6704 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-F4-6805     TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-G4-6303     TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-G4-6628 
"CD84 WILD-TYPE" 

Clustering(1873) Variable = PRKD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKD1 MUTATED        5      0      2      1      0
  PRKD1 WILD-TYPE     27     18     44     26     23
D1873V1, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             5              27
  CLUS_2             0              18
  CLUS_3             2              44
  CLUS_4             1              26
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKD1 MUTATED        4      2      2
  PRKD1 WILD-TYPE     39     65     34
D1873V2, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             2              65
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKD1 MUTATED        2      5     17
  PRKD1 WILD-TYPE     40    168    130
D1873V3, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5             168
  CLUS_3            17             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKD1 MUTATED        6      4      6
  PRKD1 WILD-TYPE     56     69     69
D1873V4, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             4              69
  CLUS_3             6              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PRKD1 MUTATED        4      9      8
  PRKD1 WILD-TYPE     66    111     92
D1873V5, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             9             111
  CLUS_3             8              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKD1 MUTATED        3      1      2      3      5      4      2      0
  PRKD1 WILD-TYPE     38     25     28     26     34     65     18     14
                 vv
clus              CLUS_9
  PRKD1 MUTATED        1
  PRKD1 WILD-TYPE     21
D1873V6, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             3              38
  CLUS_2             1              25
  CLUS_3             2              28
  CLUS_4             3              26
  CLUS_5             5              34
  CLUS_6             4              65
  CLUS_7             2              18
  CLUS_8             0              14
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRKD1 MUTATED        4      6      6      8
  PRKD1 WILD-TYPE     96     66     66    113
D1873V7, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             6              66
  CLUS_3             6              66
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKD1 MUTATED        4      6      5      5      4
  PRKD1 WILD-TYPE     55     69     69    114     34
D1873V8, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             6              69
  CLUS_3             5              69
  CLUS_4             5             114
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKD1 MUTATED        4      6      4      4      6
  PRKD1 WILD-TYPE     47     70     57     67     89
D1873V9, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             6              70
  CLUS_3             4              57
  CLUS_4             4              67
  CLUS_5             6              89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKD1 MUTATED        5      4      3      0      4      2      0      3
  PRKD1 WILD-TYPE     64     44     36     16     49     18     21     35
                 vv
clus              CLUS_9
  PRKD1 MUTATED        3
  PRKD1 WILD-TYPE     47
D1873V10, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             4              44
  CLUS_3             3              36
  CLUS_4             0              16
  CLUS_5             4              49
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             3              35
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRKD1 MUTATED        1      2      2      0      0      0
  PRKD1 WILD-TYPE     12     14     12     11     11      9
D1873V11, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             2              14
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PRKD1 MUTATED        1      0      0      0      0      1      2      1
  PRKD1 WILD-TYPE     10      7      7      9      8      6      9      8
                 vv
clus              CLUS_9
  PRKD1 MUTATED        0
  PRKD1 WILD-TYPE      5
D1873V12, multiclass
        clus
vv       PRKD1 MUTATED PRKD1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1874) Variable = TET1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TET1 MUTATED        7      1      1      3      0
  TET1 WILD-TYPE     25     17     45     24     23
D1874V1, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            7             25
  CLUS_2            1             17
  CLUS_3            1             45
  CLUS_4            3             24
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TET1 MUTATED        8      4      0
  TET1 WILD-TYPE     35     63     36
D1874V2, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            8             35
  CLUS_2            4             63
  CLUS_3            0             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TET1 MUTATED        2      3     18
  TET1 WILD-TYPE     40    170    129
D1874V3, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            3            170
  CLUS_3           18            129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TET1 MUTATED        5      1      5
  TET1 WILD-TYPE     57     72     70
D1874V4, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            5             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TET1 MUTATED        5      6     10
  TET1 WILD-TYPE     65    114     90
D1874V5, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            5             65
  CLUS_2            6            114
  CLUS_3           10             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TET1 MUTATED        1      1      1      2      5      9      1      0      1
  TET1 WILD-TYPE     40     25     29     27     34     60     19     14     21
D1874V6, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            1             25
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            5             34
  CLUS_6            9             60
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TET1 MUTATED        3      3      6     11
  TET1 WILD-TYPE     97     69     66    110
D1874V7, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            3             97
  CLUS_2            3             69
  CLUS_3            6             66
  CLUS_4           11            110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TET1 MUTATED        2      0      8      4      9
  TET1 WILD-TYPE     57     75     66    115     29
D1874V8, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            0             75
  CLUS_3            8             66
  CLUS_4            4            115
  CLUS_5            9             29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TET1 MUTATED        0      7      2      2     10
  TET1 WILD-TYPE     51     69     59     69     85
D1874V9, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            0             51
  CLUS_2            7             69
  CLUS_3            2             59
  CLUS_4            2             69
  CLUS_5           10             85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TET1 MUTATED        3      3      1      3      3      0      0      8      0
  TET1 WILD-TYPE     66     45     38     13     50     20     21     30     50
D1874V10, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             45
  CLUS_3            1             38
  CLUS_4            3             13
  CLUS_5            3             50
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            8             30
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TET1 MUTATED        0      2      0      1      3      0
  TET1 WILD-TYPE     13     14     14     10      8      9
D1874V11, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             14
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TET1 MUTATED        1      1      0      1      1      0      2      0      0
  TET1 WILD-TYPE     10      6      7      8      7      7      9      9      5
D1874V12, multiclass
        clus
vv       TET1 MUTATED TET1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1              6
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            1              7
  CLUS_6            0              7
  CLUS_7            2              9
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1875) Variable = FLG MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLG MUTATED        8      3      0      8      3
  FLG WILD-TYPE     24     15     46     19     20
D1875V1, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1           8            24
  CLUS_2           3            15
  CLUS_3           0            46
  CLUS_4           8            19
  CLUS_5           3            20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FLG MUTATED       12      6      4
  FLG WILD-TYPE     31     61     32
D1875V2, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1          12            31
  CLUS_2           6            61
  CLUS_3           4            32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FLG MUTATED        4     19     38
  FLG WILD-TYPE     38    154    109
D1875V3, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1           4            38
  CLUS_2          19           154
  CLUS_3          38           109
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FLG MUTATED       14     11     12
  FLG WILD-TYPE     48     62     63
D1875V4, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1          14            48
  CLUS_2          11            62
  CLUS_3          12            63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FLG MUTATED       10     18     24
  FLG WILD-TYPE     60    102     76
D1875V5, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1          10            60
  CLUS_2          18           102
  CLUS_3          24            76
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLG MUTATED        4      4      4      3      7     16      4      5      5
  FLG WILD-TYPE     37     22     26     26     32     53     16      9     17
D1875V6, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1           4            37
  CLUS_2           4            22
  CLUS_3           4            26
  CLUS_4           3            26
  CLUS_5           7            32
  CLUS_6          16            53
  CLUS_7           4            16
  CLUS_8           5             9
  CLUS_9           5            17
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLG MUTATED       14     14     16     20
  FLG WILD-TYPE     86     58     56    101
D1875V7, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1          14            86
  CLUS_2          14            58
  CLUS_3          16            56
  CLUS_4          20           101
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLG MUTATED        8     15     16     11     14
  FLG WILD-TYPE     51     60     58    108     24
D1875V8, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1           8            51
  CLUS_2          15            60
  CLUS_3          16            58
  CLUS_4          11           108
  CLUS_5          14            24
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLG MUTATED        8     16     11      8     20
  FLG WILD-TYPE     43     60     50     63     75
D1875V9, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1           8            43
  CLUS_2          16            60
  CLUS_3          11            50
  CLUS_4           8            63
  CLUS_5          20            75
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLG MUTATED        8      7      6      5     13      4      4     11      5
  FLG WILD-TYPE     61     41     33     11     40     16     17     27     45
D1875V10, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1           8            61
  CLUS_2           7            41
  CLUS_3           6            33
  CLUS_4           5            11
  CLUS_5          13            40
  CLUS_6           4            16
  CLUS_7           4            17
  CLUS_8          11            27
  CLUS_9           5            45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FLG MUTATED        3      1      2      2      6      2
  FLG WILD-TYPE     10     15     12      9      5      7
D1875V11, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1           3            10
  CLUS_2           1            15
  CLUS_3           2            12
  CLUS_4           2             9
  CLUS_5           6             5
  CLUS_6           2             7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  FLG MUTATED        1      1      1      3      2      1      3      2      2
  FLG WILD-TYPE     10      6      6      6      6      6      8      7      3
D1875V12, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1           1            10
  CLUS_2           1             6
  CLUS_3           1             6
  CLUS_4           3             6
  CLUS_5           2             6
  CLUS_6           1             6
  CLUS_7           3             8
  CLUS_8           2             7
  CLUS_9           2             3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1876) Variable = SCNN1G MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCNN1G MUTATED        2      0      0      0      0
  SCNN1G WILD-TYPE     30     18     46     27     23
D1876V1, multiclass
[1] "Remove cluster labels:" "SCNN1G MUTATED"        
clus
  SCNN1G MUTATED SCNN1G WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3812       TCGA-AA-3814 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3821 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837       TCGA-AA-3842 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846       TCGA-AA-3848 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SCNN1G MUTATED        2      0      0
  SCNN1G WILD-TYPE     41     67     36
D1876V2, multiclass
[1] "Remove cluster labels:" "SCNN1G MUTATED"        
clus
  SCNN1G MUTATED SCNN1G WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3812       TCGA-AA-3814 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3821 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837       TCGA-AA-3842 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846       TCGA-AA-3848 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852       TCGA-AA-3854 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858       TCGA-AA-3860 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3867 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872       TCGA-AA-3875 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939       TCGA-AA-3941 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SCNN1G MUTATED        1      3      5
  SCNN1G WILD-TYPE     41    170    142
D1876V3, multiclass
        clus
vv       SCNN1G MUTATED SCNN1G WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3              170
  CLUS_3              5              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SCNN1G MUTATED        0      3      4
  SCNN1G WILD-TYPE     62     70     71
D1876V4, multiclass
        clus
vv       SCNN1G MUTATED SCNN1G WILD-TYPE
  CLUS_1              0               62
  CLUS_2              3               70
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SCNN1G MUTATED        0      4      4
  SCNN1G WILD-TYPE     70    116     96
D1876V5, multiclass
        clus
vv       SCNN1G MUTATED SCNN1G WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              116
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCNN1G MUTATED        1      0      0      1      2      3      1      0
  SCNN1G WILD-TYPE     40     26     30     28     37     66     19     14
                  vv
clus               CLUS_9
  SCNN1G MUTATED        0
  SCNN1G WILD-TYPE     22
D1876V6, multiclass
        clus
vv       SCNN1G MUTATED SCNN1G WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SCNN1G MUTATED        2      4      1      2
  SCNN1G WILD-TYPE     98     68     71    119
D1876V7, multiclass
        clus
vv       SCNN1G MUTATED SCNN1G WILD-TYPE
  CLUS_1              2               98
  CLUS_2              4               68
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCNN1G MUTATED        2      1      4      0      2
  SCNN1G WILD-TYPE     57     74     70    119     36
D1876V8, multiclass
        clus
vv       SCNN1G MUTATED SCNN1G WILD-TYPE
  CLUS_1              2               57
  CLUS_2              1               74
  CLUS_3              4               70
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCNN1G MUTATED        0      5      1      2      1
  SCNN1G WILD-TYPE     51     71     60     69     94
D1876V9, multiclass
        clus
vv       SCNN1G MUTATED SCNN1G WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCNN1G MUTATED        4      1      0      2      1      0      0      1
  SCNN1G WILD-TYPE     65     47     39     14     52     20     21     37
                  vv
clus               CLUS_9
  SCNN1G MUTATED        0
  SCNN1G WILD-TYPE     50
D1876V10, multiclass
        clus
vv       SCNN1G MUTATED SCNN1G WILD-TYPE
  CLUS_1              4               65
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SCNN1G MUTATED        0      0      0      1      0      1
  SCNN1G WILD-TYPE     13     16     14     10     11      8
D1876V11, multiclass
[1] "Remove cluster labels:" "SCNN1G MUTATED"        
clus
  SCNN1G MUTATED SCNN1G WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SCNN1G MUTATED        0      0      1      0      0      0      0      1
  SCNN1G WILD-TYPE     11      7      6      9      8      7     11      8
                  vv
clus               CLUS_9
  SCNN1G MUTATED        0
  SCNN1G WILD-TYPE      5
D1876V12, multiclass
[1] "Remove cluster labels:" "SCNN1G MUTATED"        
clus
  SCNN1G MUTATED SCNN1G WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" "SCNN1G WILD-TYPE" 

Clustering(1877) Variable = SLC19A2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC19A2 MUTATED        2      0      1      0      0
  SLC19A2 WILD-TYPE     30     18     45     27     23
D1877V1, multiclass
        clus
vv       SLC19A2 MUTATED SLC19A2 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC19A2 MUTATED        1      1      1
  SLC19A2 WILD-TYPE     42     66     35
D1877V2, multiclass
        clus
vv       SLC19A2 MUTATED SLC19A2 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               1                66
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC19A2 MUTATED        1      1      5
  SLC19A2 WILD-TYPE     41    172    142
D1877V3, multiclass
        clus
vv       SLC19A2 MUTATED SLC19A2 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               5               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC19A2 MUTATED        0      1      3
  SLC19A2 WILD-TYPE     62     72     72
D1877V4, multiclass
        clus
vv       SLC19A2 MUTATED SLC19A2 WILD-TYPE
  CLUS_1               0                62
  CLUS_2               1                72
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC19A2 MUTATED        0      2      2
  SLC19A2 WILD-TYPE     70    118     98
D1877V5, multiclass
        clus
vv       SLC19A2 MUTATED SLC19A2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               118
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC19A2 MUTATED        0      0      0      2      0      2      0      0
  SLC19A2 WILD-TYPE     41     26     30     27     39     67     20     14
                   vv
clus                CLUS_9
  SLC19A2 MUTATED        0
  SLC19A2 WILD-TYPE     22
D1877V6, multiclass
        clus
vv       SLC19A2 MUTATED SLC19A2 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               2                27
  CLUS_5               0                39
  CLUS_6               2                67
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC19A2 MUTATED        1      3      0      3
  SLC19A2 WILD-TYPE     99     69     72    118
D1877V7, multiclass
        clus
vv       SLC19A2 MUTATED SLC19A2 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               3                69
  CLUS_3               0                72
  CLUS_4               3               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC19A2 MUTATED        0      1      3      2      1
  SLC19A2 WILD-TYPE     59     74     71    117     37
D1877V8, multiclass
        clus
vv       SLC19A2 MUTATED SLC19A2 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               2               117
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC19A2 MUTATED        1      3      0      1      2
  SLC19A2 WILD-TYPE     50     73     61     70     93
D1877V9, multiclass
        clus
vv       SLC19A2 MUTATED SLC19A2 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               0                61
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC19A2 MUTATED        0      0      0      3      2      0      0      1
  SLC19A2 WILD-TYPE     69     48     39     13     51     20     21     37
                   vv
clus                CLUS_9
  SLC19A2 MUTATED        1
  SLC19A2 WILD-TYPE     49
D1877V10, multiclass
        clus
vv       SLC19A2 MUTATED SLC19A2 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               0                48
  CLUS_3               0                39
  CLUS_4               3                13
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC19A2 MUTATED        0      0      0      0      0      0
  SLC19A2 WILD-TYPE     13     16     14     11     11      9
D1877V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC19A2 MUTATED        0      0      0      0      0      0      0      0
  SLC19A2 WILD-TYPE     11      7      7      9      8      7     11      9
                   vv
clus                CLUS_9
  SLC19A2 MUTATED        0
  SLC19A2 WILD-TYPE      5
D1877V12, multiclass

Clustering(1878) Variable = TBC1D25 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBC1D25 MUTATED        6      0      1      0      0
  TBC1D25 WILD-TYPE     26     18     45     27     23
D1878V1, multiclass
        clus
vv       TBC1D25 MUTATED TBC1D25 WILD-TYPE
  CLUS_1               6                26
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               0                27
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBC1D25 MUTATED        6      1      0
  TBC1D25 WILD-TYPE     37     66     36
D1878V2, multiclass
        clus
vv       TBC1D25 MUTATED TBC1D25 WILD-TYPE
  CLUS_1               6                37
  CLUS_2               1                66
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBC1D25 MUTATED        1      2      8
  TBC1D25 WILD-TYPE     41    171    139
D1878V3, multiclass
        clus
vv       TBC1D25 MUTATED TBC1D25 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2               171
  CLUS_3               8               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBC1D25 MUTATED        1      1      2
  TBC1D25 WILD-TYPE     61     72     73
D1878V4, multiclass
        clus
vv       TBC1D25 MUTATED TBC1D25 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               1                72
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBC1D25 MUTATED        1      2      4
  TBC1D25 WILD-TYPE     69    118     96
D1878V5, multiclass
        clus
vv       TBC1D25 MUTATED TBC1D25 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               4                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TBC1D25 MUTATED        1      0      0      0      2      4      0      0
  TBC1D25 WILD-TYPE     40     26     30     29     37     65     20     14
                   vv
clus                CLUS_9
  TBC1D25 MUTATED        0
  TBC1D25 WILD-TYPE     22
D1878V6, multiclass
        clus
vv       TBC1D25 MUTATED TBC1D25 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               2                37
  CLUS_6               4                65
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TBC1D25 MUTATED        1      1      2      7
  TBC1D25 WILD-TYPE     99     71     70    114
D1878V7, multiclass
        clus
vv       TBC1D25 MUTATED TBC1D25 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               2                70
  CLUS_4               7               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBC1D25 MUTATED        0      1      3      1      6
  TBC1D25 WILD-TYPE     59     74     71    118     32
D1878V8, multiclass
        clus
vv       TBC1D25 MUTATED TBC1D25 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               1               118
  CLUS_5               6                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBC1D25 MUTATED        1      2      2      2      4
  TBC1D25 WILD-TYPE     50     74     59     69     91
D1878V9, multiclass
        clus
vv       TBC1D25 MUTATED TBC1D25 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               2                74
  CLUS_3               2                59
  CLUS_4               2                69
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TBC1D25 MUTATED        2      2      1      0      1      0      1      4
  TBC1D25 WILD-TYPE     67     46     38     16     52     20     20     34
                   vv
clus                CLUS_9
  TBC1D25 MUTATED        0
  TBC1D25 WILD-TYPE     50
D1878V10, multiclass
        clus
vv       TBC1D25 MUTATED TBC1D25 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               2                46
  CLUS_3               1                38
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               1                20
  CLUS_8               4                34
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TBC1D25 MUTATED        0      1      0      0      0      0
  TBC1D25 WILD-TYPE     13     15     14     11     11      9
D1878V11, multiclass
[1] "Remove cluster labels:" "TBC1D25 MUTATED"       
clus
  TBC1D25 MUTATED TBC1D25 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-G4-6628 
"TBC1D25 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TBC1D25 MUTATED        0      0      0      0      0      0      1      0
  TBC1D25 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  TBC1D25 MUTATED        0
  TBC1D25 WILD-TYPE      5
D1878V12, multiclass
[1] "Remove cluster labels:" "TBC1D25 MUTATED"       
clus
  TBC1D25 MUTATED TBC1D25 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" "TBC1D25 WILD-TYPE" 
       TCGA-G4-6628 
"TBC1D25 WILD-TYPE" 

Clustering(1879) Variable = PCDHGA9 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHGA9 MUTATED        2      0      1      2      0
  PCDHGA9 WILD-TYPE     30     18     45     25     23
D1879V1, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               2                25
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA9 MUTATED        3      2      0
  PCDHGA9 WILD-TYPE     40     65     36
D1879V2, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               2                65
  CLUS_3               0                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA9 MUTATED        0      3      9
  PCDHGA9 WILD-TYPE     42    170    138
D1879V3, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3               170
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA9 MUTATED        2      3      2
  PCDHGA9 WILD-TYPE     60     70     73
D1879V4, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               3                70
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA9 MUTATED        0      4      6
  PCDHGA9 WILD-TYPE     70    116     94
D1879V5, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               4               116
  CLUS_3               6                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDHGA9 MUTATED        0      0      0      1      2      6      0      1
  PCDHGA9 WILD-TYPE     41     26     30     28     37     63     20     13
                   vv
clus                CLUS_9
  PCDHGA9 MUTATED        0
  PCDHGA9 WILD-TYPE     22
D1879V6, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               0                41
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               1                28
  CLUS_5               2                37
  CLUS_6               6                63
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA9 MUTATED        3      3      1      5
  PCDHGA9 WILD-TYPE     97     69     71    116
D1879V7, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               3                97
  CLUS_2               3                69
  CLUS_3               1                71
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHGA9 MUTATED        2      2      3      2      3
  PCDHGA9 WILD-TYPE     57     73     71    117     35
D1879V8, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               2                73
  CLUS_3               3                71
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHGA9 MUTATED        1      3      1      1      6
  PCDHGA9 WILD-TYPE     50     73     60     70     89
D1879V9, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               1                50
  CLUS_2               3                73
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               6                89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDHGA9 MUTATED        4      2      0      0      1      0      2      2
  PCDHGA9 WILD-TYPE     65     46     39     16     52     20     19     36
                   vv
clus                CLUS_9
  PCDHGA9 MUTATED        1
  PCDHGA9 WILD-TYPE     49
D1879V10, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               0                16
  CLUS_5               1                52
  CLUS_6               0                20
  CLUS_7               2                19
  CLUS_8               2                36
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCDHGA9 MUTATED        0      0      0      1      1      0
  PCDHGA9 WILD-TYPE     13     16     14     10     10      9
D1879V11, multiclass
[1] "Remove cluster labels:" "PCDHGA9 MUTATED"       
clus
  PCDHGA9 MUTATED PCDHGA9 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6679        TCGA-CM-6680 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDHGA9 MUTATED        0      0      0      0      0      0      2      0
  PCDHGA9 WILD-TYPE     11      7      7      9      8      7      9      9
                   vv
clus                CLUS_9
  PCDHGA9 MUTATED        0
  PCDHGA9 WILD-TYPE      5
D1879V12, multiclass
[1] "Remove cluster labels:" "PCDHGA9 MUTATED"       
clus
  PCDHGA9 MUTATED PCDHGA9 WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6603        TCGA-AZ-6605 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6679        TCGA-CM-6680 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" "PCDHGA9 WILD-TYPE" 

Clustering(1880) Variable = HIF1A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIF1A MUTATED        3      0      0      0      0
  HIF1A WILD-TYPE     29     18     46     27     23
D1880V1, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIF1A MUTATED        3      0      0
  HIF1A WILD-TYPE     40     67     36
D1880V2, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIF1A MUTATED        1      0      9
  HIF1A WILD-TYPE     41    173    138
D1880V3, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIF1A MUTATED        6      0      2
  HIF1A WILD-TYPE     56     73     73
D1880V4, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             6              56
  CLUS_2             0              73
  CLUS_3             2              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HIF1A MUTATED        1      3      7
  HIF1A WILD-TYPE     69    117     93
D1880V5, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             117
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIF1A MUTATED        1      0      1      1      1      6      1      0
  HIF1A WILD-TYPE     40     26     29     28     38     63     19     14
                 vv
clus              CLUS_9
  HIF1A MUTATED        0
  HIF1A WILD-TYPE     22
D1880V6, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIF1A MUTATED        1      2      5      3
  HIF1A WILD-TYPE     99     70     67    118
D1880V7, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              70
  CLUS_3             5              67
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIF1A MUTATED        1      2      5      0      3
  HIF1A WILD-TYPE     58     73     69    119     35
D1880V8, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             1              58
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIF1A MUTATED        0      4      2      0      4
  HIF1A WILD-TYPE     51     72     59     71     91
D1880V9, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             0              51
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIF1A MUTATED        1      4      0      1      1      0      0      2
  HIF1A WILD-TYPE     68     44     39     15     52     20     21     36
                 vv
clus              CLUS_9
  HIF1A MUTATED        1
  HIF1A WILD-TYPE     49
D1880V10, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              44
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIF1A MUTATED        0      0      2      0      2      0
  HIF1A WILD-TYPE     13     16     12     11      9      9
D1880V11, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             2              12
  CLUS_4             0              11
  CLUS_5             2               9
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIF1A MUTATED        0      0      0      1      0      1      2      0
  HIF1A WILD-TYPE     11      7      7      8      8      6      9      9
                 vv
clus              CLUS_9
  HIF1A MUTATED        0
  HIF1A WILD-TYPE      5
D1880V12, multiclass
        clus
vv       HIF1A MUTATED HIF1A WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             1               6
  CLUS_7             2               9
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1881) Variable = ZNF521 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF521 MUTATED        5      0      1      2      1
  ZNF521 WILD-TYPE     27     18     45     25     22
D1881V1, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1              5               27
  CLUS_2              0               18
  CLUS_3              1               45
  CLUS_4              2               25
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF521 MUTATED        4      3      2
  ZNF521 WILD-TYPE     39     64     34
D1881V2, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              3               64
  CLUS_3              2               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF521 MUTATED        1      8     19
  ZNF521 WILD-TYPE     41    165    128
D1881V3, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              8              165
  CLUS_3             19              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF521 MUTATED       10      4      4
  ZNF521 WILD-TYPE     52     69     71
D1881V4, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1             10               52
  CLUS_2              4               69
  CLUS_3              4               71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF521 MUTATED        2      8     11
  ZNF521 WILD-TYPE     68    112     89
D1881V5, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              8              112
  CLUS_3             11               89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF521 MUTATED        2      1      3      0      1      8      3      1
  ZNF521 WILD-TYPE     39     25     27     29     38     61     17     13
                  vv
clus               CLUS_9
  ZNF521 MUTATED        2
  ZNF521 WILD-TYPE     20
D1881V6, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1              2               39
  CLUS_2              1               25
  CLUS_3              3               27
  CLUS_4              0               29
  CLUS_5              1               38
  CLUS_6              8               61
  CLUS_7              3               17
  CLUS_8              1               13
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF521 MUTATED        5      6      9      8
  ZNF521 WILD-TYPE     95     66     63    113
D1881V7, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1              5               95
  CLUS_2              6               66
  CLUS_3              9               63
  CLUS_4              8              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF521 MUTATED        5      4      9      5      5
  ZNF521 WILD-TYPE     54     71     65    114     33
D1881V8, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1              5               54
  CLUS_2              4               71
  CLUS_3              9               65
  CLUS_4              5              114
  CLUS_5              5               33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF521 MUTATED        2      9      6      2      9
  ZNF521 WILD-TYPE     49     67     55     69     86
D1881V9, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              9               67
  CLUS_3              6               55
  CLUS_4              2               69
  CLUS_5              9               86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF521 MUTATED        2      8      3      3      3      2      0      5
  ZNF521 WILD-TYPE     67     40     36     13     50     18     21     33
                  vv
clus               CLUS_9
  ZNF521 MUTATED        2
  ZNF521 WILD-TYPE     48
D1881V10, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              8               40
  CLUS_3              3               36
  CLUS_4              3               13
  CLUS_5              3               50
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              5               33
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF521 MUTATED        1      2      1      2      3      0
  ZNF521 WILD-TYPE     12     14     13      9      8      9
D1881V11, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               14
  CLUS_3              1               13
  CLUS_4              2                9
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF521 MUTATED        0      2      1      0      1      1      3      0
  ZNF521 WILD-TYPE     11      5      6      9      7      6      8      9
                  vv
clus               CLUS_9
  ZNF521 MUTATED        1
  ZNF521 WILD-TYPE      4
D1881V12, multiclass
        clus
vv       ZNF521 MUTATED ZNF521 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              2                5
  CLUS_3              1                6
  CLUS_4              0                9
  CLUS_5              1                7
  CLUS_6              1                6
  CLUS_7              3                8
  CLUS_8              0                9
  CLUS_9              1                4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1882) Variable = TFEC MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TFEC MUTATED        1      1      0      0      0
  TFEC WILD-TYPE     31     17     46     27     23
D1882V1, multiclass
[1] "Remove cluster labels:" "TFEC MUTATED"          
clus
  TFEC MUTATED TFEC WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01Q 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TFEC MUTATED        1      1      0
  TFEC WILD-TYPE     42     66     36
D1882V2, multiclass
[1] "Remove cluster labels:" "TFEC MUTATED"          
clus
  TFEC MUTATED TFEC WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3950     TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3966     TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3979 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01Q 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TFEC MUTATED        0      3      7
  TFEC WILD-TYPE     42    170    140
D1882V3, multiclass
        clus
vv       TFEC MUTATED TFEC WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3            170
  CLUS_3            7            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TFEC MUTATED        4      1      3
  TFEC WILD-TYPE     58     72     72
D1882V4, multiclass
        clus
vv       TFEC MUTATED TFEC WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TFEC MUTATED        1      3      5
  TFEC WILD-TYPE     69    117     95
D1882V5, multiclass
        clus
vv       TFEC MUTATED TFEC WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            117
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TFEC MUTATED        1      2      1      0      0      3      0      1      1
  TFEC WILD-TYPE     40     24     29     29     39     66     20     13     21
D1882V6, multiclass
        clus
vv       TFEC MUTATED TFEC WILD-TYPE
  CLUS_1            1             40
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            3             66
  CLUS_7            0             20
  CLUS_8            1             13
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TFEC MUTATED        1      4      2      3
  TFEC WILD-TYPE     99     68     70    118
D1882V7, multiclass
        clus
vv       TFEC MUTATED TFEC WILD-TYPE
  CLUS_1            1             99
  CLUS_2            4             68
  CLUS_3            2             70
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TFEC MUTATED        1      3      3      2      1
  TFEC WILD-TYPE     58     72     71    117     37
D1882V8, multiclass
        clus
vv       TFEC MUTATED TFEC WILD-TYPE
  CLUS_1            1             58
  CLUS_2            3             72
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TFEC MUTATED        1      4      1      0      3
  TFEC WILD-TYPE     50     72     60     71     92
D1882V9, multiclass
        clus
vv       TFEC MUTATED TFEC WILD-TYPE
  CLUS_1            1             50
  CLUS_2            4             72
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TFEC MUTATED        2      2      0      1      0      1      0      1      2
  TFEC WILD-TYPE     67     46     39     15     53     19     21     37     48
D1882V10, multiclass
        clus
vv       TFEC MUTATED TFEC WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             46
  CLUS_3            0             39
  CLUS_4            1             15
  CLUS_5            0             53
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TFEC MUTATED        1      0      0      0      1      0
  TFEC WILD-TYPE     12     16     14     11     10      9
D1882V11, multiclass
[1] "Remove cluster labels:" "TFEC MUTATED"          
clus
  TFEC MUTATED TFEC WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  TFEC MUTATED        0      0      0      1      0      0      1      0      0
  TFEC WILD-TYPE     11      7      7      8      8      7     10      9      5
D1882V12, multiclass
[1] "Remove cluster labels:" "TFEC MUTATED"          
clus
  TFEC MUTATED TFEC WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6138     TCGA-A6-6141     TCGA-A6-6142 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AD-6965     TCGA-AY-6196 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-AZ-6607     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 

Clustering(1883) Variable = NEFH MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEFH MUTATED        1      0      0      1      0
  NEFH WILD-TYPE     31     18     46     26     23
D1883V1, multiclass
[1] "Remove cluster labels:" "NEFH MUTATED"          
clus
  NEFH MUTATED NEFH WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        1      1      0
  NEFH WILD-TYPE     42     66     36
D1883V2, multiclass
[1] "Remove cluster labels:" "NEFH MUTATED"          
clus
  NEFH MUTATED NEFH WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3949     TCGA-AA-3950 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        1      3      8
  NEFH WILD-TYPE     41    170    139
D1883V3, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3            170
  CLUS_3            8            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        5      1      4
  NEFH WILD-TYPE     57     72     71
D1883V4, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            5             57
  CLUS_2            1             72
  CLUS_3            4             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        1      5      5
  NEFH WILD-TYPE     69    115     95
D1883V5, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            115
  CLUS_3            5             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEFH MUTATED        0      1      2      0      1      4      2      1      0
  NEFH WILD-TYPE     41     25     28     29     38     65     18     13     22
D1883V6, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            0             41
  CLUS_2            1             25
  CLUS_3            2             28
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            4             65
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEFH MUTATED        4      6      1      2
  NEFH WILD-TYPE     96     66     71    119
D1883V7, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            4             96
  CLUS_2            6             66
  CLUS_3            1             71
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEFH MUTATED        1      5      5      1      1
  NEFH WILD-TYPE     58     70     69    118     37
D1883V8, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            1             58
  CLUS_2            5             70
  CLUS_3            5             69
  CLUS_4            1            118
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEFH MUTATED        2      6      1      0      4
  NEFH WILD-TYPE     49     70     60     71     91
D1883V9, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            2             49
  CLUS_2            6             70
  CLUS_3            1             60
  CLUS_4            0             71
  CLUS_5            4             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEFH MUTATED        2      0      1      1      5      2      0      1      1
  NEFH WILD-TYPE     67     48     38     15     48     18     21     37     49
D1883V10, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             48
  CLUS_3            1             38
  CLUS_4            1             15
  CLUS_5            5             48
  CLUS_6            2             18
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NEFH MUTATED        1      0      0      1      0      0
  NEFH WILD-TYPE     12     16     14     10     11      9
D1883V11, multiclass
[1] "Remove cluster labels:" "NEFH MUTATED"          
clus
  NEFH MUTATED NEFH WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AY-6196     TCGA-AZ-4323 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  NEFH MUTATED        0      0      0      0      0      1      0      0      1
  NEFH WILD-TYPE     11      7      7      9      8      6     11      9      4
D1883V12, multiclass
[1] "Remove cluster labels:" "NEFH MUTATED"          
clus
  NEFH MUTATED NEFH WILD-TYPE 
             2             72 
    TCGA-A6-5657     TCGA-A6-6137     TCGA-A6-6138     TCGA-A6-6141 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-A6-6649     TCGA-A6-6651     TCGA-A6-6653     TCGA-A6-6654 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489     TCGA-AA-3511 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AD-5900     TCGA-AD-6548     TCGA-AD-6889     TCGA-AD-6901 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AD-6963     TCGA-AD-6964     TCGA-AY-6196     TCGA-AZ-4323 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AZ-4616     TCGA-AZ-5403     TCGA-AZ-6598     TCGA-AZ-6600 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605     TCGA-AZ-6607 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-CA-6718     TCGA-CA-6719     TCGA-CK-5916     TCGA-CK-6748 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-CM-5860     TCGA-CM-6167     TCGA-CM-6674     TCGA-CM-6676 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-CM-6677     TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-D5-5537     TCGA-D5-6533     TCGA-D5-6534     TCGA-D5-6536 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-D5-6922     TCGA-D5-6924     TCGA-DM-A0XD     TCGA-DM-A0XF 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-DM-A1D0     TCGA-DM-A1D7     TCGA-DM-A1D8     TCGA-DM-A1D9 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-DM-A1DA     TCGA-DM-A1HA     TCGA-DM-A282     TCGA-DM-A285 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-DM-A28F     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6704     TCGA-F4-6805     TCGA-F4-6807 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-F4-6808     TCGA-F4-6809     TCGA-G4-6299     TCGA-G4-6303 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-G4-6306     TCGA-G4-6309     TCGA-G4-6625     TCGA-G4-6628 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 

Clustering(1884) Variable = AKAP13 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP13 MUTATED        4      0      0      1      1
  AKAP13 WILD-TYPE     28     18     46     26     22
D1884V1, multiclass
        clus
vv       AKAP13 MUTATED AKAP13 WILD-TYPE
  CLUS_1              4               28
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              1               26
  CLUS_5              1               22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKAP13 MUTATED        4      1      1
  AKAP13 WILD-TYPE     39     66     35
D1884V2, multiclass
        clus
vv       AKAP13 MUTATED AKAP13 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKAP13 MUTATED        1      5     14
  AKAP13 WILD-TYPE     41    168    133
D1884V3, multiclass
        clus
vv       AKAP13 MUTATED AKAP13 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5              168
  CLUS_3             14              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKAP13 MUTATED        5      4      5
  AKAP13 WILD-TYPE     57     69     70
D1884V4, multiclass
        clus
vv       AKAP13 MUTATED AKAP13 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              4               69
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AKAP13 MUTATED        0      7     10
  AKAP13 WILD-TYPE     70    113     90
D1884V5, multiclass
        clus
vv       AKAP13 MUTATED AKAP13 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              7              113
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP13 MUTATED        1      1      1      2      2      6      2      0
  AKAP13 WILD-TYPE     40     25     29     27     37     63     18     14
                  vv
clus               CLUS_9
  AKAP13 MUTATED        2
  AKAP13 WILD-TYPE     20
D1884V6, multiclass
        clus
vv       AKAP13 MUTATED AKAP13 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              1               25
  CLUS_3              1               29
  CLUS_4              2               27
  CLUS_5              2               37
  CLUS_6              6               63
  CLUS_7              2               18
  CLUS_8              0               14
  CLUS_9              2               20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AKAP13 MUTATED        3      6      4      7
  AKAP13 WILD-TYPE     97     66     68    114
D1884V7, multiclass
        clus
vv       AKAP13 MUTATED AKAP13 WILD-TYPE
  CLUS_1              3               97
  CLUS_2              6               66
  CLUS_3              4               68
  CLUS_4              7              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP13 MUTATED        3      4      6      3      4
  AKAP13 WILD-TYPE     56     71     68    116     34
D1884V8, multiclass
        clus
vv       AKAP13 MUTATED AKAP13 WILD-TYPE
  CLUS_1              3               56
  CLUS_2              4               71
  CLUS_3              6               68
  CLUS_4              3              116
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AKAP13 MUTATED        5      6      1      0      7
  AKAP13 WILD-TYPE     46     70     60     71     88
D1884V9, multiclass
        clus
vv       AKAP13 MUTATED AKAP13 WILD-TYPE
  CLUS_1              5               46
  CLUS_2              6               70
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              7               88
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP13 MUTATED        3      2      2      2      2      2      0      3
  AKAP13 WILD-TYPE     66     46     37     14     51     18     21     35
                  vv
clus               CLUS_9
  AKAP13 MUTATED        3
  AKAP13 WILD-TYPE     47
D1884V10, multiclass
        clus
vv       AKAP13 MUTATED AKAP13 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               46
  CLUS_3              2               37
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              3               47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AKAP13 MUTATED        0      0      0      1      1      0
  AKAP13 WILD-TYPE     13     16     14     10     10      9
D1884V11, multiclass
[1] "Remove cluster labels:" "AKAP13 MUTATED"        
clus
  AKAP13 MUTATED AKAP13 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-DM-A0XD       TCGA-DM-A0XF 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AKAP13 MUTATED        0      0      0      0      0      0      1      1
  AKAP13 WILD-TYPE     11      7      7      9      8      7     10      8
                  vv
clus               CLUS_9
  AKAP13 MUTATED        0
  AKAP13 WILD-TYPE      5
D1884V12, multiclass
[1] "Remove cluster labels:" "AKAP13 MUTATED"        
clus
  AKAP13 MUTATED AKAP13 WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-AD-6901       TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-AY-6196       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-AZ-6598       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6607       TCGA-CA-6719       TCGA-CK-5916 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-DM-A0XD       TCGA-DM-A0XF 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" "AKAP13 WILD-TYPE" 

Clustering(1885) Variable = FAM133A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM133A MUTATED        3      0      1      1      0
  FAM133A WILD-TYPE     29     18     45     26     23
D1885V1, multiclass
        clus
vv       FAM133A MUTATED FAM133A WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               1                45
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM133A MUTATED        2      2      1
  FAM133A WILD-TYPE     41     65     35
D1885V2, multiclass
        clus
vv       FAM133A MUTATED FAM133A WILD-TYPE
  CLUS_1               2                41
  CLUS_2               2                65
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM133A MUTATED        1      1      9
  FAM133A WILD-TYPE     41    172    138
D1885V3, multiclass
        clus
vv       FAM133A MUTATED FAM133A WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               172
  CLUS_3               9               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM133A MUTATED        3      0      3
  FAM133A WILD-TYPE     59     73     72
D1885V4, multiclass
        clus
vv       FAM133A MUTATED FAM133A WILD-TYPE
  CLUS_1               3                59
  CLUS_2               0                73
  CLUS_3               3                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM133A MUTATED        2      1      5
  FAM133A WILD-TYPE     68    119     95
D1885V5, multiclass
        clus
vv       FAM133A MUTATED FAM133A WILD-TYPE
  CLUS_1               2                68
  CLUS_2               1               119
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM133A MUTATED        3      0      1      0      0      3      0      1
  FAM133A WILD-TYPE     38     26     29     29     39     66     20     13
                   vv
clus                CLUS_9
  FAM133A MUTATED        0
  FAM133A WILD-TYPE     22
D1885V6, multiclass
        clus
vv       FAM133A MUTATED FAM133A WILD-TYPE
  CLUS_1               3                38
  CLUS_2               0                26
  CLUS_3               1                29
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM133A MUTATED        1      2      3      5
  FAM133A WILD-TYPE     99     70     69    116
D1885V7, multiclass
        clus
vv       FAM133A MUTATED FAM133A WILD-TYPE
  CLUS_1               1                99
  CLUS_2               2                70
  CLUS_3               3                69
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM133A MUTATED        2      1      3      4      1
  FAM133A WILD-TYPE     57     74     71    115     37
D1885V8, multiclass
        clus
vv       FAM133A MUTATED FAM133A WILD-TYPE
  CLUS_1               2                57
  CLUS_2               1                74
  CLUS_3               3                71
  CLUS_4               4               115
  CLUS_5               1                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM133A MUTATED        1      1      3      2      4
  FAM133A WILD-TYPE     50     75     58     69     91
D1885V9, multiclass
        clus
vv       FAM133A MUTATED FAM133A WILD-TYPE
  CLUS_1               1                50
  CLUS_2               1                75
  CLUS_3               3                58
  CLUS_4               2                69
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM133A MUTATED        2      3      0      1      1      1      2      1
  FAM133A WILD-TYPE     67     45     39     15     52     19     19     37
                   vv
clus                CLUS_9
  FAM133A MUTATED        0
  FAM133A WILD-TYPE     50
D1885V10, multiclass
        clus
vv       FAM133A MUTATED FAM133A WILD-TYPE
  CLUS_1               2                67
  CLUS_2               3                45
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               1                52
  CLUS_6               1                19
  CLUS_7               2                19
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM133A MUTATED        0      0      2      0      0      0
  FAM133A WILD-TYPE     13     16     12     11     11      9
D1885V11, multiclass
[1] "Remove cluster labels:" "FAM133A MUTATED"       
clus
  FAM133A MUTATED FAM133A WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6142 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM133A MUTATED        1      0      0      0      1      0      0      0
  FAM133A WILD-TYPE     10      7      7      9      7      7     11      9
                   vv
clus                CLUS_9
  FAM133A MUTATED        0
  FAM133A WILD-TYPE      5
D1885V12, multiclass
[1] "Remove cluster labels:" "FAM133A MUTATED"       
clus
  FAM133A MUTATED FAM133A WILD-TYPE 
                2                72 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6142 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653        TCGA-A6-6654 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489        TCGA-AA-3511 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282        TCGA-DM-A285 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299        TCGA-G4-6303 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 
       TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625        TCGA-G4-6628 
"FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" "FAM133A WILD-TYPE" 

Clustering(1886) Variable = RAG1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAG1 MUTATED        3      0      1      2      0
  RAG1 WILD-TYPE     29     18     45     25     23
D1886V1, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            3             29
  CLUS_2            0             18
  CLUS_3            1             45
  CLUS_4            2             25
  CLUS_5            0             23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAG1 MUTATED        3      2      1
  RAG1 WILD-TYPE     40     65     35
D1886V2, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            2             65
  CLUS_3            1             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAG1 MUTATED        1      2     11
  RAG1 WILD-TYPE     41    171    136
D1886V3, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2            171
  CLUS_3           11            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAG1 MUTATED        4      1      3
  RAG1 WILD-TYPE     58     72     72
D1886V4, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            4             58
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAG1 MUTATED        0      4      6
  RAG1 WILD-TYPE     70    116     94
D1886V5, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            116
  CLUS_3            6             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RAG1 MUTATED        0      2      1      0      0      4      2      1      0
  RAG1 WILD-TYPE     41     24     29     29     39     65     18     13     22
D1886V6, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            0             29
  CLUS_5            0             39
  CLUS_6            4             65
  CLUS_7            2             18
  CLUS_8            1             13
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAG1 MUTATED        2      4      2      6
  RAG1 WILD-TYPE     98     68     70    115
D1886V7, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            4             68
  CLUS_3            2             70
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAG1 MUTATED        1      2      4      4      3
  RAG1 WILD-TYPE     58     73     70    115     35
D1886V8, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            1             58
  CLUS_2            2             73
  CLUS_3            4             70
  CLUS_4            4            115
  CLUS_5            3             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAG1 MUTATED        1      5      0      2      5
  RAG1 WILD-TYPE     50     71     61     69     90
D1886V9, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            5             71
  CLUS_3            0             61
  CLUS_4            2             69
  CLUS_5            5             90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RAG1 MUTATED        1      1      2      3      1      1      1      1      2
  RAG1 WILD-TYPE     68     47     37     13     52     19     20     37     48
D1886V10, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            2             37
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            1             20
  CLUS_8            1             37
  CLUS_9            2             48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAG1 MUTATED        0      0      0      1      2      0
  RAG1 WILD-TYPE     13     16     14     10      9      9
D1886V11, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            0             14
  CLUS_4            1             10
  CLUS_5            2              9
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  RAG1 MUTATED        0      0      0      1      0      1      1      0      0
  RAG1 WILD-TYPE     11      7      7      8      8      6     10      9      5
D1886V12, multiclass
        clus
vv       RAG1 MUTATED RAG1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            1              8
  CLUS_5            0              8
  CLUS_6            1              6
  CLUS_7            1             10
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1887) Variable = ZNF615 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF615 MUTATED        2      0      0      2      0
  ZNF615 WILD-TYPE     30     18     46     25     23
D1887V1, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              2               30
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF615 MUTATED        2      1      1
  ZNF615 WILD-TYPE     41     66     35
D1887V2, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              1               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF615 MUTATED        2      3     12
  ZNF615 WILD-TYPE     40    170    135
D1887V3, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3              170
  CLUS_3             12              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF615 MUTATED        5      1      7
  ZNF615 WILD-TYPE     57     72     68
D1887V4, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              5               57
  CLUS_2              1               72
  CLUS_3              7               68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF615 MUTATED        0      5     10
  ZNF615 WILD-TYPE     70    115     90
D1887V5, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              115
  CLUS_3             10               90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF615 MUTATED        1      0      2      2      0      9      1      0
  ZNF615 WILD-TYPE     40     26     28     27     39     60     19     14
                  vv
clus               CLUS_9
  ZNF615 MUTATED        0
  ZNF615 WILD-TYPE     22
D1887V6, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              2               27
  CLUS_5              0               39
  CLUS_6              9               60
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF615 MUTATED        1      8      4      4
  ZNF615 WILD-TYPE     99     64     68    117
D1887V7, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              1               99
  CLUS_2              8               64
  CLUS_3              4               68
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF615 MUTATED        1      3      9      2      2
  ZNF615 WILD-TYPE     58     72     65    117     36
D1887V8, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              9               65
  CLUS_4              2              117
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF615 MUTATED        2      5      3      2      4
  ZNF615 WILD-TYPE     49     71     58     69     91
D1887V9, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              5               71
  CLUS_3              3               58
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF615 MUTATED        2      5      0      2      2      2      0      2
  ZNF615 WILD-TYPE     67     43     39     14     51     18     21     36
                  vv
clus               CLUS_9
  ZNF615 MUTATED        1
  ZNF615 WILD-TYPE     49
D1887V10, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              5               43
  CLUS_3              0               39
  CLUS_4              2               14
  CLUS_5              2               51
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              1               49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF615 MUTATED        0      0      0      0      3      0
  ZNF615 WILD-TYPE     13     16     14     11      8      9
D1887V11, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              0               16
  CLUS_3              0               14
  CLUS_4              0               11
  CLUS_5              3                8
  CLUS_6              0                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF615 MUTATED        0      0      0      1      0      0      2      0
  ZNF615 WILD-TYPE     11      7      7      8      8      7      9      9
                  vv
clus               CLUS_9
  ZNF615 MUTATED        0
  ZNF615 WILD-TYPE      5
D1887V12, multiclass
        clus
vv       ZNF615 MUTATED ZNF615 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0                7
  CLUS_3              0                7
  CLUS_4              1                8
  CLUS_5              0                8
  CLUS_6              0                7
  CLUS_7              2                9
  CLUS_8              0                9
  CLUS_9              0                5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1888) Variable = ENGASE MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENGASE MUTATED        1      0      0      0      0
  ENGASE WILD-TYPE     31     18     46     27     23
D1888V1, multiclass
[1] "Remove cluster labels:" "ENGASE MUTATED"        
clus
  ENGASE MUTATED ENGASE WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AY-4071 
"ENGASE WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ENGASE MUTATED        1      0      0
  ENGASE WILD-TYPE     42     67     36
D1888V2, multiclass
[1] "Remove cluster labels:" "ENGASE MUTATED"        
clus
  ENGASE MUTATED ENGASE WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3521       TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3526       TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3542       TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3549       TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3555       TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3561       TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3667       TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3679       TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3685       TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3696       TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3812       TCGA-AA-3814       TCGA-AA-3818       TCGA-AA-3819 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AY-4071 
"ENGASE WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ENGASE MUTATED        0      0      3
  ENGASE WILD-TYPE     42    173    144
D1888V3, multiclass
        clus
vv       ENGASE MUTATED ENGASE WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ENGASE MUTATED        2      0      1
  ENGASE WILD-TYPE     60     73     74
D1888V4, multiclass
        clus
vv       ENGASE MUTATED ENGASE WILD-TYPE
  CLUS_1              2               60
  CLUS_2              0               73
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ENGASE MUTATED        0      0      3
  ENGASE WILD-TYPE     70    120     97
D1888V5, multiclass
        clus
vv       ENGASE MUTATED ENGASE WILD-TYPE
  CLUS_1              0               70
  CLUS_2              0              120
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENGASE MUTATED        0      0      0      0      0      2      1      0
  ENGASE WILD-TYPE     41     26     30     29     39     67     19     14
                  vv
clus               CLUS_9
  ENGASE MUTATED        0
  ENGASE WILD-TYPE     22
D1888V6, multiclass
        clus
vv       ENGASE MUTATED ENGASE WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              0               39
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ENGASE MUTATED        0      1      2      1
  ENGASE WILD-TYPE    100     71     70    120
D1888V7, multiclass
        clus
vv       ENGASE MUTATED ENGASE WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              2               70
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENGASE MUTATED        0      0      3      0      1
  ENGASE WILD-TYPE     59     75     71    119     37
D1888V8, multiclass
        clus
vv       ENGASE MUTATED ENGASE WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              3               71
  CLUS_4              0              119
  CLUS_5              1               37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ENGASE MUTATED        0      2      1      0      1
  ENGASE WILD-TYPE     51     74     60     71     94
D1888V9, multiclass
        clus
vv       ENGASE MUTATED ENGASE WILD-TYPE
  CLUS_1              0               51
  CLUS_2              2               74
  CLUS_3              1               60
  CLUS_4              0               71
  CLUS_5              1               94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENGASE MUTATED        1      0      0      1      1      0      0      1
  ENGASE WILD-TYPE     68     48     39     15     52     20     21     37
                  vv
clus               CLUS_9
  ENGASE MUTATED        0
  ENGASE WILD-TYPE     50
D1888V10, multiclass
        clus
vv       ENGASE MUTATED ENGASE WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              1               52
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              1               37
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ENGASE MUTATED        0      0      1      0      1      0
  ENGASE WILD-TYPE     13     16     13     11     10      9
D1888V11, multiclass
[1] "Remove cluster labels:" "ENGASE MUTATED"        
clus
  ENGASE MUTATED ENGASE WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6965       TCGA-AY-6196       TCGA-AZ-4323 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ENGASE MUTATED        0      0      0      0      1      1      0      0
  ENGASE WILD-TYPE     11      7      7      9      7      6     11      9
                  vv
clus               CLUS_9
  ENGASE MUTATED        0
  ENGASE WILD-TYPE      5
D1888V12, multiclass
[1] "Remove cluster labels:" "ENGASE MUTATED"        
clus
  ENGASE MUTATED ENGASE WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6965       TCGA-AY-6196       TCGA-AZ-4323 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598       TCGA-AZ-6600 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605       TCGA-AZ-6607 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916       TCGA-CK-6748 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674       TCGA-CM-6676 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534       TCGA-D5-6536 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD       TCGA-DM-A0XF 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" "ENGASE WILD-TYPE" 

Clustering(1889) Variable = CCDC144A MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC144A MUTATED        2      0      0      1      0
  CCDC144A WILD-TYPE     30     18     46     26     23
D1889V1, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                0                 46
  CLUS_4                1                 26
  CLUS_5                0                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CCDC144A MUTATED        3      0      0
  CCDC144A WILD-TYPE     40     67     36
D1889V2, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                0                 67
  CLUS_3                0                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CCDC144A MUTATED        0      1      8
  CCDC144A WILD-TYPE     42    172    139
D1889V3, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                1                172
  CLUS_3                8                139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CCDC144A MUTATED        3      0      3
  CCDC144A WILD-TYPE     59     73     72
D1889V4, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                3                 59
  CLUS_2                0                 73
  CLUS_3                3                 72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CCDC144A MUTATED        1      1      5
  CCDC144A WILD-TYPE     69    119     95
D1889V5, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                1                119
  CLUS_3                5                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC144A MUTATED        0      1      0      0      0      4      2      0
  CCDC144A WILD-TYPE     41     25     30     29     39     65     18     14
                    vv
clus                 CLUS_9
  CCDC144A MUTATED        0
  CCDC144A WILD-TYPE     22
D1889V6, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 25
  CLUS_3                0                 30
  CLUS_4                0                 29
  CLUS_5                0                 39
  CLUS_6                4                 65
  CLUS_7                2                 18
  CLUS_8                0                 14
  CLUS_9                0                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC144A MUTATED        1      3      2      3
  CCDC144A WILD-TYPE     99     69     70    118
D1889V7, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                1                 99
  CLUS_2                3                 69
  CLUS_3                2                 70
  CLUS_4                3                118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC144A MUTATED        1      2      3      0      3
  CCDC144A WILD-TYPE     58     73     71    119     35
D1889V8, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                1                 58
  CLUS_2                2                 73
  CLUS_3                3                 71
  CLUS_4                0                119
  CLUS_5                3                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC144A MUTATED        1      3      1      0      3
  CCDC144A WILD-TYPE     50     73     60     71     92
D1889V9, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                1                 50
  CLUS_2                3                 73
  CLUS_3                1                 60
  CLUS_4                0                 71
  CLUS_5                3                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC144A MUTATED        1      0      1      3      0      0      0      2
  CCDC144A WILD-TYPE     68     48     38     13     53     20     21     36
                    vv
clus                 CLUS_9
  CCDC144A MUTATED        1
  CCDC144A WILD-TYPE     49
D1889V10, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                1                 68
  CLUS_2                0                 48
  CLUS_3                1                 38
  CLUS_4                3                 13
  CLUS_5                0                 53
  CLUS_6                0                 20
  CLUS_7                0                 21
  CLUS_8                2                 36
  CLUS_9                1                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC144A MUTATED        0      0      1      0      1      0
  CCDC144A WILD-TYPE     13     16     13     11     10      9
D1889V11, multiclass
[1] "Remove cluster labels:" "CCDC144A MUTATED"      
clus
  CCDC144A MUTATED CCDC144A WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6607         TCGA-CA-6718 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6704         TCGA-F4-6805 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC144A MUTATED        1      0      0      0      1      0      0      0
  CCDC144A WILD-TYPE     10      7      7      9      7      7     11      9
                    vv
clus                 CLUS_9
  CCDC144A MUTATED        0
  CCDC144A WILD-TYPE      5
D1889V12, multiclass
[1] "Remove cluster labels:" "CCDC144A MUTATED"      
clus
  CCDC144A MUTATED CCDC144A WILD-TYPE 
                 2                 72 
        TCGA-A6-5657         TCGA-A6-6137         TCGA-A6-6138 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6607         TCGA-CA-6718 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-CA-6719         TCGA-CK-5916         TCGA-CK-6748 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A282         TCGA-DM-A285 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6704         TCGA-F4-6805 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6303         TCGA-G4-6306 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6625         TCGA-G4-6628 
"CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" "CCDC144A WILD-TYPE" 

Clustering(1890) Variable = CCDC112 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC112 MUTATED        3      0      0      1      0
  CCDC112 WILD-TYPE     29     18     46     26     23
D1890V1, multiclass
        clus
vv       CCDC112 MUTATED CCDC112 WILD-TYPE
  CLUS_1               3                29
  CLUS_2               0                18
  CLUS_3               0                46
  CLUS_4               1                26
  CLUS_5               0                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC112 MUTATED        3      0      1
  CCDC112 WILD-TYPE     40     67     35
D1890V2, multiclass
        clus
vv       CCDC112 MUTATED CCDC112 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               0                67
  CLUS_3               1                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC112 MUTATED        0      0      7
  CCDC112 WILD-TYPE     42    173    140
D1890V3, multiclass
        clus
vv       CCDC112 MUTATED CCDC112 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               0               173
  CLUS_3               7               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC112 MUTATED        1      0      2
  CCDC112 WILD-TYPE     61     73     73
D1890V4, multiclass
        clus
vv       CCDC112 MUTATED CCDC112 WILD-TYPE
  CLUS_1               1                61
  CLUS_2               0                73
  CLUS_3               2                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC112 MUTATED        0      1      5
  CCDC112 WILD-TYPE     70    119     95
D1890V5, multiclass
        clus
vv       CCDC112 MUTATED CCDC112 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               1               119
  CLUS_3               5                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC112 MUTATED        1      0      0      0      2      3      0      0
  CCDC112 WILD-TYPE     40     26     30     29     37     66     20     14
                   vv
clus                CLUS_9
  CCDC112 MUTATED        0
  CCDC112 WILD-TYPE     22
D1890V6, multiclass
        clus
vv       CCDC112 MUTATED CCDC112 WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                26
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               2                37
  CLUS_6               3                66
  CLUS_7               0                20
  CLUS_8               0                14
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC112 MUTATED        0      1      2      4
  CCDC112 WILD-TYPE    100     71     70    117
D1890V7, multiclass
        clus
vv       CCDC112 MUTATED CCDC112 WILD-TYPE
  CLUS_1               0               100
  CLUS_2               1                71
  CLUS_3               2                70
  CLUS_4               4               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC112 MUTATED        1      0      2      1      3
  CCDC112 WILD-TYPE     58     75     72    118     35
D1890V8, multiclass
        clus
vv       CCDC112 MUTATED CCDC112 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0                75
  CLUS_3               2                72
  CLUS_4               1               118
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC112 MUTATED        0      2      1      1      2
  CCDC112 WILD-TYPE     51     74     60     70     93
D1890V9, multiclass
        clus
vv       CCDC112 MUTATED CCDC112 WILD-TYPE
  CLUS_1               0                51
  CLUS_2               2                74
  CLUS_3               1                60
  CLUS_4               1                70
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC112 MUTATED        0      2      0      1      2      0      0      1
  CCDC112 WILD-TYPE     69     46     39     15     51     20     21     37
                   vv
clus                CLUS_9
  CCDC112 MUTATED        0
  CCDC112 WILD-TYPE     50
D1890V10, multiclass
        clus
vv       CCDC112 MUTATED CCDC112 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               2                51
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               1                37
  CLUS_9               0                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC112 MUTATED        0      0      0      0      1      0
  CCDC112 WILD-TYPE     13     16     14     11     10      9
D1890V11, multiclass
[1] "Remove cluster labels:" "CCDC112 MUTATED"       
clus
  CCDC112 MUTATED CCDC112 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-G4-6628 
"CCDC112 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CCDC112 MUTATED        0      0      0      0      0      0      1      0
  CCDC112 WILD-TYPE     11      7      7      9      8      7     10      9
                   vv
clus                CLUS_9
  CCDC112 MUTATED        0
  CCDC112 WILD-TYPE      5
D1890V12, multiclass
[1] "Remove cluster labels:" "CCDC112 MUTATED"       
clus
  CCDC112 MUTATED CCDC112 WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167        TCGA-CM-6674 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533        TCGA-D5-6534 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924        TCGA-DM-A0XD 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7        TCGA-DM-A1D8 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA        TCGA-DM-A282 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6704        TCGA-F4-6805 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" "CCDC112 WILD-TYPE" 
       TCGA-G4-6628 
"CCDC112 WILD-TYPE" 

Clustering(1891) Variable = ZNF286B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF286B MUTATED        0      0      0      0      0
  ZNF286B WILD-TYPE     32     18     46     27     23
D1891V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF286B MUTATED        0      0      0
  ZNF286B WILD-TYPE     43     67     36
D1891V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF286B MUTATED        0      1      4
  ZNF286B WILD-TYPE     42    172    143
D1891V3, multiclass
        clus
vv       ZNF286B MUTATED ZNF286B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1               172
  CLUS_3               4               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF286B MUTATED        3      1      1
  ZNF286B WILD-TYPE     59     72     74
D1891V4, multiclass
        clus
vv       ZNF286B MUTATED ZNF286B WILD-TYPE
  CLUS_1               3                59
  CLUS_2               1                72
  CLUS_3               1                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF286B MUTATED        1      2      2
  ZNF286B WILD-TYPE     69    118     98
D1891V5, multiclass
        clus
vv       ZNF286B MUTATED ZNF286B WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               118
  CLUS_3               2                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF286B MUTATED        1      1      0      0      0      1      1      1
  ZNF286B WILD-TYPE     40     25     30     29     39     68     19     13
                   vv
clus                CLUS_9
  ZNF286B MUTATED        0
  ZNF286B WILD-TYPE     22
D1891V6, multiclass
        clus
vv       ZNF286B MUTATED ZNF286B WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                25
  CLUS_3               0                30
  CLUS_4               0                29
  CLUS_5               0                39
  CLUS_6               1                68
  CLUS_7               1                19
  CLUS_8               1                13
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF286B MUTATED        1      1      2      1
  ZNF286B WILD-TYPE     99     71     70    120
D1891V7, multiclass
        clus
vv       ZNF286B MUTATED ZNF286B WILD-TYPE
  CLUS_1               1                99
  CLUS_2               1                71
  CLUS_3               2                70
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF286B MUTATED        2      1      1      1      0
  ZNF286B WILD-TYPE     57     74     73    118     38
D1891V8, multiclass
        clus
vv       ZNF286B MUTATED ZNF286B WILD-TYPE
  CLUS_1               2                57
  CLUS_2               1                74
  CLUS_3               1                73
  CLUS_4               1               118
  CLUS_5               0                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF286B MUTATED        0      1      2      0      2
  ZNF286B WILD-TYPE     51     75     59     71     93
D1891V9, multiclass
        clus
vv       ZNF286B MUTATED ZNF286B WILD-TYPE
  CLUS_1               0                51
  CLUS_2               1                75
  CLUS_3               2                59
  CLUS_4               0                71
  CLUS_5               2                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF286B MUTATED        0      2      0      1      0      0      0      0
  ZNF286B WILD-TYPE     69     46     39     15     53     20     21     38
                   vv
clus                CLUS_9
  ZNF286B MUTATED        2
  ZNF286B WILD-TYPE     48
D1891V10, multiclass
        clus
vv       ZNF286B MUTATED ZNF286B WILD-TYPE
  CLUS_1               0                69
  CLUS_2               2                46
  CLUS_3               0                39
  CLUS_4               1                15
  CLUS_5               0                53
  CLUS_6               0                20
  CLUS_7               0                21
  CLUS_8               0                38
  CLUS_9               2                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF286B MUTATED        0      0      0      0      1      0
  ZNF286B WILD-TYPE     13     16     14     11     10      9
D1891V11, multiclass
[1] "Remove cluster labels:" "ZNF286B MUTATED"       
clus
  ZNF286B MUTATED ZNF286B WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-G4-6628 
"ZNF286B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF286B MUTATED        0      0      0      0      1      0      0      0
  ZNF286B WILD-TYPE     11      7      7      9      7      7     11      9
                   vv
clus                CLUS_9
  ZNF286B MUTATED        0
  ZNF286B WILD-TYPE      5
D1891V12, multiclass
[1] "Remove cluster labels:" "ZNF286B MUTATED"       
clus
  ZNF286B MUTATED ZNF286B WILD-TYPE 
                1                73 
       TCGA-A6-5657        TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6141 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6649        TCGA-A6-6651        TCGA-A6-6653 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-5860        TCGA-CM-6167 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F        TCGA-F4-6459 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6704        TCGA-F4-6805 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-G4-6299 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6625 
"ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" "ZNF286B WILD-TYPE" 
       TCGA-G4-6628 
"ZNF286B WILD-TYPE" 

Clustering(1892) Variable = SFTPB MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFTPB MUTATED        1      0      0      1      0
  SFTPB WILD-TYPE     31     18     46     26     23
D1892V1, multiclass
[1] "Remove cluster labels:" "SFTPB MUTATED"         
clus
  SFTPB MUTATED SFTPB WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3684      TCGA-AA-3685 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3837      TCGA-AA-3842 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFTPB MUTATED        1      1      0
  SFTPB WILD-TYPE     42     66     36
D1892V2, multiclass
[1] "Remove cluster labels:" "SFTPB MUTATED"         
clus
  SFTPB MUTATED SFTPB WILD-TYPE 
              2             144 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3684      TCGA-AA-3685 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693      TCGA-AA-3696 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818      TCGA-AA-3819 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3837      TCGA-AA-3842 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3846      TCGA-AA-3848 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3851      TCGA-AA-3852      TCGA-AA-3854 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3855      TCGA-AA-3856      TCGA-AA-3858      TCGA-AA-3860 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3861      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3867 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3869      TCGA-AA-3870      TCGA-AA-3872      TCGA-AA-3875 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3877      TCGA-AA-3930      TCGA-AA-3939      TCGA-AA-3941 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3947      TCGA-AA-3949      TCGA-AA-3950      TCGA-AA-3952 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3955      TCGA-AA-3956      TCGA-AA-3966      TCGA-AA-3968 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3971      TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3976      TCGA-AA-3977      TCGA-AA-3979      TCGA-AA-3980 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3982      TCGA-AA-3984      TCGA-AA-3986      TCGA-AA-3989 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-3994      TCGA-AA-A004      TCGA-AA-A00A      TCGA-AA-A00D 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00O      TCGA-AA-A00Q 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A00R      TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A010      TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K      TCGA-AA-A01Q 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070      TCGA-AY-4071 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFTPB MUTATED        0      5      4
  SFTPB WILD-TYPE     42    168    143
D1892V3, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5             168
  CLUS_3             4             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFTPB MUTATED        3      1      3
  SFTPB WILD-TYPE     59     72     72
D1892V4, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             3              59
  CLUS_2             1              72
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFTPB MUTATED        0      2      7
  SFTPB WILD-TYPE     70    118     93
D1892V5, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             118
  CLUS_3             7              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFTPB MUTATED        0      0      1      1      1      5      1      0
  SFTPB WILD-TYPE     41     26     29     28     38     64     19     14
                 vv
clus              CLUS_9
  SFTPB MUTATED        0
  SFTPB WILD-TYPE     22
D1892V6, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SFTPB MUTATED        2      2      3      2
  SFTPB WILD-TYPE     98     70     69    119
D1892V7, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             2              98
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFTPB MUTATED        2      2      3      0      2
  SFTPB WILD-TYPE     57     73     71    119     36
D1892V8, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             2              57
  CLUS_2             2              73
  CLUS_3             3              71
  CLUS_4             0             119
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFTPB MUTATED        1      4      2      1      1
  SFTPB WILD-TYPE     50     72     59     70     94
D1892V9, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             1              50
  CLUS_2             4              72
  CLUS_3             2              59
  CLUS_4             1              70
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFTPB MUTATED        4      1      0      1      1      0      1      1
  SFTPB WILD-TYPE     65     47     39     15     52     20     20     37
                 vv
clus              CLUS_9
  SFTPB MUTATED        0
  SFTPB WILD-TYPE     50
D1892V10, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             4              65
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             1              15
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             1              37
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SFTPB MUTATED        0      0      3      0      0      0
  SFTPB WILD-TYPE     13     16     11     11     11      9
D1892V11, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             3              11
  CLUS_4             0              11
  CLUS_5             0              11
  CLUS_6             0               9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SFTPB MUTATED        1      0      0      0      1      0      1      0
  SFTPB WILD-TYPE     10      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  SFTPB MUTATED        0
  SFTPB WILD-TYPE      5
D1892V12, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1893) Variable = WNT8A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNT8A MUTATED        0      0      0      1      0
  WNT8A WILD-TYPE     32     18     46     26     23
D1893V1, multiclass
[1] "Remove cluster labels:" "WNT8A MUTATED"         
clus
  WNT8A MUTATED WNT8A WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AY-4071 
"WNT8A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WNT8A MUTATED        0      1      0
  WNT8A WILD-TYPE     43     66     36
D1893V2, multiclass
[1] "Remove cluster labels:" "WNT8A MUTATED"         
clus
  WNT8A MUTATED WNT8A WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A017      TCGA-AA-A01D 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I      TCGA-AA-A01K 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A01Q      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AY-4071 
"WNT8A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WNT8A MUTATED        0      2      3
  WNT8A WILD-TYPE     42    171    144
D1893V3, multiclass
        clus
vv       WNT8A MUTATED WNT8A WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WNT8A MUTATED        1      2      1
  WNT8A WILD-TYPE     61     71     74
D1893V4, multiclass
        clus
vv       WNT8A MUTATED WNT8A WILD-TYPE
  CLUS_1             1              61
  CLUS_2             2              71
  CLUS_3             1              74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WNT8A MUTATED        0      3      2
  WNT8A WILD-TYPE     70    117     98
D1893V5, multiclass
        clus
vv       WNT8A MUTATED WNT8A WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WNT8A MUTATED        0      0      1      2      0      2      0      0
  WNT8A WILD-TYPE     41     26     29     27     39     67     20     14
                 vv
clus              CLUS_9
  WNT8A MUTATED        0
  WNT8A WILD-TYPE     22
D1893V6, multiclass
        clus
vv       WNT8A MUTATED WNT8A WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             2              27
  CLUS_5             0              39
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WNT8A MUTATED        2      1      1      1
  WNT8A WILD-TYPE     98     71     71    120
D1893V7, multiclass
        clus
vv       WNT8A MUTATED WNT8A WILD-TYPE
  CLUS_1             2              98
  CLUS_2             1              71
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNT8A MUTATED        0      2      2      1      0
  WNT8A WILD-TYPE     59     73     72    118     38
D1893V8, multiclass
        clus
vv       WNT8A MUTATED WNT8A WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             2              72
  CLUS_4             1             118
  CLUS_5             0              38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WNT8A MUTATED        1      3      0      0      1
  WNT8A WILD-TYPE     50     73     61     71     94
D1893V9, multiclass
        clus
vv       WNT8A MUTATED WNT8A WILD-TYPE
  CLUS_1             1              50
  CLUS_2             3              73
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WNT8A MUTATED        2      0      1      0      1      1      0      0
  WNT8A WILD-TYPE     67     48     38     16     52     19     21     38
                 vv
clus              CLUS_9
  WNT8A MUTATED        0
  WNT8A WILD-TYPE     50
D1893V10, multiclass
        clus
vv       WNT8A MUTATED WNT8A WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              48
  CLUS_3             1              38
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             1              19
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WNT8A MUTATED        0      0      0      0      1      0
  WNT8A WILD-TYPE     13     16     14     11     10      9
D1893V11, multiclass
[1] "Remove cluster labels:" "WNT8A MUTATED"         
clus
  WNT8A MUTATED WNT8A WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-G4-6628 
"WNT8A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  WNT8A MUTATED        0      0      0      0      0      1      0      0
  WNT8A WILD-TYPE     11      7      7      9      8      6     11      9
                 vv
clus              CLUS_9
  WNT8A MUTATED        0
  WNT8A WILD-TYPE      5
D1893V12, multiclass
[1] "Remove cluster labels:" "WNT8A MUTATED"         
clus
  WNT8A MUTATED WNT8A WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6782      TCGA-AA-3489      TCGA-AA-3511 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889      TCGA-AD-6901 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" "WNT8A WILD-TYPE" 
     TCGA-G4-6628 
"WNT8A WILD-TYPE" 

Clustering(1894) Variable = GPR61 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR61 MUTATED        3      0      1      0      0
  GPR61 WILD-TYPE     29     18     45     27     23
D1894V1, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR61 MUTATED        1      1      2
  GPR61 WILD-TYPE     42     66     34
D1894V2, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              66
  CLUS_3             2              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR61 MUTATED        0      3      5
  GPR61 WILD-TYPE     42    170    142
D1894V3, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3             170
  CLUS_3             5             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR61 MUTATED        2      0      3
  GPR61 WILD-TYPE     60     73     72
D1894V4, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR61 MUTATED        1      1      4
  GPR61 WILD-TYPE     69    119     96
D1894V5, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR61 MUTATED        1      0      0      1      2      1      1      0
  GPR61 WILD-TYPE     40     26     30     28     37     68     19     14
                 vv
clus              CLUS_9
  GPR61 MUTATED        0
  GPR61 WILD-TYPE     22
D1894V6, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             1              68
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR61 MUTATED        0      2      3      4
  GPR61 WILD-TYPE    100     70     69    117
D1894V7, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             2              70
  CLUS_3             3              69
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR61 MUTATED        2      1      2      3      1
  GPR61 WILD-TYPE     57     74     72    116     37
D1894V8, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             1              74
  CLUS_3             2              72
  CLUS_4             3             116
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR61 MUTATED        1      1      0      3      4
  GPR61 WILD-TYPE     50     75     61     68     91
D1894V9, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             1              50
  CLUS_2             1              75
  CLUS_3             0              61
  CLUS_4             3              68
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR61 MUTATED        1      1      0      0      2      0      0      2
  GPR61 WILD-TYPE     68     47     39     16     51     20     21     36
                 vv
clus              CLUS_9
  GPR61 MUTATED        3
  GPR61 WILD-TYPE     47
D1894V10, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             2              51
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             3              47
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR61 MUTATED        0      0      1      1      0      1
  GPR61 WILD-TYPE     13     16     13     10     11      8
D1894V11, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              16
  CLUS_3             1              13
  CLUS_4             1              10
  CLUS_5             0              11
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GPR61 MUTATED        1      0      0      0      1      0      1      0
  GPR61 WILD-TYPE     10      7      7      9      7      7     10      9
                 vv
clus              CLUS_9
  GPR61 MUTATED        0
  GPR61 WILD-TYPE      5
D1894V12, multiclass
        clus
vv       GPR61 MUTATED GPR61 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             0               9
  CLUS_5             1               7
  CLUS_6             0               7
  CLUS_7             1              10
  CLUS_8             0               9
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1895) Variable = CACNA1H MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNA1H MUTATED        1      0      0      1      0
  CACNA1H WILD-TYPE     31     18     46     26     23
D1895V1, multiclass
[1] "Remove cluster labels:" "CACNA1H MUTATED"       
clus
  CACNA1H MUTATED CACNA1H WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3866        TCGA-AA-3867 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1H MUTATED        2      0      0
  CACNA1H WILD-TYPE     41     67     36
D1895V2, multiclass
[1] "Remove cluster labels:" "CACNA1H MUTATED"       
clus
  CACNA1H MUTATED CACNA1H WILD-TYPE 
                2               144 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-A6-3809        TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3517        TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3526        TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3542        TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3549        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3560 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3666 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3667        TCGA-AA-3672        TCGA-AA-3673        TCGA-AA-3678 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3679        TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3685        TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3696        TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3821        TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3861        TCGA-AA-3866        TCGA-AA-3867 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3980 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3984        TCGA-AA-3986        TCGA-AA-3989 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-3994        TCGA-AA-A004        TCGA-AA-A00A        TCGA-AA-A00D 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00O        TCGA-AA-A00Q 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01D        TCGA-AA-A01F 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A01G        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02W        TCGA-AY-4070        TCGA-AY-4071 
"CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" "CACNA1H WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1H MUTATED        1      5     20
  CACNA1H WILD-TYPE     41    168    127
D1895V3, multiclass
        clus
vv       CACNA1H MUTATED CACNA1H WILD-TYPE
  CLUS_1               1                41
  CLUS_2               5               168
  CLUS_3              20               127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1H MUTATED        8      3     13
  CACNA1H WILD-TYPE     54     70     62
D1895V4, multiclass
        clus
vv       CACNA1H MUTATED CACNA1H WILD-TYPE
  CLUS_1               8                54
  CLUS_2               3                70
  CLUS_3              13                62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1H MUTATED        4      9      8
  CACNA1H WILD-TYPE     66    111     92
D1895V5, multiclass
        clus
vv       CACNA1H MUTATED CACNA1H WILD-TYPE
  CLUS_1               4                66
  CLUS_2               9               111
  CLUS_3               8                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACNA1H MUTATED        4      2      1      2      1      5      3      3
  CACNA1H WILD-TYPE     37     24     29     27     38     64     17     11
                   vv
clus                CLUS_9
  CACNA1H MUTATED        0
  CACNA1H WILD-TYPE     22
D1895V6, multiclass
        clus
vv       CACNA1H MUTATED CACNA1H WILD-TYPE
  CLUS_1               4                37
  CLUS_2               2                24
  CLUS_3               1                29
  CLUS_4               2                27
  CLUS_5               1                38
  CLUS_6               5                64
  CLUS_7               3                17
  CLUS_8               3                11
  CLUS_9               0                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNA1H MUTATED        3     13      6      5
  CACNA1H WILD-TYPE     97     59     66    116
D1895V7, multiclass
        clus
vv       CACNA1H MUTATED CACNA1H WILD-TYPE
  CLUS_1               3                97
  CLUS_2              13                59
  CLUS_3               6                66
  CLUS_4               5               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNA1H MUTATED        3      2     17      2      3
  CACNA1H WILD-TYPE     56     73     57    117     35
D1895V8, multiclass
        clus
vv       CACNA1H MUTATED CACNA1H WILD-TYPE
  CLUS_1               3                56
  CLUS_2               2                73
  CLUS_3              17                57
  CLUS_4               2               117
  CLUS_5               3                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNA1H MUTATED        4     13      4      2      4
  CACNA1H WILD-TYPE     47     63     57     69     91
D1895V9, multiclass
        clus
vv       CACNA1H MUTATED CACNA1H WILD-TYPE
  CLUS_1               4                47
  CLUS_2              13                63
  CLUS_3               4                57
  CLUS_4               2                69
  CLUS_5               4                91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACNA1H MUTATED        4      6      0      8      2      2      1      3
  CACNA1H WILD-TYPE     65     42     39      8     51     18     20     35
                   vv
clus                CLUS_9
  CACNA1H MUTATED        1
  CACNA1H WILD-TYPE     49
D1895V10, multiclass
        clus
vv       CACNA1H MUTATED CACNA1H WILD-TYPE
  CLUS_1               4                65
  CLUS_2               6                42
  CLUS_3               0                39
  CLUS_4               8                 8
  CLUS_5               2                51
  CLUS_6               2                18
  CLUS_7               1                20
  CLUS_8               3                35
  CLUS_9               1                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CACNA1H MUTATED        1      0      3      2      4      0
  CACNA1H WILD-TYPE     12     16     11      9      7      9
D1895V11, multiclass
        clus
vv       CACNA1H MUTATED CACNA1H WILD-TYPE
  CLUS_1               1                12
  CLUS_2               0                16
  CLUS_3               3                11
  CLUS_4               2                 9
  CLUS_5               4                 7
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CACNA1H MUTATED        0      0      0      3      2      1      2      1
  CACNA1H WILD-TYPE     11      7      7      6      6      6      9      8
                   vv
clus                CLUS_9
  CACNA1H MUTATED        1
  CACNA1H WILD-TYPE      4
D1895V12, multiclass
        clus
vv       CACNA1H MUTATED CACNA1H WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 7
  CLUS_3               0                 7
  CLUS_4               3                 6
  CLUS_5               2                 6
  CLUS_6               1                 6
  CLUS_7               2                 9
  CLUS_8               1                 8
  CLUS_9               1                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1896) Variable = G3BP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  G3BP1 MUTATED        3      0      0      2      0
  G3BP1 WILD-TYPE     29     18     46     25     23
D1896V1, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP1 MUTATED        5      0      0
  G3BP1 WILD-TYPE     38     67     36
D1896V2, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP1 MUTATED        0      0     11
  G3BP1 WILD-TYPE     42    173    136
D1896V3, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0             173
  CLUS_3            11             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP1 MUTATED        3      0      3
  G3BP1 WILD-TYPE     59     73     72
D1896V4, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             3              72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP1 MUTATED        0      3      6
  G3BP1 WILD-TYPE     70    117     94
D1896V5, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             117
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  G3BP1 MUTATED        1      1      0      0      3      4      0      0
  G3BP1 WILD-TYPE     40     25     30     29     36     65     20     14
                 vv
clus              CLUS_9
  G3BP1 MUTATED        0
  G3BP1 WILD-TYPE     22
D1896V6, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1              25
  CLUS_3             0              30
  CLUS_4             0              29
  CLUS_5             3              36
  CLUS_6             4              65
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  G3BP1 MUTATED        0      4      2      5
  G3BP1 WILD-TYPE    100     68     70    116
D1896V7, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             5             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  G3BP1 MUTATED        1      1      4      0      5
  G3BP1 WILD-TYPE     58     74     70    119     33
D1896V8, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1              74
  CLUS_3             4              70
  CLUS_4             0             119
  CLUS_5             5              33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  G3BP1 MUTATED        0      3      2      0      5
  G3BP1 WILD-TYPE     51     73     59     71     90
D1896V9, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             3              73
  CLUS_3             2              59
  CLUS_4             0              71
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  G3BP1 MUTATED        0      2      0      3      0      0      0      4
  G3BP1 WILD-TYPE     69     46     39     13     53     20     21     34
                 vv
clus              CLUS_9
  G3BP1 MUTATED        1
  G3BP1 WILD-TYPE     49
D1896V10, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             2              46
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             4              34
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  G3BP1 MUTATED        0      0      0      0      1      0
  G3BP1 WILD-TYPE     13     16     14     11     10      9
D1896V11, multiclass
[1] "Remove cluster labels:" "G3BP1 MUTATED"         
clus
  G3BP1 MUTATED G3BP1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-G4-6628 
"G3BP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  G3BP1 MUTATED        0      0      0      1      0      0      0      0
  G3BP1 WILD-TYPE     11      7      7      8      8      7     11      9
                 vv
clus              CLUS_9
  G3BP1 MUTATED        0
  G3BP1 WILD-TYPE      5
D1896V12, multiclass
[1] "Remove cluster labels:" "G3BP1 MUTATED"         
clus
  G3BP1 MUTATED G3BP1 WILD-TYPE 
              1              73 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6901 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AY-6196 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403      TCGA-AZ-6598 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603      TCGA-AZ-6605 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-G4-6628 
"G3BP1 WILD-TYPE" 

Clustering(1897) Variable = SULF2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SULF2 MUTATED        3      0      1      2      0
  SULF2 WILD-TYPE     29     18     45     25     23
D1897V1, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             2              25
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SULF2 MUTATED        4      1      1
  SULF2 WILD-TYPE     39     66     35
D1897V2, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              66
  CLUS_3             1              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SULF2 MUTATED        0      8     13
  SULF2 WILD-TYPE     42    165    134
D1897V3, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             8             165
  CLUS_3            13             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SULF2 MUTATED        6      3      7
  SULF2 WILD-TYPE     56     70     68
D1897V4, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             6              56
  CLUS_2             3              70
  CLUS_3             7              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SULF2 MUTATED        0     10      9
  SULF2 WILD-TYPE     70    110     91
D1897V5, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2            10             110
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SULF2 MUTATED        1      0      2      1      2      8      3      1
  SULF2 WILD-TYPE     40     26     28     28     37     61     17     13
                 vv
clus              CLUS_9
  SULF2 MUTATED        1
  SULF2 WILD-TYPE     21
D1897V6, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             2              28
  CLUS_4             1              28
  CLUS_5             2              37
  CLUS_6             8              61
  CLUS_7             3              17
  CLUS_8             1              13
  CLUS_9             1              21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SULF2 MUTATED        4      7      7      4
  SULF2 WILD-TYPE     96     65     65    117
D1897V7, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             7              65
  CLUS_3             7              65
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SULF2 MUTATED        3      5      8      2      4
  SULF2 WILD-TYPE     56     70     66    117     34
D1897V8, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             5              70
  CLUS_3             8              66
  CLUS_4             2             117
  CLUS_5             4              34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SULF2 MUTATED        4      8      3      1      5
  SULF2 WILD-TYPE     47     68     58     70     90
D1897V9, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             8              68
  CLUS_3             3              58
  CLUS_4             1              70
  CLUS_5             5              90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SULF2 MUTATED        6      6      1      2      1      2      0      2
  SULF2 WILD-TYPE     63     42     38     14     52     18     21     36
                 vv
clus              CLUS_9
  SULF2 MUTATED        1
  SULF2 WILD-TYPE     49
D1897V10, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             6              63
  CLUS_2             6              42
  CLUS_3             1              38
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             2              18
  CLUS_7             0              21
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SULF2 MUTATED        1      0      0      1      2      1
  SULF2 WILD-TYPE     12     16     14     10      9      8
D1897V11, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             1              12
  CLUS_2             0              16
  CLUS_3             0              14
  CLUS_4             1              10
  CLUS_5             2               9
  CLUS_6             1               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SULF2 MUTATED        1      0      0      1      0      0      2      1
  SULF2 WILD-TYPE     10      7      7      8      8      7      9      8
                 vv
clus              CLUS_9
  SULF2 MUTATED        0
  SULF2 WILD-TYPE      5
D1897V12, multiclass
        clus
vv       SULF2 MUTATED SULF2 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             0               7
  CLUS_3             0               7
  CLUS_4             1               8
  CLUS_5             0               8
  CLUS_6             0               7
  CLUS_7             2               9
  CLUS_8             1               8
  CLUS_9             0               5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1898) Variable = KDR MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDR MUTATED        4      0      0      2      0
  KDR WILD-TYPE     28     18     46     25     23
D1898V1, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           4            28
  CLUS_2           0            18
  CLUS_3           0            46
  CLUS_4           2            25
  CLUS_5           0            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KDR MUTATED        4      1      1
  KDR WILD-TYPE     39     66     35
D1898V2, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           4            39
  CLUS_2           1            66
  CLUS_3           1            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KDR MUTATED        5      6     17
  KDR WILD-TYPE     37    167    130
D1898V3, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           5            37
  CLUS_2           6           167
  CLUS_3          17           130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KDR MUTATED        8      6      7
  KDR WILD-TYPE     54     67     68
D1898V4, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           8            54
  CLUS_2           6            67
  CLUS_3           7            68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KDR MUTATED        1     11     10
  KDR WILD-TYPE     69    109     90
D1898V5, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           1            69
  CLUS_2          11           109
  CLUS_3          10            90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KDR MUTATED        1      0      3      5      2      8      1      1      1
  KDR WILD-TYPE     40     26     27     24     37     61     19     13     21
D1898V6, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           1            40
  CLUS_2           0            26
  CLUS_3           3            27
  CLUS_4           5            24
  CLUS_5           2            37
  CLUS_6           8            61
  CLUS_7           1            19
  CLUS_8           1            13
  CLUS_9           1            21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDR MUTATED        7      7      7      7
  KDR WILD-TYPE     93     65     65    114
D1898V7, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           7            93
  CLUS_2           7            65
  CLUS_3           7            65
  CLUS_4           7           114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDR MUTATED        4      9      8      2      5
  KDR WILD-TYPE     55     66     66    117     33
D1898V8, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           4            55
  CLUS_2           9            66
  CLUS_3           8            66
  CLUS_4           2           117
  CLUS_5           5            33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDR MUTATED        3     10      5      3      6
  KDR WILD-TYPE     48     66     56     68     89
D1898V9, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           3            48
  CLUS_2          10            66
  CLUS_3           5            56
  CLUS_4           3            68
  CLUS_5           6            89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KDR MUTATED        6      5      4      1      5      1      1      3      1
  KDR WILD-TYPE     63     43     35     15     48     19     20     35     49
D1898V10, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           6            63
  CLUS_2           5            43
  CLUS_3           4            35
  CLUS_4           1            15
  CLUS_5           5            48
  CLUS_6           1            19
  CLUS_7           1            20
  CLUS_8           3            35
  CLUS_9           1            49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KDR MUTATED        2      1      1      0      2      0
  KDR WILD-TYPE     11     15     13     11      9      9
D1898V11, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           2            11
  CLUS_2           1            15
  CLUS_3           1            13
  CLUS_4           0            11
  CLUS_5           2             9
  CLUS_6           0             9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  KDR MUTATED        1      0      0      2      0      0      2      1      0
  KDR WILD-TYPE     10      7      7      7      8      7      9      8      5
D1898V12, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           1            10
  CLUS_2           0             7
  CLUS_3           0             7
  CLUS_4           2             7
  CLUS_5           0             8
  CLUS_6           0             7
  CLUS_7           2             9
  CLUS_8           1             8
  CLUS_9           0             5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1899) Variable = CPB2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CPB2 MUTATED        1      0      0      1      0
  CPB2 WILD-TYPE     31     18     46     26     23
D1899V1, multiclass
[1] "Remove cluster labels:" "CPB2 MUTATED"          
clus
  CPB2 MUTATED CPB2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPB2 MUTATED        1      1      0
  CPB2 WILD-TYPE     42     66     36
D1899V2, multiclass
[1] "Remove cluster labels:" "CPB2 MUTATED"          
clus
  CPB2 MUTATED CPB2 WILD-TYPE 
             2            144 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3812     TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070     TCGA-AY-4071 
"CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" "CPB2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPB2 MUTATED        2      1      6
  CPB2 WILD-TYPE     40    172    141
D1899V3, multiclass
        clus
vv       CPB2 MUTATED CPB2 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1            172
  CLUS_3            6            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPB2 MUTATED        3      1      3
  CPB2 WILD-TYPE     59     72     72
D1899V4, multiclass
        clus
vv       CPB2 MUTATED CPB2 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            1             72
  CLUS_3            3             72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPB2 MUTATED        2      5      2
  CPB2 WILD-TYPE     68    115     98
D1899V5, multiclass
        clus
vv       CPB2 MUTATED CPB2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            115
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CPB2 MUTATED        2      2      1      2      0      1      1      0      0
  CPB2 WILD-TYPE     39     24     29     27     39     68     19     14     22
D1899V6, multiclass
        clus
vv       CPB2 MUTATED CPB2 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            2             24
  CLUS_3            1             29
  CLUS_4            2             27
  CLUS_5            0             39
  CLUS_6            1             68
  CLUS_7            1             19
  CLUS_8            0             14
  CLUS_9            0             22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CPB2 MUTATED        1      2      3      3
  CPB2 WILD-TYPE     99     70     69    118
D1899V7, multiclass
        clus
vv       CPB2 MUTATED CPB2 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            2             70
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CPB2 MUTATED        2      1      3      2      1
  CPB2 WILD-TYPE     57     74     71    117     37
D1899V8, multiclass
        clus
vv       CPB2 MUTATED CPB2 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            1             74
  CLUS_3            3             71
  CLUS_4            2            117
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CPB2 MUTATED        1      3      1      1      3
  CPB2 WILD-TYPE     50     73     60     70     92
D1899V9, multiclass
        clus
vv       CPB2 MUTATED CPB2 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            3             73
  CLUS_3            1             60
  CLUS_4            1             70
  CLUS_5            3             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CPB2 MUTATED        1      1      0      3      1      1      0      1      1
  CPB2 WILD-TYPE     68     47     39     13     52     19     21     37     49
D1899V10, multiclass
        clus
vv       CPB2 MUTATED CPB2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            3             13
  CLUS_5            1             52
  CLUS_6            1             19
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            1             49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CPB2 MUTATED        0      0      1      0      3      0
  CPB2 WILD-TYPE     13     16     13     11      8      9
D1899V11, multiclass
        clus
vv       CPB2 MUTATED CPB2 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            0             16
  CLUS_3            1             13
  CLUS_4            0             11
  CLUS_5            3              8
  CLUS_6            0              9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  CPB2 MUTATED        0      0      0      2      2      0      0      0      0
  CPB2 WILD-TYPE     11      7      7      7      6      7     11      9      5
D1899V12, multiclass
        clus
vv       CPB2 MUTATED CPB2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            0              7
  CLUS_3            0              7
  CLUS_4            2              7
  CLUS_5            2              6
  CLUS_6            0              7
  CLUS_7            0             11
  CLUS_8            0              9
  CLUS_9            0              5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(1900) Variable = TMEM20 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM20 MUTATED        1      0      0      0      0
  TMEM20 WILD-TYPE     31     18     46     27     23
D1900V1, multiclass
[1] "Remove cluster labels:" "TMEM20 MUTATED"        
clus
  TMEM20 MUTATED TMEM20 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2677       TCGA-A6-2678 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AY-4071 
"TMEM20 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM20 MUTATED        1      0      0
  TMEM20 WILD-TYPE     42     67     36
D1900V2, multiclass
[1] "Remove cluster labels:" "TMEM20 MUTATED"        
clus
  TMEM20 MUTATED TMEM20 WILD-TYPE 
               1              145 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2677       TCGA-A6-2678 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3809 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3516       TCGA-AA-3517 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3947       TCGA-AA-3949       TCGA-AA-3950 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3952       TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3968       TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3975       TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3980       TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3989       TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A00D       TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A00K       TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A00Q       TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A00Z       TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A01F       TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A01Q       TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-A02H       TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AY-4071 
"TMEM20 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM20 MUTATED        0      0      3
  TMEM20 WILD-TYPE     42    173    144
D1900V3, multiclass
        clus
vv       TMEM20 MUTATED TMEM20 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              0              173
  CLUS_3              3              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM20 MUTATED        1      0      0
  TMEM20 WILD-TYPE     61     73     75
D1900V4, multiclass
[1] "Remove cluster labels:" "TMEM20 MUTATED"        
clus
  TMEM20 MUTATED TMEM20 WILD-TYPE 
               1              209 
      TCGA-A6-2671       TCGA-A6-2677       TCGA-A6-3809       TCGA-A6-3810 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-4105       TCGA-A6-5656       TCGA-A6-5657       TCGA-A6-5659 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-5660       TCGA-A6-5661       TCGA-A6-5662       TCGA-A6-5664 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-5665       TCGA-A6-5666       TCGA-A6-6137       TCGA-A6-6138 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-6141       TCGA-A6-6142       TCGA-A6-6648       TCGA-A6-6649 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-6651       TCGA-A6-6652       TCGA-A6-6653       TCGA-A6-6654 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-6780       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3492 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3496       TCGA-AA-3502       TCGA-AA-3510       TCGA-AA-3511 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3655       TCGA-AA-3660       TCGA-AA-3662       TCGA-AA-3663 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AA-3697       TCGA-AA-3712       TCGA-AA-3713       TCGA-AD-5900 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AD-6548       TCGA-AD-6888       TCGA-AD-6889       TCGA-AD-6890 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AD-6895       TCGA-AD-6899       TCGA-AD-6901       TCGA-AD-6963 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AD-6964       TCGA-AD-6965       TCGA-AU-3779       TCGA-AU-6004 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AY-5543       TCGA-AY-6196       TCGA-AY-6197       TCGA-AY-6386 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AZ-4315       TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-4681 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AZ-4682       TCGA-AZ-5403       TCGA-AZ-5407       TCGA-AZ-6598 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AZ-6599       TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AZ-6605       TCGA-AZ-6606       TCGA-AZ-6607       TCGA-AZ-6608 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CA-5254       TCGA-CA-5255       TCGA-CA-5796       TCGA-CA-5797 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CA-6715       TCGA-CA-6716       TCGA-CA-6717       TCGA-CA-6718 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CA-6719       TCGA-CK-4947       TCGA-CK-4948       TCGA-CK-4950 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CK-4952       TCGA-CK-5912       TCGA-CK-5913       TCGA-CK-5914 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CK-5915       TCGA-CK-5916       TCGA-CK-6746       TCGA-CK-6747 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CK-6751       TCGA-CM-4743       TCGA-CM-4744 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-4746       TCGA-CM-4747       TCGA-CM-4752       TCGA-CM-5341 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-5344       TCGA-CM-5348       TCGA-CM-5349       TCGA-CM-5860 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-5861       TCGA-CM-5862       TCGA-CM-5863       TCGA-CM-5864 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-5868       TCGA-CM-6161       TCGA-CM-6162       TCGA-CM-6163 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-6164       TCGA-CM-6165       TCGA-CM-6166       TCGA-CM-6167 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-6168       TCGA-CM-6169       TCGA-CM-6170       TCGA-CM-6171 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-6172       TCGA-CM-6674       TCGA-CM-6675       TCGA-CM-6676 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679       TCGA-CM-6680 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-D5-5537       TCGA-D5-5538       TCGA-D5-5539       TCGA-D5-5540 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-D5-5541       TCGA-D5-6529       TCGA-D5-6532       TCGA-D5-6533 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-D5-6534       TCGA-D5-6535       TCGA-D5-6536       TCGA-D5-6537 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-D5-6538       TCGA-D5-6539       TCGA-D5-6540       TCGA-D5-6541 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-D5-6898       TCGA-D5-6920       TCGA-D5-6922       TCGA-D5-6923 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-D5-6924       TCGA-D5-6926       TCGA-D5-6927       TCGA-D5-6928 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-D5-6929       TCGA-D5-6930       TCGA-D5-6931       TCGA-D5-6932 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-D5-7000       TCGA-DM-A0X9       TCGA-DM-A0XD       TCGA-DM-A0XF 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D4       TCGA-DM-A1D6       TCGA-DM-A1D7 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-DM-A1D8       TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1DB 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-DM-A1HA       TCGA-DM-A1HB       TCGA-DM-A282       TCGA-DM-A285 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-DM-A28C       TCGA-DM-A28E       TCGA-DM-A28F       TCGA-DM-A28G 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-DM-A28H       TCGA-DM-A28K       TCGA-F4-6459       TCGA-F4-6460 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6703       TCGA-F4-6704 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-F4-6805       TCGA-F4-6806       TCGA-F4-6807       TCGA-F4-6808 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-F4-6809       TCGA-F4-6854       TCGA-F4-6855       TCGA-F4-6856 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-G4-6293       TCGA-G4-6299       TCGA-G4-6303       TCGA-G4-6304 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6307       TCGA-G4-6309       TCGA-G4-6310 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-G4-6315       TCGA-G4-6317       TCGA-G4-6321       TCGA-G4-6323 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-G4-6586       TCGA-G4-6588       TCGA-G4-6625       TCGA-G4-6626 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-G4-6628 
"TMEM20 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM20 MUTATED        1      1      1
  TMEM20 WILD-TYPE     69    119     99
D1900V5, multiclass
        clus
vv       TMEM20 MUTATED TMEM20 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              119
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM20 MUTATED        0      0      1      1      0      1      0      0
  TMEM20 WILD-TYPE     41     26     29     28     39     68     20     14
                  vv
clus               CLUS_9
  TMEM20 MUTATED        0
  TMEM20 WILD-TYPE     22
D1900V6, multiclass
        clus
vv       TMEM20 MUTATED TMEM20 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              0               39
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM20 MUTATED        0      0      1      2
  TMEM20 WILD-TYPE    100     72     71    119
D1900V7, multiclass
        clus
vv       TMEM20 MUTATED TMEM20 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              0               72
  CLUS_3              1               71
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM20 MUTATED        0      0      1      0      2
  TMEM20 WILD-TYPE     59     75     73    119     36
D1900V8, multiclass
        clus
vv       TMEM20 MUTATED TMEM20 WILD-TYPE
  CLUS_1              0               59
  CLUS_2              0               75
  CLUS_3              1               73
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM20 MUTATED        0      1      0      0      2
  TMEM20 WILD-TYPE     51     75     61     71     93
D1900V9, multiclass
        clus
vv       TMEM20 MUTATED TMEM20 WILD-TYPE
  CLUS_1              0               51
  CLUS_2              1               75
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM20 MUTATED        1      0      0      0      0      0      0      2
  TMEM20 WILD-TYPE     68     48     39     16     53     20     21     36
                  vv
clus               CLUS_9
  TMEM20 MUTATED        0
  TMEM20 WILD-TYPE     50
D1900V10, multiclass
        clus
vv       TMEM20 MUTATED TMEM20 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              0               48
  CLUS_3              0               39
  CLUS_4              0               16
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM20 MUTATED        0      0      0      0      1      0
  TMEM20 WILD-TYPE     13     16     14     11     10      9
D1900V11, multiclass
[1] "Remove cluster labels:" "TMEM20 MUTATED"        
clus
  TMEM20 MUTATED TMEM20 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-G4-6628 
"TMEM20 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM20 MUTATED        0      0      0      0      0      1      0      0
  TMEM20 WILD-TYPE     11      7      7      9      8      6     11      9
                  vv
clus               CLUS_9
  TMEM20 MUTATED        0
  TMEM20 WILD-TYPE      5
D1900V12, multiclass
[1] "Remove cluster labels:" "TMEM20 MUTATED"        
clus
  TMEM20 MUTATED TMEM20 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6782       TCGA-AA-3489       TCGA-AA-3511 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6889       TCGA-AD-6901 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" "TMEM20 WILD-TYPE" 
      TCGA-G4-6628 
"TMEM20 WILD-TYPE" 

Clustering(1901) Variable = KCNQ1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNQ1 MUTATED        1      0      0      0      0
  KCNQ1 WILD-TYPE     31     18     46     27     23
D1901V1, multiclass
[1] "Remove cluster labels:" "KCNQ1 MUTATED"         
clus
  KCNQ1 MUTATED KCNQ1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A01K      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AY-4071 
"KCNQ1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNQ1 MUTATED        1      0      0
  KCNQ1 WILD-TYPE     42     67     36
D1901V2, multiclass
[1] "Remove cluster labels:" "KCNQ1 MUTATED"         
clus
  KCNQ1 MUTATED KCNQ1 WILD-TYPE 
              1             145 
     TCGA-A6-2672      TCGA-A6-2674      TCGA-A6-2676      TCGA-A6-2677 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-A6-2678      TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-A6-3809      TCGA-A6-3810      TCGA-AA-3514      TCGA-AA-3516 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3517      TCGA-AA-3518      TCGA-AA-3519      TCGA-AA-3520 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3524      TCGA-AA-3525 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3526      TCGA-AA-3527      TCGA-AA-3529      TCGA-AA-3530 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534      TCGA-AA-3538 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3542      TCGA-AA-3543      TCGA-AA-3544      TCGA-AA-3548 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3549      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3556      TCGA-AA-3558      TCGA-AA-3560 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3561      TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3666 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3667      TCGA-AA-3672      TCGA-AA-3673      TCGA-AA-3678 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3679      TCGA-AA-3680      TCGA-AA-3681      TCGA-AA-3684 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3685      TCGA-AA-3688      TCGA-AA-3692      TCGA-AA-3693 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3696      TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3812      TCGA-AA-3814      TCGA-AA-3815      TCGA-AA-3818 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3819      TCGA-AA-3821      TCGA-AA-3831      TCGA-AA-3833 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3842      TCGA-AA-3844      TCGA-AA-3845 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3846      TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3851 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3855      TCGA-AA-3856 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3858      TCGA-AA-3860      TCGA-AA-3861      TCGA-AA-3864 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3866      TCGA-AA-3867      TCGA-AA-3869      TCGA-AA-3870 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3875      TCGA-AA-3877      TCGA-AA-3930 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3939      TCGA-AA-3941      TCGA-AA-3947      TCGA-AA-3949 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3950      TCGA-AA-3952      TCGA-AA-3955      TCGA-AA-3956 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3966      TCGA-AA-3968      TCGA-AA-3971      TCGA-AA-3972 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3976      TCGA-AA-3977 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3979      TCGA-AA-3980      TCGA-AA-3982      TCGA-AA-3984 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-3994      TCGA-AA-A004 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A00A      TCGA-AA-A00D      TCGA-AA-A00E      TCGA-AA-A00F 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A00J      TCGA-AA-A00K      TCGA-AA-A00L      TCGA-AA-A00N 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A00O      TCGA-AA-A00Q      TCGA-AA-A00R      TCGA-AA-A00U 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010      TCGA-AA-A017 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01G      TCGA-AA-A01I 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A01K      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02W      TCGA-AY-4070 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AY-4071 
"KCNQ1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNQ1 MUTATED        0      1      7
  KCNQ1 WILD-TYPE     42    172    140
D1901V3, multiclass
        clus
vv       KCNQ1 MUTATED KCNQ1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1             172
  CLUS_3             7             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNQ1 MUTATED        3      0      4
  KCNQ1 WILD-TYPE     59     73     71
D1901V4, multiclass
        clus
vv       KCNQ1 MUTATED KCNQ1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNQ1 MUTATED        0      1      6
  KCNQ1 WILD-TYPE     70    119     94
D1901V5, multiclass
        clus
vv       KCNQ1 MUTATED KCNQ1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             6              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNQ1 MUTATED        0      0      0      1      0      5      1      0
  KCNQ1 WILD-TYPE     41     26     30     28     39     64     19     14
                 vv
clus              CLUS_9
  KCNQ1 MUTATED        0
  KCNQ1 WILD-TYPE     22
D1901V6, multiclass
        clus
vv       KCNQ1 MUTATED KCNQ1 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             0              39
  CLUS_6             5              64
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCNQ1 MUTATED        1      4      2      1
  KCNQ1 WILD-TYPE     99     68     70    120
D1901V7, multiclass
        clus
vv       KCNQ1 MUTATED KCNQ1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              68
  CLUS_3             2              70
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNQ1 MUTATED        0      2      5      0      1
  KCNQ1 WILD-TYPE     59     73     69    119     37
D1901V8, multiclass
        clus
vv       KCNQ1 MUTATED KCNQ1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             2              73
  CLUS_3             5              69
  CLUS_4             0             119
  CLUS_5             1              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCNQ1 MUTATED        0      6      0      0      1
  KCNQ1 WILD-TYPE     51     70     61     71     94
D1901V9, multiclass
        clus
vv       KCNQ1 MUTATED KCNQ1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             1              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNQ1 MUTATED        2      1      0      2      1      0      0      0
  KCNQ1 WILD-TYPE     67     47     39     14     52     20     21     38
                 vv
clus              CLUS_9
  KCNQ1 MUTATED        1
  KCNQ1 WILD-TYPE     49
D1901V10, multiclass
        clus
vv       KCNQ1 MUTATED KCNQ1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             2              14
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             0              21
  CLUS_8             0              38
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KCNQ1 MUTATED        0      0      1      0      1      0
  KCNQ1 WILD-TYPE     13     16     13     11     10      9
D1901V11, multiclass
[1] "Remove cluster labels:" "KCNQ1 MUTATED"         
clus
  KCNQ1 MUTATED KCNQ1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KCNQ1 MUTATED        0      0      0      0      0      0      2      0
  KCNQ1 WILD-TYPE     11      7      7      9      8      7      9      9
                 vv
clus              CLUS_9
  KCNQ1 MUTATED        0
  KCNQ1 WILD-TYPE      5
D1901V12, multiclass
[1] "Remove cluster labels:" "KCNQ1 MUTATED"         
clus
  KCNQ1 MUTATED KCNQ1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6600      TCGA-AZ-6601      TCGA-AZ-6603 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-AZ-6605      TCGA-AZ-6607      TCGA-CA-6718      TCGA-CA-6719 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-CK-6748      TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-CM-6676      TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-CM-6680      TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-D5-6536      TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-DM-A0XF      TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-DM-A285      TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-F4-6807      TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 
     TCGA-G4-6303      TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625 
"KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" "KCNQ1 WILD-TYPE" 

Clustering(1902) Variable = CAMK2G MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAMK2G MUTATED        3      0      0      0      0
  CAMK2G WILD-TYPE     29     18     46     27     23
D1902V1, multiclass
        clus
vv       CAMK2G MUTATED CAMK2G WILD-TYPE
  CLUS_1              3               29
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              0               27
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAMK2G MUTATED        3      0      0
  CAMK2G WILD-TYPE     40     67     36
D1902V2, multiclass
        clus
vv       CAMK2G MUTATED CAMK2G WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               67
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAMK2G MUTATED        0      2     10
  CAMK2G WILD-TYPE     42    171    137
D1902V3, multiclass
        clus
vv       CAMK2G MUTATED CAMK2G WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3             10              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAMK2G MUTATED        3      1      5
  CAMK2G WILD-TYPE     59     72     70
D1902V4, multiclass
        clus
vv       CAMK2G MUTATED CAMK2G WILD-TYPE
  CLUS_1              3               59
  CLUS_2              1               72
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAMK2G MUTATED        3      2      6
  CAMK2G WILD-TYPE     67    118     94
D1902V5, multiclass
        clus
vv       CAMK2G MUTATED CAMK2G WILD-TYPE
  CLUS_1              3               67
  CLUS_2              2              118
  CLUS_3              6               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAMK2G MUTATED        1      2      1      1      2      2      1      0
  CAMK2G WILD-TYPE     40     24     29     28     37     67     19     14
                  vv
clus               CLUS_9
  CAMK2G MUTATED        1
  CAMK2G WILD-TYPE     21
D1902V6, multiclass
        clus
vv       CAMK2G MUTATED CAMK2G WILD-TYPE
  CLUS_1              1               40
  CLUS_2              2               24
  CLUS_3              1               29
  CLUS_4              1               28
  CLUS_5              2               37
  CLUS_6              2               67
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CAMK2G MUTATED        2      6      1      4
  CAMK2G WILD-TYPE     98     66     71    117
D1902V7, multiclass
        clus
vv       CAMK2G MUTATED CAMK2G WILD-TYPE
  CLUS_1              2               98
  CLUS_2              6               66
  CLUS_3              1               71
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAMK2G MUTATED        1      3      5      0      4
  CAMK2G WILD-TYPE     58     72     69    119     34
D1902V8, multiclass
        clus
vv       CAMK2G MUTATED CAMK2G WILD-TYPE
  CLUS_1              1               58
  CLUS_2              3               72
  CLUS_3              5               69
  CLUS_4              0              119
  CLUS_5              4               34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAMK2G MUTATED        0      5      1      2      4
  CAMK2G WILD-TYPE     51     71     60     69     91
D1902V9, multiclass
        clus
vv       CAMK2G MUTATED CAMK2G WILD-TYPE
  CLUS_1              0               51
  CLUS_2              5               71
  CLUS_3              1               60
  CLUS_4              2               69
  CLUS_5              4               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAMK2G MUTATED        2      1      1      3      0      0      0      3
  CAMK2G WILD-TYPE     67     47     38     13     53     20     21     35
                  vv
clus               CLUS_9
  CAMK2G MUTATED        2
  CAMK2G WILD-TYPE     48
D1902V10, multiclass
        clus
vv       CAMK2G MUTATED CAMK2G WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               47
  CLUS_3              1               38
  CLUS_4              3               13
  CLUS_5              0               53
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              3               35
  CLUS_9              2               48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CAMK2G MUTATED        0      0      0      0      1      1
  CAMK2G WILD-TYPE     13     16     14     11     10      8
D1902V11, multiclass
[1] "Remove cluster labels:" "CAMK2G MUTATED"        
clus
  CAMK2G MUTATED CAMK2G WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CAMK2G MUTATED        0      0      0      1      0      0      0      1
  CAMK2G WILD-TYPE     11      7      7      8      8      7     11      8
                  vv
clus               CLUS_9
  CAMK2G MUTATED        0
  CAMK2G WILD-TYPE      5
D1902V12, multiclass
[1] "Remove cluster labels:" "CAMK2G MUTATED"        
clus
  CAMK2G MUTATED CAMK2G WILD-TYPE 
               2               72 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8       TCGA-DM-A1D9 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282       TCGA-DM-A285 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460       TCGA-F4-6569 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805       TCGA-F4-6807 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299       TCGA-G4-6303 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 
      TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625       TCGA-G4-6628 
"CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" "CAMK2G WILD-TYPE" 

Clustering(1903) Variable = SAMD11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAMD11 MUTATED        2      0      0      0      0
  SAMD11 WILD-TYPE     30     18     46     27     23
D1903V1, multiclass
[1] "Remove cluster labels:" "SAMD11 MUTATED"        
clus
  SAMD11 MUTATED SAMD11 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3517 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD11 MUTATED        2      0      0
  SAMD11 WILD-TYPE     41     67     36
D1903V2, multiclass
[1] "Remove cluster labels:" "SAMD11 MUTATED"        
clus
  SAMD11 MUTATED SAMD11 WILD-TYPE 
               2              144 
      TCGA-A6-2672       TCGA-A6-2674       TCGA-A6-2676       TCGA-A6-2677 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-A6-2678       TCGA-A6-2683       TCGA-A6-3807       TCGA-A6-3808 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-A6-3809       TCGA-A6-3810       TCGA-AA-3514       TCGA-AA-3517 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3518       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3524       TCGA-AA-3525       TCGA-AA-3526 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3527       TCGA-AA-3529       TCGA-AA-3530       TCGA-AA-3531 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3538       TCGA-AA-3542 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3543       TCGA-AA-3544       TCGA-AA-3548       TCGA-AA-3549 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3556       TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3562       TCGA-AA-3664       TCGA-AA-3666       TCGA-AA-3667 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3672       TCGA-AA-3673       TCGA-AA-3678       TCGA-AA-3679 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3680       TCGA-AA-3681       TCGA-AA-3684       TCGA-AA-3685 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3692       TCGA-AA-3693       TCGA-AA-3696 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3710       TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3814       TCGA-AA-3815       TCGA-AA-3818       TCGA-AA-3819 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3821       TCGA-AA-3831       TCGA-AA-3833       TCGA-AA-3837 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3842       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3846 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3848       TCGA-AA-3850       TCGA-AA-3851       TCGA-AA-3852 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3854       TCGA-AA-3855       TCGA-AA-3856       TCGA-AA-3858 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3860       TCGA-AA-3861       TCGA-AA-3864       TCGA-AA-3866 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3867       TCGA-AA-3869       TCGA-AA-3870       TCGA-AA-3872 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3875       TCGA-AA-3877       TCGA-AA-3930       TCGA-AA-3939 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3941       TCGA-AA-3949       TCGA-AA-3950       TCGA-AA-3952 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3955       TCGA-AA-3956       TCGA-AA-3966       TCGA-AA-3968 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3971       TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3976       TCGA-AA-3977       TCGA-AA-3979       TCGA-AA-3980 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3982       TCGA-AA-3984       TCGA-AA-3986       TCGA-AA-3989 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3994       TCGA-AA-A004       TCGA-AA-A00A       TCGA-AA-A00D 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00O       TCGA-AA-A00Q 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A00R       TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A010       TCGA-AA-A017       TCGA-AA-A01D       TCGA-AA-A01F 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A01G       TCGA-AA-A01I       TCGA-AA-A01K       TCGA-AA-A01Q 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02W       TCGA-AY-4070       TCGA-AY-4071 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD11 MUTATED        1      1      4
  SAMD11 WILD-TYPE     41    172    143
D1903V3, multiclass
        clus
vv       SAMD11 MUTATED SAMD11 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              172
  CLUS_3              4              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD11 MUTATED        2      1      1
  SAMD11 WILD-TYPE     60     72     74
D1903V4, multiclass
        clus
vv       SAMD11 MUTATED SAMD11 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              1               72
  CLUS_3              1               74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD11 MUTATED        1      2      2
  SAMD11 WILD-TYPE     69    118     98
D1903V5, multiclass
        clus
vv       SAMD11 MUTATED SAMD11 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              118
  CLUS_3              2               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAMD11 MUTATED        0      1      0      0      2      1      0      0
  SAMD11 WILD-TYPE     41     25     30     29     37     68     20     14
                  vv
clus               CLUS_9
  SAMD11 MUTATED        1
  SAMD11 WILD-TYPE     21
D1903V6, multiclass
        clus
vv       SAMD11 MUTATED SAMD11 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              1               25
  CLUS_3              0               30
  CLUS_4              0               29
  CLUS_5              2               37
  CLUS_6              1               68
  CLUS_7              0               20
  CLUS_8              0               14
  CLUS_9              1               21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SAMD11 MUTATED        0      1      3      2
  SAMD11 WILD-TYPE    100     71     69    119
D1903V7, multiclass
        clus
vv       SAMD11 MUTATED SAMD11 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              1               71
  CLUS_3              3               69
  CLUS_4              2              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAMD11 MUTATED        2      0      2      0      2
  SAMD11 WILD-TYPE     57     75     72    119     36
D1903V8, multiclass
        clus
vv       SAMD11 MUTATED SAMD11 WILD-TYPE
  CLUS_1              2               57
  CLUS_2              0               75
  CLUS_3              2               72
  CLUS_4              0              119
  CLUS_5              2               36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SAMD11 MUTATED        1      1      2      0      2
  SAMD11 WILD-TYPE     50     75     59     71     93
D1903V9, multiclass
        clus
vv       SAMD11 MUTATED SAMD11 WILD-TYPE
  CLUS_1              1               50
  CLUS_2              1               75
  CLUS_3              2               59
  CLUS_4              0               71
  CLUS_5              2               93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAMD11 MUTATED        0      1      0      1      2      0      0      2
  SAMD11 WILD-TYPE     69     47     39     15     51     20     21     36
                  vv
clus               CLUS_9
  SAMD11 MUTATED        0
  SAMD11 WILD-TYPE     50
D1903V10, multiclass
        clus
vv       SAMD11 MUTATED SAMD11 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               47
  CLUS_3              0               39
  CLUS_4              1               15
  CLUS_5              2               51
  CLUS_6              0               20
  CLUS_7              0               21
  CLUS_8              2               36
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SAMD11 MUTATED        0      0      0      0      1      0
  SAMD11 WILD-TYPE     13     16     14     11     10      9
D1903V11, multiclass
[1] "Remove cluster labels:" "SAMD11 MUTATED"        
clus
  SAMD11 MUTATED SAMD11 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-G4-6628 
"SAMD11 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SAMD11 MUTATED        0      0      0      1      0      0      0      0
  SAMD11 WILD-TYPE     11      7      7      8      8      7     11      9
                  vv
clus               CLUS_9
  SAMD11 MUTATED        0
  SAMD11 WILD-TYPE      5
D1903V12, multiclass
[1] "Remove cluster labels:" "SAMD11 MUTATED"        
clus
  SAMD11 MUTATED SAMD11 WILD-TYPE 
               1               73 
      TCGA-A6-5657       TCGA-A6-6137       TCGA-A6-6138       TCGA-A6-6141 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-A6-6142       TCGA-A6-6649       TCGA-A6-6651       TCGA-A6-6653 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-A6-6654       TCGA-A6-6781       TCGA-A6-6782       TCGA-AA-3489 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AA-3511       TCGA-AD-5900       TCGA-AD-6548       TCGA-AD-6901 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AD-6963       TCGA-AD-6964       TCGA-AD-6965       TCGA-AY-6196 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AZ-4323       TCGA-AZ-4616       TCGA-AZ-5403       TCGA-AZ-6598 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AZ-6600       TCGA-AZ-6601       TCGA-AZ-6603       TCGA-AZ-6605 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-AZ-6607       TCGA-CA-6718       TCGA-CA-6719       TCGA-CK-5916 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-CK-6748       TCGA-CM-5860       TCGA-CM-6167       TCGA-CM-6674 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-CM-6676       TCGA-CM-6677       TCGA-CM-6678       TCGA-CM-6679 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-CM-6680       TCGA-D5-5537       TCGA-D5-6533       TCGA-D5-6534 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-D5-6536       TCGA-D5-6922       TCGA-D5-6924       TCGA-DM-A0XD 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-DM-A0XF       TCGA-DM-A1D0       TCGA-DM-A1D7       TCGA-DM-A1D8 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-DM-A1D9       TCGA-DM-A1DA       TCGA-DM-A1HA       TCGA-DM-A282 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-DM-A285       TCGA-DM-A28F       TCGA-F4-6459       TCGA-F4-6460 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-F4-6569       TCGA-F4-6570       TCGA-F4-6704       TCGA-F4-6805 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-F4-6807       TCGA-F4-6808       TCGA-F4-6809       TCGA-G4-6299 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-G4-6303       TCGA-G4-6306       TCGA-G4-6309       TCGA-G4-6625 
"SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" "SAMD11 WILD-TYPE" 
      TCGA-G4-6628 
"SAMD11 WILD-TYPE" 

Clustering(1904) Variable = FAM83D MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM83D MUTATED        1      0      0      2      0
  FAM83D WILD-TYPE     31     18     46     25     23
D1904V1, multiclass
        clus
vv       FAM83D MUTATED FAM83D WILD-TYPE
  CLUS_1              1               31
  CLUS_2              0               18
  CLUS_3              0               46
  CLUS_4              2               25
  CLUS_5              0               23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM83D MUTATED        2      1      0
  FAM83D WILD-TYPE     41     66     36
D1904V2, multiclass
        clus
vv       FAM83D MUTATED FAM83D WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               66
  CLUS_3              0               36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM83D MUTATED        0      2      9
  FAM83D WILD-TYPE     42    171    138
D1904V3, multiclass
        clus
vv       FAM83D MUTATED FAM83D WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2              171
  CLUS_3              9              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM83D MUTATED        0      2      5
  FAM83D WILD-TYPE     62     71     70
D1904V4, multiclass
        clus
vv       FAM83D MUTATED FAM83D WILD-TYPE
  CLUS_1              0               62
  CLUS_2              2               71
  CLUS_3              5               70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM83D MUTATED        1      5      4
  FAM83D WILD-TYPE     69    115     96
D1904V5, multiclass
        clus
vv       FAM83D MUTATED FAM83D WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              115
  CLUS_3              4               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM83D MUTATED        0      0      2      1      3      3      1      0
  FAM83D WILD-TYPE     41     26     28     28     36     66     19     14
                  vv
clus               CLUS_9
  FAM83D MUTATED        0
  FAM83D WILD-TYPE     22
D1904V6, multiclass
        clus
vv       FAM83D MUTATED FAM83D WILD-TYPE
  CLUS_1              0               41
  CLUS_2              0               26
  CLUS_3              2               28
  CLUS_4              1               28
  CLUS_5              3               36
  CLUS_6              3               66
  CLUS_7              1               19
  CLUS_8              0               14
  CLUS_9              0               22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM83D MUTATED        2      5      0      4
  FAM83D WILD-TYPE     98     67     72    117
D1904V7, multiclass
        clus
vv       FAM83D MUTATED FAM83D WILD-TYPE
  CLUS_1              2               98
  CLUS_2              5               67
  CLUS_3              0               72
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM83D MUTATED        0      3      4      1      3
  FAM83D WILD-TYPE     59     72     70    118     35
D1904V8, multiclass
        clus
vv       FAM83D MUTATED FAM83D WILD-TYPE
  CLUS_1              0               59
  CLUS_2              3               72
  CLUS_3              4               70
  CLUS_4              1              118
  CLUS_5              3               35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM83D MUTATED        3      3      0      0      5
  FAM83D WILD-TYPE     48     73     61     71     90
D1904V9, multiclass
        clus
vv       FAM83D MUTATED FAM83D WILD-TYPE
  CLUS_1              3               48
  CLUS_2              3               73
  CLUS_3              0               61
  CLUS_4              0               71
  CLUS_5              5               90
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM83D MUTATED        2      0      1      2      0      2      0      4
  FAM83D WILD-TYPE     67     48     38     14     53     18     21     34
                  vv
clus               CLUS_9
  FAM83D MUTATED        0
  FAM83D WILD-TYPE     50
D1904V10, multiclass
        clus
vv       FAM83D MUTATED FAM83D WILD-TYPE
  CLUS_1              2               67
  CLUS_2              0               48
  CLUS_3              1               38
  CLUS_4              2               14
  CLUS_5              0               53
  CLUS_6              2               18
  CLUS_7              0               21
  CLUS_8              4               34
  CLUS_9              0               50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM83D MUTATED        0      0      0      0      0      0
  FAM83D WILD-TYPE     13     16     14     11     11      9
D1904V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FAM83D MUTATED        0      0      0      0      0      0      0      0
  FAM83D WILD-TYPE     11      7      7      9      8      7     11      9
                  vv
clus               CLUS_9
  FAM83D MUTATED        0
  FAM83D WILD-TYPE      5
D1904V12, multiclass

Clustering(1905) Variable = ALG9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALG9 MUTATED        1      0      0      0      0
  ALG9 WILD-TYPE     31     18     46     27     23
D1905V1, multiclass
[1] "Remove cluster labels:" "ALG9 MUTATED"          
clus
  ALG9 MUTATED ALG9 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AY-4071 
"ALG9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG9 MUTATED        1      0      0
  ALG9 WILD-TYPE     42     67     36
D1905V2, multiclass
[1] "Remove cluster labels:" "ALG9 MUTATED"          
clus
  ALG9 MUTATED ALG9 WILD-TYPE 
             1            145 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-A6-3809     TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3517     TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3526     TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3542     TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3549     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3696     TCGA-AA-3710     TCGA-AA-3811     TCGA-AA-3812 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3815     TCGA-AA-3818     TCGA-AA-3819 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3821     TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3842     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3846 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3848     TCGA-AA-3850     TCGA-AA-3851     TCGA-AA-3852 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3854     TCGA-AA-3855     TCGA-AA-3856     TCGA-AA-3858 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3860     TCGA-AA-3861     TCGA-AA-3864     TCGA-AA-3866 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870     TCGA-AA-3872 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930     TCGA-AA-3939 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949     TCGA-AA-3950 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3968     TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3975     TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3980     TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3989     TCGA-AA-3994     TCGA-AA-A004     TCGA-AA-A00A 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A00D     TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A00K     TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00O 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U     TCGA-AA-A00W 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017     TCGA-AA-A01D 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A01F     TCGA-AA-A01G     TCGA-AA-A01I     TCGA-AA-A01K 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A01Q     TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-A02H     TCGA-AA-A02J     TCGA-AA-A02W     TCGA-AY-4070 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AY-4071 
"ALG9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG9 MUTATED        0      1      2
  ALG9 WILD-TYPE     42    172    145
D1905V3, multiclass
        clus
vv       ALG9 MUTATED ALG9 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1            172
  CLUS_3            2            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG9 MUTATED        1      1      0
  ALG9 WILD-TYPE     61     72     75
D1905V4, multiclass
[1] "Remove cluster labels:" "ALG9 MUTATED"          
clus
  ALG9 MUTATED ALG9 WILD-TYPE 
             2            208 
    TCGA-A6-2671     TCGA-A6-2677     TCGA-A6-3809     TCGA-A6-3810 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-A6-4105     TCGA-A6-5656     TCGA-A6-5657     TCGA-A6-5659 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-A6-5660     TCGA-A6-5661     TCGA-A6-5662     TCGA-A6-5664 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-A6-5665     TCGA-A6-5666     TCGA-A6-6137     TCGA-A6-6138 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-A6-6141     TCGA-A6-6142     TCGA-A6-6648     TCGA-A6-6649 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-A6-6651     TCGA-A6-6652     TCGA-A6-6653     TCGA-A6-6654 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-A6-6780     TCGA-A6-6781     TCGA-A6-6782     TCGA-AA-3489 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3492     TCGA-AA-3502     TCGA-AA-3510     TCGA-AA-3511 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3655     TCGA-AA-3660     TCGA-AA-3662     TCGA-AA-3663 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AA-3697     TCGA-AA-3712     TCGA-AA-3713     TCGA-AD-5900 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AD-6548     TCGA-AD-6888     TCGA-AD-6889     TCGA-AD-6890 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AD-6895     TCGA-AD-6899     TCGA-AD-6901     TCGA-AD-6963 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AD-6964     TCGA-AD-6965     TCGA-AU-3779     TCGA-AY-5543 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AY-6196     TCGA-AY-6197     TCGA-AY-6386     TCGA-AZ-4315 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AZ-4323     TCGA-AZ-4616     TCGA-AZ-4681     TCGA-AZ-4682 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AZ-5403     TCGA-AZ-5407     TCGA-AZ-6598     TCGA-AZ-6599 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AZ-6600     TCGA-AZ-6601     TCGA-AZ-6603     TCGA-AZ-6605 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-AZ-6606     TCGA-AZ-6607     TCGA-AZ-6608     TCGA-CA-5254 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CA-5255     TCGA-CA-5796     TCGA-CA-5797     TCGA-CA-6715 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CA-6716     TCGA-CA-6717     TCGA-CA-6718     TCGA-CA-6719 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CK-4947     TCGA-CK-4948     TCGA-CK-4950     TCGA-CK-4952 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CK-5912     TCGA-CK-5913     TCGA-CK-5914     TCGA-CK-5915 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CK-5916     TCGA-CK-6746     TCGA-CK-6747     TCGA-CK-6748 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CK-6751     TCGA-CM-4743     TCGA-CM-4744     TCGA-CM-4746 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CM-4747     TCGA-CM-4752     TCGA-CM-5341     TCGA-CM-5344 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CM-5348     TCGA-CM-5349     TCGA-CM-5860     TCGA-CM-5861 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CM-5862     TCGA-CM-5863     TCGA-CM-5864     TCGA-CM-5868 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CM-6161     TCGA-CM-6162     TCGA-CM-6163     TCGA-CM-6164 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CM-6165     TCGA-CM-6166     TCGA-CM-6167     TCGA-CM-6168 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CM-6169     TCGA-CM-6170     TCGA-CM-6171     TCGA-CM-6172 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CM-6674     TCGA-CM-6675     TCGA-CM-6676     TCGA-CM-6677 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-CM-6678     TCGA-CM-6679     TCGA-CM-6680     TCGA-D5-5537 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-D5-5538     TCGA-D5-5539     TCGA-D5-5540     TCGA-D5-5541 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-D5-6529     TCGA-D5-6532     TCGA-D5-6533     TCGA-D5-6534 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-D5-6535     TCGA-D5-6536     TCGA-D5-6537     TCGA-D5-6538 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-D5-6539     TCGA-D5-6540     TCGA-D5-6541     TCGA-D5-6898 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-D5-6920     TCGA-D5-6922     TCGA-D5-6923     TCGA-D5-6924 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-D5-6926     TCGA-D5-6927     TCGA-D5-6928     TCGA-D5-6929 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-D5-6930     TCGA-D5-6931     TCGA-D5-6932     TCGA-D5-7000 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-DM-A0X9     TCGA-DM-A0XD     TCGA-DM-A0XF     TCGA-DM-A1D0 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-DM-A1D4     TCGA-DM-A1D6     TCGA-DM-A1D7     TCGA-DM-A1D8 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-DM-A1D9     TCGA-DM-A1DA     TCGA-DM-A1DB     TCGA-DM-A1HA 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-DM-A1HB     TCGA-DM-A282     TCGA-DM-A285     TCGA-DM-A28C 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-DM-A28E     TCGA-DM-A28F     TCGA-DM-A28G     TCGA-DM-A28H 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-DM-A28K     TCGA-F4-6459     TCGA-F4-6460     TCGA-F4-6569 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-F4-6570     TCGA-F4-6703     TCGA-F4-6704     TCGA-F4-6805 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-F4-6806     TCGA-F4-6807     TCGA-F4-6808     TCGA-F4-6809 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-F4-6854     TCGA-F4-6855     TCGA-F4-6856     TCGA-G4-6293 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-G4-6299     TCGA-G4-6303     TCGA-G4-6304     TCGA-G4-6306 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-G4-6307     TCGA-G4-6309     TCGA-G4-6310     TCGA-G4-6315 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-G4-6317     TCGA-G4-6321     TCGA-G4-6323     TCGA-G4-6586 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
    TCGA-G4-6588     TCGA-G4-6625     TCGA-G4-6626     TCGA-G4-6628 
"ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" "ALG9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG9 MUTATED        0      2      1
  ALG9 WILD-TYPE     70    118     99
D1905V5, multiclass
        clus
vv       ALG9 MUTATED ALG9 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            118
  CLUS_3            1             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALG9 MUTATED        0      0      0      0      1      1      0      0      1
  ALG9 WILD-TYPE     41     26     30     29     38     68     20     14     21
D1905V6, multiclass
        clus
vv       ALG9 MUTATED ALG9 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            0             26
  CLUS_3            0             30
  CLUS_4            0             29
  CLUS_5            1             38
  CLUS_6            1             68
  CLUS_7            0             20
  CLUS_8            0             14
  CLUS_9            1             21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALG9 MUTATED        0      0      2      1
  ALG9 WILD-TYPE    100     72     70    120
D1905V7, multiclass
        clus
vv       ALG9 MUTATED ALG9 WILD-TYPE
  CLUS_1            0            100
  CLUS_2            0             72
  CLUS_3            2             70
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALG9 MUTATED        0      1      1      0      1
  ALG9 WILD-TYPE     59     74     73    119     37
D1905V8, multiclass
        clus
vv       ALG9 MUTATED ALG9 WILD-TYPE
  CLUS_1            0             59
  CLUS_2            1             74
  CLUS_3            1             73
  CLUS_4            0            119
  CLUS_5            1             37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALG9 MUTATED        1      1      0      0      1
  ALG9 WILD-TYPE     50     75     61     71     94
D1905V9, multiclass
        clus
vv       ALG9 MUTATED ALG9 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             75
  CLUS_3            0             61
  CLUS_4            0             71
  CLUS_5            1             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALG9 MUTATED        0      1      0      0      1      0      0      1      0
  ALG9 WILD-TYPE     69     47     39     16     52     20     21     37     50
D1905V10, multiclass
        clus
vv       ALG9 MUTATED ALG9 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            1             47
  CLUS_3            0             39
  CLUS_4            0             16
  CLUS_5            1             52
  CLUS_6            0             20
  CLUS_7            0             21
  CLUS_8            1             37
  CLUS_9            0             50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ALG9 MUTATED        0      0      0      0      0      0
  ALG9 WILD-TYPE     13     16     14     11     11      9
D1905V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8 CLUS_9
  ALG9 MUTATED        0      0      0      0      0      0      0      0      0
  ALG9 WILD-TYPE     11      7      7      9      8      7     11      9      5
D1905V12, multiclass

Clustering(1906) Variable = BCL7A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL7A MUTATED        2      0      1      0      0
  BCL7A WILD-TYPE     30     18     45     27     23
D1906V1, multiclass
        clus
vv       BCL7A MUTATED BCL7A WILD-TYPE
  CLUS_1             2              30
  CLUS_2             0              18
  CLUS_3             1              45
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL7A MUTATED        2      1      0
  BCL7A WILD-TYPE     41     66     36
D1906V2, multiclass
        clus
vv       BCL7A MUTATED BCL7A WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              66
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL7A MUTATED        0      2      3
  BCL7A WILD-TYPE     42    171    144
D1906V3, multiclass
        clus
vv       BCL7A MUTATED BCL7A WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2             171
  CLUS_3             3             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL7A MUTATED        0      1      0
  BCL7A WILD-TYPE     62     72     75
D1906V4, multiclass
[1] "Remove cluster labels:" "BCL7A MUTATED"         
clus
  BCL7A MUTATED BCL7A WILD-TYPE 
              1             209 
     TCGA-A6-2671      TCGA-A6-2677      TCGA-A6-3809      TCGA-A6-3810 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-A6-4105      TCGA-A6-5656      TCGA-A6-5657      TCGA-A6-5659 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-A6-5660      TCGA-A6-5661      TCGA-A6-5662      TCGA-A6-5664 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-A6-5665      TCGA-A6-5666      TCGA-A6-6137      TCGA-A6-6138 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-A6-6141      TCGA-A6-6142      TCGA-A6-6648      TCGA-A6-6649 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-A6-6651      TCGA-A6-6652      TCGA-A6-6653      TCGA-A6-6654 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-A6-6780      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AA-3492      TCGA-AA-3496      TCGA-AA-3502      TCGA-AA-3510 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AA-3511      TCGA-AA-3655      TCGA-AA-3660      TCGA-AA-3662 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AA-3663      TCGA-AA-3697      TCGA-AA-3712      TCGA-AA-3713 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6888      TCGA-AD-6889 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AD-6890      TCGA-AD-6895      TCGA-AD-6899      TCGA-AD-6901 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965      TCGA-AU-3779 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AU-6004      TCGA-AY-5543      TCGA-AY-6196      TCGA-AY-6197 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AY-6386      TCGA-AZ-4315      TCGA-AZ-4323      TCGA-AZ-4616 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AZ-4681      TCGA-AZ-4682      TCGA-AZ-5403      TCGA-AZ-5407 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6599      TCGA-AZ-6600      TCGA-AZ-6601 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6606      TCGA-AZ-6607 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-AZ-6608      TCGA-CA-5254      TCGA-CA-5255      TCGA-CA-5796 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CA-5797      TCGA-CA-6715      TCGA-CA-6716      TCGA-CA-6717 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-4947      TCGA-CK-4948 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CK-4950      TCGA-CK-4952      TCGA-CK-5912      TCGA-CK-5913 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CK-5914      TCGA-CK-5915      TCGA-CK-5916      TCGA-CK-6746 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CK-6747      TCGA-CK-6748      TCGA-CK-6751      TCGA-CM-4743 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CM-4744      TCGA-CM-4746      TCGA-CM-4747      TCGA-CM-4752 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CM-5341      TCGA-CM-5344      TCGA-CM-5348      TCGA-CM-5349 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-5861      TCGA-CM-5863      TCGA-CM-5864 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CM-5868      TCGA-CM-6161      TCGA-CM-6162      TCGA-CM-6163 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CM-6164      TCGA-CM-6165      TCGA-CM-6166      TCGA-CM-6167 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CM-6168      TCGA-CM-6169      TCGA-CM-6170      TCGA-CM-6171 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CM-6172      TCGA-CM-6674      TCGA-CM-6675      TCGA-CM-6676 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-5538      TCGA-D5-5539      TCGA-D5-5540 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-D5-5541      TCGA-D5-6529      TCGA-D5-6532      TCGA-D5-6533 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-D5-6534      TCGA-D5-6535      TCGA-D5-6536      TCGA-D5-6537 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-D5-6538      TCGA-D5-6539      TCGA-D5-6540      TCGA-D5-6541 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-D5-6898      TCGA-D5-6920      TCGA-D5-6922      TCGA-D5-6923 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-D5-6924      TCGA-D5-6926      TCGA-D5-6927      TCGA-D5-6928 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-D5-6929      TCGA-D5-6930      TCGA-D5-6931      TCGA-D5-6932 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-D5-7000      TCGA-DM-A0X9      TCGA-DM-A0XD      TCGA-DM-A0XF 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D4      TCGA-DM-A1D6      TCGA-DM-A1D7 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-DM-A1D8      TCGA-DM-A1D9      TCGA-DM-A1DA      TCGA-DM-A1DB 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-DM-A1HA      TCGA-DM-A1HB      TCGA-DM-A282      TCGA-DM-A285 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-DM-A28C      TCGA-DM-A28E      TCGA-DM-A28F      TCGA-DM-A28G 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-DM-A28H      TCGA-DM-A28K      TCGA-F4-6459      TCGA-F4-6460 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-F4-6569      TCGA-F4-6570      TCGA-F4-6703      TCGA-F4-6704 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-F4-6805      TCGA-F4-6806      TCGA-F4-6807      TCGA-F4-6808 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-F4-6809      TCGA-F4-6854      TCGA-F4-6855      TCGA-F4-6856 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-G4-6293      TCGA-G4-6299      TCGA-G4-6303      TCGA-G4-6304 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6307      TCGA-G4-6309      TCGA-G4-6310 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-G4-6315      TCGA-G4-6317      TCGA-G4-6321      TCGA-G4-6323 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-G4-6586      TCGA-G4-6588      TCGA-G4-6625      TCGA-G4-6626 
"BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" "BCL7A WILD-TYPE" 
     TCGA-G4-6628 
"BCL7A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL7A MUTATED        1      1      2
  BCL7A WILD-TYPE     69    119     98
D1906V5, multiclass
        clus
vv       BCL7A MUTATED BCL7A WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             119
  CLUS_3             2              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCL7A MUTATED        0      0      1      0      1      2      0      0
  BCL7A WILD-TYPE     41     26     29     29     38     67     20     14
                 vv
clus              CLUS_9
  BCL7A MUTATED        0
  BCL7A WILD-TYPE     22
D1906V6, multiclass
        clus
vv       BCL7A MUTATED BCL7A WILD-TYPE
  CLUS_1             0              41
  CLUS_2             0              26
  CLUS_3             1              29
  CLUS_4             0              29
  CLUS_5             1              38
  CLUS_6             2              67
  CLUS_7             0              20
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCL7A MUTATED        1      0      0      4
  BCL7A WILD-TYPE     99     72     72    117
D1906V7, multiclass
        clus
vv       BCL7A MUTATED BCL7A WILD-TYPE
  CLUS_1             1              99
  CLUS_2             0              72
  CLUS_3             0              72
  CLUS_4             4             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL7A MUTATED        1      0      0      1      3
  BCL7A WILD-TYPE     58     75     74    118     35
D1906V8, multiclass
        clus
vv       BCL7A MUTATED BCL7A WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0              75
  CLUS_3             0              74
  CLUS_4             1             118
  CLUS_5             3              35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL7A MUTATED        1      0      0      0      4
  BCL7A WILD-TYPE     50     76     61     71     91
D1906V9, multiclass
        clus
vv       BCL7A MUTATED BCL7A WILD-TYPE
  CLUS_1             1              50
  CLUS_2             0              76
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCL7A MUTATED        0      0      0      0      1      0      1      3
  BCL7A WILD-TYPE     69     48     39     16     52     20     20     35
                 vv
clus              CLUS_9
  BCL7A MUTATED        0
  BCL7A WILD-TYPE     50
D1906V10, multiclass
        clus
vv       BCL7A MUTATED BCL7A WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              48
  CLUS_3             0              39
  CLUS_4             0              16
  CLUS_5             1              52
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             3              35
  CLUS_9             0              50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BCL7A MUTATED        0      0      0      0      0      0
  BCL7A WILD-TYPE     13     16     14     11     11      9
D1906V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCL7A MUTATED        0      0      0      0      0      0      0      0
  BCL7A WILD-TYPE     11      7      7      9      8      7     11      9
                 vv
clus              CLUS_9
  BCL7A MUTATED        0
  BCL7A WILD-TYPE      5
D1906V12, multiclass

Clustering(1907) Variable = HOXA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HOXA1 MUTATED        3      0      0      0      0
  HOXA1 WILD-TYPE     29     18     46     27     23
D1907V1, multiclass
        clus
vv       HOXA1 MUTATED HOXA1 WILD-TYPE
  CLUS_1             3              29
  CLUS_2             0              18
  CLUS_3             0              46
  CLUS_4             0              27
  CLUS_5             0              23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HOXA1 MUTATED        3      0      0
  HOXA1 WILD-TYPE     40     67     36
D1907V2, multiclass
        clus
vv       HOXA1 MUTATED HOXA1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             0              67
  CLUS_3             0              36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HOXA1 MUTATED        1      0      9
  HOXA1 WILD-TYPE     41    173    138
D1907V3, multiclass
        clus
vv       HOXA1 MUTATED HOXA1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0             173
  CLUS_3             9             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HOXA1 MUTATED        3      0      4
  HOXA1 WILD-TYPE     59     73     71
D1907V4, multiclass
        clus
vv       HOXA1 MUTATED HOXA1 WILD-TYPE
  CLUS_1             3              59
  CLUS_2             0              73
  CLUS_3             4              71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HOXA1 MUTATED        0      1      9
  HOXA1 WILD-TYPE     70    119     91
D1907V5, multiclass
        clus
vv       HOXA1 MUTATED HOXA1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             119
  CLUS_3             9              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HOXA1 MUTATED        1      0      0      1      1      6      1      0
  HOXA1 WILD-TYPE     40     26     30     28     38     63     19     14
                 vv
clus              CLUS_9
  HOXA1 MUTATED        0
  HOXA1 WILD-TYPE     22
D1907V6, multiclass
        clus
vv       HOXA1 MUTATED HOXA1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             0              26
  CLUS_3             0              30
  CLUS_4             1              28
  CLUS_5             1              38
  CLUS_6             6              63
  CLUS_7             1              19
  CLUS_8             0              14
  CLUS_9             0              22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HOXA1 MUTATED        0      6      1      3
  HOXA1 WILD-TYPE    100     66     71    118
D1907V7, multiclass
        clus
vv       HOXA1 MUTATED HOXA1 WILD-TYPE
  CLUS_1             0             100
  CLUS_2             6              66
  CLUS_3             1              71
  CLUS_4             3             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HOXA1 MUTATED        0      1      6      1      2
  HOXA1 WILD-TYPE     59     74     68    118     36
D1907V8, multiclass
        clus
vv       HOXA1 MUTATED HOXA1 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             1              74
  CLUS_3             6              68
  CLUS_4             1             118
  CLUS_5             2              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HOXA1 MUTATED        0      6      0      0      4
  HOXA1 WILD-TYPE     51     70     61     71     91
D1907V9, multiclass
        clus
vv       HOXA1 MUTATED HOXA1 WILD-TYPE
  CLUS_1             0              51
  CLUS_2             6              70
  CLUS_3             0              61
  CLUS_4             0              71
  CLUS_5             4              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HOXA1 MUTATED        2      1      0      3      0      0      1      2
  HOXA1 WILD-TYPE     67     47     39     13     53     20     20     36
                 vv
clus              CLUS_9
  HOXA1 MUTATED        1
  HOXA1 WILD-TYPE     49
D1907V10, multiclass
        clus
vv       HOXA1 MUTATED HOXA1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             1              47
  CLUS_3             0              39
  CLUS_4             3              13
  CLUS_5             0              53
  CLUS_6             0              20
  CLUS_7             1              20
  CLUS_8             2              36
  CLUS_9             1              49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HOXA1 MUTATED        0      1      0      0      1      0
  HOXA1 WILD-TYPE     13     15     14     11     10      9
D1907V11, multiclass
[1] "Remove cluster labels:" "HOXA1 MUTATED"         
clus
  HOXA1 MUTATED HOXA1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HOXA1 MUTATED        1      0      0      0      0      0      1      0
  HOXA1 WILD-TYPE     10      7      7      9      8      7     10      9
                 vv
clus              CLUS_9
  HOXA1 MUTATED        0
  HOXA1 WILD-TYPE      5
D1907V12, multiclass
[1] "Remove cluster labels:" "HOXA1 MUTATED"         
clus
  HOXA1 MUTATED HOXA1 WILD-TYPE 
              2              72 
     TCGA-A6-5657      TCGA-A6-6137      TCGA-A6-6138      TCGA-A6-6141 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-A6-6142      TCGA-A6-6649      TCGA-A6-6651      TCGA-A6-6653 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-A6-6654      TCGA-A6-6781      TCGA-A6-6782      TCGA-AA-3489 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-AA-3511      TCGA-AD-5900      TCGA-AD-6548      TCGA-AD-6889 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-AD-6901      TCGA-AD-6963      TCGA-AD-6964      TCGA-AD-6965 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-AY-6196      TCGA-AZ-4323      TCGA-AZ-4616      TCGA-AZ-5403 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-AZ-6598      TCGA-AZ-6603      TCGA-AZ-6605      TCGA-AZ-6607 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-CA-6718      TCGA-CA-6719      TCGA-CK-5916      TCGA-CK-6748 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-CM-5860      TCGA-CM-6167      TCGA-CM-6674      TCGA-CM-6676 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-CM-6677      TCGA-CM-6678      TCGA-CM-6679      TCGA-CM-6680 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-D5-5537      TCGA-D5-6533      TCGA-D5-6534      TCGA-D5-6536 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-D5-6922      TCGA-D5-6924      TCGA-DM-A0XD      TCGA-DM-A0XF 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-DM-A1D0      TCGA-DM-A1D7      TCGA-DM-A1D8      TCGA-DM-A1D9 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-DM-A1DA      TCGA-DM-A1HA      TCGA-DM-A282      TCGA-DM-A285 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-DM-A28F      TCGA-F4-6459      TCGA-F4-6460      TCGA-F4-6569 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-F4-6570      TCGA-F4-6704      TCGA-F4-6805      TCGA-F4-6807 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-F4-6808      TCGA-F4-6809      TCGA-G4-6299      TCGA-G4-6303 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
     TCGA-G4-6306      TCGA-G4-6309      TCGA-G4-6625      TCGA-G4-6628 
"HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" "HOXA1 WILD-TYPE" 
